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comparison gemini_interactions.xml @ 17:65f742e605ec draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gemini commit 344140b8df53b8b7024618bb04594607a045c03a
author iuc
date Mon, 04 May 2015 22:46:38 -0400
parents 53a5647e5271
children
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16:ae03de7a9fee 17:65f742e605ec
1 <tool id="gemini_@BINARY@" name="GEMINI @BINARY@" version="@VERSION@.0"> 1 <tool id="gemini_@BINARY@" name="GEMINI @BINARY@" version="@VERSION@.0">
2 <description>Find genes among variants that are interacting partners</description> 2 <description>Find genes among variants that are interacting partners</description>
3 <expand macro="requirements" />
4 <expand macro="version_command" />
5 <macros> 3 <macros>
6 <import>gemini_macros.xml</import> 4 <import>gemini_macros.xml</import>
7 <token name="@BINARY@">interactions</token> 5 <token name="@BINARY@">interactions</token>
8 </macros> 6 </macros>
7 <expand macro="requirements" />
8 <expand macro="stdio" />
9 <expand macro="version_command" />
9 <command> 10 <command>
10 <![CDATA[ 11 <![CDATA[
11 gemini 12 gemini
12 --annotation-dir ${annotation_databases.fields.path} 13 --annotation-dir ${annotation_databases.fields.path}
13 #if $gene.gene_selector == 'lof': 14 #if $gene.gene_selector == 'lof':
14 ## lof interactions is a separate program 15 ## lof interactions is a separate program
15 lof_interactions 16 lof_interactions
16 #else: 17 #else:
23 $variant_mode 24 $variant_mode
24 "${ infile }" 25 "${ infile }"
25 > "${ outfile }" 26 > "${ outfile }"
26 ]]> 27 ]]>
27 </command> 28 </command>
28 <expand macro="stdio" />
29 <inputs> 29 <inputs>
30 <expand macro="infile" /> 30 <expand macro="infile" />
31 31
32 <conditional name="gene"> 32 <conditional name="gene">
33 <param name="gene_selector" type="select" label="Studying" help=""> 33 <param name="gene_selector" type="select" label="Studying" help="">