Mercurial > repos > crs4 > blat

comparison tool_dependencies.xml @ 4:5e43533e3ed9 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Use package_blat_35x1 in tool_dependencies.xml. Add readme.rst .
author crs4
date Mon, 25 Nov 2013 04:59:52 -0500
parents c4ad58c4bc7d
children 34e40c872149
comparison
equal deleted inserted replaced
3:d78b8fe7ca83 4:5e43533e3ed9
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="blat" version="35"> 3 <package name="blat" version="35">
4 <!-- <repository name="package_blat_35x1" owner="iuc" /> This may be used instead of everything inside <install> when a stable Galaxy release will support the 'download_binary' action type --> 4 <repository changeset_revision="84c54f1fa280" name="package_blat_35x1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" />
5 <install version="1.0">
6 <actions>
7 <action type="download_by_url" target_filename="blatSrc.zip">http://hgwdev.cse.ucsc.edu/~kent/src/blatSrc35.zip</action>
8 <action type="shell_command">export MACHTYPE=`uname -m` &amp;&amp; export HOME=$INSTALL_DIR &amp;&amp; mkdir -p $HOME/bin/$MACHTYPE &amp;&amp; make</action>
9 <action type="set_environment">
10 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin/`uname -m`</environment_variable>
11 </action>
12 </actions>
13 </install>
14 <readme>
15 BLAT sequence aligner from the UCSC: http://genome.ucsc.edu/FAQ/FAQblat.html
16 Git development repository: http://genome-source.cse.ucsc.edu/gitweb/?p=kent.git
17
18 Please note that the BLAT source and executables are freely available for
19 academic, nonprofit and personal use. Commercial licensing information is
20 available on the Kent Informatics website (http://www.kentinformatics.com/).
21 </readme>
22 </package> 5 </package>
23 </tool_dependency> 6 </tool_dependency>