Mercurial > repos > iuc > circos
annotate macros.xml @ 7:4b519282a05b draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit ef20b4968a6d00c49209de6b723f8b96d8bd128a"
author | iuc |
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date | Mon, 25 May 2020 10:52:02 -0400 |
parents | 740057a5126d |
children | e6cbe3190642 |
rev | line source |
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0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
1 <?xml version="1.0"?> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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2 <macros> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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3 <token name="@CIRCOS_VERSION@">0.69.8</token> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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4 |
7
4b519282a05b
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit ef20b4968a6d00c49209de6b723f8b96d8bd128a"
iuc
parents:
6
diff
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5 <token name="@WRAPPER_VERSION@">@CIRCOS_VERSION@+galaxy6</token> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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6 |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
7 <xml name="requirements"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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8 <requirements> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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changeset
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9 <requirement type="package" version="@CIRCOS_VERSION@">circos</requirement> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
10 <requirement type="package" version="2.7">python</requirement> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
11 <requirement type="package" version="0.6.4">bcbiogff</requirement> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
12 <requirement type="package" version="1.70">biopython</requirement> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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changeset
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13 <requirement type="package" version="0.3.13">pybigwig</requirement> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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14 <requirement type="package" version="0.23">circos-tools</requirement> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
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15 <requirement type="package" version="3.4">grep</requirement> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
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16 <requirement type="package" version="5.1.0">gawk</requirement> |
3
fd59d783248a
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f04fe62fb7dbad75e597da8cd674cfe36ed3d80a"
iuc
parents:
2
diff
changeset
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17 <requirement type="package" version="1.29">tar</requirement> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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changeset
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18 <yield /> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
19 </requirements> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
20 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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21 |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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changeset
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22 <token name="@UTILS@"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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changeset
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23 #def circosColor($value) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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24 #set $value = str($value) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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25 #set $r = int($value[1:3], 16) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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26 #set $g = int($value[3:5], 16) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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27 #set $b = int($value[5:], 16) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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28 $r, $g, $b |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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29 #end def |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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30 #def circosColorAlpha($value, $alpha) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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31 #set $value = str($value) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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32 #set $r = int($value[1:3], 16) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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33 #set $g = int($value[3:5], 16) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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34 #set $b = int($value[5:], 16) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
35 #set $a = float($alpha) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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36 $r, $g, $b, $a |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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changeset
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37 #end def |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
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38 #def chromosomesToOrder($value) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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changeset
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39 #set $q = ','.join([x if ':' not in x else x[x:x.index(':')] for x in str($value).split(';')]) |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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40 $q |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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41 #end def |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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42 </token> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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43 |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
44 <xml name="citations"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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45 <citations> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
46 <citation type="doi">10.1101/gr.092759.109</citation> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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47 </citations> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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48 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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49 |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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50 <xml name="stroke_opts"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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51 <expand macro="circos_color_alpha" name="stroke_color" value="#000000" label="Stroke Color"/> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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52 <param name="stroke_thickness" type="integer" value="1" label="Stroke Thickness"/> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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53 </xml> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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54 |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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55 <xml name="minmax"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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56 <conditional name="minmax"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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57 <param name="minmax_select" type="select" label="Minimum / maximum options"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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58 <option value="yes">Supply min/max values</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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59 <option value="no" selected="true">Plot all values</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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60 </param> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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61 <when value="yes"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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62 <param name="min_value" type="float" value="1.0" label="Minimum value" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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63 <param name="max_value" type="float" value="5.0" label="Maximum value" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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64 </when> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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65 <when value="no"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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66 </when> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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67 </conditional> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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68 </xml> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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69 |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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70 <xml name="circos_color" |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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71 token_label="Color" |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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72 token_name="color" |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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73 token_value="#000000" |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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74 token_help="" |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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75 > |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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76 <param label="@LABEL@" type="color" name="@NAME@" value="@VALUE@" help="@HELP@"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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77 <sanitizer> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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78 <valid initial="string.letters,string.digits"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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79 <add value="#" /> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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80 </valid> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
81 </sanitizer> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
82 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
83 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
84 |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
85 <xml name="chrom_units" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
86 token_label="Position" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
87 token_help="In bases (e.g. 1000) or chromosome units (e.g. 1u)" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
88 token_value="5u" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
89 token_name="position" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
90 > |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
91 <param name="@NAME@" type="text" value="@VALUE@" label="@LABEL@" help="@HELP@"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
92 <sanitizer> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
93 <valid initial="string.digits"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
94 <add value="u"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
95 <add value="b"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
96 <add value="."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
97 </valid> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
98 </sanitizer> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
99 </param> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
100 </xml> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
101 |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
102 <xml name="circos_color_alpha" |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
103 token_label="Color" |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
104 token_name="color" |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
105 token_value="#000000" |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
106 token_help="" |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
107 > |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
108 <param label="@LABEL@" type="color" name="@NAME@" value="@VALUE@" help="@HELP@"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
109 <sanitizer> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
110 <valid initial="string.letters,string.digits"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
111 <add value="#" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
112 </valid> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
113 </sanitizer> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
114 </param> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
115 <param name="@NAME@_alpha" type="float" label="@LABEL@ Transparency" value="1" min="0" max="1" help="1 = fully opaque, 0 = fully transparent"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
116 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
117 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
118 <xml name="brewer_scale" |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
119 token_name="color" |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
120 token_label="Color" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
121 token_help=""> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
122 <param name="@NAME@" type="select" label="@LABEL@" help="@HELP@"> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
123 <option value="purples-13-seq">Sequential: Purples</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
124 <option value="reds-13-seq">Sequential: Reds</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
125 <option value="oranges-13-seq">Sequential: Oranges</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
126 <option value="greens-13-seq">Sequential: Greens</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
127 <option value="blues-13-seq">Sequential: Blues</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
128 <option value="greys-13-seq">Sequential: Greys</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
129 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
130 <option value="bugn-13-seq">Sequential: Blue - Green</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
131 <option value="bupu-13-seq">Sequential: Blue - Purple</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
132 <option value="gnbu-13-seq">Sequential: Green - Blue</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
133 <option value="orrd-13-seq">Sequential: Orange - Red</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
134 <option value="pubu-13-seq">Sequential: Purple - Blue</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
135 <option value="pubugn-13-seq">Sequential: Purple - Blue - Green</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
136 <option value="purd-13-seq">Sequential: Purple - Red</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
137 <option value="rdpu-13-seq">Sequential: Red - Purple</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
138 <option value="ylgn-13-seq">Sequential: Yellow - Green</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
139 <option value="ylgnbu-13-seq">Sequential: Yellow - Green - Blue</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
140 <option value="ylorbr-13-seq">Sequential: Yellow - Orange - Brown</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
141 <option value="ylorrd-13-seq">Sequential: Yellow - Orange - Red</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
142 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
143 <option value="brbg-15-div">Diverging: Brown - Blue Green</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
144 <option value="piyg-15-div">Diverging: Pink - Yellow Green</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
145 <option value="prgn-15-div">Diverging: Purple - Green</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
146 <option value="puor-15-div">Diverging: Purple - Orange</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
147 <option value="rdbu-15-div">Diverging: Red - Blue</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
148 <option value="rdgy-15-div">Diverging: Red - Grey</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
149 <option value="rdylbu-15-div">Diverging: Red - Yellow - Blue</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
150 <option value="rdylgn-15-div">Diverging: Red - Yellow - Green</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
151 <option value="spectral-15-div">Diverging: Spectral</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
152 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
153 <option value="accent-8-qual">Qualitative: Accent</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
154 <option value="dark2-8-qual">Qualitative: Dark2</option> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
155 <option value="paired-12-qual" selected="true">Qualitative: Paired</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
156 <option value="pastel1-9-qual">Qualitative: Pastel1</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
157 <option value="pastel2-8-qual">Qualitative: Pastel2</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
158 <option value="set1-9-qual">Qualitative: Set1</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
159 <option value="set2-8-qual">Qualitative: Set2</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
160 <option value="set3-12-qual">Qualitative: Set3</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
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161 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
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diff
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162 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
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163 |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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164 <xml name="zdepth" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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165 token_name="zdepth" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
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166 > |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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167 <param name="@NAME@" type="integer" value="0" optional="true" label="Z-index" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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168 help="Datasets with a higher z-index value are drawn on top of data sets with a lower value. 0 is the default and plots added lower in the configuration file will be plotted above."/> |
4
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
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3
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169 </xml> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
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170 |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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171 <xml name="font_select" |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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172 token_normal="true" |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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173 token_bold="false"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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174 <param name="font" type="select" label="Font"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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175 <option value="light">light</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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176 <option value="normal" selected="@NORMAL@">normal</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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177 <option value="default">default</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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178 <option value="semibold">semibold</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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179 <option value="bold" selected="@BOLD@">bold</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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180 <option value="italic">italic</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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181 <option value="bolditalic">bolditalic</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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1
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182 <option value="italicbold">italicbold</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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183 </param> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
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184 </xml> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
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185 |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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186 <xml name="radial_position"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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187 <conditional name="radial_position"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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188 <param name="select" type="select" label="Radial Position"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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189 <option value="plot">Relative position</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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190 <option value="data" selected="True">Absolute position (values match data values)</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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191 </param> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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192 <when value="plot"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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193 <param name="y0" type="float" value="0" label="y0" help="Values are relative (0=inside of track, 1=outside of track)"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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194 <param name="y1" type="float" value="1" label="y1" help="Values are relative (0=inside of track, 1=outside of track)"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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195 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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196 <when value="data"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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197 <param name="y0" type="float" value="0" label="y0" help="Values are according to minimum and maximum values of dataset. E.g. if your dataset goes from -10 to 10, y0 should be -10."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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198 <param name="y1" type="float" value="1" label="y1" help="Values are according to minimum and maximum values of dataset. E.g. if your dataset goes from -10 to 10, y1 should be 10."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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199 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
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200 </conditional> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
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201 </xml> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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202 |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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203 <xml name="radial_position_axes"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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204 <conditional name="radial_position"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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205 <param name="select" type="select" label="Radial Position"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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206 <option value="plot">Relative position</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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207 <option value="data" selected="True">Absolute position (values match data values)</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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208 </param> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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209 <when value="plot"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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210 <param name="spacing" type="float" value="0.1" min="0" max="1" label="Spacing" help="This many % of the distance between axis lines, set between the data minimum/maximum. If data goes from -1 to 1, and this is set to 0.33, and y0/y1 radius are 0/1, this produces two bands [0.33, 1]. If the y0/y1 radius are set to -1/1, this produces 4 bands: [-1, -0.33, 0.33, 1]. The y0/y1 radius act as clipping."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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211 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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212 <when value="data"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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213 <param name="spacing" type="float" value="0.1" label="Spacing" help="Equal to data value difference. E.g. 0.25 here when data goes from -1 to 1 and y0/y1 are 0/1 produces 5 bands at [0, 0.25, 0.5, 0.75, 1]. If y0/y1 and radius are -1/1 produces 9 bands at [-1, -0.75, -0.5, -0.25, 0, 0.25, 0.5, 0.75, 1]. The y0/y1 radius act as clipping."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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214 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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215 </conditional> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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216 <param name="y0" type="float" value="0" label="y0" help="Values are according to minimum and maximum values of dataset. E.g. if your dataset goes from -10 to 10, y0 should be -10. These clip the axes, any axes which would be drawn on the data outside of these bounds will not be drawn."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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217 <param name="y1" type="float" value="1" label="y1" help="Values are according to minimum and maximum values of dataset. E.g. if your dataset goes from -10 to 10, y1 should be 10. These clip the axes, any axes which would be drawn on the data outside of these bounds will not be drawn."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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218 </xml> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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219 |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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220 <xml name="minsize"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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221 <param name="minsize" type="float" value="0" label="Minimum size (in chromosome units)" min="0"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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222 </xml> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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223 |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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224 <xml name="only_if_data"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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225 <param name="only_if_data" type="select" label="When to show"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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226 <option value="always" selected="True">Always</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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227 <option value="data">Only when data is present on the ideogram</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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228 </param> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
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229 </xml> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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230 |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
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231 <xml name="axes"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
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232 <section name="sec_axes" title="Axes"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
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233 <repeat name="axes" title="Axis"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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234 <expand macro="radial_position_axes" /> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
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235 <expand macro="circos_color_alpha"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
236 <param name="thickness" type="integer" value="1" label="Thickness"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
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|
237 </repeat> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
238 <expand macro="only_if_data" /> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
239 </section> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
240 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
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changeset
|
241 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
242 <xml name="backgrounds"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
243 <section name="sec_bkgs" title="Backgrounds"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
244 <repeat name="backgrounds" title="Background"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
245 <expand macro="radial_position" /> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
246 <expand macro="circos_color_alpha"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
247 </repeat> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
248 <expand macro="only_if_data" /> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
249 </section> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
250 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
251 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
252 <xml name="rules"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
253 <section name="sec_rule" title="Rules"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
254 <repeat name="rules" title="Rule"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
255 <repeat name="conditions" title="Conditions to Apply"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
256 <conditional name="application"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
257 <param name="application_select" type="select" label="Condition"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
258 <option value="always">Apply to Every Point</option> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
259 <option value="random">Randomly</option> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
260 <option value="on">Check for presence/absence per chromosome</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
261 <option value="pos">Based on position on chromosome</option> |
7
4b519282a05b
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit ef20b4968a6d00c49209de6b723f8b96d8bd128a"
iuc
parents:
6
diff
changeset
|
262 <option value="value">Based on value (ONLY for scatter/histogram/heatmap/line)</option> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
263 <option value="var">Based on qualifier value (when available)</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
264 </param> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
265 <when value="always"> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
266 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
267 <when value="on"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
268 <param name="on_genomes" type="text" label="Chromosome IDs" help="Pipe | separated list of chromosome IDs"> |
4
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
269 <sanitizer> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
270 <valid initial="string.letters,string.digits"> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
271 <add value="|" /> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
272 <add value="-" /> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
273 <add value="." /> |
4
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
274 </valid> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
275 </sanitizer> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
276 </param> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
277 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
278 <when value="pos"> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
279 <param name="pos_gt" type="float" label="Greater than this base" optional="true"/> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
280 <param name="pos_lt" type="float" label="Less than this base" optional="true"/> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
281 <param name="pos_lt_sub" type="boolean" truevalue="yes" falsevalue="no" label="Count 'Less than this base' from end of chromosome" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
282 </when> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
283 <when value="random"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
284 <param name="value" type="float" label="Percentage of bins" value="0.5" min="0" max="1" help="Randomly apply with this probability"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
285 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
286 <when value="value"> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
287 <param name="pos_gt" type="float" label="Points above this value" optional="true"/> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
288 <param name="pos_lt" type="float" label="Points below this value" optional="true"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
289 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
290 <when value="var"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
291 <param name="varname" type="text" label="Qualifier name" |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
292 help="Set to the name of the qualifier in the file you wish to compare against" /> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
293 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
294 <param name="cond_select" type="select" label="Condition"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
295 <option value="eq">Equal to (string)</option> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
296 <option value="==">Equal to (numeric)</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
297 <option value="ne">Not equal to (string)</option> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
298 <option value="!=">Not equal to (numeric)</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
299 <option value="<">Less than (numeric)</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
300 <option value=">">Greater than (numeric)</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
301 <option value="%">Modulus (numeric)</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
302 <sanitizer> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
303 <valid initial="string.letters"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
304 <add value=">" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
305 <add value="<" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
306 <add value="!" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
307 <add value="=" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
308 <add value="%" /> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
309 </valid> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
310 </sanitizer> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
311 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
312 |
4
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
313 <param name="varvalue" type="text" label="Qualifier value to compare against"> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
314 <sanitizer> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
315 <valid initial="string.letters,string.digits"> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
316 </valid> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
317 </sanitizer> |
184dfd9e113d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
iuc
parents:
3
diff
changeset
|
318 </param> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
319 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
320 </conditional> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
321 </repeat> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
322 <repeat name="actions" title="Actions to Apply"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
323 <conditional name="action"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
324 <param name="action_select" type="select" label="Action"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
325 <option value="show">Change Visibility</option> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
326 <option value="z">Change Z-index</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
327 <option value="fill_color">Change Fill Color for all points</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
328 <option value="fill_color_value">Change Fill Color based on Value</option> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
329 <option value="stroke_color">Change Stroke Color</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
330 <option value="color_value">Change Stroke Color based on Value</option> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
331 <option value="value_from_attr">Change value of point based on attribute</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
332 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
333 <when value="show"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
334 <param name="action_value" type="boolean" truevalue="yes" falsevalue="no" label="Show"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
335 </when> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
336 <when value="value_from_attr"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
337 <param name="action_value" type="text" label="Attribute to pull value from" help="From the optional x1=y1;x2=y2... formatted attributes in the last column"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
338 <sanitizer> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
339 <valid initial="string.letters,string.digits"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
340 </valid> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
341 </sanitizer> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
342 </param> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
343 </when> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
344 <when value="fill_color"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
345 <expand macro="circos_color" name="action_value" label="Fill Color"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
346 </when> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
347 <when value="stroke_color"> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
348 <expand macro="circos_color" name="action_value" label="Stroke Color"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
349 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
350 <when value="fill_color_value"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
351 <expand macro="brewer_scale" name="action_value" label="Fill Color" help="Fill will be changed based on a mapping of dataset values to colours, but to do this the mapping needs to be defined. Minimum and maximum values are defined below, and will map to the minimum and maximum values of this brewer scale."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
352 <param name="min_value" type="float" value="-1" label="Minimum value of dataset"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
353 <param name="max_value" type="float" value="1" label="Maximum value of dataset"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
354 <param name="invert" type="boolean" truevalue="True" falsevalue="False" label="Invert Color Scale" /> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
355 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
356 <when value="color_value"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
357 <expand macro="brewer_scale" name="action_value" label="Stroke Color" help="Stroke will be changed based on a mapping of dataset values to colours, but to do this the mapping needs to be defined. Minimum and maximum values are defined below, and will map to the minimum and maximum values of this brewer scale."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
358 <param name="min_value" type="float" value="-1" label="Minimum value of dataset"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
359 <param name="max_value" type="float" value="1" label="Maximum value of dataset"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
360 <param name="invert" type="boolean" truevalue="True" falsevalue="False" label="Invert Color Scale" /> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
361 </when> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
362 <when value="z"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
363 <conditional name="dynamic"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
364 <param name="dynamic_select" type="select" label="Static or Dynamic Z-Index"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
365 <option value="static">Static</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
366 <option value="dynamic">Dynamic (based on value)</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
367 </param> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
368 <when value="static"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
369 <expand macro="zdepth" name="action_value"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
370 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
371 <when value="dynamic"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
372 <param name="min_value" type="float" value="-1" label="Expected minimum value of dataset"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
373 <param name="max_value" type="float" value="1" label="Expected maximum value of dataset"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
374 <param name="invert" type="boolean" truevalue="True" falsevalue="False" label="Invert Z-Index Mapping" /> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
375 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
376 </conditional> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
377 </when> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
378 </conditional> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
379 </repeat> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
380 <param name="continue_flow" type="boolean" truevalue="flow = continue" falsevalue="" label="Continue flow" |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
381 help="Allow rules after this one to be applied in addition to this rule. E.g. if one rule modifies font size, and another font colour, with continued flow they could both be applied rather than whichever was encountered first."/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
382 </repeat> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
383 </section> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
384 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
385 |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
386 <xml name="link_color_action_options" |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
387 token_section="ERROR"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
388 |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
389 <conditional name="dynamic"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
390 <param name="dynamic_select" type="select" label="Static / Dynamic Change"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
391 <option value="static">Color is always applied</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
392 <option value="dynamic">Color is applied based on value</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
393 <option value="source">Color based on source chromosome color</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
394 <option value="dest">Color based on destination chromosome color</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
395 </param> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
396 <when value="static"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
397 <expand macro="circos_color_alpha" label="@SECTION@ Color" name="action_value"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
398 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
399 <when value="dynamic"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
400 <expand macro="brewer_scale" name="action_value" label="@SECTION@ Color" help="@SECTION@ will be changed based on a mapping of dataset values to colours, but to do this the mapping needs to be defined. Minimum and maximum values are defined below, and will map to the minimum and maximum values of this brewer scale."/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
401 <param name="min_value" type="float" value="-1" label="Minimum value of dataset"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
402 <param name="max_value" type="float" value="1" label="Maximum value of dataset"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
403 <param name="invert" type="boolean" truevalue="True" falsevalue="False" label="Invert Color Scale" /> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
404 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
405 <when value="source"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
406 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
407 <when value="dest"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
408 </when> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
409 </conditional> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
410 </xml> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
411 |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
412 <xml name="linkrules"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
413 <section name="sec_link_rule" title="Rules"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
414 <repeat name="rules" title="Rule"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
415 <repeat name="conditions" title="Conditions to Apply" help="Multiple conditions will be combined using AND"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
416 <conditional name="application"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
417 <param name="application_select" type="select" label="Condition"> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
418 <option value="always" selected="true">True / Always Applied</option> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
419 <option value="random">Randomly</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
420 <option value="interchr">Interchromosomal</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
421 <option value="intrachr">Intrachromosomal</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
422 <option value="chr">Chromosome</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
423 <option value="dist">Distance between sides</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
424 <option value="start1">Start position Left</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
425 <option value="end1">End Position Left</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
426 <option value="pos1">Middle position Left</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
427 <option value="size1">Size Left</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
428 <option value="start2">Start position Right</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
429 <option value="end2">End Position Right</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
430 <option value="pos2">Middle position Right</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
431 <option value="size2">Size Right</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
432 <option value="rev1">Reversed Left (link end is reversed (e.g. start > end) </option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
433 <option value="rev2">Reversed Right (link end is reversed (e.g. start > end) </option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
434 <option value="inv">Inverted (link is inverted (i.e. one of its ends is reversed). If both ends are reversed, the link is not inverted )</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
435 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
436 <when value="chr"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
437 <expand macro="chromosome_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
438 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
439 <when value="start1"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
440 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
441 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
442 <when value="end1"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
443 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
444 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
445 <when value="pos1"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
446 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
447 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
448 <when value="size1"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
449 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
450 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
451 <when value="start2"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
452 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
453 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
454 <when value="end2"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
455 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
456 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
457 <when value="pos2"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
458 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
459 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
460 <when value="size2"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
461 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
462 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
463 <when value="dist"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
464 <expand macro="integer_comparison"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
465 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
466 <when value="rev1"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
467 <when value="rev2"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
468 <when value="inv"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
469 <when value="interchr"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
470 <when value="intrachr"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
471 <when value="always"/> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
472 <when value="random"> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
473 <param name="value" type="float" label="Percentage" value="0.5" min="0" max="1" help="Randomly apply with this probability"/> |
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
474 </when> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
475 </conditional> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
476 </repeat> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
477 <repeat name="actions" title="Actions to Apply"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
478 <conditional name="action"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
479 <param name="action_select" type="select" label="Action"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
480 <option value="show">Change Visibility</option> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
481 <option value="z">Change Z-index</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
482 <option value="color">Change Fill Color</option> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
483 <option value="stroke_color">Change Stroke Color (Ribbons Only)</option> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
484 <option value="thickness">Change Thickness</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
485 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
486 <when value="show"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
487 <param name="action_value" type="boolean" label="Show" truevalue="yes" falsevalue="no"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
488 </when> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
489 <when value="stroke_color"> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
490 <expand macro="link_color_action_options" section="Stroke"/> |
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
491 </when> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
492 <when value="color"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
493 <expand macro="link_color_action_options" section="Fill"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
494 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
495 <when value="thickness"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
496 <param name="action_value" type="integer" value="1" label="Thickness"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
497 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
498 <when value="z"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
499 <conditional name="dynamic"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
500 <param name="dynamic_select" type="select" label="Static or Dynamic Z-Index"> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
501 <option value="static">Static</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
502 <option value="dynamic">Dynamic (based on value)</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
503 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
504 <when value="static"> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
505 <expand macro="zdepth" name="action_value"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
506 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
507 <when value="dynamic"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
508 <param name="min_value" type="float" value="-1" label="Expected minimum value of dataset"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
509 <param name="max_value" type="float" value="1" label="Expected maximum value of dataset"/> |
6
740057a5126d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 1584882716a1d2c598e8485da9d73bcf80d9b29a"
iuc
parents:
5
diff
changeset
|
510 <param name="invert" type="boolean" truevalue="True" falsevalue="False" label="Invert Z-Index Mapping" /> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
511 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
512 </conditional> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
513 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
514 </conditional> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
515 </repeat> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
516 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
517 <param name="continue_flow" type="boolean" label="Continue flow" truevalue="flow = continue" falsevalue="" help="Allow rules after this one to be applied in addition to this rule. E.g. if one rule modifies font size, and another font colour, with continued flow they could both be applied rather than whichever was encountered first." /> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
518 </repeat> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
519 </section> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
520 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
521 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
522 <xml name="integer_comparison"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
523 <conditional name="comparison" > |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
524 <param name="compare" type="select" label="Comparison"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
525 <option value="lt">less than</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
526 <option value="gt">greater than</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
527 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
528 <when value="lt"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
529 <param name="compval" value="0" type="integer" label="value"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
530 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
531 <when value="gt"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
532 <param name="compval" value="0" type="integer" label="value"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
533 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
534 </conditional> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
535 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
536 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
537 <xml name="chromosome_comparison"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
538 <conditional name="comparison" > |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
539 <param name="compare" type="select" label="Comparison"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
540 <option value="on">on chromosome (either side)</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
541 <option value="from">from chromosome</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
542 <option value="to">to chromosome</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
543 <option value="fromto">from-to chromosome</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
544 <option value="between">between chromosomes</option> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
545 </param> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
546 <!-- TODO select chromosome from metadata/file column instead of text fields --> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
547 <when value="on"> |
2
014a21767ac4
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
iuc
parents:
1
diff
changeset
|
548 <param name="compval" value="chr1" type="text" label="Chromosome" help="Comma separated values are supported in this field"/> |
0
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
549 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
550 <when value="from"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
551 <param name="compval" value="chr1" type="text" label="Chromosome"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
552 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
553 <when value="to"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
554 <param name="compval" value="chr1" type="text" label="Chromosome"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
555 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
556 <when value="fromto"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
557 <param name="compval" value="chr1" type="text" label="From Chromosome"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
558 <param name="compval2" value="chr1" type="text" label="To Chromosome"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
559 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
560 <when value="between"> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
561 <param name="compval" value="chr1" type="text" label="Chromosome"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
562 <param name="compval2" value="chr1" type="text" label="Chromosome"/> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
563 </when> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
564 </conditional> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
565 </xml> |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
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566 |
ef5f8bbf7730
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit a41493893bdcbe330434db9c5851719012b62fa8
iuc
parents:
diff
changeset
|
567 </macros> |