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comparison tool_dependencies.xml @ 6:35c00763cb5c draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gatk2 commit cf399638ebca4250bcc15f468238a9964de97b33
author iuc
date Mon, 04 Jun 2018 05:38:15 -0400
parents f244b8209eb8
children
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5:84584664264c 6:35c00763cb5c
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <set_environment version="1.0"> 3 <set_environment version="1.0">
4 <environment_variable action="set_to" name="GATK2_PATH">/please set the path to your GATK2 dir in the corresponding env.sh file/</environment_variable> 4 <environment_variable action="set_to" name="GATK2_PATH">/please set the path to your GATK2 dir in the corresponding env.sh file/</environment_variable>
5 </set_environment> 5 </set_environment>
6 <!-- 6 <!--
7 Use GATK2_SITE_OPTIONS to set additional parameters that should be inserted in every GATK2 call. 7 Use GATK2_SITE_OPTIONS to set additional parameters that should be inserted in every GATK2 call.
8 The intended use case was to prohibit GATK2 to collect and send data. 8 The intended use case was to prohibit GATK2 to collect and send data.
9 For example: 9 For example:
10 10
11 -et "NO_ET" -K "/data/gatk2_key_file" ##ET no phone home 11 -et "NO_ET" -K "/data/gatk2_key_file" ##ET no phone home
12 --> 12 -->
13 <set_environment version="1.0"> 13 <set_environment version="1.0">
14 <environment_variable action="set_to" name="GATK2_SITE_OPTIONS"> </environment_variable> 14 <environment_variable action="set_to" name="GATK2_SITE_OPTIONS"> </environment_variable>
15 </set_environment> 15 </set_environment>
16 16
17 <package name="samtools" version="0.1.19"> 17 <package name="samtools" version="0.1.19">
18 <repository changeset_revision="923adc89c666" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> 18 <repository changeset_revision="c9bd782f5342" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
19 </package> 19 </package>
20 <package name="picard" version="1.56.0"> 20 <package name="picard" version="1.56.0">
21 <repository changeset_revision="61e41d21cb6f" name="package_picard_1_56_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> 21 <repository changeset_revision="99a28567c3a3" name="package_picard_1_56_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
22 </package> 22 </package>
23 <package name="ggplot2" version="0.9.3"> 23 <package name="ggplot2" version="0.9.3">
24 <repository changeset_revision="87a27fc31fb5" name="package_r_ggplot2_0_9_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> 24 <repository changeset_revision="07de191649b4" name="package_r_ggplot2_0_9_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
25 </package> 25 </package>
26 </tool_dependency> 26 </tool_dependency>