Mercurial > repos > brasset_jensen > srnapipe

view tool_dependencies.xml @ 5:c0d5ef08a84c draft

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author brasset_jensen
date Wed, 20 Dec 2017 05:03:14 -0500
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<?xml version="1.0"?>
<tool_dependency>
  <package name="bwa" version="0.7.12">
    <repository changeset_revision="dcae4134cd62" name="package_bwa_0_7_12" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
  </package>
  <package name="bedtools" version="2.24">
    <repository changeset_revision="3416a1d4a582" name="package_bedtools_2_24" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
  </package>
  <package name="samtools" version="1.2">
    <repository changeset_revision="f6ae3ba3f3c1" name="package_samtools_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
  </package>
  <package name="R" version="3.1.2">
    <repository changeset_revision="6e0eee4ea4e1" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
  </package>
  <package name="Perl" version="5.18">
    <repository changeset_revision="6e0eee4ea4e1" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
  </package>
  <package name="srnapipe" version="0.0.1">
    <install version="1.0">
      <actions>
        <action type="setup_r_environment">
          <repository changeset_revision="6e0eee4ea4e1" name="package_r_3_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
            <package name="R" version="3.1.2" />
          </repository>
          <package>https://depot.galaxyproject.org/software/plotrix/plotrix_3.6_src_all.tar.gz</package>
          <package>https://depot.galaxyproject.org/software/bioconductor-sushi/bioconductor-sushi_1.14.0_src_all.tar.gz</package>
          <package>https://depot.galaxyproject.org/software/RColorBrewer/RColorBrewer_1.1-2_src_all.tar.gz</package>
          <package>https://depot.galaxyproject.org/software/ggplot2/ggplot2_1.0.1_src_all.tar.gz</package>
        </action>
      </actions>
    </install>
  </package>
  <package name="srnapipe" version="0.0.1">
    <install version="1.0">
      <actions>
        <action type="setup_perl_environment">
          <repository changeset_revision="6e0eee4ea4e1" name="package_r_3_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
            <package name="Perl" version="5.18" />
          </repository>
          <package>https://depot.galaxyproject.org/software/perl-statistics-r/perl-statistics-r_0.34_src_all.tar.gz</package>
          <package>https://cpan.metacpan.org/authors/id/Y/YA/YANICK/Parallel-ForkManager-1.19.tar.gz</package>
          <package>https://cpan.metacpan.org/authors/id/F/FA/FANGLY/Statistics-R-0.34.tar.gz</package>
          <package>https://cpan.metacpan.org/authors/id/J/JV/JV/Getopt-Long-2.50.tar.gz</package>
          <package>https://cpan.metacpan.org/authors/id/S/SH/SHLOMIF/String-Random-0.29.tar.gz</package>
        </action>
      </actions>
    </install>
  </package>
</tool_dependency>