nf-core_modules/modules/sistr/meta.yml
Edmund Miller f080015754
Prettier (#1405)
* style: Add prettier config files

* build: Add prettier vscode extension

* ci: Replace markdownlint and yamllint with prettier

* style: Run prettier

* style: Use indent of 2 for markdown as well

https://github.com/nf-core/tools/pull/1470#issuecomment-1071028358

* style: Fix indent

* style: Let editorconfig take over tab widths

* style: yaml => yml

* ci: Run prettier once

Co-authored-by: Phil Ewels <phil.ewels@scilifelab.se>

Co-authored-by: Phil Ewels <phil.ewels@scilifelab.se>
2022-03-18 14:27:50 +01:00

55 lines
1.5 KiB
YAML

name: sistr
description: Serovar prediction of salmonella assemblies
keywords:
- bacteria
- fasta
- salmonella
tools:
- sistr:
description: Salmonella In Silico Typing Resource (SISTR) commandline tool for serovar prediction
homepage: https://github.com/phac-nml/sistr_cmd
documentation: https://github.com/phac-nml/sistr_cmd
tool_dev_url: https://github.com/phac-nml/sistr_cmd
doi: "10.1371/journal.pone.0147101"
licence: ["Apache-2.0"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- fasta:
type: file
description: Nucleotide or protein sequences in FASTA format
pattern: "*.{fasta,fasta.gz,fa,fa.gz,fna,fna.gz,faa,faa.gz}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- tsv:
type: file
description: SISTR serovar prediction
pattern: "*.{tsv}"
- allele_json:
type: file
description: Allele sequences and info to JSON
pattern: "*.{json}"
- allele_fasta:
type: file
description: FASTA file destination of novel cgMLST alleles
pattern: "*.{fasta}"
- cgmlst_csv:
type: file
description: CSV file destination for cgMLST allelic profiles
pattern: "*.{csv}"
authors:
- "@rpetit3"