mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +00:00
e745e167c1
* fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
76 lines
2 KiB
YAML
76 lines
2 KiB
YAML
name: plasmidid
|
|
description: assembles bacterial plasmids
|
|
keywords:
|
|
- assembly
|
|
- plasmid
|
|
- bacterial
|
|
tools:
|
|
- plasmidid:
|
|
description: Pipeline for plasmid identification and reconstruction
|
|
homepage: https://github.com/BU-ISCIII/plasmidID/wiki
|
|
documentation: https://github.com/BU-ISCIII/plasmidID#readme
|
|
tool_dev_url: https://github.com/BU-ISCIII/plasmidID
|
|
doi: ""
|
|
licence: ["GPL v3"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- scaffold:
|
|
type: file
|
|
description: |
|
|
Fasta file containing scaffold
|
|
- fasta:
|
|
type: file
|
|
description: FASTA reference file
|
|
pattern: "*.{fasta,fa}"
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- html:
|
|
type: file
|
|
description: html file with results rendered
|
|
pattern: "*.{html}"
|
|
- tab:
|
|
type: file
|
|
description: Results in a tabular file
|
|
pattern: "*.{tab}"
|
|
- images:
|
|
type: directory
|
|
description: Directory containing the images produced by plasmidid
|
|
pattern: "images"
|
|
- logs:
|
|
type: directory
|
|
description: Directory containing the logs produced by plasmidid
|
|
pattern: "logs"
|
|
- data:
|
|
type: directory
|
|
description: Directory containing the data produced by plasmidid
|
|
pattern: "data"
|
|
- database:
|
|
type: directory
|
|
description: Directory containing the database produced by plasmidid
|
|
pattern: "database"
|
|
- fasta_files:
|
|
type: directory
|
|
description: Directory containing the fasta files produced by plasmidid
|
|
pattern: "fasta_files"
|
|
- kmer:
|
|
type: directory
|
|
description: Directory containing the kmer files produced by plasmidid
|
|
pattern: "database"
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
|
|
authors:
|
|
- "@joseespinosa"
|
|
- "@drpatelh"
|