line 9 error

[Harley Boniface]

Hi,

I’ve suddenly started getting the following errors:

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Traceback (most recent call last): File "/home/user/resfinder/run_resfinder.py", line 9, in <module> from cge.resfinder import ResFinder File "/home/user/resfinder/cge/resfinder.py", line 9, in <module> from tabulate import tabulate ModuleNotFoundError: No module named 'tabulate'

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I think it has started after a recent update to ‘brew’

[Edison Alain von Matt]

Dear Harley Boniface,

thank you for your message.

It looks like your tabulate module is not correctly installed, or your python version can not find the correct path.

I would suggest that you reinstall or update tabulate and try it again (some of the below commands could help):

pip install tabulate or pip3 install tabulate

pip install --upgrade tabulate or pip3 install --upgrade tabulate

python3 -m pip install tabulate

Please let me know if this resolved your issue.

Best regards

Eddy

[Harley Boniface]

Hi Eddy,

Thanks for your response.

I’ve resolved the ‘tabulate’ error thank you. But each time a new module causes resfinder to fail, e.g. cgecore, Bio etc. I’ve reached:

‘ModuleNotFoundError: No module named 'git'’

And it will not install.

Is it just better for me to reinstall resfinder?

Thanks.

[Edison Alain von Matt]

Dear Harley,

Do you get an error message when installing the git module? The relevant command is below:

pip install gitpython

But as you said, it might be better to reinstall ResFinder, as it should contain all the necessary modules.

Please let me know if this resolves your issue.

Best regards
Eddy

[Harley Boniface]

pip install gitpython

Fixes that error but then I get:

ModuleNotFoundError: No module named 'dateutil'

I will attempt to fully reinstall ResFinder.

Thank you for your help.

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