Enable usage of file name as genome ID in pynteny build
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Robaina commented
Actually, this is still an issue when using a directory of fasta/gbk files to build the peptide database. Since genome ID will coincide with the contig and thus the genome of origin may be lost if this info is not within the contig name.
We could add an option to use the file name as a genome ID in pynteny build. This would solve the issue. The user would have to ensure that file names would carry genome ID info.