Mercurial > repos > iuc > package_atlas_3_10
comparison tool_dependencies.xml @ 5:c0a66ce2a119 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_atlas_3_10 commit 4e829bc62e1328b12abf9d43112967296dcfed7a
author | iuc |
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date | Thu, 16 Jun 2016 12:14:27 -0400 |
parents | f27d2f8761ae |
children | 9b900e1578be |
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4:f27d2f8761ae | 5:c0a66ce2a119 |
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2 <tool_dependency> | 2 <tool_dependency> |
3 <package name="atlas" version="3.10.2"> | 3 <package name="atlas" version="3.10.2"> |
4 <install version="1.0"> | 4 <install version="1.0"> |
5 <actions_group> | 5 <actions_group> |
6 <actions architecture="x86_64" os="linux"> | 6 <actions architecture="x86_64" os="linux"> |
7 <action type="download_by_url" sha256sum="c36a9edf352aa3652ae2c3cccf752351e12291c1d018da842093f9dc70fa2da3"> | 7 <action type="download_by_url" sha256sum="c36a9edf352aa3652ae2c3cccf752351e12291c1d018da842093f9dc70fa2da3">https://depot.galaxyproject.org/software/atlas/atlas_3.10.2_linux_x64.tar.gz</action> |
8 https://depot.galaxyproject.org/software/atlas/atlas_3.10.2_linux_x64.tar.gz | |
9 </action> | |
10 <action type="move_directory_files"> | 8 <action type="move_directory_files"> |
11 <source_directory>.</source_directory> | 9 <source_directory>.</source_directory> |
12 <destination_directory>$INSTALL_DIR</destination_directory> | 10 <destination_directory>$INSTALL_DIR</destination_directory> |
13 </action> | 11 </action> |
14 <action type="set_environment"> | 12 <action type="set_environment"> |
38 </actions> | 36 </actions> |
39 <actions architecture="x86_64" os="darwin"> | 37 <actions architecture="x86_64" os="darwin"> |
40 <!-- NOOP: On OS X we will use Apple's vecLib --> | 38 <!-- NOOP: On OS X we will use Apple's vecLib --> |
41 </actions> | 39 </actions> |
42 <actions> | 40 <actions> |
43 <action type="download_file" sha256sum="3aab139b118bf3fcdb4956fbd71676158d713ab0d3bccb2ae1dc3769db22102f"> | 41 <action type="download_file" sha256sum="3aab139b118bf3fcdb4956fbd71676158d713ab0d3bccb2ae1dc3769db22102f">https://depot.galaxyproject.org/software/atlas/atlas_3.10.2+gx0_src_all.tar.bz2</action> |
44 https://depot.galaxyproject.org/software/atlas/atlas_3.10.2+gx0_src_all.tar.bz2 | 42 <action type="download_file" sha256sum="9ad8f0d3f3fb5521db49f2dd716463b8fb2b6bc9dc386a9956b8c6144f726352">https://depot.galaxyproject.org/software/lapack/lapack_3.5.0_src_all.tar.gz</action> |
45 </action> | 43 <action type="download_file" sha256sum="adbe462b179a2d626cd229cddcb08e39ae2f2544eccf80ab617790b307667146">https://depot.galaxyproject.org/software/atlas/atlas_patch-blas-lapack-1.0_src_all.diff</action> |
46 <action type="download_file" sha256sum="9ad8f0d3f3fb5521db49f2dd716463b8fb2b6bc9dc386a9956b8c6144f726352"> | 44 <action type="download_file" sha256sum="95862478f7d276f948a58c583acd2935ada9ad3bb55944a303d94e161e202d89">https://depot.galaxyproject.org/software/atlas/atlas_patch-shared-lib-1.0_src_all.diff</action> |
47 https://depot.galaxyproject.org/software/lapack/lapack_3.5.0_src_all.tar.gz | 45 <action type="download_file" sha256sum="f805600c46719f74752e9026e1461d084a385ba67838364a81c36cdfb69cad82">https://depot.galaxyproject.org/software/atlas/atlas_patch-cpu-throttle-1.0_src_all.diff</action> |
48 </action> | |
49 <action type="download_file" sha256sum="adbe462b179a2d626cd229cddcb08e39ae2f2544eccf80ab617790b307667146"> | |
50 https://depot.galaxyproject.org/software/atlas/atlas_patch-blas-lapack-1.0_src_all.diff | |
51 </action> | |
52 <action type="download_file" sha256sum="95862478f7d276f948a58c583acd2935ada9ad3bb55944a303d94e161e202d89"> | |
53 https://depot.galaxyproject.org/software/atlas/atlas_patch-shared-lib-1.0_src_all.diff | |
54 </action> | |
55 <action type="download_file" sha256sum="f805600c46719f74752e9026e1461d084a385ba67838364a81c36cdfb69cad82"> | |
56 https://depot.galaxyproject.org/software/atlas/atlas_patch-cpu-throttle-1.0_src_all.diff | |
57 </action> | |
58 <action type="shell_command">tar -jxvf atlas_3.10.2+gx0_src_all.tar.bz2</action> | 46 <action type="shell_command">tar -jxvf atlas_3.10.2+gx0_src_all.tar.bz2</action> |
59 <!-- a 64-bit architecture is assumed for compilation --> | 47 <!-- a 64-bit architecture is assumed for compilation --> |
60 <action type="shell_command"><![CDATA[ | 48 <action type="shell_command"><![CDATA[ |
61 cd ATLAS && | 49 cd ATLAS && |
62 mkdir ATLAS/build && | 50 mkdir build && |
63 patch -p1 </host/static_full_blas_lapack.diff && | 51 patch -p1 </host/static_full_blas_lapack.diff && |
64 patch -p1 </host/shared_libraries.diff && | 52 patch -p1 </host/shared_libraries.diff && |
65 patch -p1 </host/cpu-throttling-check.diff && | 53 patch -p1 </host/cpu-throttling-check.diff && |
66 cd build && | 54 cd build && |
67 ../configure --prefix="$INSTALL_DIR" -D c -DWALL -b 64 -Fa alg '-fPIC' --with-netlib-lapack-tarfile=../../lapack-3.5.0.tgz -v 2 -t 0 -Si cputhrchk 0 && | 55 ../configure --prefix="$INSTALL_DIR" -D c -DWALL -b 64 -Fa alg '-fPIC' --with-netlib-lapack-tarfile=../../lapack-3.5.0.tgz -v 2 -t 0 -Si cputhrchk 0 && |