Mercurial > repos > jjohnson > package_hisat_0_1_0_beta
comparison tool_dependencies.xml @ 1:9dc3a38a440e default tip
Add extract_splice_sites.py for converting GTF files
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Fri, 25 Jul 2014 11:13:18 -0500 |
| parents | 53ed3caf1d9d |
| children |
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| 0:53ed3caf1d9d | 1:9dc3a38a440e |
|---|---|
| 19 </action> | 19 </action> |
| 20 <action type="move_file"> | 20 <action type="move_file"> |
| 21 <source>hisat-inspect</source> | 21 <source>hisat-inspect</source> |
| 22 <destination>$INSTALL_DIR/bin</destination> | 22 <destination>$INSTALL_DIR/bin</destination> |
| 23 </action> | 23 </action> |
| 24 <action type="move_file"> | |
| 25 <source>extract_splice_sites.py</source> | |
| 26 <destination>$INSTALL_DIR/bin</destination> | |
| 27 </action> | |
| 24 </actions> | 28 </actions> |
| 25 <actions architecture="x86_64" os="darwin"> | 29 <actions architecture="x86_64" os="darwin"> |
| 26 <action type="download_by_url">http://ccb.jhu.edu/software/hisat/downloads/hisat-0.1.0-beta-OSX_x86_64.zip</action> | 30 <action type="download_by_url">http://ccb.jhu.edu/software/hisat/downloads/hisat-0.1.0-beta-OSX_x86_64.zip</action> |
| 27 <action type="move_file"> | 31 <action type="move_file"> |
| 28 <source>hisat</source> | 32 <source>hisat</source> |
| 36 <source>hisat-build</source> | 40 <source>hisat-build</source> |
| 37 <destination>$INSTALL_DIR/bin</destination> | 41 <destination>$INSTALL_DIR/bin</destination> |
| 38 </action> | 42 </action> |
| 39 <action type="move_file"> | 43 <action type="move_file"> |
| 40 <source>hisat-inspect</source> | 44 <source>hisat-inspect</source> |
| 45 <destination>$INSTALL_DIR/bin</destination> | |
| 46 </action> | |
| 47 <action type="move_file"> | |
| 48 <source>extract_splice_sites.py</source> | |
| 41 <destination>$INSTALL_DIR/bin</destination> | 49 <destination>$INSTALL_DIR/bin</destination> |
| 42 </action> | 50 </action> |
| 43 </actions> | 51 </actions> |
| 44 <actions> | 52 <actions> |
| 45 <action type="download_by_url">http://ccb.jhu.edu/software/hisat/downloads/hisat-0.1.0-beta-source.zip</action> | 53 <action type="download_by_url">http://ccb.jhu.edu/software/hisat/downloads/hisat-0.1.0-beta-source.zip</action> |
| 58 </action> | 66 </action> |
| 59 <action type="move_file"> | 67 <action type="move_file"> |
| 60 <source>hisat-inspect</source> | 68 <source>hisat-inspect</source> |
| 61 <destination>$INSTALL_DIR/bin</destination> | 69 <destination>$INSTALL_DIR/bin</destination> |
| 62 </action> | 70 </action> |
| 71 <action type="move_file"> | |
| 72 <source>extract_splice_sites.py</source> | |
| 73 <destination>$INSTALL_DIR/bin</destination> | |
| 74 </action> | |
| 63 </actions> | 75 </actions> |
| 64 </actions_group> | 76 </actions_group> |
| 65 <actions> | 77 <actions> |
| 66 <action type="chmod"> | 78 <action type="chmod"> |
| 67 <file mode="750">$INSTALL_DIR/bin/hisat</file> | 79 <file mode="750">$INSTALL_DIR/bin/hisat</file> |
| 73 <file mode="750">$INSTALL_DIR/bin/hisat-build</file> | 85 <file mode="750">$INSTALL_DIR/bin/hisat-build</file> |
| 74 </action> | 86 </action> |
| 75 <action type="chmod"> | 87 <action type="chmod"> |
| 76 <file mode="750">$INSTALL_DIR/bin/hisat-inspect</file> | 88 <file mode="750">$INSTALL_DIR/bin/hisat-inspect</file> |
| 77 </action> | 89 </action> |
| 90 <action type="chmod"> | |
| 91 <file mode="750">$INSTALL_DIR/bin/extract_splice_sites.py</file> | |
| 92 </action> | |
| 78 <action type="set_environment"> | 93 <action type="set_environment"> |
| 79 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> | 94 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> |
| 80 </action> | 95 </action> |
| 81 </actions> | 96 </actions> |
| 82 </install> | 97 </install> |