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comparison tool_dependencies.xml @ 0:7af33315bc5e draft

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author crs4
date Mon, 09 Sep 2013 06:11:47 -0400
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children f77ce4f92b46
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1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="edge-pro" version="1.3.1">
4 <install version="1.0">
5 <actions>
6 <action type="download_by_url">http://ccb.jhu.edu/software/EDGE-pro/EDGE_pro_v1.3.1.tar.gz</action>
7 <action type="shell_command">make</action>
8 <action type="move_file">
9 <source>count</source>
10 <destination>$INSTALL_DIR/bin</destination>
11 </action>
12 <action type="move_file">
13 <source>edge.pl</source>
14 <destination>$INSTALL_DIR/bin</destination>
15 </action>
16 <action type="set_environment">
17 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
18 </action>
19 </actions>
20 </install>
21 <readme>
22 Dependencies of EDGE-pro which needs to be installed separately:
23 - bowtie2 ( http://bowtie-bio.sourceforge.net/bowtie2/ ), in particular bowtie2, bowtie2-align and bowtie2-build need to be in the $PATH . These are usually already installed for Galaxy;
24 - Switch Perl core module ( http://search.cpan.org/~rgarcia/Switch/Switch.pm ).
25 </readme>
26 </package>
27 </tool_dependency>