Mercurial > repos > bjoern-gruening > bismark
comparison bismark_wrapper/tool_dependencies.xml @ 1:183de9d00131 draft
add indices.loc files
| author | bjoern-gruening |
|---|---|
| date | Tue, 25 Dec 2012 05:52:28 -0500 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| 0:36d124f44c0a | 1:183de9d00131 |
|---|---|
| 1 <?xml version="1.0"?> | |
| 2 <tool_dependency> | |
| 3 <set_environment version="1.0"> | |
| 4 <environment_variable name="SCRIPT_PATH" action="set_to">$REPOSITORY_INSTALL_DIR</environment_variable> | |
| 5 </set_environment> | |
| 6 <package name="bowtie2" version="2.0.0-beta7"> | |
| 7 <install version="1.0"> | |
| 8 <actions> | |
| 9 <action type="download_by_url">http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.0.0-beta7/bowtie2-2.0.0-beta7-source.zip</action> | |
| 10 <action type="shell_command">make</action> | |
| 11 <action type="move_file"> | |
| 12 <source>bowtie2</source> | |
| 13 <destination>$INSTALL_DIR/bin</destination> | |
| 14 </action> | |
| 15 <action type="move_file"> | |
| 16 <source>bowtie2-align</source> | |
| 17 <destination>$INSTALL_DIR/bin</destination> | |
| 18 </action> | |
| 19 <action type="move_file"> | |
| 20 <source>bowtie2-build</source> | |
| 21 <destination>$INSTALL_DIR/bin</destination> | |
| 22 </action> | |
| 23 <action type="shell_command">chmod +x $INSTALL_DIR/bin/bowtie2</action> | |
| 24 <action type="set_environment"> | |
| 25 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> | |
| 26 </action> | |
| 27 </actions> | |
| 28 </install> | |
| 29 <readme> | |
| 30 Compiling bowtie2 requires zlib and libpthread to be present on your system. | |
| 31 </readme> | |
| 32 </package> | |
| 33 <package name="bowtie" version="0.12.8"> | |
| 34 <install version="1.0"> | |
| 35 <actions> | |
| 36 <action type="download_by_url">http://downloads.sourceforge.net/project/bowtie-bio/bowtie/0.12.8/bowtie-0.12.8-src.zip</action> | |
| 37 <action type="shell_command">make</action> | |
| 38 <action type="move_file"> | |
| 39 <source>bowtie</source> | |
| 40 <destination>$INSTALL_DIR/bin</destination> | |
| 41 </action> | |
| 42 <action type="move_file"> | |
| 43 <source>bowtie-inspect</source> | |
| 44 <destination>$INSTALL_DIR/bin</destination> | |
| 45 </action> | |
| 46 <action type="move_file"> | |
| 47 <source>bowtie-build</source> | |
| 48 <destination>$INSTALL_DIR/bin</destination> | |
| 49 </action> | |
| 50 <action type="set_environment"> | |
| 51 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> | |
| 52 </action> | |
| 53 </actions> | |
| 54 </install> | |
| 55 <readme> | |
| 56 </readme> | |
| 57 </package> | |
| 58 </tool_dependency> | |
| 59 | |
| 60 | |
| 61 |