name: staphopiasccmec description: Predicts Staphylococcus aureus SCCmec type based on primers. keywords: - amr - fasta - sccmec tools: - staphopiasccmec: description: Predicts Staphylococcus aureus SCCmec type based on primers. homepage: https://staphopia.emory.edu documentation: https://github.com/staphopia/staphopia-sccmec tool_dev_url: https://github.com/staphopia/staphopia-sccmec doi: https://doi.org/10.7717/peerj.5261 licence: ['MIT'] input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - fasta: type: file description: FASTA assembly file pattern: "*.{fasta,fasta.gz,fa,fa.gz,fna,fna.gz}" 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}" - tsv: type: file description: Tab-delimited results pattern: "*.{tsv}" authors: - "@rpetit3"