Closed HenrikSpiegel closed 1 year ago
prescreening_genes.Snakefile signature_genes.Snakefile
The idea is to run them via a submodule in Screener. for prescreening we need to only run some of the rules in the snakefile.
snakemake --use-conda -s MAGinator/maginator/workflow/signature_genes.Snakefile --resources mem_gb=180 --config wd=test reads=reads.csv contigs=contigs.fasta vamb=clusters.tsv params=test/parameters.tab --cores 40 --printshellcmds --dryrun
HenrikSpiegel
commented
2 years ago HenrikSpiegel
commented
2 years ago
Files to run:
prescreening_genes.Snakefile signature_genes.Snakefile
The idea is to run them via a submodule in Screener. for prescreening we need to only run some of the rules in the snakefile.
Example call:
snakemake --use-conda -s MAGinator/maginator/workflow/signature_genes.Snakefile --resources mem_gb=180 --config wd=test reads=reads.csv contigs=contigs.fasta vamb=clusters.tsv params=test/parameters.tab --cores 40 --printshellcmds --dryrun