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comparison tool_dependencies.xml @ 2:3b7c93cec1f8 draft

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Uploaded tool dependencies
author antmarge
date Sat, 18 Mar 2017 18:41:28 -0400
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1:5f2dfd76e755 2:3b7c93cec1f8
1 <?xml version="1.0"?>
2 <tool_dependency>
3
4 <set_environment version="1.0">
5 <environment_variable action="set_to" name="LINKYX_PATH">$REPOSITORY_INSTALL_DIR</environment_variable>
6 </set_environment>
7
8 <package name="perl" version="5.18.1">
9 <repository changeset_revision="114b6af405fa" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
10 </package>
11
12 <package name="samtools-fpic" version="0.1.19">
13 <repository changeset_revision="a6c82a5d0b51" name="package_samtools_0_1_19_custom" owner="biomonika" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
14 </package>
15
16 <package name="bioperl" version="1.6.922">
17 <install version="1.0">
18 <actions>
19 <action type="set_environment_for_install">
20 <repository changeset_revision="a6c82a5d0b51" name="package_samtools_0_1_19_custom" owner="biomonika" toolshed="https://toolshed.g2.bx.psu.edu">
21 <package name="samtools-fpic" version="0.1.19" />
22 </repository>
23 <repository changeset_revision="114b6af405fa" name="package_perl_5_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
24 <package name="perl" version="5.18.1" />
25 </repository>
26 </action>
27 <action type="setup_perl_environment">
28
29 <!-- allow downloading and installing an Perl package from cpan.org-->
30 <package>XML::Parser</package>
31 <package>http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.922.tar.gz</package>
32 <package>Bio::DB::Fasta</package>
33 <package>File::Slurp</package>
34 <package>Bio::DB::Sam</package>
35 <package>PerlIO::gzip</package>
36 </action>
37 </actions>
38 </install>
39 <readme>
40 Bundle::BioPerl
41 </readme>
42 </package>
43 </tool_dependency>