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comparison picard_CollectWgsMetrics.xml @ 14:465cbb0cf2eb draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 74ee0f0b594075fab7f707aaffb4a7f9dac35f2f
author devteam
date Wed, 07 Dec 2016 14:56:30 -0500
parents 7e6fd3d0f16e
children 5053a18d9bc8
comparison
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13:7e6fd3d0f16e 14:465cbb0cf2eb
17 #set $reference_fasta_filename = str( $reference_source.ref_file.fields.path ) 17 #set $reference_fasta_filename = str( $reference_source.ref_file.fields.path )
18 #end if 18 #end if
19 19
20 picard 20 picard
21 CollectWgsMetrics 21 CollectWgsMetrics
22 INPUT='$inputFile.element_identifier' 22 INPUT='$escaped_element_identifier'
23 OUTPUT="${outFile}" 23 OUTPUT="${outFile}"
24 REFERENCE_SEQUENCE="${reference_fasta_filename}" 24 REFERENCE_SEQUENCE="${reference_fasta_filename}"
25 MINIMUM_MAPPING_QUALITY="${minimum_mapping_quality}" 25 MINIMUM_MAPPING_QUALITY="${minimum_mapping_quality}"
26 MINIMUM_BASE_QUALITY="${minimum_base_quality}" 26 MINIMUM_BASE_QUALITY="${minimum_base_quality}"
27 COVERAGE_CAP="${coverage_cap}" 27 COVERAGE_CAP="${coverage_cap}"