drep fixes (added bash wrapper to tar input folder and generate a list of input genomes)
drep also has 3 ways how to run it with CWL
1) input: Directory of genomes (worked OK as subwf with Toil on big input)
2) input: list of genomes (not worked on big input with Toil)
3) with tar wrapper (input: Directory): tar + wrapper_drep
rrna prediction uses all genomes from pangenomes and filtered singletons (used only cluster reps before)
drep fixes (added bash wrapper to tar input folder and generate a list of input genomes) drep also has 3 ways how to run it with CWL 1) input: Directory of genomes (worked OK as subwf with Toil on big input) 2) input: list of genomes (not worked on big input with Toil) 3) with tar wrapper (input: Directory): tar + wrapper_drep
rrna prediction uses all genomes from pangenomes and filtered singletons (used only cluster reps before)
raname_fasta dropped container
post-processing: annotated GFF added (without container)
post-processing: KEGG annotaations added (without container)
Issues: 1) Tools without containers:
https://github.com/DataBiosphere/toil/issues/3358