Mercurial > repos > yhoogstrate > package_featurecounts_1_4_6

comparison tool_dependencies.xml @ 1:42796f06052f draft default tip

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planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/featurecounts_galaxy_wrapper commit b05640a41e2106782ac7f88f858b0a256918fa6f
author yhoogstrate
date Thu, 10 Sep 2015 05:09:56 -0400
parents a4c247fdd71b
children
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0:a4c247fdd71b 1:42796f06052f
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="featurecounts" version="1.4.6.p1"> 3 <package name="featurecounts" version="1.4.6.p1">
4 <install version="1.0"> 4 <install version="1.0">
5 <actions> 5 <actions>
6 <action type="shell_command"> 6 <action type="download_by_url"
7 wget http://garr.dl.sourceforge.net/project/subread/subread-1.4.6-p1/subread-1.4.6-p1-source.tar.gz &amp;&amp; 7 sha256sum="48e0c516684c4771f965a0a3010fbc0ad55fb54cfd8f7090be3f55e7b5c09f36">http://sourceforge.net/projects/subread/files/subread-1.4.6-p1/subread-1.4.6-p1-source.tar.gz/download</action>
8 tar -zxvf subread-1.4.6-p1-source.tar.gz &amp;&amp; 8 <action type="shell_command"><![CDATA[
9 cd subread-1.4.6-p1-source/src/ &amp;&amp; 9 cd src/ &&
10 make -f Makefile.Linux &amp;&amp; 10 make -f Makefile.Linux
11 cd ../../ 11 ]]></action>
12 </action> 12 <action type="move_file">
13 <action type="move_file"> 13 <source>bin/featureCounts</source>
14 <source>../subread-1.4.6-p1-source/bin/featureCounts</source> 14 <destination>$INSTALL_DIR/bin/</destination>
15 <destination>$INSTALL_DIR/bin/</destination> 15 </action>
16 </action> 16 <action type="set_environment">
17 <action type="set_environment"> 17 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
18 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> 18 </action>
19 <!--<environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable>--> 19 </actions>
20 </action> 20 </install>
21 </actions> 21 <readme>
22 </install> 22 Downloads and installs featureCounts.
23 <readme> 23
24 Downloads and installs featureCounts. 24 Prerequisites:
25 25 - wget
26 Prerequisites: 26 - gnu-autotools (make)
27 - wget 27 - tar
28 - gnu-autotools (make) 28 </readme>
29 - tar 29 </package>
30 </readme>
31 </package>
32 </tool_dependency> 30 </tool_dependency>