Mercurial > repos > yhoogstrate > varscan_mpileup2snp_from_bam
comparison tool_dependencies.xml @ 9:bd04d35e443d
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| author | yhoogstrate |
|---|---|
| date | Tue, 17 Dec 2013 06:36:29 -0500 |
| parents | f10575563c5d |
| children | dd96b65174df |
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| 8:f10575563c5d | 9:bd04d35e443d |
|---|---|
| 3 <package name="samtools-mpileup-parallel" version="1.0.19"> | 3 <package name="samtools-mpileup-parallel" version="1.0.19"> |
| 4 <install version="1.0"> | 4 <install version="1.0"> |
| 5 <actions> | 5 <actions> |
| 6 <action type="shell_command">svn checkout https://github.com/mydatascience/parallel-mpileup/trunk samtools-mpileup-parallel && cd samtools-mpileup-parallel && cd $(ls |grep samtools-) && make && cp samtools ../samtools-mpileup-parallel</action> | 6 <action type="shell_command">svn checkout https://github.com/mydatascience/parallel-mpileup/trunk samtools-mpileup-parallel && cd samtools-mpileup-parallel && cd $(ls |grep samtools-) && make && cp samtools ../samtools-mpileup-parallel</action> |
| 7 <action type="move_file"> | 7 <action type="move_file"> |
| 8 <source>samtools-mpileup-parallel/samtools-mpileup-parallel</source> | 8 <source>samtools-mpileup-parallel</source> |
| 9 <destination>$INSTALL_DIR/bin</destination> | 9 <destination>$INSTALL_DIR/bin</destination> |
| 10 </action> | 10 </action> |
| 11 <action type="set_environment"> | 11 <action type="set_environment"> |
| 12 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> | 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> | 13 <environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable> |