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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>
43 lines
1.2 KiB
YAML
43 lines
1.2 KiB
YAML
name: abricate_run
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description: Screen assemblies for antimicrobial resistance against multiple databases
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keywords:
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- bacteria
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- assembly
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- antimicrobial reistance
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tools:
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- abricate:
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description: Mass screening of contigs for antibiotic resistance genes
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homepage: https://github.com/tseemann/abricate
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documentation: https://github.com/tseemann/abricate
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tool_dev_url: https://github.com/tseemann/abricate
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doi: ""
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licence: ["GPL v2", "GPL v2"]
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input:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- assembly:
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type: file
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description: FASTA, GenBank or EMBL formatted file
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pattern: "*.{fa,fasta,fna,fa.gz,fasta.gz,fna.gz,gbk,gbk.gz,embl,embl.gz}"
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output:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- versions:
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type: file
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description: File containing software versions
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pattern: "versions.yml"
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- report:
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type: file
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description: Tab-delimited report of results
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pattern: "*.{txt}"
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authors:
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- "@rpetit3"
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