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comparison tool_dependencies.xml @ 0:af307d3285c5 draft

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author bgruening
date Sat, 06 Jul 2013 10:07:41 -0400
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children a77a4e9921e0
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-1:000000000000 0:af307d3285c5
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <set_environment version="1.0">
4 <environment_variable name="AUGUSTUS_SCRIPT_PATH" action="set_to">$REPOSITORY_INSTALL_DIR</environment_variable>
5 </set_environment>
6 <package name="augustus" version="2.7">
7 <install version="1.0">
8 <actions>
9 <action type="download_by_url">http://bioinf.uni-greifswald.de/augustus/binaries/augustus.2.7.tar.gz</action>
10 <action type="shell_command">make</action>
11 <action type="move_directory_files">
12 <source_directory>bin</source_directory>
13 <destination_directory>$INSTALL_DIR/bin</destination_directory>
14 </action>
15 <action type="move_directory_files">
16 <source_directory>scripts</source_directory>
17 <destination_directory>$INSTALL_DIR/scripts</destination_directory>
18 </action>
19 <action type="move_directory_files">
20 <source_directory>config</source_directory>
21 <destination_directory>$INSTALL_DIR/config</destination_directory>
22 </action>
23 <action type="set_environment">
24 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/scripts</environment_variable>
25 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
26 <environment_variable name="AUGUSTUS_CONFIG_PATH" action="set_to">$INSTALL_DIR/config</environment_variable>
27 </action>
28 </actions>
29 </install>
30 <readme>AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller.
31 It can be used as an ab initio program, which means it bases its prediction purely on the
32 sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources
33 such as EST, MS/MS, protein alignments and synthenic genomic alignments.
34 http://augustus.gobics.de/binaries/README.TXT</readme>
35 </package>
36 </tool_dependency>