| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/2.2.1.4+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/2.2.1.3+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/0.11.6.0 |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/0.11.4.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/2.2.1.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/2.2.1.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread/2.2.1.0 |
| gffread |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| gffread | 0.12.7 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input: Homo_sapiens.GRCh37_19.71.gtf gffs|gff_fmt: gff |
name: value |
Homo_sapiens.GRCh37_19.71.gtf value |
| Test-2 |
input: Homo_sapiens.GRCh37_19.71.gtf chr_replace: chr_replace gffs|gff_fmt: gff |
name: value |
Homo_sapiens.GRCh37_19.71.gtf chr_replace value |
| Test-3 |
input: Homo_sapiens.GRCh37_19.71.gtf |
name: value |
Homo_sapiens.GRCh37_19.71.gtf value |
| Test-4 |
input: Homo_sapiens.GRCh37_19.71.gtf gffs|ensembl: True gffs|tname: track name gffs|gff_fmt: gff |
name: value |
Homo_sapiens.GRCh37_19.71.gtf value |
| Test-5 |
input: Homo_sapiens.GRCh37_19.71.gtf gffs|gff_fmt: gff |
name: value |
Homo_sapiens.GRCh37_19.71.gtf value |
| Test-6 |
input: ecoli-k12.gff3 gffs|gff_fmt: gff full_gff_attribute_preservation: True |
name: value |
ecoli-k12.gff3 value |
| Test-7 |
input: Homo_sapiens.GRCh37_19.71.gff3 gffs|gff_fmt: bed |
name: value |
Homo_sapiens.GRCh37_19.71.gff3 value |
| Test-8 |
input: Homo_sapiens.GRCh37_19.71.bed gffs|tname: track name gffs|gff_fmt: gff |
name: value |
Homo_sapiens.GRCh37_19.71.bed value |
| Test-9 |
input: Homo_sapiens.GRCh37_19.71.gtf region|range: 19:496500..504965 region|region_filter: filter gffs|gff_fmt: gtf |
name: value |
Homo_sapiens.GRCh37_19.71.gtf value |
| Test-10 |
input: Homo_sapiens.GRCh37_19.71.gtf region|range: 19:496500..504965 region|discard_partial: True region|region_filter: filter gffs|gff_fmt: gtf |
name: value |
Homo_sapiens.GRCh37_19.71.gtf value |
| Test-11 |
input: Homo_sapiens.GRCh37_19.71.gtf filtering: -C region|range: 19:496500..504965 region|region_filter: filter gffs|gff_fmt: gtf |
name: value |
Homo_sapiens.GRCh37_19.71.gtf value |
| Test-12 |
input: Homo_sapiens.GRCh37_19.71.gtf region|range: 19:496500..504965 region|region_filter: filter reference_genome|genome_fasta: Homo_sapiens.GRCh37.71.dna.chromosome.19.fa reference_genome|fa_outputs: ['-w exons.fa', '-x cds.fa', '-y pep.fa'] reference_genome|source: history gffs|gff_fmt: gtf |
name: value name: value name: value name: value |
Homo_sapiens.GRCh37_19.71.gtf Homo_sapiens.GRCh37.71.dna.chromosome.19.fa value |
| Test-13 |
input: stop_codons.gtf reference_genome|genome_fasta: Homo_sapiens.GRCh37.71.dna.chromosome.19.fa reference_genome|fa_outputs: ['-y pep.fa', '-S'] reference_genome|source: history |
name: value |
stop_codons.gtf Homo_sapiens.GRCh37.71.dna.chromosome.19.fa value |