Clinvar module version 2024.08.01 appears to have lost ClinvarID as well as the link to Clinvar online database.

[clinical-ngs]

Describe the bug Clinvar version 2024.08.01 appers to have lost ClinvarID as well as the underlying link to Clinvar online database.

To Reproduce Steps to reproduce the behavior:

1. Update to the latest clinvar module (2024.08.01)
2. Annnotate a VCF file (we use Dragen Illumina 4.2 or GATK 4.5 to generate them) with a set of modules including Clinvar.
3. Open an annotated VCF and expand Clinvar from the + sign.
4. ClinvarID field is empty. ClinvarID field has no HTML link to Clinvar website.

Expected behavior ClinvarID field should include the specific ID number. ClinvarID should have a HTML link to Clinvar website

Screenshots

Desktop (please complete the following information):

• OS: Windows 10.
• Browser Chrome
• Version 127.0.6533.89 (Official Build) (64-bit)

Smartphone (please complete the following information):

• Device: [e.g. iPhone6]
• OS: [e.g. iOS8.1]
• Browser [e.g. stock browser, safari]
• Version [e.g. 22]

Additional context ClinvarID and the link to the online Clinvar database is essential for clinical analysis. This is the one of the essential features of OC.
The workaround is to use the rs ID and then use to link to Clinvar, if existing.

[skanderson]

Thanks for catching this! We added a lot of data to the ClinVar annotator and it looks like I forgot to include the ID field in the annotation. I just published a corrected version (2024.08.09), so you should be able to run oc module update clinvar to get the updated version with the ID and link fixed.