Mercurial > repos > yhoogstrate > featurecounts

comparison tool_dependencies.xml @ 0:ab0323782bb5 draft

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planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/featurecounts commit cc900436bad9c6cca1f73d438c1f158d3bfc4318-dirty
author yhoogstrate
date Mon, 18 May 2015 04:49:19 -0400
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children 63bd455ed299
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-1:000000000000 0:ab0323782bb5
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="featurecounts" version="1.4.6.p1">
4 <install version="1.0">
5 <actions>
6 <action type="shell_command">wget http://garr.dl.sourceforge.net/project/subread/subread-1.4.6-p1/subread-1.4.6-p1-source.tar.gz &amp;&amp; tar -zxvf subread-1.4.6-p1-source.tar.gz &amp;&amp; cd subread-1.4.6-p1-source/src/ &amp;&amp; make -f Makefile.Linux &amp;&amp; cd ../../</action>
7 <action type="move_file">
8 <source>../subread-1.4.6-p1-source/bin/featureCounts</source>
9 <destination>$INSTALL_DIR/bin/</destination>
10 </action>
11 <action type="set_environment">
12 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
13 <!--<environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable>-->
14 </action>
15 </actions>
16 </install>
17 <readme>
18 Downloads and installs featureCounts; requires WGET, GNU AUTOTOOLS and TAR to be installed.
19 </readme>
20 </package>
21
22 <package name="featurecounts2bed" version="1.0.0">
23 <install version="1.0">
24 <actions>
25 <action type="shell_command">mkdir $INSTALL_DIR/bin ; cp $REPOSITORY_INSTALL_DIR/featurecounts2bed.sh $INSTALL_DIR/bin/</action>
26 <action type="chmod">
27 <file mode="755">$INSTALL_DIR/bin/featurecounts2bed.sh</file>
28 </action>
29 <action type="set_environment">
30 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
31 <environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable>
32 </action>
33 </actions>
34 </install>
35 </package>
36 </tool_dependency>