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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>
41 lines
1 KiB
YAML
41 lines
1 KiB
YAML
name: last_lastdb
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description: Prepare sequences for subsequent alignment with lastal.
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keywords:
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- LAST
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- index
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- fasta
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- fastq
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tools:
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- last:
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description: LAST finds & aligns related regions of sequences.
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homepage: https://gitlab.com/mcfrith/last
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documentation: https://gitlab.com/mcfrith/last/-/blob/main/doc/lastdb.rst
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tool_dev_url: https://gitlab.com/mcfrith/last
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doi: ""
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licence: ["GPL-3.0-or-later"]
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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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- fastx:
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type: file
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description: >
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Sequence file in FASTA or FASTQ format.
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May be compressed with gzip.
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pattern: "*.{fasta,fasta.gz,fastq,fastq.gz}"
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output:
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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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- index:
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type: directory
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description: directory containing the files of the LAST index
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pattern: "lastdb/"
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authors:
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- "@charles-plessy"
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