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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>
50 lines
1.3 KiB
YAML
50 lines
1.3 KiB
YAML
name: adapterremoval
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description: Trim sequencing adapters and collapse overlapping reads
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keywords:
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- trimming
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- adapters
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- merging
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- fastq
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tools:
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- adapterremoval:
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description: The AdapterRemoval v2 tool for merging and clipping reads.
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homepage: https://github.com/MikkelSchubert/adapterremoval
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documentation: https://adapterremoval.readthedocs.io
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licence: ["GPL v3"]
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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, collapse:false ]
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- reads:
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type: file
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description: |
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List of input FastQ files of size 1 and 2 for single-end and paired-end data,
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respectively.
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pattern: "*.{fq,fastq,fg.gz,fastq.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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- reads:
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type: file
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description: |
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List of input adapter trimmed FastQ files of size 1 or 2 for
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single-end or collapsed data and paired-end data, respectively.
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pattern: "*.{fastq.gz}"
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- log:
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type: file
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description: AdapterRemoval log file
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pattern: "*.log"
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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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authors:
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- "@maxibor"
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