| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.9.3+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.9.1+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.9+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.8.3+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.8.2+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.6 |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.3.7 |
| toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.3.5 |
| flye |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| flye | 2.9.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
inputs: ['ecoli_01.fastq.gz', 'ecoli_02.fastq.gz', 'ecoli_03.fastq.gz', 'ecoli_04.fastq.gz', 'ecoli_05.fastq.gz', 'ecoli_06.fastq.gz', 'ecoli_07.fastq.gz'] mode_conditional|mode: --pacbio-raw iterations: 0 generate_log: True |
name: value name: value name: value name: value name: value |
ecoli_01.fastq.gz ecoli_02.fastq.gz ecoli_03.fastq.gz ecoli_04.fastq.gz ecoli_05.fastq.gz ecoli_06.fastq.gz ecoli_07.fastq.gz value |
| Test-2 |
inputs: nanopore.fasta.gz mode_conditional|mode: --nano-raw iterations: 0 |
name: value name: value name: value name: value |
nanopore.fasta.gz value |
| Test-3 |
inputs: ['ecoli_hifi_01.fastq.gz', 'ecoli_hifi_02.fastq.gz', 'ecoli_hifi_03.fastq.gz', 'ecoli_hifi_04.fastq.gz', 'ecoli_hifi_05.fastq.gz', 'ecoli_hifi_06.fastq.gz', 'ecoli_hifi_07.fastq.gz', 'ecoli_hifi_08.fastq.gz', 'ecoli_hifi_09.fastq.gz'] mode_conditional|mode: --nano-raw asm|genome_size: 3980000 asm|asm_select: true |
name: value name: value name: value name: value |
ecoli_hifi_01.fastq.gz ecoli_hifi_02.fastq.gz ecoli_hifi_03.fastq.gz ecoli_hifi_04.fastq.gz ecoli_hifi_05.fastq.gz ecoli_hifi_06.fastq.gz ecoli_hifi_07.fastq.gz ecoli_hifi_08.fastq.gz ecoli_hifi_09.fastq.gz value |
| Test-4 |
inputs: ['ecoli_01.fastq.gz', 'ecoli_02.fastq.gz', 'ecoli_03.fastq.gz', 'ecoli_04.fastq.gz', 'ecoli_05.fastq.gz', 'ecoli_06.fastq.gz', 'ecoli_07.fastq.gz'] mode_conditional|mode: --pacbio-raw meta: True |
name: value name: value name: value name: value |
ecoli_01.fastq.gz ecoli_02.fastq.gz ecoli_03.fastq.gz ecoli_04.fastq.gz ecoli_05.fastq.gz ecoli_06.fastq.gz ecoli_07.fastq.gz value |
| Test-5 |
inputs: ['ecoli_hifi_01.fastq.gz', 'ecoli_hifi_02.fastq.gz', 'ecoli_hifi_03.fastq.gz', 'ecoli_hifi_04.fastq.gz', 'ecoli_hifi_05.fastq.gz', 'ecoli_hifi_06.fastq.gz', 'ecoli_hifi_07.fastq.gz', 'ecoli_hifi_08.fastq.gz', 'ecoli_hifi_09.fastq.gz'] mode_conditional|mode: --nano-hq min_overlap: 1000 |
name: value name: value name: value name: value |
ecoli_hifi_01.fastq.gz ecoli_hifi_02.fastq.gz ecoli_hifi_03.fastq.gz ecoli_hifi_04.fastq.gz ecoli_hifi_05.fastq.gz ecoli_hifi_06.fastq.gz ecoli_hifi_07.fastq.gz ecoli_hifi_08.fastq.gz ecoli_hifi_09.fastq.gz value |
| Test-6 |
inputs: ['ecoli_hifi_01.fastq.gz', 'ecoli_hifi_02.fastq.gz', 'ecoli_hifi_03.fastq.gz', 'ecoli_hifi_04.fastq.gz', 'ecoli_hifi_05.fastq.gz', 'ecoli_hifi_06.fastq.gz', 'ecoli_hifi_07.fastq.gz', 'ecoli_hifi_08.fastq.gz', 'ecoli_hifi_09.fastq.gz'] mode_conditional|hifi_error: 0.21 mode_conditional|mode: --pacbio-hifi min_overlap: 1000 |
name: value name: value name: value name: value |
ecoli_hifi_01.fastq.gz ecoli_hifi_02.fastq.gz ecoli_hifi_03.fastq.gz ecoli_hifi_04.fastq.gz ecoli_hifi_05.fastq.gz ecoli_hifi_06.fastq.gz ecoli_hifi_07.fastq.gz ecoli_hifi_08.fastq.gz ecoli_hifi_09.fastq.gz value |
| Test-7 |
inputs: ['ecoli_hifi_01.fastq.gz', 'ecoli_hifi_02.fastq.gz', 'ecoli_hifi_03.fastq.gz', 'ecoli_hifi_04.fastq.gz', 'ecoli_hifi_05.fastq.gz', 'ecoli_hifi_06.fastq.gz', 'ecoli_hifi_07.fastq.gz', 'ecoli_hifi_08.fastq.gz', 'ecoli_hifi_09.fastq.gz'] mode_conditional|mode: --pacbio-corr min_overlap: 1000 |
name: value name: value name: value name: value |
ecoli_hifi_01.fastq.gz ecoli_hifi_02.fastq.gz ecoli_hifi_03.fastq.gz ecoli_hifi_04.fastq.gz ecoli_hifi_05.fastq.gz ecoli_hifi_06.fastq.gz ecoli_hifi_07.fastq.gz ecoli_hifi_08.fastq.gz ecoli_hifi_09.fastq.gz value |
| Test-8 |
inputs: ['ecoli_hifi_01.fastq.gz', 'ecoli_hifi_02.fastq.gz', 'ecoli_hifi_03.fastq.gz', 'ecoli_hifi_04.fastq.gz', 'ecoli_hifi_05.fastq.gz', 'ecoli_hifi_06.fastq.gz', 'ecoli_hifi_07.fastq.gz', 'ecoli_hifi_08.fastq.gz', 'ecoli_hifi_09.fastq.gz'] mode_conditional|mode: --nano-hq min_overlap: 1000 |
name: value name: value name: value name: value |
ecoli_hifi_01.fastq.gz ecoli_hifi_02.fastq.gz ecoli_hifi_03.fastq.gz ecoli_hifi_04.fastq.gz ecoli_hifi_05.fastq.gz ecoli_hifi_06.fastq.gz ecoli_hifi_07.fastq.gz ecoli_hifi_08.fastq.gz ecoli_hifi_09.fastq.gz value |
| Test-9 |
inputs: nanopore.fasta.gz mode_conditional|mode: --nano-raw iterations: 0 no_alt_contigs: True |
name: value name: value name: value name: value |
nanopore.fasta.gz value |