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57b43ed3de
* Update meta.yml by fixing html pattern expected Fixed html pattern typo: Before: pattern: "*.thml" After fix: pattern: "*.html" * main.nf for bbmap_clumpify * meta.yml for bbmap_clumpify * bbmap/clumpify via Gitpod and @mahesh-panchal guide * small changes to tests * explicit mention of output file pattern - *.clumped.fastq.gz * Update modules/bbmap/clumpify/main.nf Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se> * Update modules/bbmap/clumpify/main.nf Accepted @mahesh-panchal suggestions Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se> Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se> Co-authored-by: Matthias De Smet <11850640+matthdsm@users.noreply.github.com>
49 lines
1.3 KiB
YAML
49 lines
1.3 KiB
YAML
name: bbmap_clumpify
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description: Create 30% Smaller, Faster Gzipped Fastq Files. And remove duplicates
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keywords:
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- clumping fastqs
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- smaller fastqs
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- deduping
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- fastq
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tools:
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- bbmap:
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description: BBMap is a short read aligner, as well as various other bioinformatic tools.
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homepage: https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/clumpify-guide/
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documentation: https://www.biostars.org/p/225338/
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tool_dev_url: None
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doi: ""
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licence: ["UC-LBL license (see package)"]
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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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- 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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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: The reordered/clumped (and if necessary deduped) fastq reads
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pattern: "*.clumped.fastq.gz"
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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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- log:
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type: file
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description: Clumpify log file
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pattern: "*clumpify.log"
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authors:
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- "@tamuanand"
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