MSG: Got a sequence without letters. Could not guess alphabet
augustkx opened this issue · 0 comments
augustkx commented
Dear Roary developers,
Thanks for developing such a useful tool. I met with a problem with one of the output files.
I noticed that this issue has been already mentioned by several users, your advise is to make some quality control, but I have a quite normal summary_statistics.txt.
Core genes (99% <= strains <= 100%) 1120
Soft core genes (95% <= strains < 99%) 162
Shell genes (15% <= strains < 95%) 818
Cloud genes (0% <= strains < 15%) 3854
Total genes (0% <= strains <= 100%) 5954
The command is
roary -p 20 -f .log/roary -e --mafft -v ./prokka_part/*gff -g 70000 -z
I will appreciate it very much if you could give me some hints. Thanks!