Mercurial > repos > devteam > picard
diff rgPicardFixMate.xml @ 2:9227b8c3093b
Updated command line format per dev team standards.
| author | devteam <devteam@galaxyproject.org> |
|---|---|
| date | Tue, 02 Apr 2013 09:42:36 -0400 |
| parents | 1cd7f3b42609 |
| children |
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--- a/rgPicardFixMate.xml Thu Oct 25 12:51:42 2012 -0400 +++ b/rgPicardFixMate.xml Tue Apr 02 09:42:36 2013 -0400 @@ -1,8 +1,8 @@ <tool name="Paired Read Mate Fixer" id="rgPicFixMate" version="1.56.0"> <description>for paired data</description> <command interpreter="python"> - picard_wrapper.py -i "$input_file" -o "$out_file" --tmpdir "${__new_file_path__}" -n "$out_prefix" - --output-format "$outputFormat" -j "\$JAVA_JAR_PATH/FixMateInformation.jar" --sortorder "$sortOrder" + picard_wrapper.py -i "${input_file}" -o "${out_file}" --tmpdir "${__new_file_path__}" -n "${out_prefix}" + --output-format "${outputFormat}" -j "\$JAVA_JAR_PATH/FixMateInformation.jar" --sortorder "${sortOrder}" </command> <requirements><requirement type="package" version="1.56.0">picard</requirement></requirements> <inputs>