comparison picard_SortSam.xml @ 13:7e6fd3d0f16e draft

planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit bf94a1505c131fb3f67c867b6e1d886780efa42e

12:05087b27692a

        ln -s '${outFile}' output.sam &&
    #else:
        #set $output = $outFile
    #end if
    @java_options@
    picard
    SortSam
    INPUT="${inputFile}"
    OUTPUT='${output}'
    SORT_ORDER="${sort_order}"
    QUIET=true
    VERBOSITY=ERROR
    VALIDATION_STRINGENCY=${validation_stringency}

13:7e6fd3d0f16e

        ln -s '${outFile}' output.sam &&
    #else:
        #set $output = $outFile
    #end if
    @java_options@
    @symlink_element_identifier@
    picard
    SortSam
    INPUT='$inputFile.element_identifier'
    OUTPUT='${output}'
    SORT_ORDER="${sort_order}"
    QUIET=true
    VERBOSITY=ERROR
    VALIDATION_STRINGENCY=${validation_stringency}