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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>
45 lines
1.3 KiB
YAML
45 lines
1.3 KiB
YAML
name: mash_dist
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description: Calculate Mash distances between reference and query seqeunces
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keywords:
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- mash/dist
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tools:
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- mash:
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description: Fast sequence distance estimator that uses MinHash
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homepage: https://github.com/marbl/Mash
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documentation: https://mash.readthedocs.io/en/latest/sketches.html
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tool_dev_url: https://github.com/marbl/Mash
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doi: "10.1186/s13059-016-0997-x"
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licence: ["https://github.com/marbl/Mash/blob/master/LICENSE.txt"]
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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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- reference:
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type: file
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description: FASTA, FASTQ or Mash sketch
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pattern: "*.{fasta,fasta.gz,fastq,fastq.gz,msh}"
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- query:
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type: file
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description: FASTA, FASTQ or Mash sketch
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pattern: "*.{fasta,fasta.gz,fastq,fastq.gz,msh}"
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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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- dist:
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type: file
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description: The results from mash dist
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pattern: "*.txt"
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authors:
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- "@rpetit3"
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