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diff tool_dependencies.xml @ 15:35c6289faeff draft

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Update tool_dependecies to GenomeAnalysisTKLite-2.2-8-g99996f2.tar.bz2
author Jim Johnson <jj@umn.edu>
date Thu, 15 Nov 2012 10:17:22 -0600
parents 24504f5cac5e
children 7533db8dfb5b
line wrap: on
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--- a/tool_dependencies.xml	Thu Nov 08 13:09:56 2012 -0600
+++ b/tool_dependencies.xml	Thu Nov 15 10:17:22 2012 -0600
@@ -3,13 +3,9 @@
     <package name="gatk" version="2.2">
         <install version="1.0">
             <actions>
-                <action type="download_by_url">ftp://ftp.broadinstitute.org/pub/gsa/GenomeAnalysisTK/GenomeAnalysisTKLite-latest.tar.bz2</action>
-                <!-- this expands into GenomeAnalysisTKLite-2.2-3-g63dddfb/
-                     which common_util.py tar_extraction_directory() does not find
-                     so the move file must contain the GenomeAnalysisTKLite-2.2-3-g63dddfb dir path
-                 -->
+                <action type="download_by_url">ftp://ftp.broadinstitute.org/pub/gsa/GenomeAnalysisTK/GenomeAnalysisTKLite-2.2-8-g99996f2.tar.bz2</action>
                 <action type="move_file">
-                    <source>GenomeAnalysisTKLite-2.2-3-g63dddfb/GenomeAnalysisTKLite.jar</source>
+                    <source>GenomeAnalysisTKLite.jar</source>
                     <destination>$INSTALL_DIR</destination>
                 </action>
                 <action type="shell_command">ln -s GenomeAnalysisTKLite.jar GenomeAnalysisTK.jar</action>