Mercurial > repos > iuc > package_openms_2_0
annotate tool_dependencies.xml @ 4:78a0d41b76fb draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
| author | iuc |
|---|---|
| date | Thu, 19 Nov 2015 13:49:12 -0500 |
| parents | 1a16c401c5a4 |
| children |
| rev | line source |
|---|---|
| 0 | 1 <?xml version="1.0"?> |
| 2 <tool_dependency> | |
| 3 | 3 <package name="openms" version="2.0"> |
| 0 | 4 <install version="1.0"> |
| 3 | 5 <actions_group> |
| 6 <actions architecture="x86_64" os="linux"> | |
| 7 <action type="download_by_url">https://depot.galaxyproject.org/package/linux/x86_64/openms/openms-2.0-Linux-x86_64.tar.gz</action> | |
| 8 <action type="shell_command">rm openms-2.0-Linux-x86_64.tar.gz</action> | |
| 9 <action type="move_directory_files"> | |
| 10 <source_directory>.</source_directory> | |
| 11 <destination_directory>$INSTALL_DIR</destination_directory> | |
| 12 </action> | |
| 13 <action type="set_environment"> | |
| 14 <environment_variable action="set_to" name="OPENMS_ROOT_PATH">$INSTALL_DIR</environment_variable> | |
| 15 <environment_variable action="set_to" name="OPENMS_DATA_PATH">$INSTALL_DIR/share/OpenMS</environment_variable> | |
| 16 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> | |
| 17 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib</environment_variable> | |
| 18 </action> | |
| 19 </actions> | |
| 20 <actions architecture="x86_64" os="darwin"> | |
| 21 <action type="download_by_url">https://github.com/OpenMS/OpenMS/archive/develop.tar.gz</action> | |
| 22 <action type="download_by_url">https://github.com/OpenMS/contrib/archive/master.tar.gz</action> | |
| 23 <action type="shell_command">mv contrib-master ../contrib</action> | |
| 24 <package name="libtool" version="2.4"> | |
|
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78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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25 <repository changeset_revision="5ccfb33b5622" name="package_libtool_2_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 3 | 26 </package> |
| 27 <package name="Qt" version="4.8"> | |
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78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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28 <repository changeset_revision="d05194d4dc93" name="package_qt_4_8" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 3 | 29 </package> |
| 30 <package name="zlib" version="1.2.8"> | |
|
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78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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31 <repository changeset_revision="03abe628fbe8" name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 3 | 32 </package> |
| 33 <package name="bzlib" version="1.0.6"> | |
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78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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34 <repository changeset_revision="29f79feefc77" name="package_bzlib_1_0" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 3 | 35 </package> |
| 36 <action type="set_environment_for_install"> | |
|
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78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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37 <repository changeset_revision="5ccfb33b5622" name="package_libtool_2_4" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 3 | 38 <package name="libtool" version="2.4" /> |
| 39 </repository> | |
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4
78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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40 <repository changeset_revision="d05194d4dc93" name="package_qt_4_8" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 3 | 41 <package name="Qt" version="4.8" /> |
| 42 </repository> | |
|
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78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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43 <repository changeset_revision="03abe628fbe8" name="package_zlib_1_2_8" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 3 | 44 <package name="zlib" version="1.2.8" /> |
| 45 </repository> | |
|
4
78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
|
46 <repository changeset_revision="29f79feefc77" name="package_bzlib_1_0" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 3 | 47 <package name="bzlib" version="1.0.6" /> |
| 48 </repository> | |
| 49 </action> | |
| 50 <action type="change_directory">../contrib</action> | |
| 51 <action type="shell_command">cmake . -DBUILD_TYPE=SEQAN</action> | |
| 52 <action type="shell_command">cmake . -DBUILD_TYPE=LIBSVM</action> | |
| 53 <action type="shell_command">cmake . -DBUILD_TYPE=XERCESC</action> | |
| 54 <action type="shell_command">cmake . -DBUILD_TYPE=GSL</action> | |
| 55 <action type="shell_command">cmake . -DBUILD_TYPE=BOOST -DNUMBER_OF_JOBS=4</action> | |
| 56 <action type="shell_command">cmake . -DBUILD_TYPE=COINOR</action> | |
| 57 <action type="shell_command">cmake . -DBUILD_TYPE=BZIP2</action> | |
| 58 <action type="shell_command">cmake . -DBUILD_TYPE=GLPK</action> | |
| 59 <action type="shell_command">cmake . -DBUILD_TYPE=EIGEN</action> | |
| 60 <action type="shell_command">cmake . -DBUILD_TYPE=WILDMAGIC</action> | |
| 2 | 61 |
| 3 | 62 <action type="change_directory">..</action> |
| 63 <action type="shell_command">cmake . -DCMAKE_INSTALL_PREFIX=$INSTALL_DIR -DHAS_XSERVER=OFF -DENABLE_TUTORIALS=OFF -DENABLE_STYLE_TESTING=OFF -DENABLE_UNITYBUILD=OFF -DWITH_GUI=OFF</action> | |
|
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78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
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64 <action type="make_install">OpenMS TOPP UTILS</action> |
| 3 | 65 <action type="set_environment"> |
| 66 <environment_variable action="set_to" name="OPENMS_ROOT_PATH">$INSTALL_DIR</environment_variable> | |
|
4
78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
|
67 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> |
| 3 | 68 <environment_variable action="set_to" name="OPENMS_DATA_PATH">$INSTALL_DIR/share/OpenMS</environment_variable> |
|
4
78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
|
69 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib</environment_variable> |
|
78a0d41b76fb
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_openms_2_0 commit 97a064489364118d108b0dd2cfb4d9bc53080837
iuc
parents:
3
diff
changeset
|
70 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[QT_ROOT_DIR]/lib/</environment_variable> |
| 3 | 71 </action> |
| 72 </actions> | |
| 73 </actions_group> | |
| 0 | 74 </install> |
| 75 <readme> | |
| 3 | 76 This package downloads and installs OpenMS. |
| 77 http://open-ms.sourceforge.net/ | |
| 0 | 78 </readme> |
| 79 </package> | |
| 80 </tool_dependency> |