| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.5 |
| toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.4 (this tool) |
| toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.3 |
| toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.2 |
| toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.1 |
| toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.0 |
| toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.0.0 |
| bg_sortmerna |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| sortmerna | 2.1b | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
aligned_blast|aligned_blast_selector: --blast databases_type|database_name: ref_small.fasta mismatch: -3 ambiguous_letter: -3 databases_type|databases_selector: history aligned_fastx|aligned_fastx_selector: --fastx aligned_blast|aligned_blast_format: 1 cigar qcov report|report_type: best strand_search: aligned_sam|aligned_sam_selector: --sam log: False input_reads: read_small.fastq aligned_fastx|other: True gap_open: 5 sequencing_type|sequencing_type_selector: not_paired e_value: 1 report|report_best|report_best_type: 1 match: 2 gap_ext: 2 |
output_fastx: sortmerna_wrapper_accept1.fastq output_other: sortmerna_wrapper_other1.fastq output_sam: sortmerna_wrapper_sam1.sam |
read_small.fastq ref_small.fasta sortmerna_wrapper_accept1.fastq sortmerna_wrapper_other1.fastq sortmerna_wrapper_sam1.sam |
| Test-2 |
report|report_best|report_best_type: 1 mismatch: -3 ambiguous_letter: -3 databases_type|databases_selector: history aligned_fastx|aligned_fastx_selector: --fastx report|report_type: best strand_search: aligned_sam|aligned_sam_selector: --sam log: False input_reads: read_small.fasta aligned_fastx|other: True gap_open: 5 sequencing_type|sequencing_type_selector: not_paired e_value: 1 databases_type|database_name: ref_small.fasta match: 2 gap_ext: 2 |
output_fastx: sortmerna_wrapper_accept2.fasta output_other: sortmerna_wrapper_other2.fasta output_sam: sortmerna_wrapper_sam2.sam |
read_small.fasta ref_small.fasta sortmerna_wrapper_accept2.fasta sortmerna_wrapper_other2.fasta sortmerna_wrapper_sam2.sam |