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Dev - #5364

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hanars merged 308 commits into
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dev
Mar 26, 2026
Merged

Dev#5364
hanars merged 308 commits into
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dev

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@hanars

@hanars hanars commented Mar 26, 2026 •
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  • 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:
    • Removes elasticsearch and its dependencies
  • Any database migrations are noted here, and will be run before deploying:
    • Adds additional metadata to saved variant model
  • 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:
    • removes elastcsearch-specific settings
  • The following charts will be updated as part of this release:
    • seqr
    • vlm

hanars added 30 commits February 13, 2026 12:12
@hanars
remove family samples selector
f3afb34
@hanars
scope down family samples selector
ba53408
@hanars
remove final samples seelctor
bde77c4
@hanars
fix bug with partial load families
e7c8e7b
@hanars
fix test
baacd0a
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sam…
302d183 
…ples-to-dataset-selectors
@hanars
better selectors
a8f88c5
@hanars
properly handle project agg val
86e40c5
@hanars
Merge branch 'es-deprecation' of https://github.com/broadinstitute/seqr…
33ed4e6 
… into single-backend-decorator-deprecation
@hanars
Merge branch 'es-deprecation' of https://github.com/broadinstitute/seqr…
b2555d7 
… into es-conditional-deprecation
@hanars
clean up
5c15bfc
@hanars
fix tests
9950a56
@hanars
helper clean up
afa8051
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sin…
a0ac95c 
…gle-backend-decorator-deprecation
@hanars
cleanup shared helper
6eab119
@hanars
codacy
eb2982b
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into es-…
e00de7d 
…search-deprecation
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sam…
f256a31 
…ples-to-dataset-selectors
@hanars
fixx typo
ea2cdba
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into es-…
28a5703 
…search-deprecation
@hanars
condense variant looku test
6b7ea89
@hanars
condense single search test
ab2420e
@hanars
clean up
cbd42ae
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into es-…
186a05a 
…conditional-deprecation
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sin…
d016655 
…gle-backend-decorator-deprecation
@hanars
move coe invalid search tests;
2a6d509
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sin…
a853b5a 
…gle-backend-decorator-deprecation
@hanars
move some invalid search tests
f6e0aec
@hanars
Merge pull request #5314 from broadinstitute/es-conditional-deprecation
c87d5da 
ES conditional code deprecation
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sin…
974ec01 
…gle-backend-decorator-deprecation
hanars and others added 26 commits March 20, 2026 17:12
@hanars
move constants
2ad3226
@hanars
move file
89a0222
@hanars
fix test
15f4ca2
@hanars
undo signature change
eda07f1
@hanars
clean up
ce68243
@hanars
Merge pull request #5351 from broadinstitute/search-sample-clean-up
75393ff 
Search sample clean up
@hanars
Merge pull request #5359 from broadinstitute/search-constants-clean-up
b050788 
Search constants clean up
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sav…
cff691e 
…ed-variant-detail-fields
@hanars
Merge branch 'saved-variant-detail-fields' of https://github.com/broa…
3b21819 
…dinstitute/seqr into saved-variant-model-fields
@hanars
Merge branch 'saved-variant-model-fields' of https://github.com/broad…
cee669f 
…institute/seqr into saved-variant-model-fields
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sea…
bb04e68 
…rch-cache-cleanup
@hanars
shared helper for single variant search
4877f9f
@hanars
shared search helper
d45732f
@hanars
update liogging tests
7f79019
@hanars
update liogging tests
c620a4d
@hanars
fix log tests
e004f10
@hanars
fix log tests
3b23ad7
@hanars
fix multi dt searches
5f95dd0
@hanars
Merge pull request #5356 from broadinstitute/saved-variant-model-fields
508f76b 
Add saved variant fields
@hanars
Merge pull request #5355 from broadinstitute/saved-variant-detail-fields
961980d 
Manual variant creation clean up
@hanars
Merge pull request #5358 from broadinstitute/search-cache-cleanup
7a0782c 
clean up caching
@hanars
Merge branch 'dev' of https://github.com/broadinstitute/seqr into sha…
0de3e9a 
…red-search-helper-func
@hanars
fix merge conflict
5718a9b
@hanars
Merge pull request #5361 from broadinstitute/shared-search-helper-func
903b963 
shared helper for single variant search
@dependabot
Bump picomatch from 2.3.1 to 2.3.2 in /ui
31838d5 
Bumps [picomatch](https://github.com/micromatch/picomatch) from 2.3.1 to 2.3.2.
- [Release notes](https://github.com/micromatch/picomatch/releases)
- [Changelog](https://github.com/micromatch/picomatch/blob/master/CHANGELOG.md)
- [Commits](micromatch/picomatch@2.3.1...2.3.2)

---
updated-dependencies:
- dependency-name: picomatch
  dependency-version: 2.3.2
  dependency-type: indirect
...

Signed-off-by: dependabot[bot] <support@github.com>
@hanars
Merge pull request #5362 from broadinstitute/dependabot/npm_and_yarn/…
e0f021e 
…ui/picomatch-2.3.2

Bump picomatch from 2.3.1 to 2.3.2 in /ui
github-advanced-security[bot]
github-advanced-security AI found potential problems Mar 26, 2026
View reviewed changes
Comment thread seqr/views/apis/data_manager_api.py Dismissed
@hanars
hanars marked this pull request as ready for review March 26, 2026 15:49
@hanars
hanars merged commit cdbbb41 into master Mar 26, 2026
14 of 15 checks passed
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@hanars @github-advanced-security @bpblanken