Mercurial > repos > jjohnson > snpeff_with_dep
diff tool_dependencies.xml @ 11:e9e4ff80e72b
Release version 3.0
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Tue, 18 Sep 2012 09:28:08 -0500 |
| parents | 9cd24981dbd2 |
| children | 57c46f7fe70b |
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--- a/tool_dependencies.xml Tue Sep 18 08:36:28 2012 -0500 +++ b/tool_dependencies.xml Tue Sep 18 09:28:08 2012 -0500 @@ -3,27 +3,16 @@ <set_environment version="1.0"> <environment_variable name="JAVA_JAR_PATH" action="set_to">$INSTALL_DIR/bin</environment_variable> </set_environment> - <package name="snpEff" version="3.0f"> + <package name="snpEff" version="3.0"> <install version="1.0"> <actions> - <action type="download_by_url">http://sourceforge.net/projects/snpeff/files/snpEff_latest_core.zip</action> - <action type="shell_command">unzip snpEff_latest_core.zip</action> - <action type="move_file"> - <source>snpEff_3_0/SnpSift.jar</source> - <destination>$INSTALL_DIR/bin</destination> - </action> + <action type="download_by_url">http://sourceforge.net/projects/snpeff/files/snpEff_v3_0_core.zip</action> <action type="move_file"> - <source>snpEff_3_0/snpEff.jar</source> - <destination>$INSTALL_DIR/bin</destination> + <source>snpEff_v3_0_core.zip</source> + <destination>$INSTALL_DIR</destination> </action> - <action type="move_file"> - <source>snpEff_3_0/snpEff.config</source> - <destination>$INSTALL_DIR/bin</destination> - </action> - <action type="move_directory_files"> - <source_directory>snpEff_3_0/scripts</source_directory> - <destination_directory>$INSTALL_DIR/bin</destination_directory> - </action> + <action type="shell_command">unzip snpEff_v3_0_core.zip</action> + <action type="shell_command">ln -s snpEff_3_0 bin</action> <action type="set_environment"> <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> </action>