Closed aclum closed 4 months ago
add --map option not work on assembly file: assembly.contigs.fasta
but work on
assembly file: Ga0597049_contigs.fna
with map file, the mbin.py workflow will convert the depth coverage info generated from pairedMapped.sam.gz into metabat.depth.mapped
file with correct ID.
When NMDC runs workflows where the assembly was generated at JGI the binning workflow needs a mapping file to convert between the assembly fasta file and annotation files. We need to update the workflow such that there is an option to specify --map
related to https://github.com/microbiomedata/metaMAGs/issues/26
Files that can be used to test this: https://data.jgi.doe.gov/search?q=1414320&expanded=IMG_AP-1414320
assembly file: assembly.contigs.fasta mapping file: Ga0597049_contig_names_mapping.tsv