Mercurial > repos > jjohnson > package_hisat_0_1_0_beta
annotate 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 |
| rev | line source |
|---|---|
| 0 | 1 <?xml version="1.0"?> |
| 2 <tool_dependency> | |
| 3 <package name="hisat" version="0.1.0-beta"> | |
| 4 <install version="1.0"> | |
| 5 <actions_group> | |
| 6 <actions architecture="x86_64" os="linux"> | |
| 7 <action type="download_by_url">http://ccb.jhu.edu/software/hisat/downloads/hisat-0.1.0-beta-Linux_x86_64.zip</action> | |
| 8 <action type="move_file"> | |
| 9 <source>hisat</source> | |
| 10 <destination>$INSTALL_DIR/bin</destination> | |
| 11 </action> | |
| 12 <action type="move_file"> | |
| 13 <source>hisat-align</source> | |
| 14 <destination>$INSTALL_DIR/bin</destination> | |
| 15 </action> | |
| 16 <action type="move_file"> | |
| 17 <source>hisat-build</source> | |
| 18 <destination>$INSTALL_DIR/bin</destination> | |
| 19 </action> | |
| 20 <action type="move_file"> | |
| 21 <source>hisat-inspect</source> | |
| 22 <destination>$INSTALL_DIR/bin</destination> | |
| 23 </action> | |
|
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9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
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24 <action type="move_file"> |
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9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
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25 <source>extract_splice_sites.py</source> |
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9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
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26 <destination>$INSTALL_DIR/bin</destination> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
27 </action> |
| 0 | 28 </actions> |
| 29 <actions architecture="x86_64" os="darwin"> | |
| 30 <action type="download_by_url">http://ccb.jhu.edu/software/hisat/downloads/hisat-0.1.0-beta-OSX_x86_64.zip</action> | |
| 31 <action type="move_file"> | |
| 32 <source>hisat</source> | |
| 33 <destination>$INSTALL_DIR/bin</destination> | |
| 34 </action> | |
| 35 <action type="move_file"> | |
| 36 <source>hisat-align</source> | |
| 37 <destination>$INSTALL_DIR/bin</destination> | |
| 38 </action> | |
| 39 <action type="move_file"> | |
| 40 <source>hisat-build</source> | |
| 41 <destination>$INSTALL_DIR/bin</destination> | |
| 42 </action> | |
| 43 <action type="move_file"> | |
| 44 <source>hisat-inspect</source> | |
| 45 <destination>$INSTALL_DIR/bin</destination> | |
| 46 </action> | |
|
1
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
47 <action type="move_file"> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
48 <source>extract_splice_sites.py</source> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
49 <destination>$INSTALL_DIR/bin</destination> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
50 </action> |
| 0 | 51 </actions> |
| 52 <actions> | |
| 53 <action type="download_by_url">http://ccb.jhu.edu/software/hisat/downloads/hisat-0.1.0-beta-source.zip</action> | |
| 54 <action type="shell_command">make</action> | |
| 55 <action type="move_file"> | |
| 56 <source>hisat</source> | |
| 57 <destination>$INSTALL_DIR/bin</destination> | |
| 58 </action> | |
| 59 <action type="move_file"> | |
| 60 <source>hisat-align</source> | |
| 61 <destination>$INSTALL_DIR/bin</destination> | |
| 62 </action> | |
| 63 <action type="move_file"> | |
| 64 <source>hisat-build</source> | |
| 65 <destination>$INSTALL_DIR/bin</destination> | |
| 66 </action> | |
| 67 <action type="move_file"> | |
| 68 <source>hisat-inspect</source> | |
| 69 <destination>$INSTALL_DIR/bin</destination> | |
| 70 </action> | |
|
1
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
71 <action type="move_file"> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
72 <source>extract_splice_sites.py</source> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
73 <destination>$INSTALL_DIR/bin</destination> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
74 </action> |
| 0 | 75 </actions> |
| 76 </actions_group> | |
| 77 <actions> | |
| 78 <action type="chmod"> | |
| 79 <file mode="750">$INSTALL_DIR/bin/hisat</file> | |
| 80 </action> | |
| 81 <action type="chmod"> | |
| 82 <file mode="750">$INSTALL_DIR/bin/hisat-align</file> | |
| 83 </action> | |
| 84 <action type="chmod"> | |
| 85 <file mode="750">$INSTALL_DIR/bin/hisat-build</file> | |
| 86 </action> | |
| 87 <action type="chmod"> | |
| 88 <file mode="750">$INSTALL_DIR/bin/hisat-inspect</file> | |
| 89 </action> | |
|
1
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
90 <action type="chmod"> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
91 <file mode="750">$INSTALL_DIR/bin/extract_splice_sites.py</file> |
|
9dc3a38a440e
Add extract_splice_sites.py for converting GTF files
Jim Johnson <jj@umn.edu>
parents:
0
diff
changeset
|
92 </action> |
| 0 | 93 <action type="set_environment"> |
| 94 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> | |
| 95 </action> | |
| 96 </actions> | |
| 97 </install> | |
| 98 <readme /> | |
| 99 </package> | |
| 100 </tool_dependency> |