| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/instrain_profile/instrain_profile/1.5.3+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/instrain_profile/instrain_profile/1.5.3+galaxy0 (this tool) |
| instrain_profile |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| instrain | 1.5.3 | package |
| zip | 3.0 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
mapping_input: SmallScaffold.fa.sorted.bam sequence_input: SmallScaffold.fa use_full_fasta_header: False read_filtering|min_read_ani: 0.95 read_filtering|min_mapq: -1 read_filtering|max_insert_relative: 3 read_filtering|min_insert: 50 read_filtering|pairing_filter: paired_only variant_calling|min_cov: 5 variant_calling|min_freq: 0.05 variant_calling|fdr: 1e-06 mm_level: False skip_mm_profiling: False profile|database_mode: False profile|min_scaffold_reads: 1 profile|min_genome_coverage: 0 profile|min_snp: 20 profile|store_everything: False profile|rarefied_coverage: 50 profile|window_length: 10000 output|detailed_mapping_info: False output|skip_genome_wide: True output|skip_plot_generation: True |
name: value name: value name: value name: value name: value name: value |
SmallScaffold.fa.sorted.bam SmallScaffold.fa value |
| Test-2 |
mapping_input: SmallScaffold.fa.sorted.bam sequence_input: SmallScaffold.fa use_full_fasta_header: False read_filtering|min_read_ani: 0.95 read_filtering|min_mapq: -1 read_filtering|max_insert_relative: 3 read_filtering|min_insert: 50 read_filtering|pairing_filter: paired_only variant_calling|min_cov: 5 variant_calling|min_freq: 0.05 variant_calling|fdr: 1e-06 mm_level: False skip_mm_profiling: False profile|database_mode: False profile|min_scaffold_reads: 1 profile|min_genome_coverage: 0 profile|min_snp: 20 profile|store_everything: False profile|rarefied_coverage: 50 profile|window_length: 10000 output|detailed_mapping_info: False output|skip_genome_wide: False output|skip_plot_generation: False |
name: value name: value name: value name: value name: value name: value name: value |
SmallScaffold.fa.sorted.bam SmallScaffold.fa value |