Mercurial > repos > yhoogstrate > featurecounts
comparison tool_dependencies.xml @ 1:63bd455ed299 draft
planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/featurecounts commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
| author | yhoogstrate |
|---|---|
| date | Mon, 01 Jun 2015 07:18:31 -0400 |
| parents | ab0323782bb5 |
| children | b5c93611d2c5 |
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| 0:ab0323782bb5 | 1:63bd455ed299 |
|---|---|
| 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 <repository changeset_revision="a4c247fdd71b" name="package_featurecounts_1_4_6" owner="yhoogstrate" toolshed="https://toolshed.g2.bx.psu.edu" /> |
| 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 && tar -zxvf subread-1.4.6-p1-source.tar.gz && cd subread-1.4.6-p1-source/src/ && make -f Makefile.Linux && 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> | 5 </package> |
| 21 | 6 |
| 22 <package name="featurecounts2bed" version="1.0.0"> | 7 <package name="featurecounts2bed" version="1.0.0"> |
| 23 <install version="1.0"> | 8 <install version="1.0"> |
| 24 <actions> | 9 <actions> |
| 25 <action type="shell_command">mkdir $INSTALL_DIR/bin ; cp $REPOSITORY_INSTALL_DIR/featurecounts2bed.sh $INSTALL_DIR/bin/</action> | 10 <action type="shell_command">mkdir $INSTALL_DIR/bin ; cp $REPOSITORY_INSTALL_DIR/featurecounts2bed.sh $INSTALL_DIR/bin/</action> |
| 26 <action type="chmod"> | 11 <action type="chmod"> |
| 27 <file mode="755">$INSTALL_DIR/bin/featurecounts2bed.sh</file> | 12 <file mode="755">$INSTALL_DIR/bin/featurecounts2bed.sh</file> |
| 28 </action> | 13 </action> |
| 29 <action type="set_environment"> | 14 <action type="set_environment"> |
| 30 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> | 15 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> |
| 31 <environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable> | 16 <environment_variable action="prepend_to" name="PATH">$REPOSITORY_INSTALL_DIR</environment_variable> |
| 32 </action> | 17 </action> |
| 33 </actions> | 18 </actions> |
| 34 </install> | 19 </install> |
| 35 </package> | 20 </package> |
| 36 </tool_dependency> | 21 </tool_dependency> |