[BUG] Modules root directory does not exist.

vivekruhelaIIITD commented 1 month ago

Describe the bug I have just started using OakVar for variant annotation. I have successfully install the Oakvar using the instructions provided. Now, in the first step, I am trying to install Clinvar database using the following command:

ov module install clinvar

Here I am getting the following error:

modules root directory does not exist. Following modules were not installed due to problems: - clinvar

To Reproduce I gave the following command: ov module install clinvar

Expected behavior (optional) The command should run without any error.

Screenshots (optional)

Desktop (please complete the following information):

OS: Windows 10 Enterprise
OakVar Version 2.11.4

rkimoakbioinformatics commented 1 month ago

Hi, thanks for the bug report. I'll take a look.

rkimoakbioinformatics commented 1 month ago

@vivekruhelaIIITD modules root directory does not exist means that the folder where OakVar modules should be stored does not exist. Check the following may give a clue.

Run ov system check command: is there any error message?
Have you run ov system setup?
Did you use an external disk as the location for modules? If so, has the external disk been detached?

vivekruhelaIIITD commented 1 month ago

Thanks for responding. I checked the ov compatibility using ov system check, I got an error. Then I ran ov system setup which fixed it. Now I am able to run ov module install clinvar. I have attached the screenshot for your reference.

Thanks.

rkimoakbioinformatics / oakvar

[BUG] Modules root directory does not exist. #58