Mercurial > repos > iuc > bedtools

comparison bed12ToBed6.xml @ 34:dde39ba9c031 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 b68002321ade5e160c556517a98ffb70f068be95
author iuc
date Mon, 29 Apr 2019 05:55:48 -0400
parents 4f7a5ccd2ae9
children 3e38c9b3214f
comparison
equal deleted inserted replaced
33:87ee588b3d45 34:dde39ba9c031
1 <tool id="bedtools_bed12tobed6" name="bedtools BED12 to BED6" version="@WRAPPER_VERSION@"> 1 <tool id="bedtools_bed12tobed6" name="bedtools BED12 to BED6" version="@TOOL_VERSION@">
2 <description>converter</description> 2 <description>converter</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <expand macro="stdio" /> 7 <expand macro="stdio" />
8 <command> 8 <command><![CDATA[
9 <![CDATA[ 9 bed12ToBed6
10 bed12ToBed6 10 -i '$input'
11 -i '$input' 11 > '$output'
12 > '$output' 12 ]]></command>
13 ]]>
14 </command>
15 <inputs> 13 <inputs>
16 <param format="bed" name="input" type="data" label="Convert the following BED12 file to BED6"/> 14 <param name="input" argument="-i" type="data" format="bed" label="Convert the following BED12 file to BED6"/>
17 </inputs> 15 </inputs>
18 <outputs> 16 <outputs>
19 <data format="bed" name="output" metadata_source="input" label="${input.name} (as BED6)"/> 17 <data name="output" format="bed" metadata_source="input" label="${input.name} (as BED6)"/>
20 </outputs> 18 </outputs>
21 <tests> 19 <tests>
22 <test> 20 <test>
23 <param name="input" value="bed12.bed" ftype="bed" /> 21 <param name="input" value="bed12.bed" ftype="bed" />
24 <output name="output" file="bed12ToBed6_result1.bed" ftype="bed" /> 22 <output name="output" file="bed12ToBed6_result1.bed" ftype="bed" />
25 </test> 23 </test>
26 </tests> 24 </tests>
27 <help> 25 <help><![CDATA[
28 <![CDATA[
29 **What it does** 26 **What it does**
30 27
31 bed12ToBed6 is a convenience tool that converts BED features in BED12 (a.k.a. “blocked” BED features such as genes) to discrete BED6 features. For example, in the case of a gene with six exons, bed12ToBed6 would create six separate BED6 features (i.e., one for each exon). 28 bed12ToBed6 is a convenience tool that converts BED features in BED12 (a.k.a. “blocked” BED features such as genes) to discrete BED6 features. For example, in the case of a gene with six exons, bed12ToBed6 would create six separate BED6 features (i.e., one for each exon).
32 29
33 @REFERENCES@ 30 @REFERENCES@
34 ]]> 31 ]]></help>
35 </help>
36 <expand macro="citations" /> 32 <expand macro="citations" />
37 </tool> 33 </tool>