| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.17.4 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.17.3 (this tool) |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.17.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.16.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.15.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.15.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.12.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.12 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.4.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.4.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.3.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.3.0 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.2.3 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.2.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.1 |
| bwa |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bwa | 0.7.17 | package |
| samtools | 1.6 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
reference_source|reference_source_selector: history input_type|input_type_selector: single reference_source|ref_file: bwa-mem-mt-genome.fa input_type|fastq_input1: bwa-mem-fasta1.fa analysis_type|analysis_type_selector: illumina |
bam_output: bwa-aln-test1-fasta.bam |
bwa-mem-mt-genome.fa bwa-mem-fasta1.fa bwa-aln-test1-fasta.bam |
| Test-2 |
input_type|input_type_selector: paired reference_source|reference_source_selector: history input_type|fastq_input1: bwa-mem-fastq1.fq input_type|fastq_input2: bwa-mem-fastq2.fq analysis_type|analysis_type_selector: illumina reference_source|ref_file: bwa-mem-mt-genome.fa |
bam_output: bwa-aln-test1.bam |
bwa-mem-mt-genome.fa bwa-mem-fastq1.fq bwa-mem-fastq2.fq bwa-aln-test1.bam |
| Test-3 |
input_type|input_type_selector: paired reference_source|reference_source_selector: history input_type|fastq_input1: bwa-mem-fastq1.fq.gz input_type|fastq_input2: bwa-mem-fastq2.fq analysis_type|analysis_type_selector: illumina reference_source|ref_file: bwa-mem-mt-genome.fa |
bam_output: bwa-aln-test1.bam |
bwa-mem-mt-genome.fa bwa-mem-fastq1.fq.gz bwa-mem-fastq2.fq bwa-aln-test1.bam |
| Test-4 |
reference_source|reference_source_selector: history input_type|input_type_selector: paired_bam reference_source|ref_file: bwa-mem-mt-genome.fa input_type|bam_input: bwa-aln-bam-input.bam analysis_type|analysis_type_selector: illumina |
bam_output: bwa-aln-test2.bam |
bwa-mem-mt-genome.fa bwa-aln-bam-input.bam bwa-aln-test2.bam |
| Test-5 |
input_type|input_type_selector: paired rg|rg_selector: set rg|PL: CAPILLARY analysis_type|analysis_type_selector: illumina reference_source|reference_source_selector: history reference_source|ref_file: bwa-mem-mt-genome.fa rg|read_group_id_conditional|ID: rg1 input_type|fastq_input1: bwa-mem-fastq1.fq input_type|fastq_input2: bwa-mem-fastq2.fq |
bam_output: bwa-aln-test3.bam |
bwa-mem-mt-genome.fa bwa-mem-fastq1.fq bwa-mem-fastq2.fq bwa-aln-test3.bam |