Mercurial > repos > iuc > package_atlas_3_10

comparison tool_dependencies.xml @ 4:f27d2f8761ae draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_atlas_3_10 commit 09872476567320942381c809c574e99d4b090bea-dirty
author iuc
date Tue, 16 Feb 2016 16:57:05 -0500
parents 0538fd672119
children c0a66ce2a119
comparison
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3:0538fd672119 4:f27d2f8761ae
1 <?xml version="1.0"?>
1 <tool_dependency> 2 <tool_dependency>
2 <package name="atlas" version="3.10.2"> 3 <package name="atlas" version="3.10.2">
3 <install version="1.0"> 4 <install version="1.0">
4 <actions_group> 5 <actions_group>
5 <actions architecture="x86_64" os="linux"> 6 <actions architecture="x86_64" os="linux">
6 <action type="download_by_url">https://depot.galaxyproject.org/package/linux/x86_64/atlas/atlas-3.10.2-Linux-x86_64.tar.gz</action> 7 <action type="download_by_url" sha256sum="c36a9edf352aa3652ae2c3cccf752351e12291c1d018da842093f9dc70fa2da3">
8 https://depot.galaxyproject.org/software/atlas/atlas_3.10.2_linux_x64.tar.gz
9 </action>
7 <action type="move_directory_files"> 10 <action type="move_directory_files">
8 <source_directory>.</source_directory> 11 <source_directory>.</source_directory>
9 <destination_directory>$INSTALL_DIR</destination_directory> 12 <destination_directory>$INSTALL_DIR</destination_directory>
10 </action> 13 </action>
11 <action type="set_environment"> 14 <action type="set_environment">
12 <environment_variable action="set_to" name="ATLAS_LIB_DIR">$INSTALL_DIR/lib</environment_variable> 15 <environment_variable action="set_to" name="ATLAS_LIB_DIR">$INSTALL_DIR/lib</environment_variable>
13 <environment_variable action="set_to" name="ATLAS_INCLUDE_DIR">$INSTALL_DIR/include</environment_variable> 16 <environment_variable action="set_to" name="ATLAS_INCLUDE_DIR">$INSTALL_DIR/include</environment_variable>
14 <environment_variable action="set_to" name="ATLAS_BLAS_LIB_DIR">$INSTALL_DIR/lib/atlas</environment_variable> 17 <environment_variable action="set_to" name="ATLAS_BLAS_LIB_DIR">$INSTALL_DIR/lib/atlas</environment_variable>
15 <environment_variable action="set_to" name="ATLAS_LAPACK_LIB_DIR">$INSTALL_DIR/lib/atlas</environment_variable> 18 <environment_variable action="set_to" name="ATLAS_LAPACK_LIB_DIR">$INSTALL_DIR/lib/atlas</environment_variable>
19 <environment_variable action="set_to" name="ATLAS">$INSTALL_DIR</environment_variable>
16 <environment_variable action="set_to" name="ATLAS_ROOT_PATH">$INSTALL_DIR</environment_variable> 20 <environment_variable action="set_to" name="ATLAS_ROOT_PATH">$INSTALL_DIR</environment_variable>
17 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib</environment_variable> 21 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib</environment_variable>
18 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib/atlas</environment_variable> 22 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib/atlas</environment_variable>
19 </action> 23 </action>
20 <action type="shell_command"><![CDATA[ 24 <action type="shell_command"><![CDATA[
34 </actions> 38 </actions>
35 <actions architecture="x86_64" os="darwin"> 39 <actions architecture="x86_64" os="darwin">
36 <!-- NOOP: On OS X we will use Apple's vecLib --> 40 <!-- NOOP: On OS X we will use Apple's vecLib -->
37 </actions> 41 </actions>
38 <actions> 42 <actions>
39 <action type="download_file">http://downloads.sourceforge.net/project/math-atlas/Stable/3.10.2/atlas3.10.2.tar.bz2</action> 43 <action type="download_file" sha256sum="3aab139b118bf3fcdb4956fbd71676158d713ab0d3bccb2ae1dc3769db22102f">
40 <action type="download_file">http://www.netlib.org/lapack/lapack-3.5.0.tgz</action> 44 https://depot.galaxyproject.org/software/atlas/atlas_3.10.2+gx0_src_all.tar.bz2
41 <action type="download_file">https://depot.galaxyproject.org/patch/atlas/static_full_blas_lapack.diff</action> 45 </action>
42 <action type="download_file">https://depot.galaxyproject.org/patch/atlas/shared_libraries.diff</action> 46 <action type="download_file" sha256sum="9ad8f0d3f3fb5521db49f2dd716463b8fb2b6bc9dc386a9956b8c6144f726352">
43 <action type="download_file">https://depot.galaxyproject.org/patch/atlas/cpu-throttling-check.diff</action> 47 https://depot.galaxyproject.org/software/lapack/lapack_3.5.0_src_all.tar.gz
44 <action type="shell_command">tar -jxvf atlas3.10.2.tar.bz2</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>
45 <!-- a 64-bit architecture is assumed for compilation --> 59 <!-- a 64-bit architecture is assumed for compilation -->
46 <action type="shell_command"><![CDATA[ 60 <action type="shell_command"><![CDATA[
47 cd ATLAS && 61 cd ATLAS &&
48 mkdir ATLAS/build && 62 mkdir ATLAS/build &&
49 patch -p1 </host/static_full_blas_lapack.diff && 63 patch -p1 </host/static_full_blas_lapack.diff &&