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annotate tool_dependencies.xml @ 9:38b3a6b97bd1

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Add src dir snpEff_3_0 to move_file in tool_dependencies.xml
author Jim Johnson <jj@umn.edu>
date Fri, 14 Sep 2012 14:48:54 -0500
parents 1562bb333568
children 9cd24981dbd2
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <set_environment version="1.0">
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4 <environment_variable name="JAVA_JAR_PATH" action="set_to">$INSTALL_DIR/bin</environment_variable>
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5 </set_environment>
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6 <package name="snpEff" version="3.0f">
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7 <install version="1.0">
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8 <actions>
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9 <action type="download_by_url">http://sourceforge.net/projects/snpeff/files/snpEff_latest_core.zip</action>
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10 <action type="move_file">
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11 <source>snpEff_3_0/SnpSift.jar</source>
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12 <destination>$INSTALL_DIR/bin</destination>
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13 </action>
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14 <action type="move_file">
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15 <source>snpEff_3_0/snpEff.jar</source>
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16 <destination>$INSTALL_DIR/bin</destination>
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17 </action>
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18 <action type="move_file">
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19 <source>snpEff_3_0/snpEff.config</source>
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20 <destination>$INSTALL_DIR/bin</destination>
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21 </action>
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22 <action type="move_directory_files">
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23 <source_directory>snpEff_3_0/scripts</source_directory>
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24 <destination_directory>$INSTALL_DIR/bin</destination_directory>
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25 </action>
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26 <action type="set_environment">
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27 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
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28 </action>
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29 </actions>
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30 </install>
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31 <readme>
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32 </readme>
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33 </package>
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35 </tool_dependency>
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