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3c4d9466f4
* initial 'modules create' of minia * fixed tests * finished meta.yml * fixed filters.yml * resolved issues in pytest_software.yml * add newline * Update software/minia/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
67 lines
2 KiB
YAML
67 lines
2 KiB
YAML
name: minia
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description: Minia is a short-read assembler based on a de Bruijn graph
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keywords:
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- assembly
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tools:
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- minia:
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description: |
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Minia is a short-read assembler based on a de Bruijn graph, capable of assembling
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a human genome on a desktop computer in a day. The output of Minia is a set of contigs.
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homepage: https://github.com/GATB/minia
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documentation: https://github.com/GATB/minia
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params:
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- outdir:
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type: string
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description: |
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The pipeline's output directory. By default, the module will
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output files into `$params.outdir/<SOFTWARE>`
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- publish_dir_mode:
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type: string
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description: |
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Value for the Nextflow `publishDir` mode parameter.
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Available: symlink, rellink, link, copy, copyNoFollow, move.
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- enable_conda:
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type: boolean
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description: |
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Run the module with Conda using the software specified
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via the `conda` directive
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- singularity_pull_docker_container:
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type: boolean
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description: |
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Instead of directly downloading Singularity images for use with Singularity,
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force the workflow to pull and convert Docker containers instead.
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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: Input reads in FastQ format
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pattern: "*.{fastq.gz, fastq}"
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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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- contigs:
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type: file
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description: The assembled contigs
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pattern: "*.contigs.fa"
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- unitigs:
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type: file
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description: The assembled unitigs
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pattern: "*.unitigs.fa"
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- h5:
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type: file
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description: Minia output h5 file
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pattern: "*{.h5}"
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- version:
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type: file
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description: File containing software version
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pattern: "*.{version.txt}"
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authors:
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- "@drpatelh"
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- "@kevinmenden"
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