Mercurial > repos > malbuquerque > delly

comparison tool_dependencies.xml @ 21:1f34eceec4ad draft

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author malbuquerque
date Tue, 20 Jan 2015 17:43:14 -0500
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20:934ffa4899db 21:1f34eceec4ad
1 <?xml version="1.0"?>
2 <tool_dependency>
3
4 <package name="boost" version="1.53.0">
5 <repository changeset_revision="cee17eb9de41" name="package_boost_1_53" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
6 </package>
7
8 <package name="bamtools" version="2.3.0">
9 <repository changeset_revision="ad46b5210186" name="package_bamtools_2_3_0" owner="malbuquerque" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
10 </package>
11
12 <package name="seqtk" version="1.0.0">
13 <repository changeset_revision="35f0f4568ded" name="package_seqtk_1_0_0" owner="malbuquerque" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
14 </package>
15
16 <package name="delly" version="0.6.1">
17 <install version="1.0">
18 <actions>
19 <action type="shell_command"> ls $BOOST_ROOT </action>
20 <action type="shell_command"> ls $SEQTK_ROOT </action>
21 <action type="shell_command"> ls $BAMTOOLS_ROOT </action>
22 <action type="download_by_url">https://github.com/tobiasrausch/delly/archive/v0.6.1.tar.gz</action>
23 <action type="shell_command">make -f $REPOSITORY_INSTALL_DIR/Makefile all BOOST_ROOT=$BOOST_ROOT BAMTOOLS_ROOT=$BAMTOOLS_ROOT SEQTK_ROOT=$SEQTK_ROOT</action>
24 <action type="move_directory_files">
25 <source_directory>.</source_directory>
26 <destination_directory>$INSTALL_DIR</destination_directory>
27 </action>
28 <action type="set_environment">
29 <environment_variable action="set_to" name="DELLY_DIR">$INSTALL_DIR</environment_variable>
30 </action>
31 </actions>
32 </install>
33 </package>
34
35 </tool_dependency>