Problem running the tests

[Former user]

Hello, When I try to run the test in the tutorial "python3 run_resfinder.py -o ~/Desktop/ -s "Escherichia coli" -l 0.6 -t 0.8 --acquired -ifq /home/studentman/Desktop/resfinder/tests/data/test_isolate_03.fa", there's this error: Error: KMA did not run as expected. KMA finished with the following response:

Filename: /home/studentman/Desktop/resfinder/db_resfinder/aminoglycoside.length.b Error: 2 (No such file or directory) Thank you

[CGE Helpdesk]

Thank you for your interest the ResFinder service.

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After downloading KMA it should be used to index the db_resfinder. 
When you run

cd path/to/db_resfinder
python3 INSTALL.py

it will result in several files in the db_resfinder directory, one with the ending .lenght.b.

Try to redo the indexing, check that it results in a file named aminoglycoside.length.b in the db_resfinder directory and let us know if you still are having problems.

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Best,
Karen, CGE Helpdesk

[CGE Helpdesk]

Dear User,

Did the above suggestion solve your problem, and can we mark the issue as resolved?

Kind regards

Malene, CGE Helpdesk