Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
testtoolshed.g2.bx.psu.edu/repos/greg/complex_repository_dependency_on_bwa_059/bwa_wrapper/1.2.3 (this tool) |
bwa_wrapper |
Requirements (dependencies defined in the <requirements> tag set) |
name | version | type |
bwa | 0.5.9 | package |
Functional tests |
name | inputs | outputs | required files |
Test-1 |
refGenomeSource: indexed indices: phiX sPaired: single input1: bwa_wrapper_in1.fastqsanger source_select: pre_set suppressHeader: true |
output: bwa_wrapper_out1.sam |
bwa_wrapper_in1.fastqsanger bwa_wrapper_out1.sam |
Test-2 |
refGenomeSource: history ownFile: phiX.fasta sPaired: single input1: bwa_wrapper_in1.fastqsanger source_select: full maxEditDist: 0 fracMissingAligns: 0.04 maxGapOpens: 1 maxGapExtens: -1 disallowLongDel: 16 disallowIndel: 5 seed: -1 maxEditDistSeed: 2 mismatchPenalty: 3 gapOpenPenalty: 11 gapExtensPenalty: 4 suboptAlign: noIterSearch: true outputTopN: 3 outputTopNDisc: 10 maxInsertSize: 500 maxOccurPairing: 100000 specReadGroup: no suppressHeader: true |
output: bwa_wrapper_out2.sam |
phiX.fasta bwa_wrapper_in1.fastqsanger bwa_wrapper_out2.sam |
Test-3 |
refGenomeSource: indexed indices: phiX sPaired: paired input1: bwa_wrapper_in2.fastqsanger input2: bwa_wrapper_in3.fastqsanger source_select: full maxEditDist: 0 fracMissingAligns: 0.04 maxGapOpens: 1 maxGapExtens: -1 disallowLongDel: 16 disallowIndel: 5 seed: -1 maxEditDistSeed: 2 mismatchPenalty: 3 gapOpenPenalty: 11 gapExtensPenalty: 4 suboptAlign: noIterSearch: true outputTopN: 3 outputTopNDisc: 10 maxInsertSize: 500 maxOccurPairing: 100000 specReadGroup: yes rgid: abcdefg rgcn: rgds: descrip rgdt: 2010-11-01 rgfo: rgks: rglb: lib-mom-A rgpg: rgpi: 400 rgpl: ILLUMINA rgpu: rgsm: mom suppressHeader: false |
output: bwa_wrapper_out3.sam |
bwa_wrapper_in2.fastqsanger bwa_wrapper_in3.fastqsanger bwa_wrapper_out3.sam |
Test-4 |
refGenomeSource: history ownFile: phiX.fasta sPaired: paired input1: bwa_wrapper_in2.fastqsanger input2: bwa_wrapper_in3.fastqsanger source_select: preSet suppressHeader: true |
output: bwa_wrapper_out8.sam |
phiX.fasta bwa_wrapper_in2.fastqsanger bwa_wrapper_in3.fastqsanger bwa_wrapper_out8.sam |