Mercurial > repos > yhoogstrate > featurecounts
diff tool_dependencies.xml @ 0:cada2d2f0a7c draft
Uploaded
| author | yhoogstrate |
|---|---|
| date | Wed, 26 Mar 2014 09:12:30 -0400 |
| parents | |
| children | 9fcffbe6c206 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Wed Mar 26 09:12:30 2014 -0400 @@ -0,0 +1,37 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="featurecounts" version="1.4.4"> + <install version="1.0"> + <actions> + <action type="shell_command">wget http://sourceforge.net/projects/subread/files/subread-1.4.4/subread-1.4.4-source.tar.gz && tar -zxvf subread-1.4.4-source.tar.gz && cd subread-1.4.4-source/src/ && make -f Makefile.Linux && cd ../../</action> + <action type="move_file"> + <source>../subread-1.4.4-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">$REPOSITORY_INSTALL_DIR</environment_variable> + </action> + </actions> + </install> + <readme> + Downloads and installs featureCounts; requires WGET, GNU AUTOTOOLS and TAR to be installed! + </readme> + </package> + + <package name="featurecounts2bed" version="1.0.0"> + <install version="1.0"> + <actions> + <action type="shell_command">wget http://yhoogstrate@toolshed.dtls.nl/repos/yhoogstrate/featurecounts/raw-file/tip/featurecounts2bed.sh && chmod 755 *.sh</action> + <action type="move_file"> + <source>../featurecounts2bed.sh</source> + <destination>$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> + </package> +</tool_dependency>