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comparison tool_dependencies.xml @ 21:81d711564625 draft default tip

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author bgruening
date Tue, 19 Nov 2013 18:55:27 -0500
parents 2ecce0ee7183
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20:2ecce0ee7183 21:81d711564625
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="libgd" version="2.1.0"> 3 <package name="libgd" version="2.1.0">
4 <repository changeset_revision="dcbab64c0429" name="package_libgd_2_1" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="55e3d764c6c2" name="package_libgd_2_1" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
5 </package> 5 </package>
6 <package name="perl" version="5.18.1"> 6 <package name="perl" version="5.18.1">
7 <repository changeset_revision="978287122b91" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> 7 <repository changeset_revision="ab58b9f990c5" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
8 </package> 8 </package>
9 <package name="expat" version="2.1.0"> 9 <package name="expat" version="2.1.0">
10 <repository changeset_revision="8fc96166cddd" name="package_expat_2_1" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> 10 <repository changeset_revision="8fc96166cddd" name="package_expat_2_1" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
11 </package>
12 <package name="bzlib" version="1.0.6">
13 <repository changeset_revision="04e1967b1722" name="package_bzlib_1_0" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
14 </package>
15 <package name="libpng" version="1.2.5">
16 <repository changeset_revision="a80a3062f066" name="package_libpng_1_2" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
11 </package> 17 </package>
12 <package name="trans_proteomic_pipeline" version="4.6.3"> 18 <package name="trans_proteomic_pipeline" version="4.6.3">
13 <install version="1.0"> 19 <install version="1.0">
14 <actions> 20 <actions>
15 <action type="setup_perl_environment"> 21 <action type="setup_perl_environment">
16 <repository changeset_revision="978287122b91" name="package_perl_5_18" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu"> 22 <repository changeset_revision="ab58b9f990c5" name="package_perl_5_18" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
17 <package name="perl" version="5.18.1" /> 23 <package name="perl" version="5.18.1" />
24 </repository>
25 <repository changeset_revision="8fc96166cddd" name="package_expat_2_1" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
26 <package name="expat" version="2.1.0" />
18 </repository> 27 </repository>
19 <!-- allow downloading and installing an Perl package from cpan.org--> 28 <!-- allow downloading and installing an Perl package from cpan.org-->
20 29
21 <package>http://search.cpan.org/CPAN/authors/id/T/TO/TODDR/XML-Parser-2.41.tar.gz</package> 30 <package>http://search.cpan.org/CPAN/authors/id/T/TO/TODDR/XML-Parser-2.41.tar.gz</package>
22 <!-- Also possible but not reproducible, due to the fact that always the latest version is installed. 31 <!-- Also possible but not reproducible, due to the fact that always the latest version is installed.
23 <package>XML::Parser</package> 32 <package>XML::Parser</package>
24 --> 33 -->
25 <package>http://search.cpan.org/CPAN/authors/id/L/LD/LDS/CGI.pm-3.43.tar.gz</package> 34 <package>http://search.cpan.org/CPAN/authors/id/L/LD/LDS/CGI.pm-3.43.tar.gz</package>
26
27
28 </action> 35 </action>
29 <action type="change_directory">..</action> 36 <action type="change_directory">..</action>
30 <action type="download_file">https://downloads.sourceforge.net/project/sashimi/Trans-Proteomic%20Pipeline%20%28TPP%29/TPP%20v4.6%20%28occupy%29%20rev%203/TPP-4.6.3.tgz</action> 37 <action type="download_file">https://downloads.sourceforge.net/project/sashimi/Trans-Proteomic%20Pipeline%20%28TPP%29/TPP%20v4.6%20%28occupy%29%20rev%203/TPP-4.6.3.tgz</action>
31 <!-- populate the environment variables from the dependend repos --> 38 <!-- populate the environment variables from the dependend repos -->
32 <action type="set_environment_for_install"> 39 <action type="set_environment_for_install">
33 <repository changeset_revision="dcbab64c0429" name="package_libgd_2_1" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu"> 40 <repository changeset_revision="55e3d764c6c2" name="package_libgd_2_1" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
34 <package name="libgd" version="2.1.0" /> 41 <package name="libgd" version="2.1.0" />
42 </repository>
43 <repository changeset_revision="a80a3062f066" name="package_libpng_1_2" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
44 <package name="libpng" version="1.2.5" />
45 </repository>
46 <repository changeset_revision="04e1967b1722" name="package_bzlib_1_0" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
47 <package name="bzlib" version="1.0.6" />
35 </repository> 48 </repository>
36 </action> 49 </action>
37 <action type="shell_command">tar xfz TPP-4.6.3.tgz</action> 50 <action type="shell_command">tar xfz TPP-4.6.3.tgz</action>
38 <!-- doanload patched version of htmldoc to prevent a TPP crashed during compilation --> 51 <!-- doanload patched version of htmldoc to prevent a TPP crashed during compilation -->
39 <action type="download_file">https://github.com/bgruening/download_store/raw/master/htmldoc/htmldoc_1.8.27-8ubuntu1.debian.tar.gz</action> 52 <action type="download_file">https://github.com/bgruening/download_store/raw/master/htmldoc/htmldoc_1.8.27-8ubuntu1.debian.tar.gz</action>