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comparison picard_SortSam.xml @ 8:e417b1d6288d draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit bf94a1505c131fb3f67c867b6e1d886780efa42e
author devteam
date Tue, 06 Dec 2016 10:04:26 -0500
parents 08f69add4d06
children 41b8d087a2d2
comparison
equal deleted inserted replaced
7:08f69add4d06 8:e417b1d6288d
10 ln -s '${outFile}' output.sam && 10 ln -s '${outFile}' output.sam &&
11 #else: 11 #else:
12 #set $output = $outFile 12 #set $output = $outFile
13 #end if 13 #end if
14 @java_options@ 14 @java_options@
15 @symlink_element_identifier@
15 picard 16 picard
16 SortSam 17 SortSam
17 INPUT="${inputFile}" 18 INPUT='$inputFile.element_identifier'
18 OUTPUT='${output}' 19 OUTPUT='${output}'
19 SORT_ORDER="${sort_order}" 20 SORT_ORDER="${sort_order}"
20 QUIET=true 21 QUIET=true
21 VERBOSITY=ERROR 22 VERBOSITY=ERROR
22 VALIDATION_STRINGENCY=${validation_stringency} 23 VALIDATION_STRINGENCY=${validation_stringency}