Mercurial > repos > devteam > snpeff_with_dep
comparison snpeff_with_dep-244c09911d7a/tool_dependencies.xml @ 1:515163fbe70f draft
Uploaded
| author | devteam |
|---|---|
| date | Thu, 27 Sep 2012 14:10:46 -0400 |
| parents | d8bd4326dc3a |
| children |
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| 0:d8bd4326dc3a | 1:515163fbe70f |
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| 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> | 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"> | 7 <action type="move_directory_files"> |
| 8 <source_directory>.</source_directory> | 8 <source_directory>.</source_directory> |
| 9 <destination_directory>$INSTALL_DIR</destination_directory> | 9 <destination_directory>$INSTALL_DIR</destination_directory> |
| 10 </action> | 10 </action> |
| 11 | |
| 12 <action type="set_environment"> | 11 <action type="set_environment"> |
| 13 <environment_variable name="JAVA_JAR_PATH" action="prepend_to">$INSTALL_DIR/snpEff</environment_variable> | 12 <environment_variable name="JAVA_JAR_PATH" action="prepend_to">$INSTALL_DIR/snpEff</environment_variable> |
| 14 </action> | 13 </action> |
| 15 <action type="set_environment"> | 14 <action type="set_environment"> |
| 16 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/snpEff/scripts</environment_variable> | 15 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/snpEff/scripts</environment_variable> |
| 18 </actions> | 17 </actions> |
| 19 </install> | 18 </install> |
| 20 <readme> | 19 <readme> |
| 21 </readme> | 20 </readme> |
| 22 </package> | 21 </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> | 22 </tool_dependency> |
| 40 |