Mercurial > repos > devteam > package_cufflinks_2_1_1

comparison tool_dependencies.xml @ 0:1b08f4e80509 draft

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Uploaded tool dependency definition.
author devteam
date Tue, 01 Oct 2013 10:57:19 -0400
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children a8a50dd7f5c6
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-1:000000000000 0:1b08f4e80509
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="cufflinks" version="2.1.1">
4 <install version="1.0">
5 <actions_group>
6 <actions architecture="x86_64" os="linux">
7 <action type="download_by_url">http://cufflinks.cbcb.umd.edu/downloads/cufflinks-2.1.1.Linux_x86_64.tar.gz</action>
8 <action type="move_directory_files">
9 <source_directory>.</source_directory>
10 <destination_directory>$INSTALL_DIR/bin</destination_directory>
11 </action>
12 </actions>
13 <actions architecture="x86_64" os="darwin">
14 <action type="download_by_url">http://cufflinks.cbcb.umd.edu/downloads/cufflinks-2.1.1.OSX_x86_64.tar.gz</action>
15 <action type="move_directory_files">
16 <source_directory>.</source_directory>
17 <destination_directory>$INSTALL_DIR/bin</destination_directory>
18 </action>
19 </actions>
20 <actions>
21 <package name="boost" version="1.54.0">
22 <repository changeset_revision="0464d82a4c3f" name="package_boost_1_54" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
23 </package>
24 <package name="samtools" version="0.1.18">
25 <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
26 </package>
27 <package name="eigen" version="3.2.0">
28 <repository changeset_revision="dfd2503afe0d" name="package_eigen_3_2_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
29 </package>
30 <action type="download_by_url">http://cufflinks.cbcb.umd.edu/downloads/cufflinks-2.1.1.tar.gz</action>
31 <action type="set_environment_for_install">
32 <repository changeset_revision="0464d82a4c3f" name="package_boost_1_54" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
33 <package name="boost" version="1.54.0" />
34 </repository>
35 <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
36 <package name="samtools" version="0.1.18" />
37 </repository>
38 <repository changeset_revision="dfd2503afe0d" name="package_eigen_3_2_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
39 <package name="eigen" version="3.2.0" />
40 </repository>
41 </action>
42 <action type="shell_command">./configure --prefix=$INSTALL_DIR --with-boost=$BOOST_ROOT --with-bam=$BAM_ROOT --with-eigen=$EIGEN_ROOT</action>
43 <action type="shell_command">make &amp;&amp; make install</action>
44 </actions>
45 <action type="set_environment">
46 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
47 </action>
48 </actions_group>
49 </install>
50 <readme />
51 </package>
52 </tool_dependency>