Mercurial > repos > iuc > package_snpeff_3_6
comparison tool_dependencies.xml @ 1:807f8db26f0a draft default tip
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author | iuc |
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date | Wed, 18 Feb 2015 11:36:02 -0500 |
parents | d782e523a77b |
children |
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0:d782e523a77b | 1:807f8db26f0a |
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6 <action type="download_by_url">https://downloads.sourceforge.net/project/snpeff/snpEff_v3_6_core.zip</action> | 6 <action type="download_by_url">https://downloads.sourceforge.net/project/snpeff/snpEff_v3_6_core.zip</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 <action type="shell_command">sed -i.orig -e 's;http://downloads.sourceforge.net/project/snpeff/databases;https://snpeff-data.galaxyproject.org/databases;g' $INSTALL_DIR/snpEff.config</action> | |
11 <action type="set_environment"> | 12 <action type="set_environment"> |
12 <environment_variable name="SNPEFF_JAR_PATH" action="set_to">$INSTALL_DIR</environment_variable> | 13 <environment_variable name="SNPEFF_JAR_PATH" action="set_to">$INSTALL_DIR</environment_variable> |
13 </action> | 14 </action> |
14 <action type="set_environment"> | 15 <action type="set_environment"> |
15 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/scripts</environment_variable> | 16 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/scripts</environment_variable> |