Mercurial > repos > devteam > freebayes
comparison tool_dependencies.xml @ 0:61fe907fc37c
Uploaded freebayes with tool dependencies
| author | devteam |
|---|---|
| date | Mon, 02 Jul 2012 17:49:47 -0400 |
| parents | |
| children | 213a3d6b579a |
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| -1:000000000000 | 0:61fe907fc37c |
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| 1 <?xml version="1.0"?> | |
| 2 <tool_dependency> | |
| 3 <package name="freebayes" version="0.9.4_9696d0ce8a962f7bb61c4791be5ce44312b81cf8"> | |
| 4 <install version="1.0"> | |
| 5 <actions> | |
| 6 <action type="shell_command">git clone --recursive git://github.com/ekg/freebayes.git</action> | |
| 7 <action type="shell_command">git reset --hard 9696d0ce8a962f7bb61c4791be5ce44312b81cf8</action> | |
| 8 <action type="shell_command">make</action> | |
| 9 <action type="move_directory_files"> | |
| 10 <source_directory>bin</source_directory> | |
| 11 <destination_directory>$INSTALL_DIR/bin</destination_directory> | |
| 12 </action> | |
| 13 <action type="set_environment"> | |
| 14 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> | |
| 15 </action> | |
| 16 </actions> | |
| 17 </install> | |
| 18 <readme> | |
| 19 FreeBayes requires g++ and the standard C and C++ development libraries. | |
| 20 Additionally, cmake is required for building the BamTools API. | |
| 21 </readme> | |
| 22 </package> | |
| 23 <package name="samtools" version="0.1.18"> | |
| 24 <install version="1.0"> | |
| 25 <actions> | |
| 26 <action type="download_by_url">http://sourceforge.net/projects/samtools/files/samtools/0.1.18/samtools-0.1.18.tar.bz2</action> | |
| 27 <action type="shell_command">sed -i .bak -e 's/-lcurses/-lncurses/g' Makefile</action> | |
| 28 <action type="shell_command">make</action> | |
| 29 <action type="move_file"> | |
| 30 <source>samtools</source> | |
| 31 <destination>$INSTALL_DIR/bin</destination> | |
| 32 </action> | |
| 33 <action type="move_file"> | |
| 34 <source>misc/maq2sam-long</source> | |
| 35 <destination>$INSTALL_DIR/bin</destination> | |
| 36 </action> | |
| 37 <action type="set_environment"> | |
| 38 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> | |
| 39 </action> | |
| 40 </actions> | |
| 41 </install> | |
| 42 <readme> | |
| 43 Compiling SAMtools requires the ncurses and zlib development libraries. | |
| 44 </readme> | |
| 45 </package> | |
| 46 </tool_dependency> |