take into account gembase complete genome format:

gembase format is ESCO.0421.00001.prt for filenames and ESCO.0421.00001.00001i_0001 for protein names
gembase complete genomes format is ESCO.0421.00001.C001.prt nd EXCO.0421.00001.C001_0001 for protein names

-> now, genome names can contain a '.' (but still no '_')