Mercurial > repos > iuc > seqtk

comparison seqtk_listhet.xml @ 15:16f2535c08bf 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/seqtk commit 7379d9f8823d3c639c8119b116e141d0a736ca1d
author iuc
date Mon, 05 Jun 2017 13:26:30 -0400
parents 55e75a28fde7
children 48a51c72f5e7
comparison
equal deleted inserted replaced
14:bdc5ba2a7486 15:16f2535c08bf
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="seqtk_listhet" name="seqtk_listhet" version="@WRAPPER_VERSION@.0"> 2 <tool id="seqtk_listhet" name="seqtk_listhet" version="@WRAPPER_VERSION@.0">
3 <description>extract the position of each het</description> 3 <description>extract the position of each het</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
8 <expand macro="stdio"/> 8 <expand macro="stdio"/>
9 <command><![CDATA[seqtk listhet $in_file | awk 'BEGIN{print "#chr\tposition\tbase"}1' > $default]]></command> 9 <command><![CDATA[
10 <inputs> 10 seqtk listhet
11 <expand macro="in_faq"/> 11 '$in_file' | awk 'BEGIN{print "#chr\tposition\tbase"}1'
12 </inputs> 12 > '$default'
13 <outputs> 13 ]]></command>
14 <data format="tabular" hidden="false" name="default" label="Positions of heterozygous bases in $in_file.name"/> 14 <inputs>
15 </outputs> 15 <expand macro="in_faq"/>
16 <tests> 16 </inputs>
17 <test> 17 <outputs>
18 <param name="in_file" value="seqtk_listhet.fa"/> 18 <data name="default" format="tabular" label="Positions of heterozygous bases in $in_file.name"/>
19 <output name="default" file="seqtk_listhet.out" ftype="tabular"/> 19 </outputs>
20 </test> 20 <tests>
21 </tests> 21 <test>
22 <help><![CDATA[ 22 <param name="in_file" value="seqtk_listhet.fa"/>
23 <output name="default" file="seqtk_listhet.out" ftype="tabular"/>
24 </test>
25 </tests>
26 <help><![CDATA[
23 **What it does** 27 **What it does**
24 28
25 Lists regions of heterozygosity. 29 Lists regions of heterozygosity.
26 30
27 :: 31 ::
41 ambig 9 Y 45 ambig 9 Y
42 ambig 10 K 46 ambig 10 K
43 47
44 48
45 @ATTRIBUTION@ 49 @ATTRIBUTION@
46 ]]></help> 50 ]]></help>
47 <expand macro="citation" /> 51 <expand macro="citation" />
48 </tool> 52 </tool>