Mercurial > repos > iuc > snpsift

diff snpSift_int.xml @ 14:80da7fae14b8 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit d12355cea76843e3ed6f09d96c3e9fe22afe4a4f
author iuc
date Mon, 05 Dec 2016 12:10:54 -0500
parents ed810da439cc
children 8bd645802765
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line diff
--- a/snpSift_int.xml	Tue Jun 07 09:41:13 2016 -0400
+++ b/snpSift_int.xml	Mon Dec 05 12:10:54 2016 -0500
@@ -1,4 +1,4 @@
-<tool id="snpSift_int" name="SnpSift Intervals" version="@WRAPPER_VERSION@.0">
+<tool id="snpSift_int" name="SnpSift Intervals" version="@WRAPPER_VERSION@.1">
     <description>Filter variants using intervals</description>
     <!-- 
         You can change the amount of memory used, just change the -Xmx parameter (e.g. use -Xmx2G for 2Gb of memory)
@@ -10,7 +10,8 @@
     <expand macro="stdio" />
     <expand macro="version_command" />
     <command><![CDATA[
-        java -Xmx2G -jar "\$SNPEFF_JAR_PATH/SnpSift.jar" intervals -i "$input" $exclude "$bedFile" > "$output"
+        @CONDA_SNPSIFT_JAR_PATH@ &&
+        java -Xmx2G -jar "\$SNPSIFT_JAR_PATH/SnpSift.jar" intervals -i "$input" $exclude "$bedFile" > "$output"
 ]]>
     </command>
     <inputs>