Mercurial > repos > iuc > package_piranha_1_2_1
comparison tool_dependencies.xml @ 0:8dd538c6ebaf draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_piranha_1_2_1 commit 67caff6ff1cfac1f4f13d206611856ea7ca737c9
author | iuc |
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date | Wed, 22 Jul 2015 16:52:26 -0400 |
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-1:000000000000 | 0:8dd538c6ebaf |
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1 <?xml version="1.0"?> | |
2 <tool_dependency> | |
3 <package name="gsl" version="1.16"> | |
4 <repository changeset_revision="4391a79f86fa" name="package_gsl_1_16" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> | |
5 </package> | |
6 <package name="bamtools" version="2.3.0_2d7685d2ae"> | |
7 <repository changeset_revision="7d6da4982f19" name="package_bamtools_2_3_0_2d7685d2ae" owner="devteam" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> | |
8 </package> | |
9 <package name="piranha" version="1.2.1"> | |
10 <install version="1.0"> | |
11 <actions> | |
12 <action type="download_by_url">http://smithlabresearch.org/downloads/piranha-1.2.1.tar.gz</action> | |
13 <action type="set_environment_for_install"> | |
14 <repository changeset_revision="4391a79f86fa" name="package_gsl_1_16" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> | |
15 <package name="gsl" version="1.16" /> | |
16 </repository> | |
17 <repository changeset_revision="7d6da4982f19" name="package_bamtools_2_3_0_2d7685d2ae" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu"> | |
18 <package name="bamtools" version="2.3.0_2d7685d2ae" /> | |
19 </repository> | |
20 </action> | |
21 <action type="shell_command">./configure --prefix=$INSTALL_DIR --with-bam_tools_headers=$BAMTOOLS_ROOT_PATH/include/ --with-bam_tools_library=$BAMTOOLS_ROOT_PATH/lib/</action> | |
22 <action type="shell_command">make all</action> | |
23 <action type="shell_command">make install</action> | |
24 <action type="move_directory_files"> | |
25 <source_directory>./bin/</source_directory> | |
26 <destination_directory>$INSTALL_DIR/bin</destination_directory> | |
27 </action> | |
28 <action type="set_environment"> | |
29 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin/</environment_variable> | |
30 <environment_variable action="set_to" name="PIRANHA_ROOT_PATH">$INSTALL_DIR/</environment_variable> | |
31 </action> | |
32 </actions> | |
33 </install> | |
34 <readme>Piranha is a peak-caller for CLIP- and RIP-Seq data. It takes input in BED or BAM format and identifies regions of statistically significant read enrichment. Additional covariates may optionally be provided to further inform the peak-calling process. | |
35 http://smithlabresearch.org/software/piranha/ | |
36 </readme> | |
37 </package> | |
38 </tool_dependency> |