Skip to content

Issues: clingen-data-model/clinvar-ingest

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.

Sign up for GitHub

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

23 Open 146 Closed
23 Open 146 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Add schema_version to processing_history
#252 opened Nov 25, 2024 by theferrit32
@theferrit32
1
clinvar_2024_11_11_v2_0_0_alpha dataset missing clinical assertion interpretation_description
#251 opened Nov 19, 2024 by theferrit32
@theferrit32
Run all prior v2 VCV XML files and copy existing v2 RCV XML entries into the clinvar_ingest.processing_history table so they can be paired
#250 opened Nov 19, 2024 by theferrit32
Address deprecation warnings
#237 opened Oct 17, 2024 by theferrit32
Investigate long runtimes on vcv parsing
#235 opened Oct 15, 2024 by theferrit32
Add final dataset name to the processing_history table after bq-ingest runs
#233 opened Oct 10, 2024 by theferrit32
@theferrit32
Add exhaustive input/output file tests
#227 opened Oct 1, 2024 by theferrit32
Create snapshots during internal table creation
#225 opened Sep 30, 2024 by theferrit32
@theferrit32
Add workflow step to BQ Ingest Workflow for automatically seeding and executing Larrys BQ procedures
#219 opened Sep 24, 2024 by toneillbroad
@toneillbroad
Manually copy over past new-schema VCV and RCV files into ingest bucket
#205 opened Jul 22, 2024 by theferrit32
@larrybabb @theferrit32
2
Create post-ingest step to link SCVs to TraitSets through new RCV-SCV mapping table
#189 opened Jun 25, 2024 by theferrit32
@larrybabb
Audit stage for any one-off tables that maybe needed for downstream services
#148 opened May 21, 2024 by toneillbroad
@larrybabb
Alter the VCI service that is used to lookup ClinVar SVC Ids is re-pointed to prod tables
#147 opened May 21, 2024 by toneillbroad
@larrybabb
Make sure all VCEP, GC, CVC and GK-Pilot services point to the new prod ingest tables
#146 opened May 21, 2024 by toneillbroad
@larrybabb
1
Setup new ClinGen ClinVar workflow to point to production environment
#145 opened May 21, 2024 by toneillbroad
Migrate historical stage ClinVar datasets to prod cluster
#144 opened May 21, 2024 by toneillbroad
@larrybabb
Deploy, run and validate temporal table production to support GenomeConnect, VCEP reports, CvC and GKS Production files
#143 opened May 21, 2024 by toneillbroad
Replace DSP ClinVar ingest pipeline in production with the ClinGen version Epic
#138 opened May 17, 2024 by toneillbroad
Add clinvar-ingest per clinvar release Q/A measures to workflow
#134 opened Apr 4, 2024 by toneillbroad
@toneillbroad
1
Create xml_archive metadata table
#119 opened Feb 28, 2024 by theferrit32
Evaluate binary row/column formats Parquet and Avro
#74 opened Dec 18, 2023 by theferrit32
Model subclasses decorated with @dataclass cannot inherit concrete methods on Model that are set by dataclass
#51 opened Dec 4, 2023 by theferrit32
Create GermlineClassification MVP output file(s) for use in tests 2.0-alpha
#5 opened Oct 18, 2023 by theferrit32
@larrybabb
ProTip! Type g p on any issue or pull request to go back to the pull request listing page.