FileNotFoundError virsorter/group file and with the test run

Question

FileNotFoundError virsorter/group file and with the test run

LaurenceHdL opened this issue a year ago · 8 comments

LaurenceHdL commented a year ago

Hi!
I keep having this issue when I try to run something it also happened during the test run:

FileNotFoundError: [Errno 2] No such file or directory: '/project/6002639/VirSorter2/virsorter/group'

and also this type of error during the test run:

Usage: virsorter run [OPTIONS] [[all|classify]] [SNAKEMAKE_ARGS]...
Try 'virsorter run -h' for help.

Error: Invalid value for '[[all|classify]]': '--min-lenght' is not one of 'all', 'classify'.

Thank you for the help!

Answer 1 · 2023-10-25T04:34:58.000Z

Hi, what command did you use? can you paste the complete message output from VS2? Thanks!

Answer 2 · 2023-10-26T16:46:10.000Z

LaurenceHdL commented a year ago

Capture d’écran, le 2023-10-26 à 12 40 24

Answer 3 · 2023-10-26T21:34:49.000Z

Hi, it looks like the database you setup in /project/6002639/VirSorter2/virsort is no long there? You can rerun the database setup step or point virsorter run to where the database is by --db-dir.

Answer 4 · 2023-10-27T21:55:25.000Z

I did the setup of the db and now I have another issue could you help me with that also?

Answer 5 · 2023-10-27T23:12:06.000Z

Hi, you can try to remove the --conda-frontend conda from your command.

Answer 6 · 2023-10-27T23:14:15.000Z

BTW, your version v2.1 and latest is v.2.2.4. I recommend an update.

Answer 7 · 2023-11-03T16:16:01.000Z

I'm still having an issue, how can i solve it? Thank you!

Answer 8 · 2023-11-04T01:29:25.000Z

It's saying the input file -i does not exist. You can double check if the path is valid.