Dev #4431
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Dev #4431
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hanars
commented
Oct 15, 2024
hanars
commented
- All unit test are passing and coverage has not substantively dropped
- No new dependency vulnerabilities have been introduced
- Any changes to the docker image have been vetted for potential vulnerabilities
- If any python requirements are updated, they are noted and here and will be updated before deploying:
- Any database migrations are noted here, and will be run before deploying:
- Fix biosample options
- All major changes are recorded in the changelog, and the changelog has been updated to reflect the latest release
- Any new endpoints are explicitly tested to ensure they are only accessible to correctly permissioned users
- No secrets have been committed
- Any changes to environment variables or secrets are noted here, and will properly configured before deploying:
- Add HAIL_SEARCH_DATA_DIR, unset LUGUI env vars in tgg-helm
…rtup allow hail backend to run without all data types
Genotype filters per sample instead of per variant
…oadinstitute/seqr into airtable-sv-mito-loading-subset
…l-docs add auth to local install documentation
…ck-samples-cron-job
…OSTNAME` env vars. (#4405) * env var consistency * Change the port back * more explicit * Flip the ports
…ck-samples-cron-job
…l-search-sex-meatdata
* variant lookup table has sample_type * project_sample_types * with definitions * try hail * switch sample_type and family_guid in project_samples dict" " * more * existing multi project search test passes * lookup tests work * make sure existing search tests work * remove a print * migration and lookup response * js test fixtures * first pass at handling edge cases is just join filtered out variants back * more comments * space * add another family for unit testing * reduce joins * filter conditionally * fix some bugs * comments * test fixture * add another test case * working on inheritance filter changes * handle one edge case * mixin class * test project path * fix seqr tests * refactoring * fix the diff * keep _filter_families_inheritance * undo some things * remove constant * move the merging * n_partitions and genotype annotation * undo es utils test changes" git push * fix variant search api tests * lil fix * merging still not working as expected * apply_filters * fix a few tests * is_defined * Array.isArray * a few minor things * a few changes * rename * make loading logic similar * shared filter logic * use hl.dict * mirror base class * recessive test case * filtering * enum! * add test case * extra fixtures * data strcture for loading project hts and naming changes" * cleanup * refactor a bit * even simpler * tiny changes * even simpler * kwargs * fix a bug * reduce a wee bit of shrared code * try to make diff better * filters * move fixtures * coverage... * some comments * comment * fix some fixtures * comments * generalize loading project hts and checking for multiple sample types on project table load" * removed unused code and minor change * sorted? * bug fix * cleaner * search * fixtures * comments * ui fixtures * bug * simplify kwargs * starmap
uodate example variant id
Cap genes per mme submission
Add editable fields to bulk update download
…-subset Subset loading samples from airtable for SVs and MITO
Use boolean for sending sex metadata to hail search
…k-update-igv-paths
add command to bulk update IGV paths
Mito local constraint
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