nf-core_modules/modules/shovill/meta.yml
Harshil Patel c5235a983d
nf-core modules bump-versions for all modules (#630)
* Add blacklist of modules that shouldn't be updated to .nf-core.yml

* nf-core modules bump-versions for all modules

* Remove TODO statements identified by linting

* Fix md5sums for failing tests

* Fix more tests
2021-07-28 09:10:44 +01:00

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YAML

name: shovill
description: Assemble bacterial isolate genomes from Illumina paired-end reads
keywords:
- bacterial
- assembly
- illumina
tools:
- shovill:
description: Microbial assembly pipeline for Illumina paired-end reads
homepage: https://github.com/tseemann/shovill
documentation: https://github.com/tseemann/shovill/blob/master/README.md
licence: ["GPL v2"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- reads:
type: file
description: List of input paired-end FastQ files
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
- contigs:
type: file
description: The final assembly produced by Shovill
pattern: "contigs.fa"
- corrections:
type: file
description: List of post-assembly corrections made by Shovill
pattern: "shovill.corrections"
- log:
type: file
description: Full log file for bug reporting
pattern: "shovill.log"
- raw_contigs:
type: file
description: Raw assembly produced by the assembler (SKESA, SPAdes, MEGAHIT, or Velvet)
pattern: "{skesa,spades,megahit,velvet}.fasta"
- gfa:
type: file
description: Assembly graph produced by MEGAHIT, SPAdes, or Velvet
pattern: "contigs.{fastg,gfa,LastGraph}"
authors:
- "@rpetit3"