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clingen-data-model
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clinvar-ingest
Apache License 2.0
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Add fields to final processing_history records during bq-ingester run
#253
theferrit32
opened
6 days ago
0
Add `schema_version` to `processing_history`
#252
theferrit32
opened
1 week ago
1
clinvar_2024_11_11_v2_0_0_alpha dataset missing clinical assertion interpretation_description
#251
theferrit32
opened
1 week ago
0
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
theferrit32
opened
1 week ago
0
Update cloud run configs and dataset names and comments
#249
theferrit32
closed
1 week ago
0
Clean up processing history table(s)
#248
theferrit32
closed
6 days ago
8
Run the lint script from ci action instead of re-specifying check commands
#247
theferrit32
closed
3 weeks ago
0
Replace isort, black, pylint with ruff
#246
theferrit32
closed
3 weeks ago
5
Override CLINVAR_INGEST_BQ_META_DATASET in github action test pipelin…
#245
theferrit32
closed
3 weeks ago
0
Close #243 scv interpretation null bug
#244
theferrit32
closed
1 month ago
0
Fix missing interpretation_description values in new clinical_assertion tables
#243
theferrit32
closed
1 month ago
1
Deploy bq-ingest and bq-ingest-new so that old and new VCV schemas can be ingested
#242
theferrit32
closed
1 week ago
3
Update github action test runs to use a "test" dataset in bigquery for processing history, and add bq-ingest run to the end
#241
theferrit32
closed
1 week ago
1
Update deploy-job github action to add clinvar-vcv-ingest-new
#240
theferrit32
closed
1 month ago
0
Update `clinvar-somatic-ftp-watcher` to `clinvar-vcv-ftp-watcher-new` and point at `clinvar-vcv-ingest-new`
#239
theferrit32
closed
1 month ago
0
Issue #236. Add most_recent_submission to VariationArchive. Add test …
#238
theferrit32
closed
1 month ago
1
Address deprecation warnings
#237
theferrit32
opened
1 month ago
0
Add VCV_ID as a field to VariationArchiveClassification link this back to the VariationArchive
#236
theferrit32
closed
1 month ago
1
Investigate long runtimes on vcv parsing
#235
theferrit32
opened
1 month ago
0
`rcv_accession_id` missing from `clinical_assertion` table
#234
theferrit32
closed
1 month ago
2
Add final dataset name to the processing_history table after bq-ingest runs
#233
theferrit32
opened
1 month ago
0
Add RCVs and VCVs so that there are some variants in the intersection
#232
theferrit32
closed
1 month ago
2
Deploy clinvar-new cloud run job
#231
theferrit32
closed
1 month ago
3
Remove included record classification
#230
hdziadzio
closed
1 month ago
1
Fix false-positive Classification detection in IncludedRecords
#229
theferrit32
closed
1 month ago
0
New workflow for generating clinvar-gk files
#228
toneillbroad
closed
1 month ago
0
Add exhaustive input/output file tests
#227
theferrit32
opened
2 months ago
0
Add classification tests for new somatic+oncogenicity types
#226
theferrit32
closed
1 month ago
1
Create snapshots during internal table creation
#225
theferrit32
opened
2 months ago
0
Fix execute script slack disable
#224
theferrit32
closed
2 months ago
0
adding rcv_mapping.trait_set_contnent
#223
toneillbroad
closed
2 months ago
0
Adding support for the ClinVar classification model XML
#222
theferrit32
closed
1 month ago
1
Plan out version migration for old/new XML model
#221
theferrit32
closed
1 month ago
1
Change table/entity_types from `*_somatic` to `*_v2` because somatic is confusing
#220
theferrit32
closed
1 month ago
1
Add workflow step to BQ Ingest Workflow for automatically seeding and executing Larrys BQ procedures
#219
toneillbroad
opened
2 months ago
0
Cleanup clinvar-ingests currently in BQ dev environment
#218
toneillbroad
closed
1 month ago
0
Add trait_set json to the `rcv_mapping` table
#217
theferrit32
closed
1 month ago
0
Adding support for the clinvar somatic model XML
#216
theferrit32
closed
2 months ago
1
Update pylint ruff
#215
theferrit32
closed
2 months ago
0
Add clinvar-somatic GermlineClassifications to new `variation_archive_classifications` table
#214
theferrit32
closed
2 months ago
0
Add a bq_ingest_processing flag to processing_history to stop multipl…
#213
toneillbroad
closed
3 months ago
0
Add protection from multiple concurrent simultaneous BQ Ingest jobs
#212
toneillbroad
closed
2 months ago
0
Minor deployment change for new release
#211
toneillbroad
closed
3 months ago
0
Processing history refactoring and joining rcv-vcv pairs
#210
theferrit32
closed
3 months ago
0
Update processing_history_table
#209
toneillbroad
closed
4 months ago
1
Add processing history
#208
theferrit32
closed
4 months ago
0
Add copy-only workflow job
#207
theferrit32
closed
4 months ago
0
Create another workflow file that just copies the input file to the destination bucket
#206
theferrit32
closed
4 months ago
0
Manually copy over past new-schema VCV and RCV files into ingest bucket
#205
theferrit32
opened
4 months ago
2
Minor change to descendant_tree to apply recent Haplotype changes to SimpleAllele and add a self-contained test
#200
theferrit32
closed
4 months ago
0
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