|
0
|
1 <?xml version="1.0"?>
|
|
|
2 <tool_dependency>
|
|
|
3
|
|
|
4 <package name="boost" version="1.53">
|
|
|
5 <repository changeset_revision="cee17eb9de41" name="package_boost_1_53" owner="iuc" 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" 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" toolshed="https://toolshed.g2.bx.psu.edu" />
|
|
|
14 </package>
|
|
|
15
|
|
|
16 <package name="delly" version="0.6.1">
|
|
1
|
17 <install version="1.0">
|
|
0
|
18 <actions>
|
|
|
19 <action type="download_by_url">https://github.com/tobiasrausch/delly/archive/v0.6.1.tar.gz</action>
|
|
3
|
20 <action type="shell_command">git clone https://github.com/morinlab/galaxy_tools.git</action>
|
|
2
|
21 <action type="move_directory_files">
|
|
|
22 <source_directory>./galaxy_tools/delly/Makefile</source_directory>
|
|
|
23 <destination_directory>.</destination_directory>
|
|
|
24 </action>
|
|
0
|
25 <action type="shell_command">make all BOOST_ROOT=\$BOOST_ROOT BAMTOOLS_ROOT=\$BAMTOOLS_ROOT SEQTK_ROOT=\$SEQTK_ROOT</action>
|
|
|
26 <action type="move_directory_files">
|
|
|
27 <source_directory>.</source_directory>
|
|
|
28 <destination_directory>$INSTALL_DIR</destination_directory>
|
|
|
29 </action>
|
|
|
30 <action type="set_environment">
|
|
|
31 <environment_variable action="set_to" name="DELLY_DIR">$INSTALL_DIR</environment_variable>
|
|
|
32 </action>
|
|
|
33 </actions>
|
|
|
34 </install>
|
|
|
35 </package>
|
|
|
36
|
|
|
37 </tool_dependency>
|
