Mercurial > repos > bebatut > sortmerna

comparison tool_dependencies.xml @ 14:011ec5258e71 draft

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planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/sortmerna/ commit 283fe2285a4e95f4505133fc7fa1eee96a4d274d-dirty
author bebatut
date Wed, 18 Nov 2015 09:19:17 -0500
parents 4016c1db6886
children baab049d3aff
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13:4016c1db6886 14:011ec5258e71
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="sortmerna" version="2.0"> 3 <package name="sortmerna" version="2.0">
4 <install version="1.0"> 4 <install version="1.0">
5 <actions> 5 <actions_group>
6 <action type="download_by_url" target_filename="sortmerna-2.0.tar.gz">https://github.com/biocore/sortmerna/archive/2.0.tar.gz</action> 6 <actions architecture="x86_64" os="linux">
7 <action type="autoconf"/> 7 <action type="download_by_url" target_filename="sortmerna-2.0.tar.gz">https://github.com/biocore/sortmerna/archive/2.0.tar.gz</action>
8 <action type="change_directory">../</action> 8 <action type="autoconf"/>
9 <action type="make_directory">$INSTALL_DIR/sortmerna-2.0/</action> 9 <action type="change_directory">../</action>
10 <action type="move_directory_files"> 10 <action type="make_directory">$INSTALL_DIR/sortmerna-2.0/</action>
11 <source_directory>sortmerna-2.0/</source_directory> 11 <action type="move_directory_files">
12 <destination_directory>$INSTALL_DIR/sortmerna-2.0/</destination_directory> 12 <source_directory>sortmerna-2.0/</source_directory>
13 </action> 13 <destination_directory>$INSTALL_DIR/sortmerna-2.0/</destination_directory>
14 <action type="set_environment"> 14 </action>
15 <environment_variable name="SORTMERNADIR" action="set_to">$INSTALL_DIR/sortmerna-2.0/</environment_variable> 15 <action type="set_environment">
16 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> 16 <environment_variable name="SORTMERNADIR" action="set_to">$INSTALL_DIR/sortmerna-2.0/</environment_variable>
17 </action> 17 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
18 </actions> 18 </action>
19 </actions>
20 <actions architecture="x86_64" os="darwin">
21 <action type="download_by_url" target_filename="sortmerna-2.0.tar.gz">https://github.com/biocore/sortmerna/archive/2.0.tar.gz</action>
22 <action type="shell_command"><![CDATA[
23 export CC=clang && export CXX=clang++ && ./configure && make && make install
24 ]]>
25 </action>
26 <action type="change_directory">../</action>
27 <action type="make_directory">$INSTALL_DIR/sortmerna-2.0/</action>
28 <action type="move_directory_files">
29 <source_directory>sortmerna-2.0/</source_directory>
30 <destination_directory>$INSTALL_DIR/sortmerna-2.0/</destination_directory>
31 </action>
32 <action type="set_environment">
33 <environment_variable name="SORTMERNADIR" action="set_to">$INSTALL_DIR/sortmerna-2.0/</environment_variable>
34 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
35 </action>
36 </actions>
37 </actions_group>
19 </install> 38 </install>
20 <readme> 39 <readme>
21 SortMeRNA requires g++ 4.3 or later. 40 SortMeRNA requires g++ 4.3 or later.
22 41
23 Note: the Clang compiler on Mac (distributed through Xcode) does not 42 Note: the Clang compiler on Mac (distributed through Xcode) does not