tseemann / prokka

:zap: :aquarius: Rapid prokaryotic genome annotation
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Cannot download DB of viruses #689

Open ruqaiyatasneem opened 3 months ago

ruqaiyatasneem commented 3 months ago

I am new to bioinformatics field and I wanted to try prokka so I installed it and it says I have to run prokka --setupdb during that it says Error: File existence/permissions problem in trying to open CM file /home/ruqaiya/.local/lib/prokka/db/cm/Viruses. CM file /home/ruqaiya/.local/lib/prokka/db/cm/Viruses not found (nor an .i1m binary of it) I am installing it on conda on WSL

Screenshot (748) `which cmpress /usr/bin/cmpress cmpress -h

cmpress :: prepare an CM database for faster cmscan searches

INFERNAL 1.1.4 (Dec 2020)

Copyright (C) 2020 Howard Hughes Medical Institute.

Freely distributed under the BSD open source license.

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Usage: cmpress [-options]

Options: -h : show brief help on version and usage -F : force: overwrite any previous pressed files ls -lsa /usr/local/bin/../db/cm/Viruses ls: cannot access '/usr/local/bin/../db/cm/Viruses': No such file or directory`

7feeling commented 3 weeks ago

@ruqaiyatasneem Use this '$HOME/prokka/bin/prokka --setupdb' command as it written at the main page and try to use all needed commands in such format '$HOME/prokka/bin/prokka --options '