Mercurial > repos > iuc > pygenometracks
annotate pyGenomeTracks.xml @ 13:360df4999907 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
author | iuc |
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date | Tue, 28 Mar 2023 10:48:50 +0000 |
parents | 14e7c35f3d00 |
children | 59fd173ac850 |
rev | line source |
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10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
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1 <tool id="pygenomeTracks" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
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2 <description>plot genomic data tracks</description> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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3 <macros> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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4 <token name="@BINARY@">pyGenomeTracks</token> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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5 <import>macros.xml</import> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
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6 </macros> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
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7 <expand macro="requirements" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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8 <command detect_errors="exit_code"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
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9 <![CDATA[ |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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10 ## First symlink data |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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11 ## of hic to have the good extension |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
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12 ## of fasta to have the index written in the working directory |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
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13 #for $counter, $track in enumerate($tracks): |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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14 #if $track.track_file_style_conditional.track_file_style_selector in ["hic_matrix_option", "hic_matrix_square_option"]: |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
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15 #for $counter_matrix, $data_matrix in enumerate($track.track_file_style_conditional.matrix_h5_cooler_multiple): |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
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16 #set ext = $data_matrix.extension |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
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17 ln -s $data_matrix ${counter}_${counter_matrix}.$ext && |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
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18 #end for |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
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19 #end if |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
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20 #if $track.track_file_style_conditional.track_file_style_selector == "fasta_option": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
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21 #if $track.track_file_style_conditional.fasta_source.fasta_source_selector == "history": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
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22 ln -s $track.track_file_style_conditional.fasta_source.fasta_local fasta_${counter}.fa && |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
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23 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
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24 #end if |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
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25 #end for |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
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26 |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
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27 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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28 sed '/^$/d' '$tracks_config' && |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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29 @BINARY@ |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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30 --tracks '$tracks_config' |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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31 --region '$region' |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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32 #if $global_args.title != '': |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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33 --title '$global_args.title' |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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34 #end if |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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35 #if $global_args.plotWidth != '': |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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36 --plotWidth $global_args.plotWidth |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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37 #else: |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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38 --width $global_args.width |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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39 #end if |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
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40 #if $global_args.height != '': |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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41 --height '$global_args.height' |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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42 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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43 --fontSize $global_args.fontsize |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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44 --dpi $global_args.dpi |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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45 --trackLabelFraction $global_args.trackLabelFraction |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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46 --trackLabelHAlign $global_args.trackLabelHAlign |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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47 --outFileName plot.$image_file_format |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
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48 $global_args.decreasingXAxis |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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49 && mv plot.$image_file_format plot |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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50 ]]> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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51 </command> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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52 <configfiles> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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53 <configfile name="tracks_config"> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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54 ## Each track: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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55 #for $counter, $track in enumerate($tracks): |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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56 ## Hi-C Track triangle |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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57 #if $track.track_file_style_conditional.track_file_style_selector == "hic_matrix_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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58 #for $counter_matrix, $data_matrix in enumerate($track.track_file_style_conditional.matrix_h5_cooler_multiple): |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
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59 [hic_section_${counter}_${counter_matrix}] |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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60 #set ext = $data_matrix.extension |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
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61 file = ${counter}_${counter_matrix}.$ext |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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62 file_type = hic_matrix |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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63 #if $track.track_file_style_conditional.title: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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64 title = $track.track_file_style_conditional.title |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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65 #else: |
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a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
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66 title = $data_matrix.element_identifier |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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67 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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68 #if $track.track_file_style_conditional.depth: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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69 depth = $track.track_file_style_conditional.depth |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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70 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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71 #if $track.track_file_style_conditional.colormap: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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72 colormap = $track.track_file_style_conditional.colormap |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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73 #end if |
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5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
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74 #if $track.track_file_style_conditional.min_value != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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75 min_value = $track.track_file_style_conditional.min_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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76 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
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77 #if $track.track_file_style_conditional.max_value != "": |
0
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78 max_value = $track.track_file_style_conditional.max_value |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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79 #end if |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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80 transform = $track.track_file_style_conditional.transform |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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81 #if $track.track_file_style_conditional.height_matrix != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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82 height = $track.track_file_style_conditional.height_matrix |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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83 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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84 #if $track.track_file_style_conditional.show_masked_bins: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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85 show_masked_bins = $track.track_file_style_conditional.show_masked_bins |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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86 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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87 #if $track.track_file_style_conditional.invert_orientation: |
2
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
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88 orientation = inverted |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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89 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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90 #if $track.track_file_style_conditional.scale_factor: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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91 scale_factor = $track.track_file_style_conditional.scale_factor |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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92 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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93 rasterize = $track.track_file_style_conditional.rasterize |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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94 ## If a boundary file is given a new section needs to be written: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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95 #if str($track.track_file_style_conditional.boundaries_file) != "None": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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96 #if len($track.track_file_style_conditional.boundaries_file)>$counter_matrix: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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97 #set boundary_file = $track.track_file_style_conditional.boundaries_file[$counter_matrix] |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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98 #else: |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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99 #set boundary_file = $track.track_file_style_conditional.boundaries_file[0] |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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100 #end if |
2
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
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101 [tads_${counter}_${counter_matrix}] |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
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102 file = $boundary_file |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
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103 file_type = domains |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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104 border_color = black |
2
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
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105 color = none |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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106 overlay_previous = share-y |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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107 #end if |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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108 ## If spacer is asked a new section is created: |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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109 #if $track.track_file_style_conditional.spacer_height != "": |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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110 [spacer] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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111 height = $track.track_file_style_conditional.spacer_height |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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112 #end if |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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113 #end for |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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114 #end if |
0
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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115 |
11
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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116 ## Hi-C Track square |
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117 #if $track.track_file_style_conditional.track_file_style_selector == "hic_matrix_square_option": |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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118 #for $counter_matrix, $data_matrix in enumerate($track.track_file_style_conditional.matrix_h5_cooler_multiple): |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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119 [hic_section_${counter}_${counter_matrix}] |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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120 #set ext = $data_matrix.extension |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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121 file = ${counter}_${counter_matrix}.$ext |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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122 file_type = hic_matrix_square |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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123 #if $track.track_file_style_conditional.title: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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124 title = $track.track_file_style_conditional.title |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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125 #else: |
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126 title = $data_matrix.element_identifier |
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127 #end if |
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128 #if $track.track_file_style_conditional.region2: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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129 region2 = $track.track_file_style_conditional.region2 |
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130 #end if |
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131 #if $track.track_file_style_conditional.colormap: |
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132 colormap = $track.track_file_style_conditional.colormap |
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133 #end if |
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134 #if $track.track_file_style_conditional.min_value != "": |
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135 min_value = $track.track_file_style_conditional.min_value |
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136 #end if |
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137 #if $track.track_file_style_conditional.max_value != "": |
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138 max_value = $track.track_file_style_conditional.max_value |
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139 #end if |
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140 transform = $track.track_file_style_conditional.transform |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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141 #if $track.track_file_style_conditional.height_matrix != "": |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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142 height = $track.track_file_style_conditional.height_matrix |
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143 #end if |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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144 #if $track.track_file_style_conditional.show_masked_bins: |
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145 show_masked_bins = $track.track_file_style_conditional.show_masked_bins |
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146 #end if |
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147 #if $track.track_file_style_conditional.invert_orientation: |
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148 orientation = inverted |
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149 #end if |
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150 #if $track.track_file_style_conditional.scale_factor: |
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151 scale_factor = $track.track_file_style_conditional.scale_factor |
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152 #end if |
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153 rasterize = $track.track_file_style_conditional.rasterize |
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154 ## If a boundary file is given a new section needs to be written: |
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155 #if str($track.track_file_style_conditional.boundaries_file) != "None": |
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156 #if len($track.track_file_style_conditional.boundaries_file)>$counter_matrix: |
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157 #set boundary_file = $track.track_file_style_conditional.boundaries_file[$counter_matrix] |
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158 #else: |
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159 #set boundary_file = $track.track_file_style_conditional.boundaries_file[0] |
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160 #end if |
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161 [tads_${counter}_${counter_matrix}] |
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162 file = $boundary_file |
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163 file_type = bed |
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164 display = squares |
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165 border_color = black |
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166 color = none |
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167 overlay_previous = share-y |
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168 #end if |
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169 ## If spacer is asked a new section is created: |
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170 #if $track.track_file_style_conditional.spacer_height != "": |
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171 [spacer] |
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172 height = $track.track_file_style_conditional.spacer_height |
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173 #end if |
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174 #end for |
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175 #end if |
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176 |
5
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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177 ## Chrom_state track |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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178 #if $track.track_file_style_conditional.track_file_style_selector == "chrom_states_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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179 #for $data_bed in $track.track_file_style_conditional.track_input_bed: |
0
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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180 [chrom states_$counter] |
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181 file = $data_bed |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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182 #if $track.track_file_style_conditional.title: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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183 title = $track.track_file_style_conditional.title |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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184 #else: |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
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185 title = $data_bed.element_identifier |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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186 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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187 #if $track.track_file_style_conditional.color_bed.color_bed_select == "bed_rgb": |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
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188 color = bed_rgb |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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189 #elif $track.track_file_style_conditional.color_bed.color: |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
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190 color = $track.track_file_style_conditional.color_bed.color |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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191 #end if |
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326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
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192 #if $track.track_file_style_conditional.border_color_bed.border_color_bed_select == 'manually': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
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193 border_color = $track.track_file_style_conditional.border_color_bed.color |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
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194 #else |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
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195 border_color = $track.track_file_style_conditional.border_color_bed.border_color_bed_select |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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196 #end if |
0
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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197 display = collapsed |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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198 #if $track.track_file_style_conditional.height_chrom: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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199 height = $track.track_file_style_conditional.height_chrom |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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200 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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201 line_width = $track.track_file_style_conditional.line_width |
0
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202 file_type = bed |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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203 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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204 #if $track.track_file_style_conditional.spacer_height != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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205 [spacer] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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206 height = $track.track_file_style_conditional.spacer_height |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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207 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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208 #end for |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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209 #end if |
0
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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210 |
5
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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211 ## Gene/gtf track |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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212 #if $track.track_file_style_conditional.track_file_style_selector == "gene_track_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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213 #for $counter_bed, $data_bed in enumerate($track.track_file_style_conditional.track_input_bed): |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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214 [genes_${counter}_${counter_bed}] |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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215 #set ext = $data_bed.extension |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
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216 file = $data_bed |
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eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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217 #if $ext == 'gtf': |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
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218 prefered_name = $track.track_file_style_conditional.bed_style.bed_advanced.gtf.prefered_name |
11
7dd841a32245
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219 #if $track.track_file_style_conditional.bed_style.bed_advanced.gtf.merge_transcripts.merge_transcripts_select == 'true': |
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220 merge_transcripts = true |
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221 merge_overlapping_exons = $track.track_file_style_conditional.bed_style.bed_advanced.gtf.merge_transcripts.merge_overlapping_exons |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
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222 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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223 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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224 #if $track.track_file_style_conditional.title: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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225 title = $track.track_file_style_conditional.title |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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226 #elif $track.track_file_style_conditional.overlay_select == 'no': |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
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227 title = $data_bed.element_identifier |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
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228 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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229 #if $track.track_file_style_conditional.color_bed.color_bed_select == "bed_rgb": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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230 color = bed_rgb |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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231 #elif $track.track_file_style_conditional.color_bed.color: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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232 color = $track.track_file_style_conditional.color_bed.color |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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233 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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234 #if $track.track_file_style_conditional.border_color_bed.border_color_bed_select == 'manually': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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235 border_color = $track.track_file_style_conditional.border_color_bed.color |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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236 #else |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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237 border_color = $track.track_file_style_conditional.border_color_bed.border_color_bed_select |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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238 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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239 style = $track.track_file_style_conditional.bed_style.bed_style_select |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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240 #if $track.track_file_style_conditional.bed_style.bed_style_select == 'UCSC': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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241 arrow_interval = $track.track_file_style_conditional.bed_style.bed_advanced.arrow_interval |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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242 #if $track.track_file_style_conditional.bed_style.bed_advanced.backbone_color_bed.backbone_color_bed_select == 'manually': |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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243 color_backbone = $track.track_file_style_conditional.bed_style.bed_advanced.backbone_color_bed.color |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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244 #else |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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245 color_backbone = $track.track_file_style_conditional.bed_style.bed_advanced.backbone_color_bed.backbone_color_bed_select |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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246 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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247 #else: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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248 height_utr = $track.track_file_style_conditional.bed_style.bed_advanced.height_utr |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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249 #if $track.track_file_style_conditional.bed_style.bed_advanced.color_utr.color_utr_select == 'manually': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
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changeset
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250 color_utr = $track.track_file_style_conditional.bed_style.bed_advanced.color_utr.color |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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changeset
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251 #elif $track.track_file_style_conditional.bed_style.bed_advanced.color_utr.color_utr_select == 'bed_rgb': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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252 color_utr = bed_rgb |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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253 #else: |
11
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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254 ## This is 'like' |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
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changeset
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255 #if $track.track_file_style_conditional.color_bed.color_bed_select == "bed_rgb": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
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256 color_utr = bed_rgb |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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257 #else: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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258 color_utr = $track.track_file_style_conditional.color_bed.color |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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259 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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260 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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261 #if $track.track_file_style_conditional.bed_style.bed_style_select == 'tssarrow' and $track.track_file_style_conditional.bed_style.bed_advanced.arrow_length != '': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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262 arrow_length = $track.track_file_style_conditional.bed_style.bed_advanced.arrow_length |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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263 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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264 #if $track.track_file_style_conditional.bed_style.bed_style_select == 'flybase': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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265 arrowhead_included = $track.track_file_style_conditional.bed_style.arrowhead_included |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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266 arrowhead_fraction = $track.track_file_style_conditional.bed_style.arrowhead_fraction |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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267 #if $track.track_file_style_conditional.bed_style.bed_advanced.backbone_color_bed.backbone_color_bed_select == 'manually': |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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268 color_backbone = $track.track_file_style_conditional.bed_style.bed_advanced.backbone_color_bed.color |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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269 #else |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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270 color_backbone = $track.track_file_style_conditional.bed_style.bed_advanced.backbone_color_bed.backbone_color_bed_select |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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271 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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272 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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273 #end if |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
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1
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274 display = $track.track_file_style_conditional.display |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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275 #if $track.track_file_style_conditional.height_bed: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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276 height = $track.track_file_style_conditional.height_bed |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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277 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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278 labels = $track.track_file_style_conditional.labels.plot_labels |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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279 #if $track.track_file_style_conditional.labels.plot_labels == 'true': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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280 all_labels_inside = $track.track_file_style_conditional.labels.all_labels_inside |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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281 labels_in_margin = $track.track_file_style_conditional.labels.labels_in_margin |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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282 fontstyle = $track.track_file_style_conditional.labels.fontstyle |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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283 #if $track.track_file_style_conditional.labels.fontsize: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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284 fontsize = $track.track_file_style_conditional.labels.fontsize |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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285 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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286 #end if |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
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287 file_type = $ext |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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288 #if $track.track_file_style_conditional.bed_style.bed_advanced.gene_rows: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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289 gene_rows = $track.track_file_style_conditional.bed_style.bed_advanced.gene_rows |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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290 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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291 global_max_row = $track.track_file_style_conditional.bed_style.bed_advanced.global_max_row |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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292 max_labels = $track.track_file_style_conditional.bed_style.bed_advanced.max_labels |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
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293 line_width = $track.track_file_style_conditional.bed_style.bed_advanced.line_width |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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294 #if $track.track_file_style_conditional.invert_orientation: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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295 orientation = inverted |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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296 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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297 overlay_previous = $track.track_file_style_conditional.overlay_select |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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298 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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299 #if $track.track_file_style_conditional.spacer_height != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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300 [spacer] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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301 height = $track.track_file_style_conditional.spacer_height |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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302 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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303 #end for |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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304 #end if |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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305 |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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306 ## Link |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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307 #if $track.track_file_style_conditional.track_file_style_selector == "link_track_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
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308 [links_$counter] |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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309 file = $track.track_file_style_conditional.track_input_link |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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310 #if $track.track_file_style_conditional.title: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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changeset
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311 title = $track.track_file_style_conditional.title |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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312 #elif $track.track_file_style_conditional.overlay_select == 'no': |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
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313 title = $track.track_file_style_conditional.track_input_link.element_identifier |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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314 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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changeset
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315 #if $track.track_file_style_conditional.height: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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316 height = $track.track_file_style_conditional.height |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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317 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
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318 #if $track.track_file_style_conditional.min_value != "": |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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changeset
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319 min_value = $track.track_file_style_conditional.min_value |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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320 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
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321 #if $track.track_file_style_conditional.max_value != "": |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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changeset
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322 max_value = $track.track_file_style_conditional.max_value |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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323 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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324 color = $track.track_file_style_conditional.color_link.color |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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325 alpha = $track.track_file_style_conditional.alpha |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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326 line_width = $track.track_file_style_conditional.line_width |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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327 line_style = $track.track_file_style_conditional.line_style |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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328 links_type = $track.track_file_style_conditional.display.links_type |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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329 #if $track.track_file_style_conditional.display.links_type in ['arcs', 'triangles']: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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diff
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330 compact_arcs_level = $track.track_file_style_conditional.display.compact_arcs_level |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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diff
changeset
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331 use_middle = $track.track_file_style_conditional.display.use_middle |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
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changeset
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332 #end if |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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diff
changeset
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333 #if $track.track_file_style_conditional.display.links_type != 'squares' and $track.track_file_style_conditional.display.ylim != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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diff
changeset
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334 ylim = $track.track_file_style_conditional.display.ylim |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
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335 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
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336 #if $track.track_file_style_conditional.display.links_type == 'squares' and $track.track_file_style_conditional.display.region2 != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
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337 region2 = $track.track_file_style_conditional.display.region2 |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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diff
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338 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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339 #if $track.track_file_style_conditional.invert_orientation: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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340 orientation = inverted |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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341 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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342 overlay_previous = $track.track_file_style_conditional.overlay_select |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
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343 file_type = links |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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344 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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345 #if $track.track_file_style_conditional.spacer_height != "": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
346 [spacer] |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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347 height = $track.track_file_style_conditional.spacer_height |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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changeset
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348 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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349 #end if |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
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|
350 |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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diff
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|
351 ## Narrow peak |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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352 #if $track.track_file_style_conditional.track_file_style_selector == "narrow_peak_track_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
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changeset
|
353 #for $counter_narrow_peak, $data_narrow_peak in enumerate($track.track_file_style_conditional.track_input_narrow_peak): |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
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|
354 [narrow_peak_${counter}_${counter_narrow_peak}] |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
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changeset
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355 file = $data_narrow_peak |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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changeset
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356 #if $track.track_file_style_conditional.title: |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
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changeset
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357 title = $track.track_file_style_conditional.title |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
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358 #elif $track.track_file_style_conditional.overlay_select == 'no': |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
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359 title = $data_narrow_peak.element_identifier |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
360 #end if |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
361 color = $track.track_file_style_conditional.color |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
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362 type = $track.track_file_style_conditional.display.display_selector |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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363 use_summit = $track.track_file_style_conditional.display.use_summit |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
364 #if $track.track_file_style_conditional.display.display_selector == "peak": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
365 show_data_range = $track.track_file_style_conditional.display.show_data |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
366 #if $track.track_file_style_conditional.display.width_adjust: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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367 width_adjust = $track.track_file_style_conditional.display.width_adjust |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
368 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
369 #if $track.track_file_style_conditional.display.min_value != "": |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
370 min_value = $track.track_file_style_conditional.display.min_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
371 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
372 #if $track.track_file_style_conditional.display.max_value != "": |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
373 max_value = $track.track_file_style_conditional.display.max_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
374 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
375 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
376 #if $track.track_file_style_conditional.height_narrow_peak: |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
377 height = $track.track_file_style_conditional.height_narrow_peak |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
378 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
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379 line_width = $track.track_file_style_conditional.line_width |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
380 file_type = narrow_peak |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
381 show_labels = $track.track_file_style_conditional.labels.show_labels |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
382 #if $track.track_file_style_conditional.labels.show_labels == 'true': |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
383 #if $track.track_file_style_conditional.labels.fontsize: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
384 fontsize = $track.track_file_style_conditional.labels.fontsize |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
385 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
386 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
387 #if $track.track_file_style_conditional.invert_orientation: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
388 orientation = inverted |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
389 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
390 overlay_previous = $track.track_file_style_conditional.overlay_select |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
391 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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392 #if $track.track_file_style_conditional.spacer_height != "": |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
393 [spacer] |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
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394 height = $track.track_file_style_conditional.spacer_height |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
395 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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396 #end for |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
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397 #end if |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
398 |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
399 ## Bedgraph track |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
400 #if $track.track_file_style_conditional.track_file_style_selector == "bedgraph_track_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
401 #for $data_bedgraph in $track.track_file_style_conditional.track_input_bedgraph: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
402 [bedgraph_$counter] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
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403 file = $data_bedgraph |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
404 #if $track.track_file_style_conditional.title: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
405 title = $track.track_file_style_conditional.title |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
406 #elif $track.track_file_style_conditional.overlay_select == "no": |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
407 title = $data_bedgraph.element_identifier |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
408 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
409 #if $track.track_file_style_conditional.color: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
410 color = $track.track_file_style_conditional.color |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
411 #end if |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
412 alpha = $track.track_file_style_conditional.alpha |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
413 #if $track.track_file_style_conditional.color_negative.color_negative_select == "true": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
414 negative_color = $track.track_file_style_conditional.color_negative.color |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
415 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
416 #if $track.track_file_style_conditional.height_bedgraph: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
417 height = $track.track_file_style_conditional.height_bedgraph |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
418 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
419 #if $track.track_file_style_conditional.min_value != "": |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
420 min_value = $track.track_file_style_conditional.min_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
421 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
422 #if $track.track_file_style_conditional.max_value != "": |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
423 max_value = $track.track_file_style_conditional.max_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
424 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
425 show_data_range = $track.track_file_style_conditional.show_data |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
426 grid = $track.track_file_style_conditional.grid |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
427 nans_to_zeros = $track.track_file_style_conditional.nans_to_zeros |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
428 use_middle = $track.track_file_style_conditional.use_middle |
13
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
429 #if int(data_bedgraph.metadata.columns) > 4: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
430 file_type = bedgraph_matrix |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
431 type = lines |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
432 #else: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
433 file_type = bedgraph |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
434 #if $track.track_file_style_conditional.type_conditional.type_selector == 'fill_option': |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
435 type = fill |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
436 #elif $track.track_file_style_conditional.type_conditional.type_selector == 'line_option': |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
437 type = line:$track.track_file_style_conditional.type_conditional.width_line |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
438 #elif $track.track_file_style_conditional.type_conditional.type_selector == 'point_option': |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
439 type = points:$track.track_file_style_conditional.type_conditional.width_point |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
440 #end if |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
441 #if $track.track_file_style_conditional.logScale_conditional.transform_selector != 'no': |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
442 transform = $track.track_file_style_conditional.logScale_conditional.transform_selector |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
443 y_axis_values = $track.track_file_style_conditional.logScale_conditional.y_axis_values |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
444 #if $track.track_file_style_conditional.logScale_conditional.transform_selector != 'log1p': |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
445 log_pseudocount = $track.track_file_style_conditional.logScale_conditional.log_pseudocount |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
446 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
447 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
448 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
449 #if $track.track_file_style_conditional.reading_bdg_as_bw.summary_method != 'no': |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
450 summary_method = $track.track_file_style_conditional.reading_bdg_as_bw.summary_method |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
451 #if $track.track_file_style_conditional.reading_bdg_as_bw.number_of_bins: |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
452 number_of_bins = $track.track_file_style_conditional.reading_bdg_as_bw.number_of_bins |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
453 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
454 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
455 #if $track.track_file_style_conditional.op.operation != 'file': |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
456 operation = $track.track_file_style_conditional.op.operation |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
457 #if 'second_file' in str($track.track_file_style_conditional.op.operation): |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
458 second_file = $track.track_file_style_conditional.op.second_file |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
459 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
460 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
461 #if $track.track_file_style_conditional.invert_orientation: |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
462 orientation = inverted |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
463 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
464 overlay_previous = $track.track_file_style_conditional.overlay_select |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
465 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
466 #if $track.track_file_style_conditional.spacer_height != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
467 [spacer] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
468 height = $track.track_file_style_conditional.spacer_height |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
469 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
470 #end for |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
471 #end if |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
472 |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
473 ## Bigwig tracks |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
474 #if $track.track_file_style_conditional.track_file_style_selector == "bigwig_track_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
475 #for $data_bigwig in $track.track_file_style_conditional.track_input_bigwig: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
476 [bigwig_$counter] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
477 file = $data_bigwig |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
478 #if $track.track_file_style_conditional.title: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
479 title = $track.track_file_style_conditional.title |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
480 #elif $track.track_file_style_conditional.overlay_select == "no": |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
481 title = $data_bigwig.element_identifier |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
482 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
483 #if $track.track_file_style_conditional.color: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
484 color = $track.track_file_style_conditional.color |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
485 #end if |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
486 alpha = $track.track_file_style_conditional.alpha |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
487 #if $track.track_file_style_conditional.color_negative.color_negative_select == "true": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
488 negative_color = $track.track_file_style_conditional.color_negative.color |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
489 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
490 #if $track.track_file_style_conditional.min_value != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
491 min_value = $track.track_file_style_conditional.min_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
492 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
493 #if $track.track_file_style_conditional.max_value != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
494 max_value = $track.track_file_style_conditional.max_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
495 #end if |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
496 height = $track.track_file_style_conditional.height_bigwig |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
497 summary_method = $track.track_file_style_conditional.reading_bw_conditional.summary_method |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
498 nans_to_zeros = $track.track_file_style_conditional.reading_bw_conditional.nans_to_zeros |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
499 #if $track.track_file_style_conditional.reading_bw_conditional.number_of_bins: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
500 number_of_bins = $track.track_file_style_conditional.reading_bw_conditional.number_of_bins |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
501 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
502 #if $track.track_file_style_conditional.type_conditional.type_selector == 'fill_option': |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
503 type = fill |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
504 #elif $track.track_file_style_conditional.type_conditional.type_selector == 'line_option': |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
505 type = line:$track.track_file_style_conditional.type_conditional.width_line |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
506 #elif $track.track_file_style_conditional.type_conditional.type_selector == 'point_option': |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
507 type = points:$track.track_file_style_conditional.type_conditional.width_point |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
508 #end if |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
509 #if $track.track_file_style_conditional.logScale_conditional.transform_selector != 'no': |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
510 transform = $track.track_file_style_conditional.logScale_conditional.transform_selector |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
511 y_axis_values = $track.track_file_style_conditional.logScale_conditional.y_axis_values |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
512 #if $track.track_file_style_conditional.logScale_conditional.transform_selector != 'log1p': |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
513 log_pseudocount = $track.track_file_style_conditional.logScale_conditional.log_pseudocount |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
514 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
515 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
516 #if $track.track_file_style_conditional.op.operation != 'file': |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
517 operation = $track.track_file_style_conditional.op.operation |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
518 #if 'second_file' in $track.track_file_style_conditional.op.operation: |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
519 second_file = $track.track_file_style_conditional.op.second_file |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
520 #end if |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
521 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
522 show_data_range = $track.track_file_style_conditional.show_data |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
523 grid = $track.track_file_style_conditional.grid |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
524 file_type = bigwig |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
525 #if $track.track_file_style_conditional.invert_orientation: |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
526 orientation = inverted |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
527 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
528 overlay_previous = $track.track_file_style_conditional.overlay_select |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
529 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
530 #if $track.track_file_style_conditional.spacer_height != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
531 [spacer] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
532 height = $track.track_file_style_conditional.spacer_height |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
533 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
534 #end for |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
535 #end if |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
536 |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
537 ## bedgraph_matrix |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
538 #if $track.track_file_style_conditional.track_file_style_selector == "bedgraph_matrix_track_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
539 #for $data_bedgraph_matrix in $track.track_file_style_conditional.track_input_bedgraph_matrix: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
540 [bedgraph_matrix_$counter] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
541 file = $data_bedgraph_matrix |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
542 #if $track.track_file_style_conditional.title: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
543 title = $track.track_file_style_conditional.title |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
544 #else: |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
545 title = $data_bedgraph_matrix.element_identifier |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
546 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
547 #if $track.track_file_style_conditional.height_bedgraph: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
548 height = $track.track_file_style_conditional.height_bedgraph |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
549 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
550 #if $track.track_file_style_conditional.min_value != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
551 min_value = $track.track_file_style_conditional.min_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
552 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
553 #if $track.track_file_style_conditional.max_value != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
554 max_value = $track.track_file_style_conditional.max_value |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
555 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
556 type = $track.track_file_style_conditional.type.type_selector |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
557 file_type = bedgraph_matrix |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
558 #if $track.track_file_style_conditional.type.type_selector == 'lines': |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
559 show_data_range = $track.track_file_style_conditional.type.show_data |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
560 plot_horizontal_lines = $track.track_file_style_conditional.type.plot_horizontal_lines |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
561 pos_score_in_bin = $track.track_file_style_conditional.type.pos_score_in_bin |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
562 individual_color = $track.track_file_style_conditional.type.individual_color |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
563 summary_color = $track.track_file_style_conditional.type.summary_color |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
564 #else |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
565 colormap = $track.track_file_style_conditional.type.colormap |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
566 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
567 #if $track.track_file_style_conditional.invert_orientation: |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
568 orientation = inverted |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
569 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
570 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
571 #if $track.track_file_style_conditional.spacer_height != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
572 [spacer] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
573 height = $track.track_file_style_conditional.spacer_height |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
574 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
575 #end for |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
576 #end if |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
577 |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
578 ## Vlines: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
579 #if $track.track_file_style_conditional.track_file_style_selector == "vlines_track_option": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
580 [vlines_$counter] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
581 file = $track.track_file_style_conditional.track_input_bed_single |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
582 line_width = $track.track_file_style_conditional.line_width |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
583 line_style = $track.track_file_style_conditional.line_style |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
584 color = $track.track_file_style_conditional.color |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
585 alpha = $track.track_file_style_conditional.alpha |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
586 zorder = $track.track_file_style_conditional.zorder |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
587 type = vlines |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
588 #end if |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
589 |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
590 ## Vhighlight: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
591 #if $track.track_file_style_conditional.track_file_style_selector == "vhighlight_track_option": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
592 [vhighlight_$counter] |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
593 file = $track.track_file_style_conditional.track_input_bed_single |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
594 line_width = $track.track_file_style_conditional.line_width |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
595 color = $track.track_file_style_conditional.color |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
596 alpha = $track.track_file_style_conditional.alpha |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
597 border_color = $track.track_file_style_conditional.border_color |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
598 type = vhighlight |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
599 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
600 |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
601 ## Hlines: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
602 #if $track.track_file_style_conditional.track_file_style_selector == "hlines_track_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
603 [hlines_$counter] |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
604 #if $track.track_file_style_conditional.title: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
605 title = $track.track_file_style_conditional.title |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
606 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
607 #if $track.track_file_style_conditional.height: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
608 height = $track.track_file_style_conditional.height |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
609 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
610 #if $track.track_file_style_conditional.min_value != "": |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
611 min_value = $track.track_file_style_conditional.min_value |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
612 #end if |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
613 #if $track.track_file_style_conditional.max_value != "": |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
614 max_value = $track.track_file_style_conditional.max_value |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
615 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
616 y_values = $track.track_file_style_conditional.y_values |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
617 show_data_range = $track.track_file_style_conditional.show_data |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
618 color = $track.track_file_style_conditional.color |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
619 alpha = $track.track_file_style_conditional.alpha |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
620 line_width = $track.track_file_style_conditional.line_width |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
621 line_style = $track.track_file_style_conditional.line_style |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
622 #if $track.track_file_style_conditional.invert_orientation: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
623 orientation = inverted |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
624 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
625 overlay_previous = $track.track_file_style_conditional.overlay_select |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
626 file_type = hlines |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
627 ## If spacer is asked a new section is created: |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
628 #if $track.track_file_style_conditional.spacer_height != "": |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
629 [spacer] |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
630 height = $track.track_file_style_conditional.spacer_height |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
631 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
632 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
633 |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
634 ## Spacer |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
635 #if $track.track_file_style_conditional.track_file_style_selector == "spacer_option": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
636 [spacer] |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
637 #if $track.track_file_style_conditional.title: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
638 title = $track.track_file_style_conditional.title |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
639 #end if |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
640 #if $track.track_file_style_conditional.spacer_height != "": |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
641 height = $track.track_file_style_conditional.spacer_height |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
642 #end if |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
643 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
644 |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
645 ## Xaxis: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
646 #if $track.track_file_style_conditional.track_file_style_selector == "xaxis_option": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
647 [x-axis] |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
648 #if $track.track_file_style_conditional.title: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
649 title = $track.track_file_style_conditional.title |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
650 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
651 #if $track.track_file_style_conditional.fontsize != "": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
652 fontsize = $track.track_file_style_conditional.fontsize |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
653 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
654 where = $track.track_file_style_conditional.xaxis_where |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
655 ## If spacer is asked a new section is created: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
656 #if $track.track_file_style_conditional.spacer_height != "": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
657 [spacer] |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
658 height = $track.track_file_style_conditional.spacer_height |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
659 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
660 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
661 |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
662 ## Scale bar: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
663 #if $track.track_file_style_conditional.track_file_style_selector == "scale_bar_option": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
664 [scale_bar] |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
665 #if $track.track_file_style_conditional.title: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
666 title = $track.track_file_style_conditional.title |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
667 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
668 #if $track.track_file_style_conditional.color != "": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
669 color = $track.track_file_style_conditional.color |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
670 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
671 alpha = $track.track_file_style_conditional.alpha |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
672 line_width = $track.track_file_style_conditional.line_width |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
673 #if $track.track_file_style_conditional.scalebar_pos.x_center != "": |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
674 x_center = $track.track_file_style_conditional.scalebar_pos.x_center |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
675 #end if |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
676 #if $track.track_file_style_conditional.scalebar_pos.size != "": |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
677 size = $track.track_file_style_conditional.scalebar_pos.size |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
678 #end if |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
679 #if $track.track_file_style_conditional.scalebar_pos.scalebar_start_position != "": |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
680 scalebar_start_position = $track.track_file_style_conditional.scalebar_pos.scalebar_start_position |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
681 #end if |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
682 #if $track.track_file_style_conditional.scalebar_pos.scalebar_end_position != "": |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
683 scalebar_end_position = $track.track_file_style_conditional.scalebar_pos.scalebar_end_position |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
684 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
685 where = $track.track_file_style_conditional.sb_where |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
686 #if $track.track_file_style_conditional.fontsize != "": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
687 fontsize = $track.track_file_style_conditional.fontsize |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
688 #end if |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
689 #if $track.track_file_style_conditional.height != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
690 height = $track.track_file_style_conditional.height |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
691 #end if |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
692 file_type = scalebar |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
693 ## If spacer is asked a new section is created: |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
694 #if $track.track_file_style_conditional.spacer_height != "": |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
695 [spacer] |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
696 height = $track.track_file_style_conditional.spacer_height |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
697 #end if |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
698 #end if |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
699 |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
700 ## Fasta: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
701 #if $track.track_file_style_conditional.track_file_style_selector == "fasta_option": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
702 [Fasta_${counter}] |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
703 #if $track.track_file_style_conditional.fasta_source.fasta_source_selector == "history": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
704 file = fasta_${counter}.fa |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
705 #else: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
706 file = $track.track_file_style_conditional.fasta_source.fasta_cached.fields.path |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
707 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
708 #if $track.track_file_style_conditional.title: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
709 title = $track.track_file_style_conditional.title |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
710 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
711 #if $track.track_file_style_conditional.height != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
712 height = $track.track_file_style_conditional.height |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
713 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
714 #if $track.track_file_style_conditional.invert_orientation: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
715 orientation = inverted |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
716 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
717 overlay_previous = $track.track_file_style_conditional.overlay_select |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
718 file_type = fasta |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
719 ## If spacer is asked a new section is created: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
720 #if $track.track_file_style_conditional.spacer_height != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
721 [spacer] |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
722 height = $track.track_file_style_conditional.spacer_height |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
723 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
724 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
725 |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
726 ## Maf: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
727 #if $track.track_file_style_conditional.track_file_style_selector == "maf_option": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
728 [Maf_${counter}] |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
729 file = $track.track_file_style_conditional.track_input_maf |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
730 file_index = $track.track_file_style_conditional.track_input_maf.metadata.maf_index |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
731 reference = $track.track_file_style_conditional.reference |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
732 #if $track.track_file_style_conditional.title: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
733 title = $track.track_file_style_conditional.title |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
734 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
735 #if $track.track_file_style_conditional.height != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
736 height = $track.track_file_style_conditional.height |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
737 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
738 #if $track.track_file_style_conditional.invert_orientation: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
739 orientation = inverted |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
740 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
741 overlay_previous = $track.track_file_style_conditional.overlay_select |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
742 line_width = $track.track_file_style_conditional.line_width |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
743 color_identical = $track.track_file_style_conditional.color_identical |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
744 color_mismatch = $track.track_file_style_conditional.color_mismatch |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
745 color_gap = $track.track_file_style_conditional.color_gap |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
746 #if $track.track_file_style_conditional.species_order != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
747 species_order = $track.track_file_style_conditional.species_order |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
748 #if $track.track_file_style_conditional.species_labels != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
749 species_labels = $track.track_file_style_conditional.species_labels |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
750 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
751 species_order_only = $track.track_file_style_conditional.species_order_only |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
752 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
753 display_ref_seq = $track.track_file_style_conditional.display_ref_seq |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
754 file_type = maf |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
755 ## If spacer is asked a new section is created: |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
756 #if $track.track_file_style_conditional.spacer_height != "": |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
757 [spacer] |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
758 height = $track.track_file_style_conditional.spacer_height |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
759 #end if |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
760 #end if |
1
0ea86f6bf2a1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit f834c2a294c002123ef0613dc703aca00201b5bf
iuc
parents:
0
diff
changeset
|
761 #end for |
0ea86f6bf2a1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit f834c2a294c002123ef0613dc703aca00201b5bf
iuc
parents:
0
diff
changeset
|
762 </configfile> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
763 </configfiles> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
764 <inputs> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
765 <!--Arguments for pgt--> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
766 <param argument="--region" type="text" label="Region of the genome to plot" optional="false" |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
767 help="The format is chr:start-end, for example chr10:10-500"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
768 <validator type="expression" message="Region should be like chr10:10-500">'^[a-zA-Z0-9_]:\d+-\d+$'</validator> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
769 </param> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
770 <section name="global_args" title="Configure figure parameters" expanded="False"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
771 <param argument="--title" type="text" label="Plot title" help="If set, you may need to start by a spacer track"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
772 <param argument="--fontsize" type="integer" label="Font size for the labels of the plot" value="12"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
773 <param argument="--dpi" type="integer" label="Resolution (dpi)" value="72" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
774 help="Resolution for the image in case the ouput is a raster graphics image (e.g png, jpg)"/> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
775 <param argument="--width" type="float" label="Figure width in cm" value="40"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
776 <param argument="--plotWidth" type="float" label="Width in centimeters of the plotting (central) part" optional="true" |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
777 help="This will overwrite what has been defined as a figure width."/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
778 <param argument="--height" type="float" label="Figure height in centimeters" optional="true" |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
779 help="If not given, the figure height is computed based on the heights of the tracks. If given, the track height are proportionally scaled to match the desired figure height."/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
780 <param argument="--trackLabelFraction" type="float" label="Proportion of space dedicated to track labels" value="0.05" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
781 min="0" max="1"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
782 <param argument="--trackLabelHAlign" type="select" label="Horizontal alignment of track labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
783 <option value="left" selected="True">left</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
784 <option value="right">right</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
785 <option value="center">center</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
786 </param> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
787 <param argument="--decreasingXAxis" type="boolean" truevalue="--decreasingXAxis" falsevalue="" checked="false" |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
788 label="Use a decreasing x axis" help="By default, the x-axis is increasing. Use this option if you want to see all tracks with a decreasing x-axis."/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
789 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
790 <!--Info to build the config file--> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
791 <repeat name="tracks" min="1" title="Include tracks in your plot" |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
792 help="Tracks can be of different filetypes. E.g BED, HiC-Matrix, BigWig or BedGraph. |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
793 The order you add them represent the order they will be plotted from top to bottom."> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
794 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
795 <param name="track_file_style_selector" type="select" label="Choose style of the track"> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
796 <option value="hic_matrix_option">TAD visualization (triangle)</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
797 <option value="hic_matrix_square_option">TAD visualization (square)</option> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
798 <option value="chrom_states_option">Chromatine states</option> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
799 <option value="gene_track_option">Gene track / Bed track</option> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
800 <option value="link_track_option">Link track</option> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
801 <option value="narrow_peak_track_option">NarrowPeak track</option> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
802 <option value="bigwig_track_option">Bigwig track</option> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
803 <option value="bedgraph_track_option">Bedgraph track </option> |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
804 <option value="bedgraph_matrix_track_option">Bedgraph matrix track/TAD score</option> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
805 <option value="vlines_track_option">Vlines track</option> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
806 <option value="vhighlight_track_option">Vhighlight track</option> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
807 <option value="hlines_track_option">Hlines track</option> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
808 <option value="spacer_option">Spacer</option> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
809 <option value="xaxis_option">X-axis</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
810 <option value="scale_bar_option">Scale bar track</option> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
811 <option value="fasta_option">Fasta track</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
812 <option value="maf_option">Maf track</option> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
813 </param> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
814 <when value="hic_matrix_option"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
815 <expand macro="plot_title" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
816 <expand macro="matrix_h5_cooler_multiple_macro" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
817 |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
818 <param name="colormap" type="select" label="Color map to use for the heatmap" help="Available color map names can be found here: https://matplotlib.org/examples/color/colormaps_reference.html"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
819 <option value="RdYlBu_r">RdYlBu reversed</option> |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
820 <option value="viridis">viridis</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
821 <expand macro="colormap_macro_noRdYlBu_r_noViridis"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
822 </param> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
823 <expand macro="minmax_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
824 <param name="depth" type="integer" value="8000000" optional="True" label="Depth" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
825 <param name="transform" type="select" label="Plot the transformed value"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
826 <option value="log1p" selected="True" >log1p</option> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
827 <option value="log">log</option> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
828 <option value="-log">-log</option> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
829 <option value="no">no transformation</option> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
830 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
831 </param> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
832 <param name="height_matrix" type="float" value="" optional="True" label="height of the heatmap" help="If you leave it empty the height is calculated to have perfect squares rotated 45 degrees."/> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
833 <param name="show_masked_bins" type="boolean" truevalue="true" falsevalue="false" checked="false" |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
834 label="Show masked bins" help="If false, neighbour bins will be increase in size to hide the mask bins." /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
835 <param name="boundaries_file" type="data" optional="True" format="bed" label="Boundaries file" multiple="True" help="Will display triangles on top of the heatmap"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
836 <param name="scale_factor" type="float" value="1.0" optional="True" label="Scale factor" help="if the values in the matrix need to be scaled the following parameter can be used" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
837 <param name="rasterize" type="boolean" truevalue="true" falsevalue="false" checked="true" |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
838 label="Rasterize the heatmap" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
839 <expand macro="inverted_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
840 <expand macro="spacer_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
841 |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
842 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
843 |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
844 <when value="hic_matrix_square_option"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
845 <expand macro="plot_title" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
846 <expand macro="matrix_h5_cooler_multiple_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
847 |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
848 <param name="colormap" type="select" label="Color map to use for the heatmap" help="Available color map names can be found here: https://matplotlib.org/examples/color/colormaps_reference.html"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
849 <option value="RdYlBu_r">RdYlBu reversed</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
850 <option value="viridis">viridis</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
851 <expand macro="colormap_macro_noRdYlBu_r_noViridis"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
852 </param> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
853 <expand macro="minmax_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
854 <expand macro="region2_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
855 <param name="transform" type="select" label="Plot the transformed value"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
856 <option value="log1p" selected="True" >log1p</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
857 <option value="log">log</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
858 <option value="-log">-log</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
859 <option value="no">no transformation</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
860 |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
861 </param> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
862 <param name="height_matrix" type="float" value="" optional="True" label="height of the heatmap" help="If you leave it empty the height is calculated to have perfect squares."/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
863 <param name="show_masked_bins" type="boolean" truevalue="true" falsevalue="false" checked="false" |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
864 label="Show masked bins" help="If false, neighbour bins will be increase in size to hide the mask bins." /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
865 <param name="boundaries_file" type="data" optional="True" format="bed" label="Boundaries file" multiple="True" help="Will display squares on top of the heatmap"/> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
866 <param name="scale_factor" type="float" value="1.0" optional="True" label="Scale factor" help="if the values in the matrix need to be scaled the following parameter can be used" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
867 <param name="rasterize" type="boolean" truevalue="true" falsevalue="false" checked="true" |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
868 label="Rasterize the heatmap" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
869 <expand macro="inverted_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
870 <expand macro="spacer_macro" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
871 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
872 </when> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
873 <when value="chrom_states_option"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
874 <expand macro="plot_title" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
875 <expand macro="track_input_bed_macro" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
876 <conditional name="color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
877 <param name="color_bed_select" type="select" label="Define color:"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
878 <option value="manually" selected="True">manually</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
879 <option value="bed_rgb">From the 9th field</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
880 <option value="colormap">From the 5th field (score)</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
881 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
882 <when value="manually"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
883 <param name="color" type="color" value="#000000" label="Color of track" optional="True" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
884 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
885 <when value="bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
886 <when value="colormap"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
887 <param name="color" type="select" label="Color map to use for the scores" help=" Available color map names can be found here: https://matplotlib.org/examples/color/colormaps_reference.html"> |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
888 <option value="RdYlBu_r">RdYlBu reversed</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
889 <option value="viridis">viridis</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
890 <expand macro="colormap_macro_noRdYlBu_r_noViridis" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
891 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
892 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
893 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
894 <expand macro="border_color_bed_macro" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
895 <param name="line_width" type="float" value="0.5" label="width of lines" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
896 <param name="height_chrom" type="float" value="1.5" optional="True" label="height"/> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
897 <param name="labels" type="boolean" truevalue="true" falsevalue="false" checked="true" |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
898 label="Plot labels" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
899 <expand macro="spacer_macro" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
900 |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
901 </when> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
902 <when value="gene_track_option"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
903 <expand macro="plot_title" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
904 |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
905 <expand macro="track_input_bed_gtf_macro" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
906 <conditional name="color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
907 <param name="color_bed_select" type="select" label="Define color:"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
908 <option value="manually" selected="True">manually</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
909 <option value="bed_rgb">From the 9th field</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
910 <option value="colormap">From the 5th field (score)</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
911 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
912 <when value="manually"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
913 <param name="color" type="color" value="#000000" label="Color of track" optional="True" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
914 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
915 <when value="bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
916 <when value="colormap"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
917 <param name="color" type="select" label="Color map to use for the scores" help=" Available color map names can be found here: https://matplotlib.org/examples/color/colormaps_reference.html"> |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
918 <option value="RdYlBu_r">RdYlBu reversed</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
919 <option value="viridis">viridis</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
920 <expand macro="colormap_macro_noRdYlBu_r_noViridis" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
921 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
922 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
923 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
924 <expand macro="border_color_bed_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
925 <param name="height_bed" type="float" value="1.5" optional="True" label="height"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
926 <conditional name="labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
927 <param name="plot_labels" type="select" label="Plot labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
928 <option value="true" selected="True">yes</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
929 <option value="false">no</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
930 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
931 <when value="true"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
932 <param name="all_labels_inside" type="boolean" truevalue="true" falsevalue="false" checked="false" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
933 label="Put all labels inside the plotted region" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
934 help="Put labels on the left of the region if the region ends after the plotted region."/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
935 <param name="labels_in_margin" type="boolean" truevalue="true" falsevalue="false" checked="false" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
936 label="Allow to put labels in the right margin" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
937 help="Put labels in the margin if the region ends after the plotted region."/> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
938 <param name="fontsize" type="integer" value="" optional="True" label="Fontsize" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
939 <param name="fontstyle" type="select" label="Fontstyle"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
940 <option value="normal" selected="True">normal</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
941 <option value="italic">italic</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
942 <option value="oblique">oblique</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
943 </param> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
944 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
945 <when value="false"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
946 </conditional> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
947 <param name="display" type="select" label="display to use"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
948 <option value="stacked" selected="True">stacked (no overlap even with the label)</option> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
949 <option value="interleaved">interleaved (everything on 2 lines)</option> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
950 <option value="collapsed">collapsed (everything on 1 line)</option> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
951 <option value="triangles">triangles (plot triangles between start and end)</option> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
952 <option value="squares">squares (plot squares on the diagonal)</option> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
953 </param> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
954 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
955 <param name="bed_style_select" type="select" label="Bed style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
956 <option value="flybase" selected="True">flybase (blocks with arrow at extremities)</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
957 <option value="UCSC">UCSC (blocks with arrows in introns)</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
958 <option value="tssarrow">tssarrow (blocks with arrow above at beginning)</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
959 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
960 <when value="flybase"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
961 <param name="arrowhead_included" type="boolean" truevalue="true" falsevalue="false" checked="false" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
962 label="Include the arrowhead in the bed interval:" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
963 help="When set to False, the arrow indicating the orientation of the interval is plotted outside of the interval."/> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
964 <param name="arrowhead_fraction" type="float" value="0.004" min="0" max="1" |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
965 label="Size of arrowhead relative to the plotted region" |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
966 help="This size is also used to put space between the bed regions and their labels."/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
967 <section name="bed_advanced" title="Configure other bed parameters" expanded="False"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
968 <expand macro="utr_macro" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
969 <expand macro="bed_advanced_macro" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
970 <expand macro="backbone_color_bed_macro" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
971 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
972 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
973 <when value="UCSC"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
974 <section name="bed_advanced" title="Configure other bed parameters" expanded="False"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
975 <param name="arrow_interval" type="integer" value="2" min="0" label="interval between 2 arrows on introns in UCSC style"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
976 <expand macro="bed_advanced_macro" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
977 <expand macro="backbone_color_bed_macro" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
978 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
979 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
980 <when value="tssarrow"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
981 <section name="bed_advanced" title="Configure other bed parameters" expanded="False"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
982 <param name="arrow_length" type="integer" optional="true" label="arrow length" help="the length of the arrow in bp (default is 4% of the plotted region)"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
983 <expand macro="utr_macro" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
984 <expand macro="bed_advanced_macro" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
985 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
986 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
987 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
988 <expand macro="overlay_macro" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
989 <expand macro="inverted_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
990 <expand macro="spacer_macro" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
991 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
992 </when> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
993 <when value="link_track_option"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
994 <expand macro="plot_title" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
995 <expand macro="track_input_link_macro" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
996 <conditional name="color_link"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
997 <param name="color_link_select" type="select" label="Define color:"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
998 <option value="manually" selected="True">manually</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
999 <option value="colormap">From the 7th field (score)</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1000 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1001 <when value="manually"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1002 <param name="color" type="color" value="#000000" label="Color of track" optional="True" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1003 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1004 <when value="colormap"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1005 <param name="color" type="select" label="Color map to use for the scores" help=" Available color map names can be found here: https://matplotlib.org/examples/color/colormaps_reference.html"> |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
1006 <option value="RdYlBu_r">RdYlBu reversed</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
1007 <option value="viridis">viridis</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
1008 <expand macro="colormap_macro_noRdYlBu_r_noViridis" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1009 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1010 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1011 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1012 <expand macro="lines_macro" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1013 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1014 <param name="links_type" type="select" label="Representation of the link:"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1015 <option value="arcs" selected="True">arcs (a line between the centers of the 2 regions)</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1016 <option value="triangles">triangles</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1017 <option value="loops">loops (a diamond highlighting the intersection)</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1018 <option value="squares">squares (a square highlighting the intersection symetrically to the diagonal)</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1019 </param> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1020 <when value="arcs"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1021 <expand macro="links_arcs_triangles_options" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1022 <param name="ylim" type="float" optional="True" label="ylim" help="To be able to see small arcs when big arcs exists, you can set the upper y limit. The unit is bp. This corresponds to the longest arc you will see not truncated."/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1023 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1024 <when value="triangles"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1025 <expand macro="links_arcs_triangles_options" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1026 <param name="ylim" type="float" optional="True" label="ylim" help="To be able to see small arcs when big arcs exists, you can set the upper y limit. The unit is bp. This corresponds to the longest arc you will see not truncated."/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1027 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1028 <when value="loops"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1029 <param name="ylim" type="float" optional="True" label="ylim" help="To be able to see small arcs when big arcs exists, you can set the upper y limit. The unit is bp. This corresponds to the longest arc you will see not truncated."/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1030 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1031 <when value="squares"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1032 <expand macro="region2_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1033 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1034 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1035 <param name="height" type="float" value="1.5" optional="True" label="height"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1036 <expand macro="minmax_macro" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1037 <expand macro="overlay_macro" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1038 <expand macro="inverted_macro" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1039 <expand macro="spacer_macro" /> |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
1040 </when> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1041 <when value="narrow_peak_track_option"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1042 <expand macro="plot_title" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1043 <expand macro="track_input_narrow_peak_macro" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1044 <param name="color" type="color" value="#000000" label="Color of track" optional="True" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1045 <param name="height_narrow_peak" type="float" value="1.5" optional="True" label="height"/> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1046 <conditional name="display"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1047 <param name="display_selector" type="select" label="display to use"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1048 <option value="peak" selected="True">peak: Draw a peak shape from start, end, summit, height</option> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1049 <option value="box">box: Draw a box</option> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1050 </param> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1051 <when value="peak"> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1052 <param name="use_summit" type="boolean" truevalue="true" falsevalue="false" checked="true" |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1053 optional="True" label="Use summit information to make the curve." /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1054 <param name="show_data" type="boolean" truevalue="true" falsevalue="false" checked="false" |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1055 label="Show visualization of data range" /> |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
1056 <param name="width_adjust" type="float" value="1.5" optional="True" |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1057 label="Factor to change the width of the curve."/> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1058 <expand macro="minmax_macro" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1059 </when> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1060 <when value="box"> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1061 <param name="use_summit" type="boolean" truevalue="true" falsevalue="false" checked="true" |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1062 optional="True" label="Plot a vertical bar at the summit position." /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1063 </when> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1064 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1065 <param name="line_width" type="float" value="1" label="width of lines" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1066 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1067 <param name="show_labels" type="select" label="Plot labels (name, p-val, q-val)"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1068 <option value="true" selected="True">yes</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1069 <option value="false">no</option> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1070 </param> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1071 <when value="true"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1072 <param name="fontsize" type="integer" value="" optional="True" label="Fontsize" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1073 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1074 <when value="false"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1075 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1076 <expand macro="overlay_macro" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1077 <expand macro="inverted_macro" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1078 <expand macro="spacer_macro" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1079 |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1080 </when> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1081 <when value="bedgraph_track_option"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1082 <expand macro="plot_title" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1083 <expand macro="track_input_bedgraph_macro" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1084 <expand macro="color_coverage_macro" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1085 <expand macro="minmax_macro" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1086 <param name="height_bedgraph" type="float" value="1.5" optional="True" label="height"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1087 <expand macro="type_coverage_macro" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1088 <section name="reading_bdg_as_bw" title="Configure bigwig parameters" expanded="False"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1089 <param name="summary_method" type="select" label="Summary method"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1090 <option value="no" selected="True">no=no summary method (keep all values)</option> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1091 <option value="mean">mean=mean value</option> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1092 <option value="min">min=minimum value</option> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1093 <option value="max">max=maximum value</option> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1094 <option value="coverage">coverage=number of covered bases</option> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1095 <option value="std">std=standard deviation</option> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1096 </param> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1097 <param name="number_of_bins" type="integer" value="" optional="True" label="Number of bins" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1098 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1099 <expand macro="logScale_coverage_macro" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1100 <section name ="op" title="Compute an operation on the file" expanded="False"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1101 <param name="operation" type="text" label="operation to compute on the file(s)" value="file" |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1102 help="operation will be evaluated, it should contains file or file and second_file, for example `0.89 * file` `- file` `file - second_file` `log2((1 + file) / (1 + second_file))` or `max(file, second_file)`"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1103 <param name="second_file" type="data" format="bedgraph" label="second_file (bedgraph format)" multiple="False" optional="True"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1104 </section> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1105 <param name="nans_to_zeros" type="boolean" truevalue="true" falsevalue="false" checked="false" |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1106 label="NAN's to zeros" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1107 <param name="use_middle" type="boolean" truevalue="true" falsevalue="false" checked="false" |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1108 label="Use middle: Instead of using start and end, use the middle of intervals (useful for 4C-seq tracks)." /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1109 <param name="show_data" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Show visualization of data range" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1110 <param name="grid" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Display a grid on the y-axis" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1111 <expand macro="inverted_macro" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1112 <expand macro="overlay_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1113 <expand macro="spacer_macro" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1114 </when> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1115 <when value="bigwig_track_option"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1116 <expand macro="plot_title" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1117 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1118 <expand macro="track_input_bigwig_macro" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1119 <expand macro="color_coverage_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1120 |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1121 <expand macro="minmax_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1122 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1123 <param name="height_bigwig" type="float" value="1.5" optional="True" label="height"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1124 <section name="reading_bw_conditional" title="Configure bigwig parameters" expanded="False"> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1125 <param name="summary_method" type="select" label="Summary method"> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1126 <option value="mean" selected="True">mean=mean value</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1127 <option value="min">min=minimum value</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1128 <option value="max">max=maximum value</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1129 <option value="coverage">coverage=number of covered bases</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1130 <option value="std">std=standard deviation</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1131 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1132 <param name="number_of_bins" type="integer" value="" optional="True" label="Number of bins" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1133 <param name="nans_to_zeros" type="boolean" truevalue="true" falsevalue="false" checked="false" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1134 label="NAN's to zeros" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1135 </section> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1136 <expand macro="type_coverage_macro" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1137 <expand macro="logScale_coverage_macro" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1138 <section name ="op" title="Compute an operation on the file" expanded="False"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1139 <param name="operation" type="text" label="operation to compute on the file(s)" value="file" |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1140 help="operation will be evaluated, it should contains file or file and second_file, for example `0.89 * file` `- file` `file - second_file` `log2((1 + file) / (1 + second_file))` or `max(file, second_file)`"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1141 <param name="second_file" type="data" format="bigwig" label="second_file (bedgraph format)" multiple="False" optional="True"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1142 </section> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1143 <param name="show_data" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Show visualization of data range"/> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1144 <param name="grid" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Display a grid on the y-axis" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1145 <expand macro="inverted_macro" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1146 <expand macro="overlay_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1147 <expand macro="spacer_macro" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1148 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1149 </when> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1150 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1151 <when value="bedgraph_matrix_track_option"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1152 <expand macro="plot_title" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1153 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1154 <expand macro="track_input_bedgraph_matrix_macro" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1155 <expand macro="minmax_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1156 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1157 <param name="height_bedgraph" type="float" value="1.5" optional="True" label="height"/> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1158 |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1159 <conditional name="type"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1160 <param name="type_selector" type="select" label="type of plotting"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1161 <option value="lines" selected="True">lines: each column in the bedgraph will be a line and a mean line will be added</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1162 <option value="matrix">matrix: each column in the bedgraph will be a raw in the matrix</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1163 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1164 <when value="lines"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1165 <param name="plot_horizontal_lines" type="boolean" truevalue="true" falsevalue="false" checked="false" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1166 label="Plot an horizontal line at 0 when type is lines" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1167 <param name="show_data" type="boolean" truevalue="true" falsevalue="false" checked="false" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1168 label="Show visualization of data range" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1169 <param name="pos_score_in_bin" type="select" label="Position of the score with respect to bin start and end"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1170 <option value="center" selected="True">Center</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1171 <option value="block">Block (draw a horizontal line between start and end)</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1172 </param> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1173 <param name="individual_color" type="color" value="grey" label="Color of the individual lines" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1174 <param name="summary_color" type="color" value="#1f77b4" label="Color of the summary line" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1175 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1176 <when value="matrix"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1177 <param name="colormap" type="select" label="colormap"> |
10
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
1178 <option value="viridis">viridis</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
1179 <option value="RdYlBu_r">RdYlBu reversed</option> |
a1abfa420d9d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 5bd033a726b088eef3cf591da36ca1e9ba70d8c7"
iuc
parents:
9
diff
changeset
|
1180 <expand macro="colormap_macro_noRdYlBu_r_noViridis" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1181 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1182 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1183 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1184 |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1185 |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1186 <expand macro="inverted_macro" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1187 <expand macro="spacer_macro" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1188 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1189 </when> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1190 <when value="vlines_track_option"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1191 <expand macro="track_input_bed_single_macro" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1192 <param name="line_width" type="float" value="0.5" label="width of lines"/> |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1193 <param name="line_style" type="select" label="Line Style"> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1194 <option value="dashed">Dashed</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1195 <option value="solid">Solid</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1196 <option value="dotted">Dotted</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1197 <option value="dashdot">Dashdot</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1198 </param> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1199 <param name="color" type="color" value="black" label="color of the vline"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1200 <param name="alpha" type="float" value="0.7" min="0" max="1" label="transparency (alpha) of the vline"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1201 <param name="zorder" type="select" label="Plot the vline above or behind other tracks"> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1202 <option value="100">above</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1203 <option value="-100">behind</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1204 </param> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1205 </when> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1206 <when value="vhighlight_track_option"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1207 <expand macro="track_input_bed_single_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1208 <param name="color" type="color" value="yellow" label="color of the highlight"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1209 <param name="alpha" type="float" value="0.5" min="0" max="1" label="transparency (alpha) of the highlight"/> |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1210 <param name="line_width" type="float" min="0" value="0.5" label="width of the edge of the highlight" /> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1211 <param name="border_color" type="color" value="yellow" label="color of the edge of the highlight"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1212 <param name="zorder" type="select" label="Plot the highlight above or behind other tracks"> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1213 <option value="-100">behind</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1214 <option value="100">above</option> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
1215 </param> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1216 </when> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1217 <when value="hlines_track_option"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1218 <expand macro="plot_title" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1219 <param name="y_values" type="text" value="10, 200" label="Values where horizontal lines should be plotted separated by comma"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1220 <param name="color" type="color" value="#000000" label="Color of line(s)" optional="True" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1221 <expand macro="lines_macro" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1222 <param name="height" type="float" value="1.5" optional="True" label="height of the Hlines track"/> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1223 <expand macro="minmax_macro" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1224 <param name="show_data" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Show visualization of data range"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1225 <expand macro="inverted_macro" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1226 <expand macro="overlay_macro" /> |
6
5cec5fb749f0
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d5b42c5571c64be9fcfe515e79210cbf4c75beaf"
iuc
parents:
5
diff
changeset
|
1227 <expand macro="spacer_macro" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1228 </when> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1229 <when value="spacer_option"> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1230 <expand macro="plot_title" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1231 <param name="spacer_height" type="float" value="" optional="True" |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1232 label="Height of the spacer."/> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1233 </when> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1234 <when value="xaxis_option"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1235 <expand macro="plot_title" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1236 <param name="fontsize" type="float" optional="True" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1237 label="Fontsize of the x-axis."/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1238 <param name="xaxis_where" type="select" label="chromosome name and coordinates position relative to the axis"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1239 <option value="bottom" selected="True">below</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1240 <option value="top">above</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1241 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1242 <expand macro="spacer_macro" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1243 </when> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1244 <when value="scale_bar_option"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1245 <expand macro="plot_title" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1246 <param name="color" type="color" label="Color of the scale bar" optional="True" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1247 <param name="alpha" type="float" value="1" min="0" max="1" label="level of transparency (alpha)" help="1 is opaque and 0 is totally transparent"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1248 <param name="line_width" type="float" value="0.5" label="width of lines"/> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1249 <section name="scalebar_pos" title="Set the scalebar position" expanded="true" help="You can optionally define one or multiple parameters below."> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1250 <param name="scalebar_start_position" type="integer" label="coordinate where the scale bar should begin." optional="True"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1251 <param name="scalebar_end_position" type="integer" label="coordinate where the scale bar should end." optional="True"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1252 <param name="x_center" type="integer" label="coordinate where the scale bar should be plotted (center)" optional="True" |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1253 help="If not set and cannot be deduced from others it will be in the middle of the plotted area."/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1254 <param name="size" type="integer" label="size of the scale bar" optional="True" |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1255 help="If not set and cannot be deduced from others it will be the higher number that begins with 1, 2 or 5 followed by 0s that is less than half the plotted area."/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1256 </section> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1257 <param name="sb_where" type="select" label="where the size of the scale bar should appear relative to the bar"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1258 <option value="left" selected="True">left</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1259 <option value="right">right</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1260 <option value="bottom">below</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1261 <option value="top">above</option> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1262 </param> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1263 <param name="fontsize" type="float" optional="True" |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1264 label="Fontsize of the size of the scale bar."/> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1265 <param name="height" type="float" value="0.5" optional="True" label="height of the Scale bar track"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1266 <expand macro="spacer_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1267 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1268 <when value="fasta_option"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1269 <expand macro="track_input_fasta_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1270 <expand macro="plot_title" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1271 <param name="height" type="float" value="0.5" optional="True" label="height of the Fasta track"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1272 <expand macro="inverted_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1273 <expand macro="overlay_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1274 <expand macro="spacer_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1275 </when> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1276 <when value="maf_option"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1277 <expand macro="track_input_maf_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1278 <expand macro="plot_title" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1279 <param name="height" type="float" value="0.5" optional="True" label="height of the Fasta track"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1280 <param name="reference" type="select" label="Reference"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1281 <options> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1282 <filter type="data_meta" ref="track_input_maf" key="species" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1283 </options> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1284 </param> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1285 <param name="line_width" type="float" value="0.5" label="width of lines"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1286 <param name="color_identical" type="color" label="Color when bases are identical" value="black" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1287 <param name="color_mismatch" type="color" label="Color when bases are different" value="grey" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1288 <param name="color_gap" type="color" label="Color when bases corresponds to gap" value="lightgrey" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1289 <param name="species_order" type="text" value="" label="[Optional] The order you want your species (space separated)" |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1290 help="checkout the choices for reference to see available species"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1291 <param name="species_labels" type="text" value="" label="[Optional] The label you want for the above species (space separated)"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1292 <param name="species_order_only" type="boolean" truevalue="true" falsevalue="false" checked="false" |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1293 label="Display only the species specified above"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1294 <param name="display_ref_seq" type="boolean" truevalue="true" falsevalue="false" checked="false" |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1295 label="Display the sequence of the reference"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1296 <expand macro="inverted_macro" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1297 <expand macro="overlay_macro" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1298 <expand macro="spacer_macro" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1299 </when> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1300 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1301 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1302 <param name="image_file_format" type="select" label="Image output format"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1303 <option value="png">png</option> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1304 <option value="svg">svg</option> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1305 </param> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1306 </inputs> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1307 <outputs> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1308 <data format="png" name="outFileName" from_work_dir="plot" label="${tool.name} on [${on_string}]: Plot"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1309 <change_format> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1310 <when input="image_file_format" value="png" format="png" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1311 <when input="image_file_format" value="svg" format="svg" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1312 </change_format> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1313 </data> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1314 </outputs> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1315 <tests> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1316 <!--test 1--> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1317 <test> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1318 <param name="region" value="chrX:3000000-3500000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1319 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1320 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1321 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1322 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1323 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1324 </repeat> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1325 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1326 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1327 <param name="track_file_style_selector" value="hic_matrix_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1328 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1329 <param name="title" value="Kc DpnII (Li et al. 2015)" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1330 <!--<param name="colormap" value="RdYlBu_r" />--> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1331 <param name="depth" value="200000" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1332 <param name="transform" value="log1p" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1333 <param name="boundaries_file" value="domains.bed" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1334 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1335 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1336 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1337 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1338 <param name="track_file_style_selector" value="spacer_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1339 <param name="spacer_height" value="0.05" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1340 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1341 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1342 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1343 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1344 <param name="track_file_style_selector" value="chrom_states_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1345 <param name="track_input_bed" value="tad_classification.bed" ftype="bed" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1346 <param name="title" value="TAD state" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1347 <param name="height_chrom" value="0.5" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1348 <param name="labels" value="false" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1349 <conditional name="color_bed"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1350 <param name="color_bed_select" value="bed_rgb" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1351 </conditional> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1352 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1353 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1354 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1355 <conditional name="track_file_style_conditional"> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1356 <param name="track_file_style_selector" value="bedgraph_matrix_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1357 <param name="track_input_bedgraph_matrix" value="tad_score.gz" ftype="bedgraph" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1358 <param name="title" value="TAD separation score (Ramirez et al.)" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1359 <conditional name="type"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1360 <param name="type_selector" value="matrix" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1361 <!--<param name="colormap" value="viridis" />--> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1362 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1363 <param name="height_bedgraph" value="10" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1364 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1365 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1366 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1367 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1368 <param name="track_file_style_selector" value="spacer_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1369 <param name="spacer_height" value="1" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1370 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1371 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1372 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1373 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1374 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1375 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg" ftype="bedgraph" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1376 <param name="title" value="bedgraph" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1377 <param name="height_bedgraph" value="4" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1378 <param name="color" value="blue" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1379 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1380 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1381 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1382 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1383 <param name="track_file_style_selector" value="bigwig_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1384 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1385 <param name="title" value="rep 1 test fill" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1386 <param name="height_bigwig" value="4" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1387 <param name="color" value="blue" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1388 <conditional name="type_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1389 <param name="type_selector" value="fill_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1390 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1391 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1392 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1393 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1394 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1395 <param name="track_file_style_selector" value="bigwig_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1396 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1397 <param name="title" value="rep 1 test line" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1398 <param name="height_bigwig" value="4" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1399 <param name="color" value="red" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1400 <conditional name="type_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1401 <param name="type_selector" value="line_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1402 <param name="width_line" value="1" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1403 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1404 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1405 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1406 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1407 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1408 <param name="track_file_style_selector" value="bigwig_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1409 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1410 <param name="title" value="rep 1 test lw=0.2" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1411 <param name="height_bigwig" value="4" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1412 <param name="color" value="red" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1413 <conditional name="type_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1414 <param name="type_selector" value="line_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1415 <param name="width_line" value="0.1" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1416 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1417 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1418 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1419 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1420 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1421 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1422 <param name="track_file_style_selector" value="bigwig_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1423 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1424 <param name="title" value="rep 1 test point:0.5" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1425 <param name="height_bigwig" value="4" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1426 <param name="color" value="black" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1427 <conditional name="type_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1428 <param name="type_selector" value="point_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1429 <param name="width_point" value="0.5" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1430 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1431 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1432 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1433 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1434 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1435 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1436 <param name="track_file_style_selector" value="spacer_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1437 <param name="spacer_height" value="0.5" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1438 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1439 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1440 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1441 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1442 <param name="track_file_style_selector" value="gene_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1443 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1444 <param name="title" value="genes" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1445 <param name="height_bed" value="5" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1446 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1447 <param name="fontsize" value="10" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1448 </conditional> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1449 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1450 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1451 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1452 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1453 <param name="track_file_style_selector" value="spacer_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1454 <param name="spacer_height" value="1" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1455 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1456 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1457 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1458 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1459 <param name="track_file_style_selector" value="gene_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1460 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1461 <param name="title" value="max num rows 3" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1462 <param name="height_bed" value="3" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1463 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1464 <param name="fontsize" value="8" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1465 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1466 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1467 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1468 <param name="gene_rows" value="3" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1469 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1470 </conditional> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1471 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1472 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1473 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1474 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1475 <param name="track_file_style_selector" value="spacer_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1476 <param name="spacer_height" value="1" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1477 </conditional> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1478 </repeat> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1479 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1480 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1481 <param name="track_file_style_selector" value="gene_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1482 <param name="track_input_bed" value="dm3_genes.bed6.gz" ftype="bed" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1483 <param name="title" value="bed6 global max row" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1484 <param name="height_bed" value="20" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1485 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1486 <param name="fontsize" value="10" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1487 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1488 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1489 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1490 <param name="global_max_row" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1491 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1492 </conditional> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1493 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1494 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1495 <repeat name="tracks"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1496 <conditional name="track_file_style_conditional"> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1497 <param name="track_file_style_selector" value="vlines_track_option" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1498 <param name="track_input_bed_single" value="domains.bed" ftype="bed" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1499 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1500 </repeat> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1501 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1502 <output name="outFileName" file="master_TADs_plot.png" ftype="png" compare="sim_size" delta="100" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1503 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1504 <!--test 2--> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1505 <test> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1506 <param name="region" value="chrX:3000000-3500000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1507 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1508 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1509 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1510 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1511 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1512 </repeat> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1513 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1514 <conditional name="track_file_style_conditional"> |
13
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1515 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1516 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg,bedgraph2_X_2.5e6_3.5e6.bdg,tad_score.gz" /> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1517 <param name="title" value="rep bed" /> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1518 <param name="show_data" value="true" /> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1519 <conditional name="type_conditional"> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1520 <param name="type_selector" value="point_option" /> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1521 <param name="width_point" value="2" /> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1522 </conditional> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1523 </conditional> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1524 </repeat> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1525 <repeat name="tracks"> |
360df4999907
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit b7df28a308484a4af1d33e0ddc2c4e391643ec1e
iuc
parents:
12
diff
changeset
|
1526 <conditional name="track_file_style_conditional"> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1527 <param name="track_file_style_selector" value="bigwig_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1528 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw,bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1529 <param name="title" value="rep 1 test line" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1530 <param name="height_bigwig" value="4" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1531 <param name="color" value="red" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1532 <conditional name="type_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1533 <param name="type_selector" value="line_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1534 <param name="width_line" value="1" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1535 </conditional> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1536 </conditional> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1537 </repeat> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1538 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1539 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1540 <param name="track_file_style_selector" value="bigwig_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1541 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1542 <param name="title" value="nans_to_zeros" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1543 <param name="height_bigwig" value="4" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1544 <param name="color" value="blue" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1545 <section name="reading_bw_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1546 <param name="nans_to_zeros" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1547 </section> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1548 <param name="show_data" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1549 <conditional name="type_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1550 <param name="type_selector" value="line_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1551 <param name="width_line" value="1" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1552 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1553 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1554 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1555 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1556 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1557 <param name="track_file_style_selector" value="hlines_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1558 <param name="title" value="" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1559 <param name="color" value="orange" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1560 <param name="y_values" value="50" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1561 <param name="line_width" value="2" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1562 <param name="line_style" value="dashed" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1563 <param name="overlay_select" value="share-y" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1564 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1565 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1566 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1567 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1568 <param name="track_file_style_selector" value="hlines_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1569 <param name="title" value="hlines" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1570 <param name="color" value="purple" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1571 <param name="y_values" value="0, 10, 20, 100" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1572 <param name="min_value" value="12" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1573 <param name="show_data" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1574 <param name="invert_orientation" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1575 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1576 </repeat> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1577 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1578 <output name="outFileName" file="bigwig_multiple.png" ftype="png" compare="sim_size" delta="100" /> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
1579 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1580 <!--test 3--> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1581 <test> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1582 <param name="region" value="chrX:3000000-3500000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1583 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1584 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1585 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1586 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1587 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1588 </repeat> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1589 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1590 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1591 <param name="track_file_style_selector" value="hic_matrix_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1592 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1593 <param name="title" value="Kc DpnII (Li et al. 2015) log1p" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1594 <param name="colormap" value="RdYlBu_r" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1595 <param name="depth" value="200000" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1596 <param name="transform" value="log1p" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1597 <param name="boundaries_file" value="domains.bed" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1598 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1599 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1600 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1601 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1602 <param name="track_file_style_selector" value="chrom_states_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1603 <param name="track_input_bed" value="tad_classification.bed" ftype="bed" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1604 <param name="title" value="TAD state" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1605 <param name="height_chrom" value="0.5" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1606 <param name="labels" value="false" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1607 <conditional name="color_bed"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1608 <param name="color_bed_select" value="bed_rgb" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1609 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1610 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1611 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1612 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1613 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1614 <param name="track_file_style_selector" value="hic_matrix_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1615 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1616 <param name="title" value="Kc DpnII (Li et al. 2015) inverted no transform" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1617 <param name="colormap" value="Reds" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1618 <param name="depth" value="200000" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1619 <param name="transform" value="no" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1620 <param name="invert_orientation" value="true" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1621 <param name="min_value" value="5" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1622 <param name="max_value" value="70" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1623 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1624 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1625 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1626 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1627 <param name="track_file_style_selector" value="spacer_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1628 <param name="spacer_height" value="1" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1629 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1630 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1631 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1632 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1633 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1634 <param name="track_input_bedgraph" value="test_with_neg_values.bg.gz" ftype="bedgraph" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1635 <param name="title" value="bedgraph with negative values" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1636 <param name="height_bedgraph" value="4" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1637 <param name="color" value="black" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1638 <conditional name="color_negative"> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1639 <param name="color_negative_select" value="true" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1640 <param name="color" value="red" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1641 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1642 <conditional name="type_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1643 <param name="type_selector" value="fill_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1644 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1645 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1646 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1647 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1648 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1649 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1650 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg" ftype="bedgraph" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1651 <param name="title" value="bedgraph" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1652 <param name="height_bedgraph" value="4" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1653 <param name="color" value="blue" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1654 <conditional name="type_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1655 <param name="type_selector" value="fill_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1656 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1657 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1658 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1659 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1660 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1661 <param name="track_file_style_selector" value="bigwig_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1662 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1663 <param name="title" value="rep 1 test fill" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1664 <param name="height_bigwig" value="4" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1665 <param name="color" value="blue" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1666 <conditional name="type_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1667 <param name="type_selector" value="fill_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1668 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1669 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1670 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1671 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1672 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1673 <param name="track_file_style_selector" value="bigwig_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1674 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1675 <param name="title" value="(red points/width=5/max value/100 bins) overlayed with (dark red line/min value/30000 bins) overlayed with (black line/min value)" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1676 <param name="height_bigwig" value="10" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1677 <param name="color" value="red" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1678 <conditional name="type_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1679 <param name="type_selector" value="point_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1680 <param name="width_point" value="5" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1681 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1682 <section name="reading_bw_conditional"> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1683 <param name="summary_method" value="max"/> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1684 <param name="number_of_bins" value="100"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1685 </section> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1686 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1687 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1688 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1689 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1690 <param name="track_file_style_selector" value="bigwig_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1691 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1692 <param name="height_bigwig" value="10" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1693 <param name="color" value="#c00000" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1694 <conditional name="type_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1695 <param name="type_selector" value="line_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1696 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1697 <section name="reading_bw_conditional"> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1698 <param name="summary_method" value="min"/> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1699 </section> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1700 <param name="overlay_select" value="share-y" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1701 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1702 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1703 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1704 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1705 <param name="track_file_style_selector" value="bigwig_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1706 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1707 <param name="height_bigwig" value="10" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1708 <param name="color" value="black" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1709 <conditional name="type_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1710 <param name="type_selector" value="line_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1711 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1712 <section name="reading_bw_conditional"> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1713 <param name="summary_method" value="min"/> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1714 <param name="number_of_bins" value="30000"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1715 </section> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1716 <param name="overlay_select" value="share-y" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1717 <param name="spacer_height" value="1" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1718 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1719 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1720 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1721 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1722 <param name="track_file_style_selector" value="gene_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1723 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1724 <param name="title" value="genes in ucsc" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1725 <param name="height_bed" value="5" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1726 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1727 <param name="fontsize" value="10" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1728 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1729 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1730 <param name="bed_style_select" value="UCSC"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1731 </conditional> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1732 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1733 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1734 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1735 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1736 <param name="track_file_style_selector" value="gene_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1737 <param name="track_input_bed" value="dm3_genes.bed6.gz" ftype="bed" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1738 <param name="title" value="bed6 global max row color from score" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1739 <param name="height_bed" value="20" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1740 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1741 <param name="fontsize" value="10" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1742 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1743 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1744 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1745 <param name="global_max_row" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1746 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1747 </conditional> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1748 <conditional name="color_bed"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1749 <param name="color_bed_select" value="colormap" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1750 <param name="color" value="RdYlBu_r" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1751 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1752 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1753 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1754 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1755 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1756 <param name="track_file_style_selector" value="gene_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1757 <param name="track_input_bed" value="domains.bed" ftype="bed" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1758 <param name="title" value="domains.bed using the 9th field for colors interleaved border=red" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1759 <param name="height_bed" value="2" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1760 <conditional name="color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1761 <param name="color_bed_select" value="bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1762 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1763 <conditional name="border_color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1764 <param name="border_color_bed_select" value="manually" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1765 <param name="color" value="red" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1766 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1767 <conditional name="labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1768 <param name="plot_labels" value="false" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1769 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1770 <param name="display" value="interleaved" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1771 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1772 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1773 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1774 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1775 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1776 <param name="track_input_bed" value="domains.bed" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1777 <param name="title" value="domains.bed using the 9th field for colors interleaved border=bed_rgb" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1778 <param name="height_bed" value="2" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1779 <conditional name="color_bed"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1780 <param name="color_bed_select" value="bed_rgb" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1781 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1782 <conditional name="border_color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1783 <param name="border_color_bed_select" value="bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1784 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1785 <conditional name="labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1786 <param name="plot_labels" value="false" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1787 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1788 <param name="display" value="interleaved" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1789 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1790 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1791 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1792 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1793 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1794 <param name="track_input_bed" value="domains.bed" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1795 <param name="title" value="domains.bed using the 9th field for colors interleaved border=none" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1796 <param name="height_bed" value="2" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1797 <conditional name="color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1798 <param name="color_bed_select" value="bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1799 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1800 <conditional name="border_color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1801 <param name="border_color_bed_select" value="none" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1802 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1803 <conditional name="labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1804 <param name="plot_labels" value="false" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1805 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1806 <param name="display" value="interleaved" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1807 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1808 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1809 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1810 <output name="outFileName" file="master_TADs_BW_plot.png" ftype="png" compare="sim_size" delta="100" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1811 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1812 <!--test 4--> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1813 <test> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1814 <param name="region" value="X:2700000-3100000"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1815 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1816 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1817 <param name="track_file_style_selector" value="bigwig_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1818 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1819 <param name="title" value="(bigwig color=blue 2000 bins) overlayed with (bigwig mean color=red alpha = 0.5 max over 300 bins)" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1820 <param name="height_bigwig" value="7" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1821 <param name="color" value="#00b0f0" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1822 <section name="reading_bw_conditional"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1823 <param name="number_of_bins" value="2000"/> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1824 </section> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1825 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1826 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1827 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1828 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1829 <param name="track_file_style_selector" value="bigwig_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1830 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1831 <param name="title" value="" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1832 <param name="color" value="#ff0000" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1833 <param name="alpha" value="0.5" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
1834 <param name="summary_method" value="max" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1835 <section name="reading_bw_conditional"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1836 <param name="number_of_bins" value="300"/> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1837 </section> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1838 <param name="overlay_select" value="share-y"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1839 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1840 </repeat> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1841 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1842 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1843 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1844 <param name="xaxis_where" value="bottom" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1845 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1846 </repeat> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1847 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1848 <output name="outFileName" file="test_alpha.png" ftype="png" compare="sim_size" delta="100" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1849 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1850 <!--test 5--> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1851 <test> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1852 <param name="region" value="X:3000000-3300000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1853 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1854 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1855 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1856 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1857 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1858 </repeat> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1859 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1860 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1861 <param name="track_file_style_selector" value="gene_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1862 <param name="track_input_bed" value="dm3_subset_BDGP5.78.gtf.gz" ftype="gtf" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1863 <param name="title" value="test" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1864 <param name="height_bed" value="10" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1865 <param name="color" value="#000000" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1866 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1867 <param name="bed_style_select" value="UCSC"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1868 </conditional> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1869 <param name="spacer_height" value="1"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1870 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1871 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1872 <repeat name="tracks"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1873 <conditional name="track_file_style_conditional"> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1874 <param name="track_file_style_selector" value="gene_track_option" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1875 <param name="track_input_bed" value="dm3_subset_BDGP5.78_asbed4.bed.gz" ftype="bed" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1876 <param name="title" value="test" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1877 <param name="height_bed" value="10" /> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1878 <param name="color" value="#000000" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1879 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1880 <param name="bed_style_select" value="UCSC"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1881 </conditional> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1882 <param name="spacer_height" value="1"/> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1883 </conditional> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1884 </repeat> |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1885 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1886 <output name="outFileName" file="test_gtf_bed4.png" ftype="png" compare="sim_size" delta="100" /> |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
1887 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1888 <!--test 6--> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1889 <test> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1890 <param name="region" value="X:2760000-2802000"/> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1891 <repeat name="tracks"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1892 <conditional name="track_file_style_conditional"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1893 <param name="track_file_style_selector" value="narrow_peak_track_option" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1894 <param name="title" value="box" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1895 <param name="track_input_narrow_peak" value="test2.narrowPeak" ftype="encodepeak" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1896 <param name="color" value="#9bbb59" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1897 <param name="height_narrow_peak" value="4" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1898 <conditional name="display"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1899 <param name="display_selector" value="box" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1900 <param name="use_summit" value="true" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1901 </conditional> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1902 </conditional> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1903 </repeat> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1904 <repeat name="tracks"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1905 <conditional name="track_file_style_conditional"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1906 <param name="track_file_style_selector" value="narrow_peak_track_option" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1907 <param name="title" value="box line_width = 2" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1908 <param name="track_input_narrow_peak" value="test2.narrowPeak" ftype="encodepeak" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1909 <param name="color" value="#9bbb59" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1910 <param name="height_narrow_peak" value="4" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1911 <param name="line_width" value="2" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1912 <conditional name="display"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1913 <param name="display_selector" value="box" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1914 <param name="use_summit" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1915 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1916 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1917 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1918 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1919 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1920 <param name="track_file_style_selector" value="narrow_peak_track_option" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1921 <param name="title" value="peak width 3" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1922 <param name="track_input_narrow_peak" value="test2.narrowPeak" ftype="encodepeak" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1923 <param name="color" value="#c0504d" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1924 <param name="height_narrow_peak" value="4" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1925 <conditional name="display"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1926 <param name="display_selector" value="peak" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1927 <param name="use_summit" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1928 <param name="show_data" value="true" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1929 <param name="width_adjust" value="3" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1930 <param name="max_value" value="50" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1931 </conditional> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1932 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1933 <param name="show_labels" value="false" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1934 </conditional> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1935 <param name="spacer_height" value="0.5"/> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1936 </conditional> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1937 </repeat> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1938 <repeat name="tracks"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1939 <conditional name="track_file_style_conditional"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1940 <param name="track_file_style_selector" value="narrow_peak_track_option" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1941 <param name="title" value="peak no data range" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1942 <param name="track_input_narrow_peak" value="test2.narrowPeak" ftype="encodepeak" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1943 <param name="color" value="#000000" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1944 <param name="height_narrow_peak" value="4" /> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1945 <conditional name="display"> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1946 <param name="display_selector" value="peak" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1947 <param name="use_summit" value="false" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1948 <param name="show_data" value="false" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1949 </conditional> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1950 </conditional> |
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1951 </repeat> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1952 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1953 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1954 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1955 <param name="xaxis_where" value="bottom" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1956 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1957 </repeat> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1958 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
1959 <output name="outFileName" file="test_narrowPeak.png" ftype="png" compare="sim_size" delta="100" /> |
4
c237ba772225
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 13ae6af8549174610888bfd8062384898c629af3"
iuc
parents:
3
diff
changeset
|
1960 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1961 <!--test 7--> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1962 <test> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1963 <param name="region" value="chrX:3300000-3500000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1964 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1965 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1966 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1967 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1968 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1969 </repeat> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1970 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1971 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1972 <param name="track_file_style_selector" value="gene_track_option" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1973 <param name="track_input_bed" value="dm3_subset_BDGP5.78.gtf.gz" ftype="gtf" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1974 <param name="title" value="gtf default" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1975 <param name="height_bed" value="10" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1976 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1977 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1978 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1979 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1980 <param name="track_file_style_selector" value="gene_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1981 <param name="track_input_bed" value="dm3_subset_BDGP5.78.gtf.gz" ftype="gtf" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1982 <param name="title" value="gtf merge transcripts, use gene_name, red 0.75 UTR" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1983 <param name="height_bed" value="10" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1984 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1985 <section name="bed_advanced"> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
1986 <param name="height_utr" value="0.75"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1987 <conditional name="color_utr"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1988 <param name="color_utr_select" value="manually"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1989 <param name="color" value="#ff0000"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1990 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1991 <section name ="gtf"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
1992 <param name="prefered_name" value="gene_name"/> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1993 <conditional name="merge_transcripts"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1994 <param name="merge_transcripts_select" value="true"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1995 <param name="merge_overlapping_exons" value="false"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1996 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1997 </section> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1998 </section> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
1999 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2000 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2001 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2002 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2003 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2004 <param name="track_file_style_selector" value="gene_track_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2005 <param name="track_input_bed" value="dm3_subset_BDGP5.78.gtf.gz" ftype="gtf" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2006 <param name="title" value="same but merge overlapping exons" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2007 <param name="height_bed" value="10" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2008 <conditional name="bed_style"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2009 <section name="bed_advanced"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2010 <param name="height_utr" value="0.75"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2011 <conditional name="color_utr"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2012 <param name="color_utr_select" value="manually"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2013 <param name="color" value="#ff0000"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2014 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2015 <section name ="gtf"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2016 <param name="prefered_name" value="gene_name"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2017 <conditional name="merge_transcripts"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2018 <param name="merge_transcripts_select" value="true"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2019 <param name="merge_overlapping_exons" value="true"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2020 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2021 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2022 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2023 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2024 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2025 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2026 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2027 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2028 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2029 <param name="track_input_bed" value="dm3_genes_withrgbandscore.bed.gz" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2030 <param name="title" value="genes with scores" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2031 <param name="height_bed" value="10" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2032 <conditional name="color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2033 <param name="color_bed_select" value="colormap" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2034 <param name="color" value="cool_r" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2035 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2036 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2037 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2038 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2039 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2040 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2041 <param name="track_input_bed" value="dm3_genes_withrgbandscore.bed.gz" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2042 <param name="title" value="genes with utr as bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2043 <param name="height_bed" value="10" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2044 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2045 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2046 <conditional name="color_utr"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2047 <param name="color_utr_select" value="bed_rgb"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2048 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2049 </section> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2050 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2051 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2052 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2053 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2054 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2055 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2056 <param name="track_input_bed" value="dm3_genes_withrgbandscore.bed.gz" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2057 <param name="title" value="genes with coding as bed_rgb - labels_in_margin" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2058 <param name="height_bed" value="10" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2059 <conditional name="color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2060 <param name="color_bed_select" value="bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2061 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2062 <conditional name="labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2063 <param name="plot_labels" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2064 <param name="labels_in_margin" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2065 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2066 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2067 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2068 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2069 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2070 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2071 <param name="track_input_bed" value="dm3_genes_withrgbandscore.bed.gz" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2072 <param name="title" value="genes bed_rgb like - all_labels_inside" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2073 <param name="height_bed" value="10" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2074 <conditional name="color_bed"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2075 <param name="color_bed_select" value="bed_rgb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2076 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2077 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2078 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2079 <conditional name="color_utr"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2080 <param name="color_utr_select" value="like"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2081 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2082 </section> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2083 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2084 <conditional name="labels"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2085 <param name="plot_labels" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2086 <param name="all_labels_inside" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2087 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2088 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2089 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2090 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2091 <output name="outFileName" file="test_gtf_flybase_param.png" ftype="png" compare="sim_size" delta="100" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2092 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2093 <!--test 8--> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2094 <test> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2095 <param name="region" value="chrX:3300000-3500000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2096 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2097 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2098 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2099 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2100 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2101 </repeat> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2102 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2103 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2104 <param name="track_file_style_selector" value="gene_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2105 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2106 <param name="title" value="dm3_genes.bed" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2107 <param name="height_bed" value="10" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2108 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2109 <param name="bed_style_select" value="UCSC"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2110 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2111 <param name="global_max_row" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2112 <param name="max_labels" value="15" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2113 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2114 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2115 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2116 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2117 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2118 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2119 <param name="track_file_style_selector" value="gene_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2120 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2121 <param name="title" value="genes.bed.gz" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2122 <param name="height_bed" value="10" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2123 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2124 <param name="bed_style_select" value="UCSC"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2125 <section name="bed_advanced"> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2126 <param name="arrow_interval" value="10"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2127 <param name="line_width" value="2"/> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2128 </section> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2129 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2130 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2131 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2132 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2133 <output name="outFileName" file="test_ucsc_param.png" ftype="png" compare="sim_size" delta="100" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2134 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2135 <!--test 9--> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2136 <test> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2137 <param name="region" value="X:3133000-3138000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2138 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2139 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2140 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2141 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2142 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2143 </repeat> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2144 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2145 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2146 <param name="track_file_style_selector" value="gene_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2147 <param name="track_input_bed" value="dm3_subset_BDGP5.78.gtf.gz" ftype="gtf" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2148 <param name="title" value="defaut arrowhead fontstyle italic" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2149 <param name="height_bed" value="10" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2150 <param name="spacer_height" value="1"/> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2151 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2152 <param name="fontstyle" value="italic"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2153 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2154 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2155 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2156 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2157 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2158 <param name="track_file_style_selector" value="gene_track_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2159 <param name="track_input_bed" value="dm3_subset_BDGP5.78.gtf.gz" ftype="gtf" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2160 <param name="title" value="arrowhead_fraction 0.1 fontstyle oblique" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2161 <param name="height_bed" value="10" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2162 <param name="spacer_height" value="1"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2163 <conditional name="labels"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2164 <param name="fontstyle" value="oblique"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2165 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2166 <conditional name="bed_style"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2167 <param name="arrowhead_fraction" value="0.1"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2168 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2169 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2170 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2171 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2172 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2173 <param name="track_file_style_selector" value="gene_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2174 <param name="track_input_bed" value="dm3_subset_BDGP5.78_asbed4.bed.gz" ftype="bed" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2175 <param name="title" value="genes without orientation" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2176 <param name="height_bed" value="10" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2177 <conditional name="color_bed"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2178 <param name="color_bed_select" value="manually" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2179 <param name="color" value="red" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2180 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2181 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2182 <param name="bed_style_select" value="UCSC"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2183 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2184 <param name="spacer_height" value="1"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2185 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2186 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2187 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2188 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2189 <param name="track_file_style_selector" value="gene_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2190 <param name="track_input_bed" value="dm3_subset_BDGP5.78.gtf.gz" ftype="gtf" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2191 <param name="title" value="arrowhead included" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2192 <param name="height_bed" value="10" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2193 <conditional name="color_bed"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2194 <param name="color_bed_select" value="manually" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2195 <param name="color" value="red" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2196 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2197 <param name="spacer_height" value="1"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2198 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2199 <param name="arrowhead_included" value="true"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2200 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2201 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2202 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2203 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2204 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2205 <param name="track_file_style_selector" value="vlines_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2206 <param name="track_input_bed_single" value="dm3_subset_BDGP5.78_asbed4.bed.gz" ftype="bed" /> |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2207 <param name="line_width" value="2"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2208 <param name="zorder" value="100"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2209 <param name="color" value="red"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2210 </conditional> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2211 </repeat> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2212 <repeat name="tracks"> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2213 <conditional name="track_file_style_conditional"> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2214 <param name="track_file_style_selector" value="vlines_track_option" /> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2215 <param name="track_input_bed_single" value="dm3_genes_end.bed" ftype="bed" /> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2216 <param name="line_width" value="5"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2217 <param name="zorder" value="-100"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2218 <param name="color" value="blue"/> |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
parents:
11
diff
changeset
|
2219 <param name="line_style" value="solid"/> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2220 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2221 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2222 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2223 <output name="outFileName" file="test_arrowhead_zoom.png" ftype="png" compare="sim_size" delta="100" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2224 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2225 <!--test 10--> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2226 <test> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2227 <param name="region" value="X:3340000-3380000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2228 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2229 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2230 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2231 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2232 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2233 </repeat> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2234 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2235 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2236 <param name="track_file_style_selector" value="gene_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2237 <param name="track_input_bed" value="domains.bed" ftype="bed" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2238 <param name="height_bed" value="6" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2239 <conditional name="color_bed"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2240 <param name="color_bed_select" value="manually" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2241 <param name="color" value="yellow" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2242 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2243 <param name="display" value="triangles" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2244 <param name="spacer_height" value="1"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2245 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2246 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2247 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2248 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2249 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2250 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg" ftype="bedgraph" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2251 <param name="title" value="bedgraph" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2252 <param name="height_bedgraph" value="4" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2253 <param name="color" value="blue" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2254 <conditional name="type_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2255 <param name="type_selector" value="line_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2256 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2257 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2258 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2259 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2260 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2261 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2262 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg" ftype="bedgraph" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2263 <param name="title" value="bedgraph" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2264 <param name="height_bedgraph" value="4" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2265 <param name="color" value="blue" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2266 <param name="use_middle" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2267 <conditional name="type_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2268 <param name="type_selector" value="line_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2269 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2270 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2271 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2272 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2273 <output name="outFileName" file="test_middle_triangle.png" ftype="png" compare="sim_size" delta="100" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2274 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2275 <!--test 11--> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2276 <test> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2277 <param name="region" value="chrX:3250000-3400000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2278 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2279 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2280 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2281 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2282 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2283 </repeat> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2284 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2285 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2286 <param name="track_file_style_selector" value="hic_matrix_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2287 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2288 <param name="title" value="Kc DpnII (Li et al. 2015)" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2289 <!--<param name="colormap" value="RdYlBu_r" />--> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2290 <param name="depth" value="100000" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2291 <param name="transform" value="log1p" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2292 <param name="show_masked_bins" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2293 <param name="scale_factor" value="2.0" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2294 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2295 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2296 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2297 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2298 <param name="track_file_style_selector" value="spacer_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2299 <param name="spacer_height" value="0.05" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2300 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2301 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2302 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2303 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2304 <param name="track_file_style_selector" value="bedgraph_matrix_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2305 <param name="track_input_bedgraph_matrix" value="tad_score.gz" ftype="bedgraph" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2306 <param name="title" value="TAD separation score (Ramirez et al.) as block with horizontal lines and data range" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2307 <param name="height_bedgraph" value="10" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2308 <conditional name="type"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2309 <param name="type_selector" value="lines" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2310 <param name="pos_score_in_bin" value="block" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2311 <param name="plot_horizontal_lines" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2312 <param name="show_data" value="true" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2313 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2314 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2315 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2316 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2317 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2318 <param name="track_file_style_selector" value="bedgraph_matrix_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2319 <param name="track_input_bedgraph_matrix" value="tad_score.gz" ftype="bedgraph" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2320 <param name="title" value="TAD separation score (Ramirez et al.) as center without horizontal lines, summary in red and individual in blue" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2321 <param name="height_bedgraph" value="10" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2322 <conditional name="type"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2323 <param name="type_selector" value="lines" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2324 <param name="pos_score_in_bin" value="center" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2325 <param name="plot_horizontal_lines" value="false" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2326 <param name="individual_color" value="blue"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2327 <param name="summary_color" value="red"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2328 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2329 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2330 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2331 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2332 <output name="outFileName" file="test_TADs_bdgm.png" ftype="png" compare="sim_size" delta="100" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2333 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2334 <!--test 12--> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2335 <test> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2336 <param name="region" value="chrX:3000000-3300000"/> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2337 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2338 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2339 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2340 <param name="xaxis_where" value="top" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2341 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2342 </repeat> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2343 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2344 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2345 <param name="track_file_style_selector" value="hic_matrix_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2346 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2347 <param name="title" value="Kc DpnII (Li et al. 2015)" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2348 <param name="colormap" value="Purples" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2349 <param name="depth" value="190000" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2350 <param name="transform" value="no" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2351 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2352 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2353 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2354 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2355 <param name="track_file_style_selector" value="link_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2356 <param name="track_input_link" value="test.arcs" ftype="bed" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2357 <param name="title" value="" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2358 <param name="line_width" value="10" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2359 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2360 <param name="links_type" value="loops" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2361 </conditional> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2362 <conditional name="color_link"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2363 <param name="color_link_select" value="manually" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2364 <param name="color" value="red" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2365 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2366 <param name="overlay_select" value="share-y" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2367 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2368 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2369 <repeat name="tracks"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2370 <conditional name="track_file_style_conditional"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2371 <param name="track_file_style_selector" value="link_track_option" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2372 <param name="track_input_link" value="test.arcs" ftype="bed" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2373 <param name="title" value="" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2374 <param name="height" value="5" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2375 <conditional name="color_link"> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2376 <param name="color_link_select" value="colormap" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2377 <param name="color" value="hot" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2378 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2379 <param name="max_value" value="5"/> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2380 <param name="invert_orientation" value="true" /> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2381 </conditional> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2382 </repeat> |
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2383 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2384 <output name="outFileName" file="test_link.png" ftype="png" compare="sim_size" delta="100" /> |
5
eca03db4f612
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 9471ad965cd7c88c96a03c97fc1cdfe17f379c95"
iuc
parents:
4
diff
changeset
|
2385 </test> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2386 <!--test 13--> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2387 <test> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2388 <param name="region" value="chrX:3000000-3300000"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2389 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2390 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2391 <param name="track_file_style_selector" value="link_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2392 <param name="track_input_link" value="test.arcs" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2393 <param name="title" value="default" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2394 <conditional name="color_link"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2395 <param name="color_link_select" value="manually" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2396 <param name="color" value="#000000" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2397 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2398 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2399 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2400 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2401 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2402 <param name="track_file_style_selector" value="link_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2403 <param name="track_input_link" value="test.arcs" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2404 <param name="title" value="ylim 20kb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2405 <conditional name="color_link"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2406 <param name="color_link_select" value="manually" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2407 <param name="color" value="#000000" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2408 </conditional> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2409 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2410 <param name="ylim" value="20000" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2411 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2412 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2413 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2414 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2415 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2416 <param name="track_file_style_selector" value="link_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2417 <param name="track_input_link" value="test.arcs" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2418 <param name="title" value="compacted" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2419 <conditional name="color_link"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2420 <param name="color_link_select" value="manually" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2421 <param name="color" value="#000000" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2422 </conditional> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2423 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2424 <param name="compact_arcs_level" value="1" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2425 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2426 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2427 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2428 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2429 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2430 <param name="track_file_style_selector" value="link_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2431 <param name="track_input_link" value="test.arcs" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2432 <param name="title" value="highly compacted" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2433 <conditional name="color_link"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2434 <param name="color_link_select" value="manually" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2435 <param name="color" value="#000000" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2436 </conditional> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2437 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2438 <param name="compact_arcs_level" value="2" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2439 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2440 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2441 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2442 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2443 <output name="outFileName" file="test_link2.png" ftype="png" compare="sim_size" delta="100" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2444 </test> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2445 <!--test 14--> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2446 <test> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2447 <param name="region" value="chrX:3000000-3300000"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2448 <section name="global_args"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2449 <param name="title" value="Scale bar"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2450 <param name="trackLabelFraction" value="0.5"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2451 <param name="trackLabelHAlign" value="center"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2452 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2453 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2454 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2455 <param name="track_file_style_selector" value="spacer_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2456 <param name="spacer_height" value="1.0" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2457 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2458 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2459 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2460 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2461 <param name="track_file_style_selector" value="scale_bar_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2462 <param name="title" value="default" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2463 <param name="spacer_height" value="1"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2464 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2465 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2466 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2467 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2468 <param name="track_file_style_selector" value="scale_bar_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2469 <param name="title" value="scalebar where = right x_center = 3200000 size = 100002 fontsize = 8 line_width =2 color = red alpha = 0.5" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2470 <param name="color" value="red"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2471 <param name="alpha" value="0.5"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2472 <param name="line_width" value="2"/> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2473 <section name="scalebar_pos"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2474 <param name="x_center" value="3200000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2475 <param name="size" value="100002"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2476 </section> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2477 <param name="sb_where" value="right"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2478 <param name="fontsize" value="8"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2479 <param name="spacer_height" value="4"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2480 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2481 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2482 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2483 <output name="outFileName" file="test_scale_bar.png" ftype="png" compare="sim_size" delta="100" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2484 </test> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2485 <!--test 15--> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2486 <test> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2487 <param name="region" value="chrX:3300000-3500000"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2488 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2489 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2490 <param name="track_file_style_selector" value="xaxis_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2491 <param name="xaxis_where" value="bottom" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2492 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2493 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2494 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2495 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2496 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2497 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2498 <param name="title" value="flybase backbone blue" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2499 <param name="height_bed" value="10" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2500 <conditional name="bed_style"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2501 <param name="bed_style_select" value="flybase"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2502 <section name="bed_advanced"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2503 <conditional name="backbone_color_bed"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2504 <param name="backbone_color_bed_select" value="manually" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2505 <param name="color" value="blue" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2506 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2507 </section> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2508 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2509 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2510 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2511 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2512 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2513 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2514 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2515 <param name="title" value="UCSC backbone blue" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2516 <param name="height_bed" value="10" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2517 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2518 <param name="bed_style_select" value="UCSC"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2519 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2520 <param name="arrow_interval" value="10"/> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2521 <conditional name="backbone_color_bed"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2522 <param name="backbone_color_bed_select" value="manually" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2523 <param name="color" value="blue" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2524 </conditional> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2525 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2526 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2527 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2528 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2529 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2530 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2531 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2532 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2533 <param name="title" value="tssarrow" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2534 <param name="height_bed" value="10" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2535 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2536 <param name="bed_style_select" value="tssarrow"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2537 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2538 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2539 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2540 <repeat name="tracks"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2541 <conditional name="track_file_style_conditional"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2542 <param name="track_file_style_selector" value="gene_track_option" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2543 <param name="track_input_bed" value="dm3_genes.bed.gz" ftype="bed" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2544 <param name="title" value="tssarrow 5kb" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2545 <param name="height_bed" value="10" /> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2546 <conditional name="bed_style"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2547 <param name="bed_style_select" value="tssarrow"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2548 <section name="bed_advanced"> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2549 <param name="arrow_length" value="5000"/> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2550 </section> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2551 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2552 </conditional> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2553 </repeat> |
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2554 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2555 <output name="outFileName" file="test_tssarrow.png" ftype="png" compare="sim_size" delta="100" /> |
7
326a3db8d9d1
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d82c81c0900d94b9363379ed4df9a067a058dbd2"
iuc
parents:
6
diff
changeset
|
2556 </test> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2557 <!--test 16--> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2558 <test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2559 <param name="region" value="X:2700000-3100000"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2560 <section name="global_args"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2561 <param name="decreasingXAxis" value="true"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2562 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2563 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2564 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2565 <param name="track_file_style_selector" value="bigwig_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2566 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2567 <param name="title" value="(bigwig color=blue 2000 bins) overlayed with (bigwig mean color=red alpha = 0.5 max over 300 bins)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2568 <param name="height_bigwig" value="7" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2569 <param name="color" value="#00b0f0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2570 <section name="reading_bw_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2571 <param name="number_of_bins" value="2000"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2572 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2573 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2574 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2575 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2576 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2577 <param name="track_file_style_selector" value="bigwig_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2578 <param name="track_input_bigwig" value="bigwig_chrx_2e6_5e6.bw" ftype="bigwig" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2579 <param name="title" value="" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2580 <param name="color" value="#ff0000" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2581 <param name="alpha" value="0.5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2582 <param name="summary_method" value="max" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2583 <section name="reading_bw_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2584 <param name="number_of_bins" value="300"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2585 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2586 <param name="overlay_select" value="share-y"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2587 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2588 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2589 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2590 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2591 <param name="track_file_style_selector" value="xaxis_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2592 <param name="xaxis_where" value="bottom" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2593 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2594 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2595 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2596 <output name="outFileName" file="test_alpha_dec.png" ftype="png" compare="sim_size" delta="1000" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2597 </test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2598 <!--test 17--> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2599 <test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2600 <param name="region" value="chr2:73,800,000-75,744,000"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2601 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2602 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2603 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2604 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2605 <param name="title" value="bedgraph color = blue transform = no" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2606 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2607 <param name="color" value="blue" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2608 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2609 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2610 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2611 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2612 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2613 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2614 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2615 <param name="title" value="bedgraph color = blue transform = log" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2616 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2617 <param name="color" value="blue" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2618 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2619 <param name="transform_selector" value="log"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2620 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2621 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2622 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2623 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2624 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2625 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2626 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2627 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2628 <param name="title" value="bedgraph color = red transform = log min_value = 1" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2629 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2630 <param name="color" value="red" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2631 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2632 <param name="transform_selector" value="log"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2633 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2634 <param name="min_value" value="1" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2635 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2636 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2637 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2638 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2639 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2640 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2641 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2642 <param name="title" value="bedgraph color = green transform = log log_pseudocount = 2 min_value = 0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2643 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2644 <param name="color" value="green" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2645 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2646 <param name="transform_selector" value="log"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2647 <param name="log_pseudocount" value="2"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2648 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2649 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2650 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2651 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2652 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2653 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2654 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2655 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2656 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2657 <param name="title" value="bedgraph color = green operation = log(2+file) min_value = 0.7" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2658 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2659 <param name="color" value="green" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2660 <section name="op"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2661 <param name="operation" value="log(2+file)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2662 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2663 <param name="min_value" value="0.7" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2664 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2665 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2666 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2667 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2668 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2669 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2670 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2671 <param name="title" value="bedgraph color = black transform = log2 log_pseudocount = 1 min_value = 0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2672 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2673 <param name="color" value="black" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2674 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2675 <param name="transform_selector" value="log2"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2676 <param name="log_pseudocount" value="1"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2677 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2678 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2679 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2680 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2681 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2682 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2683 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2684 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2685 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2686 <param name="title" value="bedgraph color = black operation = log2(1+file) min_value = 0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2687 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2688 <param name="color" value="black" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2689 <section name="op"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2690 <param name="operation" value="log2(1+file)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2691 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2692 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2693 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2694 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2695 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2696 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2697 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2698 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2699 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2700 <param name="title" value="bedgraph color = black transform = log2 log_pseudocount = 1 min_value = 0 y_axis_values = original" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2701 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2702 <param name="color" value="black" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2703 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2704 <param name="transform_selector" value="log2"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2705 <param name="log_pseudocount" value="1"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2706 <param name="y_axis_values" value="original"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2707 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2708 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2709 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2710 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2711 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2712 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2713 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2714 <param name="track_file_style_selector" value="xaxis_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2715 <param name="xaxis_where" value="bottom" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2716 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2717 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2718 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2719 <output name="outFileName" file="test_log.png" ftype="png" compare="sim_size" delta="100" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2720 </test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2721 <!--test 18--> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2722 <test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2723 <param name="region" value="chrX:2700000-3100000"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2724 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2725 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2726 <param name="track_file_style_selector" value="xaxis_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2727 <param name="xaxis_where" value="top" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2728 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2729 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2730 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2731 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2732 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2733 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2734 <param name="title" value="file summary_method = mean number_of_bins=20" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2735 <param name="height_bedgraph" value="4" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2736 <param name="color" value="blue" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2737 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2738 <section name="reading_bdg_as_bw" > |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2739 <param name="summary_method" value="mean" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2740 <param name="number_of_bins" value="20" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2741 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2742 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2743 <param name="max_value" value="30" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2744 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2745 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2746 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2747 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2748 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2749 <param name="track_input_bedgraph" value="bedgraph2_X_2.5e6_3.5e6.bdg" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2750 <param name="title" value="second_file summary_method = mean" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2751 <param name="height_bedgraph" value="4" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2752 <param name="color" value="red" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2753 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2754 <section name="reading_bdg_as_bw" > |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2755 <param name="summary_method" value="mean" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2756 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2757 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2758 <param name="max_value" value="30" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2759 <param name="spacer_height" value="0.5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2760 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2761 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2762 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2763 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2764 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2765 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2766 <param name="title" value="operation = log1p(file) (no summary_method)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2767 <param name="height_bedgraph" value="4" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2768 <param name="color" value="blue" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2769 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2770 <section name="op"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2771 <param name="operation" value="log1p(file)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2772 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2773 <param name="spacer_height" value="0.5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2774 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2775 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2776 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2777 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2778 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2779 <param name="track_input_bedgraph" value="bedgraph_chrx_2e6_5e6.bg" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2780 <param name="title" value="operation = file - second_file" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2781 <param name="height_bedgraph" value="8" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2782 <param name="color" value="blue" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2783 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2784 <conditional name="color_negative"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2785 <param name="color_negative_select" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2786 <param name="color" value="red" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2787 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2788 <section name="op"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2789 <param name="operation" value="file - second_file" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2790 <param name="second_file" value="bedgraph2_X_2.5e6_3.5e6.bdg" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2791 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2792 <param name="min_value" value="-30" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2793 <param name="max_value" value="30" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2794 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2795 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2796 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2797 <output name="outFileName" file="test_operation.png" ftype="png" compare="sim_size" delta="100" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2798 </test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2799 <!--test 19--> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2800 <test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2801 <param name="region" value="chr2:73,800,000-75,744,000"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2802 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2803 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2804 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2805 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2806 <param name="title" value="bedgraph color = blue transform = no" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2807 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2808 <param name="color" value="blue" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2809 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2810 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2811 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2812 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2813 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2814 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2815 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2816 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2817 <param name="title" value="bedgraph color = blue transform = log" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2818 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2819 <param name="color" value="blue" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2820 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2821 <param name="transform_selector" value="log"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2822 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2823 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2824 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2825 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2826 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2827 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2828 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2829 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2830 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2831 <param name="title" value="bedgraph color = red transform = log min_value = 1" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2832 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2833 <param name="color" value="red" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2834 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2835 <param name="transform_selector" value="log"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2836 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2837 <param name="min_value" value="1" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2838 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2839 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2840 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2841 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2842 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2843 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2844 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2845 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2846 <param name="title" value="bedgraph color = green transform = log log_pseudocount = 2 min_value = 0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2847 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2848 <param name="color" value="green" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2849 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2850 <param name="transform_selector" value="log"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2851 <param name="log_pseudocount" value="2"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2852 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2853 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2854 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2855 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2856 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2857 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2858 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2859 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2860 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2861 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2862 <param name="title" value="bedgraph color = green operation = log(2+file) min_value = 0.7" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2863 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2864 <param name="color" value="green" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2865 <section name="op"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2866 <param name="operation" value="log(2+file)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2867 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2868 <param name="min_value" value="0.7" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2869 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2870 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2871 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2872 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2873 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2874 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2875 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2876 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2877 <param name="title" value="bedgraph color = black transform = log2 log_pseudocount = 1 min_value = 0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2878 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2879 <param name="color" value="black" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2880 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2881 <param name="transform_selector" value="log2"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2882 <param name="log_pseudocount" value="1"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2883 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2884 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2885 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2886 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2887 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2888 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2889 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2890 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2891 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2892 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2893 <param name="title" value="bedgraph color = black operation = log2(1+file) min_value = 0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2894 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2895 <param name="color" value="black" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2896 <section name="op"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2897 <param name="operation" value="log2(1+file)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2898 </section> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2899 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2900 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2901 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2902 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2903 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2904 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2905 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2906 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2907 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2908 <param name="title" value="bedgraph color = black transform = log2 log_pseudocount = 1 min_value = 0 y_axis_values = original" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2909 <param name="height_bedgraph" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2910 <param name="color" value="black" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2911 <conditional name="logScale_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2912 <param name="transform_selector" value="log2"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2913 <param name="log_pseudocount" value="1"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2914 <param name="y_axis_values" value="original"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2915 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2916 <param name="min_value" value="0" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2917 <param name="show_data" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2918 <param name="grid" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2919 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2920 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2921 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2922 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2923 <param name="track_file_style_selector" value="xaxis_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2924 <param name="xaxis_where" value="bottom" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2925 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2926 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2927 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2928 <output name="outFileName" file="test_log_grid.png" ftype="png" compare="sim_size" delta="100" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2929 </test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2930 <!--test 20--> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2931 <test> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2932 <param name="region" value="chrX:3000000-3300000"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2933 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2934 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2935 <param name="track_file_style_selector" value="xaxis_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2936 <param name="xaxis_where" value="top" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2937 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2938 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2939 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2940 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2941 <param name="track_file_style_selector" value="spacer_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2942 <param name="spacer_height" value="0.05" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2943 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2944 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2945 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2946 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2947 <param name="track_file_style_selector" value="hic_matrix_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2948 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2949 <param name="title" value="depth = 300000; transform = log1p; min_value = 5 (next track: overlay_previous = share-y links_type = loops)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2950 <param name="depth" value="300000" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2951 <param name="transform" value="log1p" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2952 <param name="min_value" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2953 <param name="show_masked_bins" value="false" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2954 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2955 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2956 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2957 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2958 <param name="track_file_style_selector" value="link_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2959 <param name="track_input_link" value="test_wide.arcs" ftype="bed" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2960 <conditional name="color_link"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2961 <param name="color" value="red" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2962 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2963 <param name="line_width" value="5" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2964 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2965 <param name="links_type" value="loops" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
2966 </conditional> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2967 <param name="overlay_select" value="share-y" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2968 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2969 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2970 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2971 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2972 <param name="track_file_style_selector" value="link_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2973 <param name="track_input_link" value="test_wide.arcs" ftype="bed" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2974 <conditional name="color_link"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2975 <param name="color" value="RdYlGn" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2976 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2977 <param name="line_width" value="3" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2978 <param name="invert_orientation" value="true" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2979 <param name="title" value="links line_width = 3 color RdYlGn" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
2980 <param name="height" value="3" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2981 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2982 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2983 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2984 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2985 <param name="track_file_style_selector" value="spacer_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2986 <param name="spacer_height" value="1" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2987 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2988 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2989 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2990 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2991 <param name="track_file_style_selector" value="hic_matrix_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2992 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2993 <param name="title" value="depth = 300000; transform = log1p; min_value = 5 (next track: overlay_previous = share-y links_type = loops)" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2994 <param name="depth" value="300000" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2995 <param name="transform" value="log1p" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2996 <param name="min_value" value="5" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2997 <param name="show_masked_bins" value="false" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2998 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
2999 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3000 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3001 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3002 <param name="track_file_style_selector" value="link_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3003 <param name="track_input_link" value="test_wide.arcs" ftype="bed" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3004 <conditional name="color_link"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3005 <param name="color" value="red" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3006 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3007 <param name="line_width" value="5" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3008 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3009 <param name="links_type" value="loops" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3010 </conditional> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3011 <param name="overlay_select" value="share-y" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3012 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3013 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3014 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3015 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3016 <param name="track_file_style_selector" value="link_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3017 <param name="track_input_link" value="test_wide.arcs" ftype="bed" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3018 <conditional name="color_link"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3019 <param name="color" value="RdYlGn" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3020 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3021 <param name="line_width" value="3" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3022 <param name="invert_orientation" value="true" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3023 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3024 <param name="use_middle" value="true" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3025 </conditional> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3026 <param name="title" value="links line_width = 3 color RdYlGn use_middle = true" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3027 <param name="height" value="3" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3028 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3029 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3030 <repeat name="tracks"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3031 <conditional name="track_file_style_conditional"> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3032 <param name="track_file_style_selector" value="vlines_track_option" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3033 <param name="track_input_bed_single" value="tad_classification.bed" ftype="bed" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3034 <param name="line_width" value="3" /> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3035 </conditional> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3036 </repeat> |
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3037 <param name="image_file_format" value="png" /> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3038 <output name="outFileName" file="test_arcs_use_middle.png" ftype="png" compare="sim_size" delta="1200" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3039 </test> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3040 <!--test 21--> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3041 <test> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3042 <param name="region" value="X:3000000-3600000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3043 <section name="global_args"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3044 <param name="trackLabelFraction" value="0.3"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3045 <param name="plotWidth" value="12"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3046 <param name="dpi" value="20"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3047 </section> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3048 <repeat name="tracks"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3049 <conditional name="track_file_style_conditional"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3050 <param name="track_file_style_selector" value="scale_bar_option" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3051 <param name="title" value="scalebar where = right" /> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3052 <param name="sb_where" value="right"/> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3053 <param name="spacer_height" value="0.5"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3054 </conditional> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3055 </repeat> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3056 <repeat name="tracks"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3057 <conditional name="track_file_style_conditional"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3058 <param name="track_file_style_selector" value="scale_bar_option" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3059 <param name="title" value="scalebar scalebar_start_position = 3200000" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3060 <section name="scalebar_pos"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3061 <param name="scalebar_start_position" value="3200000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3062 </section> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3063 <param name="spacer_height" value="0.5"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3064 </conditional> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3065 </repeat> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3066 <repeat name="tracks"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3067 <conditional name="track_file_style_conditional"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3068 <param name="track_file_style_selector" value="scale_bar_option" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3069 <param name="title" value="scalebar scalebar_start_position = 3200000 scalebar_end_position = 3250000" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3070 <section name="scalebar_pos"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3071 <param name="scalebar_start_position" value="3200000"/> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3072 <param name="scalebar_end_position" value="3250000"/> |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3073 </section> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3074 <param name="spacer_height" value="0.5"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3075 </conditional> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3076 </repeat> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3077 <repeat name="tracks"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3078 <conditional name="track_file_style_conditional"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3079 <param name="track_file_style_selector" value="scale_bar_option" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3080 <param name="title" value="scalebar scalebar_start_position = 3200000 x_center = 3250000" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3081 <section name="scalebar_pos"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3082 <param name="scalebar_start_position" value="3200000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3083 <param name="x_center" value="3250000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3084 </section> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3085 <param name="spacer_height" value="0.5"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3086 </conditional> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3087 </repeat> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3088 <repeat name="tracks"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3089 <conditional name="track_file_style_conditional"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3090 <param name="track_file_style_selector" value="scale_bar_option" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3091 <param name="title" value="scalebar scalebar_start_position = 3200000 size = 50000" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3092 <section name="scalebar_pos"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3093 <param name="scalebar_start_position" value="3200000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3094 <param name="size" value="50000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3095 </section> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3096 <param name="spacer_height" value="0.5"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3097 </conditional> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3098 </repeat> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3099 <repeat name="tracks"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3100 <conditional name="track_file_style_conditional"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3101 <param name="track_file_style_selector" value="scale_bar_option" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3102 <param name="title" value="scalebar scalebar_end_position = 3200000 size = 50000" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3103 <section name="scalebar_pos"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3104 <param name="scalebar_end_position" value="3200000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3105 <param name="size" value="50000"/> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3106 </section> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3107 </conditional> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3108 </repeat> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3109 <repeat name="tracks"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3110 <conditional name="track_file_style_conditional"> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3111 <param name="track_file_style_selector" value="xaxis_option" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3112 <param name="xaxis_where" value="bottom" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3113 </conditional> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3114 </repeat> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3115 <param name="image_file_format" value="png" /> |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3116 <output name="outFileName" file="master_scale_bar_startend.png" ftype="png" compare="sim_size" delta="100" /> |
8
4ac4e7083b7e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 3bfe22506f7d9922ac885ef6a6fbe8f96c83ed14"
iuc
parents:
7
diff
changeset
|
3117 </test> |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3118 <!--test 22--> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3119 <test> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3120 <param name="region" value="chrM:10-30"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3121 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3122 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3123 <param name="track_file_style_selector" value="scale_bar_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3124 <param name="title" value="scalebar height = 5" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3125 <param name="sb_where" value="right"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3126 <param name="height" value="5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3127 <param name="spacer_height" value="0.5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3128 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3129 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3130 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3131 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3132 <param name="track_file_style_selector" value="fasta_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3133 <param name="title" value="fasta from cached" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3134 <conditional name="fasta_source"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3135 <param name="fasta_source_selector" value="cached"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3136 <param name="fasta_cached" value="chrM"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3137 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3138 <param name="spacer_height" value="0.5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3139 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3140 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3141 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3142 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3143 <param name="track_file_style_selector" value="fasta_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3144 <param name="title" value="fasta from history height = 5" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3145 <conditional name="fasta_source"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3146 <param name="fasta_source_selector" value="history"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3147 <param name="fasta_local" value="chrM.fa" ftype="fasta" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3148 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3149 <param name="height" value="5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3150 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3151 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3152 <param name="image_file_format" value="png" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3153 <output name="outFileName" file="master_fasta.png" ftype="png" compare="sim_size" delta="100" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3154 </test> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3155 <!--test 23--> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3156 <test> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3157 <param name="region" value="chrX:3000000-3300000"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3158 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3159 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3160 <param name="track_file_style_selector" value="xaxis_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3161 <param name="xaxis_where" value="top" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3162 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3163 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3164 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3165 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3166 <param name="track_file_style_selector" value="spacer_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3167 <param name="spacer_height" value="0.05" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3168 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3169 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3170 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3171 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3172 <param name="track_file_style_selector" value="hic_matrix_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3173 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3174 <param name="title" value="classical depth=300000 with arcs" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3175 <param name="depth" value="300000" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3176 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3177 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3178 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3179 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3180 <param name="track_file_style_selector" value="link_track_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3181 <param name="track_input_link" value="test_wide.arcs" ftype="bed" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3182 <conditional name="color_link"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3183 <param name="color" value="red" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3184 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3185 <param name="line_width" value="5" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3186 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3187 <param name="links_type" value="loops" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3188 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3189 <param name="overlay_select" value="share-y" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3190 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3191 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3192 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3193 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3194 <param name="track_file_style_selector" value="hic_matrix_square_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3195 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3196 <param name="title" value="square with arcs" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3197 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3198 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3199 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3200 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3201 <param name="track_file_style_selector" value="link_track_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3202 <param name="track_input_link" value="test_wide.arcs" ftype="bed" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3203 <conditional name="color_link"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3204 <param name="color" value="red" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3205 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3206 <param name="line_width" value="5" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3207 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3208 <param name="links_type" value="squares" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3209 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3210 <param name="overlay_select" value="share-y" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3211 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3212 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3213 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3214 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3215 <param name="track_file_style_selector" value="hic_matrix_square_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3216 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3217 <param name="title" value="square with arcs region2=chrX:3000000-3100000" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3218 <param name="region2" value="chrX:3000000-3100000"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3219 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3220 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3221 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3222 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3223 <param name="track_file_style_selector" value="link_track_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3224 <param name="track_input_link" value="test_wide.arcs" ftype="bed" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3225 <conditional name="color_link"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3226 <param name="color" value="red" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3227 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3228 <param name="line_width" value="5" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3229 <conditional name="display"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3230 <param name="links_type" value="squares" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3231 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3232 <param name="overlay_select" value="share-y" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3233 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3234 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3235 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3236 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3237 <param name="track_file_style_selector" value="hic_matrix_square_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3238 <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.h5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3239 <param name="title" value="square with domains, colormap = Blues, tranform = no, region2=chrX:3000000-3100000" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3240 <param name="region2" value="chrX:3000000-3100000"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3241 <param name="colormap" value="Blues"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3242 <param name="transform" value="no" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3243 <param name="boundaries_file" value="tad_classification.bed" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3244 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3245 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3246 <param name="image_file_format" value="png" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3247 <output name="outFileName" file="test_matrix_square.png" ftype="png" compare="sim_size" delta="1200" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3248 </test> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3249 <!--test 24--> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3250 <test> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3251 <param name="region" value="2:34704975-34705208"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3252 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3253 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3254 <param name="track_file_style_selector" value="maf_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3255 <param name="track_input_maf" value="first.maf" ftype="maf"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3256 <param name="reference" value="mm10"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3257 <param name="title" value="default" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3258 <param name="spacer_height" value="1"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3259 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3260 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3261 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3262 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3263 <param name="track_file_style_selector" value="maf_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3264 <param name="track_input_maf" value="first.maf" ftype="maf"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3265 <param name="reference" value="mm10"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3266 <param name="title" value="height = 3 show sequence" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3267 <param name="height" value="3"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3268 <param name="display_ref_seq" value="true"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3269 <param name="spacer_height" value="1"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3270 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3271 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3272 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3273 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3274 <param name="track_file_style_selector" value="maf_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3275 <param name="track_input_maf" value="first.maf" ftype="maf"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3276 <param name="reference" value="mm10"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3277 <param name="title" value="species_order = hg19 rn5, species_labels = Human Rat" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3278 <param name="height" value="3"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3279 <param name="species_order" value="hg19 rn5"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3280 <param name="species_labels" value="Human Rat"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3281 <param name="spacer_height" value="1"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3282 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3283 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3284 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3285 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3286 <param name="track_file_style_selector" value="maf_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3287 <param name="track_input_maf" value="first.maf" ftype="maf"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3288 <param name="reference" value="mm10"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3289 <param name="title" value="species_order = hg19, species_labels = Human, species_order_only = true" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3290 <param name="height" value="3"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3291 <param name="species_order" value="hg19"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3292 <param name="species_labels" value="Human"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3293 <param name="species_order_only" value="true"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3294 <param name="spacer_height" value="1"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3295 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3296 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3297 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3298 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3299 <param name="track_file_style_selector" value="xaxis_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3300 <param name="xaxis_where" value="bottom" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3301 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3302 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3303 <param name="image_file_format" value="png" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3304 <output name="outFileName" file="test_maf.png" ftype="png" compare="sim_size" delta="1200" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3305 </test> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3306 <!--test 25--> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3307 <test> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3308 <param name="region" value="chr2:73,800,000-75,744,000"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3309 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3310 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3311 <param name="track_file_style_selector" value="bedgraph_track_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3312 <param name="track_input_bedgraph" value="GSM3182416_E12DHL_WT_Hoxd11vp.bedgraph.gz" ftype="bedgraph" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3313 <param name="title" value="bedgraph color = blue" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3314 <param name="height_bedgraph" value="5" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3315 <param name="color" value="blue" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3316 <param name="show_data" value="true" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3317 <param name="max_value" value="5" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3318 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3319 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3320 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3321 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3322 <param name="track_file_style_selector" value="vhighlight_track_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3323 <param name="track_input_bed_single" value="islands.bed" ftype="bed"/> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3324 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3325 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3326 <repeat name="tracks"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3327 <conditional name="track_file_style_conditional"> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3328 <param name="track_file_style_selector" value="xaxis_option" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3329 <param name="xaxis_where" value="bottom" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3330 </conditional> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3331 </repeat> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3332 <param name="image_file_format" value="png" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3333 <output name="outFileName" file="test_vhighlight.png" ftype="png" compare="sim_size" delta="1200" /> |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3334 </test> |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3335 </tests> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3336 <help><![CDATA[ |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3337 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3338 pyGenomeTracks |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3339 ============== |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3340 |
2
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
parents:
1
diff
changeset
|
3341 **pyGenomeTracks** is a visualization tool which aims to produce high-quality genome browser tracks that are highly customizable. |
c171f2b7d76e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 11b5b3cc8b846cc75623a3ef265afe8c68747f2e"
iuc
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1
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|
3342 Currently, it is possible to plot: |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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|
3343 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3344 - bigwig |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
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diff
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|
3345 - bed/gtf (many options) |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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|
3346 - bedgraph |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
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|
3347 - epilogos |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3348 - narrow peaks |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
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changeset
|
3349 - links |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3350 - Hi-C matrices (cool or HiCExplorer h5) |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3351 - Fasta |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
changeset
|
3352 - MAF (multiple alignment format) |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
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|
3353 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3354 _________________ |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3355 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3356 Usage |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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|
3357 ----- |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
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|
3358 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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changeset
|
3359 This tool takes various types of tracks as input: |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3360 |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
changeset
|
3361 - **Hi-C tracks:** |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3362 - **TAD vizualisation:** corrected Hi-C contact matrix to plot a contact heatmap. It is recommended to follow HiCExplorer's ``hicPlotMatrix`` instructions. Boundaries file can used, which is the output of HiCExplorer's ``hicFindTADs`` in bed format. If selected, TADs will be drawn directly on the contact heatmap. |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3363 - **TAD score:** display TAD seperation score computed by HiCExplorer's ``hicFindTADs``. |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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|
3364 - **Chromatin states:** display blocks of different colors following a bed file. |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3365 - **Gene track / Bed Track:** display genes or annotations in bed/gtf files. Labels like gene names can be toggled on or off. |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3366 - **Link track:** display links (pair of coordinates) as arcs, triangles or loops. |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3367 - **NarrowPeak track:** display narrowPeak (encode format) as boxes or as curve (reconstructed peak). |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3368 - **Bigwig track:** generic bigwig track plotting. |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3369 - **Bedgraph track:** generic bedgraph track plotting. |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3370 - **Bedgraph matrix track** is used to specifically plot bm files computed by HiCExplorer's ``hicFindTADs`` (TAD seperation scores). |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3371 - **Vlines:** vertical lines drawn on top of all tracks following a bed file. It is used as a visual support where regions start / end over all tracks, for example to display TAD boundaries computed by HiCExplorer's ``hicFindTADs``. |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
10
diff
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|
3372 - **Vhighlight:** vertical rectangles drawn on top of all tracks following a bed file. It is used as a visual support to highlight some regions. |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3373 - **Hlines:** horizontal lines drawn either by themselves or on top of other tracks. |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3374 - **Spacer:** Add some space between two tracks. |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
8
diff
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|
3375 - **X-axis:** Plot x-axis scale wherever you want. |
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
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diff
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|
3376 - **Scale bar track:** Plot scale bar. |
11
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
parents:
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diff
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|
3377 - **Fasta track:** Display sequences from fasta. |
7dd841a32245
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit df07890f27c5d18e423ec889eadca82bd7958def
iuc
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|
3378 - **Maf track:** Display alignments from maf. |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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|
3379 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3380 For each track, parameters for the color, the width or the font size can be defined. |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
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|
3381 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3382 _________________ |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3383 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3384 Output |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
changeset
|
3385 ------ |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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|
3386 |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
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diff
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|
3387 Here are two example plots with the different tracks you can use (on the right, you have the vlines and vhighlight which have been used): |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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|
3388 |
12
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
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|
3389 .. image:: static/images/demo.png |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
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diff
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|
3390 :width: 45 % |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
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|
3391 .. image:: static/images/demo2.png |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
iuc
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|
3392 :width: 45 % |
14e7c35f3d00
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit 26f4478d873b339c5a1eccf18df68700a145a404
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3393 |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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|
3394 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
diff
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|
3395 _________________ |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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parents:
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|
3396 |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
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|
3397 | For more information about pyGenomeTracks please consider our documentation on readthedocs_ or github_ |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
parents:
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|
3398 |
9
2824d77cd8f8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit d1b394c8e588a78d1b94e3e57922f7ce684ac835"
iuc
parents:
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|
3399 .. _readthedocs: https://pygenometracks.readthedocs.io |
0
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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3400 .. _github: https://github.com/deeptools/pyGenomeTracks |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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3401 .. _`Nothjunge et al. (2017)`: https://www.nature.com/articles/s41467-017-01724-9 |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
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|
3402 ]]></help> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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|
3403 <expand macro="citations" /> |
2074627b0f83
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pygenometracks commit a68062b7e444233416bd30404be9bf92b6f1a363
iuc
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|
3404 </tool> |