| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/stacks2_procrad/stacks2_procrad/2.55+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/stacks2_procrad/stacks2_procrad/2.55+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/stacks2_procrad/stacks2_procrad/2.53+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/stacks2_procrad/stacks2_procrad/2.4+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/stacks2_procrad/stacks2_procrad/2.4+galaxy0 |
| stacks2_procrad |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| stacks | 2.55 | package |
| python | 3.7 | package |
| findutils | 4.6.0 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input_type|fqinputs: procrad/R1.fq input_type|barcode_encoding: --inline_null input_type|input_type_select: single barcode: procrad/barcodes options_enzyme|enzyme: ecoRI options_enzyme|options_enzyme_selector: 1 add_log: True |
name: value |
procrad/R1.fq procrad/barcodes value |
| Test-2 |
input_type|fqinputs: ['procrad/R1.fq.gzip', 'procrad/R2.fq.gzip'] input_type|barcode_encoding: --inline_null input_type|input_type_select: single barcode: procrad/barcodes options_enzyme|enzyme: ecoRI options_enzyme|options_enzyme_selector: 1 filter_cond|sliding: 0.1 filter_cond|score: 11 filter_cond|remove: True filter_cond|discard: True filter_cond|filter_select: yes capture: True outype: gzfastq add_log: True |
name: value |
procrad/R1.fq.gzip procrad/R2.fq.gzip procrad/barcodes value |
| Test-3 |
input_type|fqinputs: list:paired collection input_type|input_type_select: paired barcode: procrad/barcodes options_enzyme|enzyme: ecoRI options_enzyme|options_enzyme_selector: 1 filter_cond|len_limit: 50 filter_cond|filter_select: no capture: True outype: gzfasta add_log: True |
name: value |
procrad/R1.fq procrad/R2.fq procrad/barcodes value |
| Test-4 |
input_type|fqinputs: list:paired collection input_type|input_type_select: paired barcode: procrad/barcodes options_enzyme|enzyme: ecoRI options_enzyme|enzyme2: ecoRI options_enzyme|options_enzyme_selector: 2 options_advanced|truncate: 70 options_advanced|retain_header: True options_advanced|bestrad: True options_advanced|disable_rad_check: True options_advanced|rescue_cond|barcode_dist_1: 2 options_advanced|rescue_cond|barcode_dist_2: 2 options_advanced|rescue_cond|rescue: -r options_advanced|adapter_1: AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA options_advanced|adapter_2: TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT options_advanced|adapter_mm: 2 outype: fasta |
procrad/R1.fq.gzip procrad/R2.fq.gzip procrad/barcodes |
|
| Test-5 |
input_type|fqinputs: procrad/R1.fq input_type|barcode_encoding: --inline_null input_type|input_type_select: single barcode: procrad/barcodes-duplicate options_enzyme|enzyme: ecoRI options_enzyme|options_enzyme_selector: 1 add_log: True |
procrad/R1.fq procrad/barcodes-duplicate |
|
| Test-6 |
input_type|fqinputs: procrad/R1.fq input_type|barcode_encoding: --inline_null input_type|input_type_select: single barcode: procrad/barcodes-duplicate2 options_enzyme|enzyme: ecoRI options_enzyme|options_enzyme_selector: 1 add_log: True |
procrad/R1.fq procrad/barcodes-duplicate2 |
|
| Test-7 |
input_type|fqinputs: procrad/R1.fq input_type|barcode_encoding: --inline_null input_type|input_type_select: single barcode: procrad/barcodes-duplicate3 options_enzyme|enzyme: ecoRI options_enzyme|options_enzyme_selector: 1 add_log: True |
procrad/R1.fq procrad/barcodes-duplicate3 |