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comparison snpEff_macros.xml @ 32:ebe9fd7e5bd1 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 280d5247becaa9a70db9c5c4a2f1fc50d302838a
author iuc
date Mon, 18 Nov 2024 22:15:18 +0000
parents b7029a54f73e
children 94653948fdb9
comparison
equal deleted inserted replaced
31:b7029a54f73e 32:ebe9fd7e5bd1
1 <macros> 1 <macros>
2 <xml name="requirement"> 2 <token name="@TOOL_VERSION@">5.2</token>
3 <requirement type="package" version="5.2">snpeff</requirement> 3 <token name="@VERSION_SUFFIX@">0</token>
4 <yield/> 4 <token name="@SNPEFF_VERSION@">SnpEff5.2</token>
5 </xml> 5 <xml name="requirement">
6 <requirement type="package" version="@TOOL_VERSION@">snpeff</requirement>
7 <yield/>
8 </xml>
6 <xml name="stdio"> 9 <xml name="stdio">
7 <stdio> 10 <stdio>
8 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> 11 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" />
9 <exit_code range="1:" level="fatal" description="Error" /> 12 <exit_code range="1:" level="fatal" description="Error" />
10 </stdio> 13 </stdio>
12 <xml name="version_command"> 15 <xml name="version_command">
13 <version_command><![CDATA[ 16 <version_command><![CDATA[
14 snpEff -version 17 snpEff -version
15 ]]></version_command> 18 ]]></version_command>
16 </xml> 19 </xml>
17 <token name="@WRAPPER_VERSION@">0</token>
18 <token name="@SNPEFF_VERSION@">5.2</token>
19 <token name="@JAVA_OPTIONS@">-Xmx\${GALAXY_MEMORY_MB:-8192}m</token> 20 <token name="@JAVA_OPTIONS@">-Xmx\${GALAXY_MEMORY_MB:-8192}m</token>
20 <xml name="ref_select"> 21 <xml name="ref_select">
21 <conditional name="reference_source"> 22 <conditional name="reference_source">
22 <param name="reference_source_selector" type="select" label="Choose the source for the reference genome"> 23 <param name="reference_source_selector" type="select" label="Choose the source for the reference genome">
23 <option value="cached">Locally cached</option> 24 <option value="cached">Locally cached</option>