Mercurial > repos > iuc > snpsift_dbnsfp_generic

comparison snpSift_macros.xml @ 0:6e5ba121e250 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift_dbnsfp_generic/ commit d12355cea76843e3ed6f09d96c3e9fe22afe4a4f
author iuc
date Mon, 05 Dec 2016 12:05:54 -0500
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-1:000000000000 0:6e5ba121e250
1 <macros>
2 <xml name="requirements">
3 <requirements>
4 <requirement type="package" version="4.1">snpsift</requirement>
5 </requirements>
6 </xml>
7 <xml name="stdio">
8 <stdio>
9 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" />
10 <exit_code range="1:" level="fatal" description="Error" />
11 </stdio>
12 </xml>
13 <token name="@CONDA_SNPSIFT_JAR_PATH@">if [ -z "\$SNPSIFT_JAR_PATH" ]; then export SNPSIFT_JAR_PATH=\$(dirname \$(readlink -e \$(which SnpSift))); fi</token>
14 <xml name="version_command">
15 <version_command><![CDATA[
16 if [ -z "$SNPSIFT_JAR_PATH" ]; then export SNPSIFT_JAR_PATH=$(dirname $(readlink -e $(which SnpSift))); fi &&
17 java -jar "$SNPSIFT_JAR_PATH/SnpSift.jar" dbnsfp 2>&1|head -n 1
18 ]]></version_command>
19 </xml>
20 <token name="@WRAPPER_VERSION@">4.1</token>
21 <token name="@EXTERNAL_DOCUMENTATION@">
22
23 For details about this tool, please go to:
24 http://snpeff.sourceforge.net/SnpEff_manual.html
25
26 </token>
27 <xml name="citations">
28 <citations>
29 <citation type="doi">10.3389/fgene.2012.00035</citation>
30 <yield />
31 </citations>
32 </xml>
33 </macros>