Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Update citations import - remove die #1024

Merged

Conversation

dglemos
Copy link
Contributor

@dglemos dglemos commented Aug 3, 2023

In release 111, the import died: "No variation found for '$variation_id'!\n"
There was a new dbSNP + the citation tables were copied from the previous release (these included variants from old dbSNP version).
Some variants were not included in 111 anymore so the script was killed when the variant was not found.
This PR replaces the die statement with a print.
We should let the script finish and investigate why/if some variants/publications were not found.

@nuno-agostinho nuno-agostinho self-requested a review August 4, 2023 08:59
@nuno-agostinho nuno-agostinho self-assigned this Aug 4, 2023
@nakib103 nakib103 added the e111 label Aug 30, 2023
Copy link
Contributor

@nuno-agostinho nuno-agostinho left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Seems to work as expected, thanks @dglemos!

@nuno-agostinho nuno-agostinho merged commit 40d971a into Ensembl:postreleasefix/111 Sep 4, 2023
1 check passed
@nuno-agostinho
Copy link
Contributor

Merged to main and release/111.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
Projects
None yet
3 participants