Mercurial > repos > devteam > picard
comparison picard_CollectWgsMetrics.xml @ 14:465cbb0cf2eb draft
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 |
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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}" |