Mercurial > repos > iuc > bedtools

annotate expandBed.xml @ 40:a68aa6c1204a draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 29bd1be4655cd26052095a49a8e188d2572b703b"
author iuc
date Thu, 09 Sep 2021 13:04:07 +0000
parents 3e38c9b3214f
children 7ab85ac5f64b
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
39
3e38c9b3214f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 1e25e8d0bd1ebeb2b94c4bbdff222e56defc1fc2"
iuc
parents: 34
diff changeset
1 <tool id="bedtools_expandbed" name="bedtools ExpandBed" version="@TOOL_VERSION@" profile="@PROFILE@">
4
607c0576c6ab planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 6692e3a4fa1bf6e9a407735afdbb2454ed32b316
iuc
parents: 1
diff changeset
2 <description>replicate lines based on lists of values in columns</description>
39
3e38c9b3214f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 1e25e8d0bd1ebeb2b94c4bbdff222e56defc1fc2"
iuc
parents: 34
diff changeset
3 <expand macro="bio_tools" />
0
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
4 <macros>
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
5 <import>macros.xml</import>
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
6 </macros>
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
7 <expand macro="requirements" />
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
8 <expand macro="stdio" />
34
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
9 <command><![CDATA[
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
10 bedtools expand
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
11 -c '${cols}'
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
12 -i '${input}'
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
13 > '${output}'
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
14 ]]></command>
0
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
15 <inputs>
34
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
16 <param name="input" argument="-i" type="data" format="@STD_BEDTOOLS_INPUTS@" label="@STD_BEDTOOLS_INPUT_LABEL@ file"/>
1
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
17 <expand macro="choose_columns" />
0
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
18 </inputs>
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
19 <outputs>
34
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
20 <data name="output" format_source="input" metadata_source="input" />
0
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
21 </outputs>
1
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
22 <tests>
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
23 <test>
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
24 <param name="input" value="expandBed1.bed" ftype="bed" />
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
25 <param name="cols" value="5"/>
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
26 <output name="output" file="expandBed_result1.bed" ftype="bed" />
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
27 </test>
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
28 <test>
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
29 <param name="input" value="expandBed1.bed" ftype="bed" />
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
30 <param name="cols" value="4,5"/>
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
31 <output name="output" file="expandBed_result2.bed" ftype="bed" />
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
32 </test>
82aac94b06c3 Uploaded
iuc
parents: 0
diff changeset
33 </tests>
34
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
34 <help><![CDATA[
0
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
35 **What it does**
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
36
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
37 Replicate lines in a file based on columns of comma-separated values.
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
38
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
39 @REFERENCES@
34
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
iuc
parents: 32
diff changeset
40 ]]></help>
0
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
41 <expand macro="citations" />
b8348686a0b9 Imported from capsule None
iuc
parents:
diff changeset
42 </tool>