| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_mpileup/bcftools_mpileup/1.10+galaxy2 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_mpileup/bcftools_mpileup/1.10+galaxy1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_mpileup/bcftools_mpileup/1.10 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_mpileup/bcftools_mpileup/1.9+galaxy2 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_mpileup/bcftools_mpileup/1.9+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_mpileup/bcftools_mpileup/1.9 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_mpileup/bcftools_mpileup/1.4.0.0 |
| bcftools_mpileup |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bcftools | 1.10 | package |
| htslib | 1.10 | package |
| samtools | 1.10 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input|input_bam: mpileup.1.bam input|input_number: single reference_source|ref_file: mpileup.ref.fa reference_source|reference_source_selector: history output_type: v |
name: value |
mpileup.1.bam mpileup.ref.fa value |
| Test-2 |
input|input_bam: mpileup.1.bam input|input_number: single reference_source|ref_file: mpileup reference_source|reference_source_selector: cached sec_filtering|quality|quality_settings: adjust output_type: v |
name: value |
mpileup.1.bam value |
| Test-3 |
input|input_bam: mpileup.3.cram input|input_number: single reference_source|ref_file: mpileup.ref.fa reference_source|reference_source_selector: history output_type: v |
name: value |
mpileup.3.cram mpileup.ref.fa value |
| Test-4 |
input|input_bams: ['mpileup.1.bam', 'mpileup.2.bam', 'mpileup.3.bam'] input|input_number: multiple reference_source|ref_file: mpileup.ref.fa reference_source|reference_source_selector: history sec_restrict|regions|regions_0|chrom: 17 sec_restrict|regions|regions_0|start: 100 sec_restrict|regions|regions_0|stop: 110 sec_restrict|regions|regions_src: regions sec_output_options|output_tags: ['DP', 'INFO/AD', 'DV'] output_type: v |
name: value |
mpileup.1.bam mpileup.2.bam mpileup.3.bam mpileup.ref.fa value |
| Test-5 |
input|input_bams: ['mpileup.1.bam', 'mpileup.2.bam', 'mpileup.3.bam'] input|input_number: multiple reference_source|ref_file: mpileup.ref.fa reference_source|reference_source_selector: history sec_restrict|targets|targets_0|chrom: 17 sec_restrict|targets|targets_0|start: 100 sec_restrict|targets|targets_0|stop: 104 sec_restrict|targets|targets_src: targets sec_output_options|output_tags: ['DP', 'INFO/AD', 'DV'] output_type: v |
name: value |
mpileup.1.bam mpileup.2.bam mpileup.3.bam mpileup.ref.fa value |
| Test-6 |
input|input_bams: ['mpileup.1.bam', 'mpileup.2.bam', 'mpileup.3.bam'] input|input_number: multiple reference_source|ref_file: mpileup.ref.fa reference_source|reference_source_selector: history sec_filtering|filter_by_flags|exclude_flags: ['4', '16'] sec_filtering|filter_by_flags|filter_flags: filter sec_restrict|regions|regions_0|chrom: 17 sec_restrict|regions|regions_0|start: 1050 sec_restrict|regions|regions_0|stop: 1060 sec_restrict|regions|regions_src: regions output_type: v |
name: value |
mpileup.1.bam mpileup.2.bam mpileup.3.bam mpileup.ref.fa value |