Mercurial > repos > lz_hust > gatktools
comparison tool_dependencies.xml @ 15:01ff8dd37d4d draft default tip
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| author | lz_hust |
|---|---|
| date | Sat, 01 Jun 2019 07:20:41 -0400 |
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| children |
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| 14:68426930d59c | 15:01ff8dd37d4d |
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| 1 <?xml version="1.0"?> | |
| 2 <tool_dependency> | |
| 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> | |
| 5 </set_environment> | |
| 6 <!-- | |
| 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. | |
| 9 For example: | |
| 10 | |
| 11 -et "NO_ET" -K "/data/gatk2_key_file" ##ET no phone home | |
| 12 --> | |
| 13 <set_environment version="1.0"> | |
| 14 <environment_variable action="set_to" name="GATK2_SITE_OPTIONS"> </environment_variable> | |
| 15 </set_environment> | |
| 16 | |
| 17 <package name="samtools" version="0.1.19"> | |
| 18 <repository changeset_revision="c9bd782f5342" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> | |
| 19 </package> | |
| 20 <package name="picard" version="1.56.0"> | |
| 21 <repository changeset_revision="99a28567c3a3" name="package_picard_1_56_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> | |
| 22 </package> | |
| 23 <package name="ggplot2" version="0.9.3"> | |
| 24 <repository changeset_revision="07de191649b4" name="package_r_ggplot2_0_9_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> | |
| 25 </package> | |
| 26 </tool_dependency> |