nf-core_modules/modules/malt/run/meta.yml
James A. Fellows Yates 72b96f4e50
Add missing $prefix definition for MALT_RUN (#1373)
* fix: remove left-over unnecessary code

* Add forgotten prefix for the log

* Update meta.yml

* Update tests

Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com>
2022-03-03 17:58:04 +01:00

58 lines
1.6 KiB
YAML

name: malt_run
description: MALT, an acronym for MEGAN alignment tool, is a sequence alignment and analysis tool designed for processing high-throughput sequencing data, especially in the context of metagenomics.
keywords:
- malt
- alignment
- metagenomics
- ancient DNA
- aDNA
- palaeogenomics
- archaeogenomics
- microbiome
tools:
- malt:
description: A tool for mapping metagenomic data
homepage: https://www.wsi.uni-tuebingen.de/lehrstuehle/algorithms-in-bioinformatics/software/malt/
documentation: https://software-ab.informatik.uni-tuebingen.de/download/malt/manual.pdf
tool_dev_url: None
doi: "10.1038/s41559-017-0446-6"
licence: ["GPL v3"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- fastqs:
type: file
description: Input FASTQ files
pattern: "*.{fastq.gz,fq.gz}"
- mode:
type: string
description: Program mode
pattern: "Unknown|BlastN|BlastP|BlastX|Classifier"
- index:
type: directory
description: Index/database directory from malt-build
pattern: "*/"
output:
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- rma6:
type: file
description: MEGAN6 RMA6 file
pattern: "*.rma6"
- sam:
type: file
description: Alignment files in Tab, Text or MEGAN-compatible SAM format
pattern: "*.{tab,txt,sam}"
- log:
type: file
description: Log of verbose MALT stdout
pattern: "*-malt-run.log"
authors:
- "@jfy133"