I've recently resurrected a bioinformatics pipeline I put together a few years ago to load bacterial genome GenBank files into a MySQL database.
Having downloaded *.gbk from the genomes/Bacteria directory on ftp.ncbi.nih.gov, however, I get an error with many of the files:
ValueError: Expected CONTIG continuation line, got: ORIGIN
It seems that there's an additional CONTIG field immediately before the nucleotide sequence (for example, this occurs with NC_019435.gbk).
Can anyone shed any light on the reason for this error now arising? I don't have any 'old versions' of these files around, but assume that the file format has been modified by GenBank?