mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-14 05:43:08 +00:00
f080015754
* 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>
45 lines
1.3 KiB
YAML
45 lines
1.3 KiB
YAML
name: hamronization_summarize
|
|
description: Tool to summarize and combine all hAMRonization reports into a single file
|
|
keywords:
|
|
- amr
|
|
- antimicrobial resistance
|
|
- reporting
|
|
tools:
|
|
- hamronization:
|
|
description: Tool to convert and summarize AMR gene detection outputs using the hAMRonization specification
|
|
homepage: https://github.com/pha4ge/hAMRonization/blob/master/README.md
|
|
documentation: https://github.com/pha4ge/hAMRonization/blob/master/README.md
|
|
tool_dev_url: https://github.com/pha4ge/hAMRonization
|
|
doi: ""
|
|
licence: ["GNU Lesser General Public v3 (LGPL v3)"]
|
|
|
|
input:
|
|
- reports:
|
|
type: file
|
|
description: List of multiple hAMRonization reports in either JSON or TSV format
|
|
pattern: "*.{json,tsv}"
|
|
- format:
|
|
type: value
|
|
description: Type of final combined report file to be produced
|
|
pattern: "tsv|json|interactive"
|
|
|
|
output:
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- json:
|
|
type: file
|
|
description: hAMRonised summary in JSON format
|
|
pattern: "*.json"
|
|
- tsv:
|
|
type: file
|
|
description: hAMRonised summary in TSV format
|
|
pattern: "*.json"
|
|
- html:
|
|
type: file
|
|
description: hAMRonised summary in HTML format
|
|
pattern: "*.html"
|
|
|
|
authors:
|
|
- "@jfy133"
|