Mercurial > repos > devteam > snpeff_with_dep
comparison snpeff_with_dep-244c09911d7a/tool_dependencies.xml @ 0:d8bd4326dc3a draft
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author | devteam |
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date | Thu, 27 Sep 2012 13:40:17 -0400 |
parents | |
children | 515163fbe70f |
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-1:000000000000 | 0:d8bd4326dc3a |
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1 <?xml version="1.0"?> | |
2 <tool_dependency> | |
3 <package name="snpEff" version="3.0"> | |
4 <install version="1.0"> | |
5 <actions> | |
6 <action type="shell_command">wget http://sourceforge.net/projects/snpeff/files/snpEff_v3_0_core.zip; unzip snpEff_v3_0_core.zip; mv snpEff_3_0 snpEff</action> | |
7 <action type="move_directory_files"> | |
8 <source_directory>.</source_directory> | |
9 <destination_directory>$INSTALL_DIR</destination_directory> | |
10 </action> | |
11 | |
12 <action type="set_environment"> | |
13 <environment_variable name="JAVA_JAR_PATH" action="prepend_to">$INSTALL_DIR/snpEff</environment_variable> | |
14 </action> | |
15 <action type="set_environment"> | |
16 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/snpEff/scripts</environment_variable> | |
17 </action> | |
18 </actions> | |
19 </install> | |
20 <readme> | |
21 </readme> | |
22 </package> | |
23 <package name="SnpSift" version="1.7"> | |
24 <install version="1.0"> | |
25 <actions> | |
26 <action type="shell_command">mkdir SnpSift; cd SnpSift; wget http://sourceforge.net/projects/snpeff/files/SnpSift_v1_7.jar</action> | |
27 <action type="move_directory_files"> | |
28 <source_directory>.</source_directory> | |
29 <destination_directory>$INSTALL_DIR</destination_directory> | |
30 </action> | |
31 <action type="set_environment"> | |
32 <environment_variable name="JAVA_JAR_PATH" action="prepend_to">$INSTALL_DIR/SnpSift</environment_variable> | |
33 </action> | |
34 </actions> | |
35 </install> | |
36 <readme> | |
37 </readme> | |
38 </package> | |
39 </tool_dependency> | |
40 |