Mercurial > repos > iuc > snpsift

comparison snpSift_vartype.xml @ 3:20c7d583fec1 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit fbc18d9128669e461e76ed13307ee88dd774afa5
author iuc
date Mon, 12 Jun 2017 10:25:32 -0400
parents bf8c1526871b
children 09d6806c609e
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2:bf8c1526871b 3:20c7d583fec1
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <expand macro="stdio" /> 7 <expand macro="stdio" />
8 <expand macro="version_command" /> 8 <expand macro="version_command" />
9 <command><![CDATA[ 9 <command><![CDATA[
10 @CONDA_SNPSIFT_JAR_PATH@ && 10 SnpSift varType
11 java -jar "\$SNPSIFT_JAR_PATH/SnpSift.jar" varType "$input" 2> "$log" > "$output" 11 '$input'
12 ]]> 12 2> '$log'
13 </command> 13 > '$output'
14 ]]></command>
14 <inputs> 15 <inputs>
15 <param format="vcf" name="input" type="data" label="Variant file (VCF)"/> 16 <param name="input" type="data" format="vcf" label="Variant file (VCF)"/>
16 </inputs> 17 </inputs>
17 <outputs> 18 <outputs>
18 <data format="vcf" name="output" label="${tool.name} on ${on_string}: VCF" /> 19 <data name="output" format="vcf" label="${tool.name} on ${on_string}: VCF" />
19 <data format="txt" name="log" label="${tool.name} on ${on_string}: log" /> 20 <data name="log" format="txt" label="${tool.name} on ${on_string}: log" />
20 </outputs> 21 </outputs>
21 <tests> 22 <tests>
22 </tests> 23 </tests>
23 <help><![CDATA[ 24 <help><![CDATA[
24 **What it does** 25 **What it does**
33 34
34 This Galaxy tool is Copyright © 2013-2014 `CRS4 Srl.`_ and is released under the `MIT license`_. 35 This Galaxy tool is Copyright © 2013-2014 `CRS4 Srl.`_ and is released under the `MIT license`_.
35 36
36 .. _CRS4 Srl.: http://www.crs4.it/ 37 .. _CRS4 Srl.: http://www.crs4.it/
37 .. _MIT license: https://opensource.org/licenses/MIT 38 .. _MIT license: https://opensource.org/licenses/MIT
38 ]]> 39 ]]></help>
39 </help>
40 <expand macro="citations" /> 40 <expand macro="citations" />
41 </tool> 41 </tool>