| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/bakta/bakta/1.8.1+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/bakta/bakta/1.6.1+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/bakta/bakta/1.5.0+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/bakta/bakta/1.4.2+galaxy0 |
| bakta |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bakta | 1.6.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input_option|bakta_db_select: V0.1_2022-08-29 input_option|amrfinder_db_select: V3.6-2020-03-20.1 input_option|input_file: NC_002127.1.fna input_option|min_contig_length: 250 output_files|output_selection: ['file_tsv', 'file_gff3', 'file_gbff', 'file_embl', 'file_fna', 'file_ffn', 'file_faa', 'hypo_tsv', 'hypo_fa', 'sum_txt', 'file_json', 'file_plot', 'log_txt'] |
name: value name: value name: value name: value name: value name: value name: value name: value name: value name: value name: value name: value name: value |
NC_002127.1.fna value |
| Test-2 |
input_option|bakta_db_select: V0.1_2022-08-29 input_option|amrfinder_db_select: V3.6-2020-03-20.1 input_option|input_file: NC_002127.1.fna input_option|min_contig_length: 250 organism|genus: Escherichia organism|species: coli O157:H7 organism|strain: Sakai organism|plasmid: pOSAK1 annotation|keep_contig_headers: True workflow|skip_analysis: ['--skip-trna', '--skip-tmrna'] |
name: value name: value name: value name: value |
NC_002127.1.fna value |
| Test-3 |
input_option|bakta_db_select: V0.1_2022-08-29 input_option|amrfinder_db_select: V3.6-2020-03-20.1 input_option|input_file: NC_002127.1.fna input_option|min_contig_length: 350 workflow|skip_analysis: ['--skip-trna', '--skip-tmrna', '--skip-rrna', '--skip-ncrna', '--skip-ncrna-region', '--skip-crispr', '--skip-cds', '--skip-sorf', '--skip-gap', '--skip-ori'] |
name: value name: value name: value name: value |
NC_002127.1.fna value |
| Test-4 |
input_option|bakta_db_select: V0.1_2022-08-29 input_option|amrfinder_db_select: V3.6-2020-03-20.1 input_option|input_file: NC_002127.1.fna annotation|complete: True annotation|prodigal: prodigal.tf annotation|translation_table: 4 annotation|replicons: replicons.tsv annotation|compliant: True annotation|proteins: user-proteins.faa |
name: value name: value name: value name: value |
NC_002127.1.fna prodigal.tf replicons.tsv user-proteins.faa value |
| Test-5 |
input_option|bakta_db_select: V0.1_2022-08-29 input_option|amrfinder_db_select: V3.6-2020-03-20.1 input_option|input_file: NC_002127.1.fna annotation|complete: True annotation|translation_table: 4 workflow|skip_analysis: ['--skip-trna', '--skip-tmrna', '--skip-rrna', '--skip-ncrna', '--skip-ncrna-region', '--skip-crispr', '--skip-cds', '--skip-sorf', '--skip-gap', '--skip-ori'] output_files|output_selection: ['log_txt', 'sum_txt'] |
name: value name: value |
NC_002127.1.fna value |