a pangenome-scale aligner
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
fasta_gz
:file
BGZIPPED FASTA target file to create the mappings from.
{fa.gz,fna.gz,fasta.gz}
paf
Optional inpute file in PAF format to derive the precise alignments for.
*.{paf}
gzi
The GZI index of the input FASTA file.
*.{gzi}
fai
The FASTA index of the input FASTA file.
*.{fai}
query_self
:boolean
If set to true, the input FASTA will also be used as the query FASTA.
fasta_query_list
Optional inpute file in FASTA format specifying the query sequences as a list.
*.{fa,fna,fasta}
*.paf
Alignments in PAF format
versions_wfmash
${task.process}
:string
The name of the process
wfmash
The name of the tool
wfmash --version 2>&1 | cut -f 1 -d "-" | cut -f 2 -d "v"
:eval
The expression to obtain the version of the tool
versions
