Mercurial > repos > yhoogstrate > featurecounts
diff tool_dependencies.xml @ 0:ab0323782bb5 draft
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 |
| parents | |
| children | 63bd455ed299 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Mon May 18 04:49:19 2015 -0400 @@ -0,0 +1,36 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="featurecounts" version="1.4.6.p1"> + <install version="1.0"> + <actions> + <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 && tar -zxvf subread-1.4.6-p1-source.tar.gz && cd subread-1.4.6-p1-source/src/ && make -f Makefile.Linux && cd ../../</action> + <action type="move_file"> + <source>../subread-1.4.6-p1-source/bin/featureCounts</source> + <destination>$INSTALL_DIR/bin/</destination> + </action> + <action type="set_environment"> + <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> + <!--<environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable>--> + </action> + </actions> + </install> + <readme> + Downloads and installs featureCounts; requires WGET, GNU AUTOTOOLS and TAR to be installed. + </readme> + </package> + + <package name="featurecounts2bed" version="1.0.0"> + <install version="1.0"> + <actions> + <action type="shell_command">mkdir $INSTALL_DIR/bin ; cp $REPOSITORY_INSTALL_DIR/featurecounts2bed.sh $INSTALL_DIR/bin/</action> + <action type="chmod"> + <file mode="755">$INSTALL_DIR/bin/featurecounts2bed.sh</file> + </action> + <action type="set_environment"> + <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> + <environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable> + </action> + </actions> + </install> + </package> +</tool_dependency>