DataBiosphere / azul

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LAST BUILD ON BRANCH upgrades/2025-07-07

branch: upgrades/2025-07-07

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• upgrades/2025-07-07
• achave11-ucsc/prod-feature-test
• anvilprod
• backports/031675ea
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• backports/2bb957b0
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• backports/bec7d20
• backports/c1b2b25
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• demo/4901-base
• demo/4901-chained
• develop
• feature/mkrause/604-export-to-terra
• github/issues/achave11-ucsc/6134-revert-workarounds
• gitlab/2023-01-31/v15.8.1
• hca/develop
• hca/integration
• hca/prod
• hca/staging
• hotfixes/7429-bump-manifest-lambda-memory
• hotfixes/7561-new-anvil12-snapshot
• hotfixes/achave11-ucsc/321-deindex-anvilprod
• hotfixes/achave11-ucsc/6806-dcp45-default-prod
• hotfixes/achave11-ucsc/6837-rm-cmgYaleGRU-snapshot
• hotfixes/achave11-ucsc/6902-index-dcp46
• hotfixes/achave11-ucsc/6954-6955-6922-optimizations
• hotfixes/achave11-ucsc/6955-rm-2043c65-prod
• hotfixes/achave11-ucsc/6955-rm-2043c65-prod-2
• hotfixes/achave11-ucsc/7073-dcp47-default
• hotfixes/achave11-ucsc/7260-index-dcp51-prod
• hotfixes/achave11-ucsc/7504-rm-disjunct-datasets
• hotfixes/achave11-ucsc/7574-drop-non-disjunctive-again
• hotfixes/achave11-ucsc/rm-snapshot-0d3a9994-anvil11
• hotfixes/danielsotirhos/4934-remove-hardcoded-catalog-in-test
• hotfixes/dsotirho-ucsc/6925-remove-snapshots
• hotfixes/dsotirho-ucsc/6976-remove-anvil9-snapshot
• hotfixes/dsotirho-ucsc/6997-reindex-lm8
• hotfixes/dsotirho-ucsc/7057-lm9
• hotfixes/dsotirho-ucsc/7173-mirror-partition-shortcut
• hotfixes/dsotirho-ucsc/7397-non-disjunctive-projects
• hotfixes/dsotirho-ucsc/7466-projects-max-size
• hotfixes/dsotirho-ucsc/7466-projects-max-size-2
• hotfixes/hannes-ucsc/#7243-null-file-size/anvilprod
• hotfixes/hannes-ucsc/6731-es-prod
• hotfixes/hannes-ucsc/7670-hprc-dupes
• hotfixex/achave11-ucsc/271-drop-snapshot-anvilprod
• issues/3008-update-tests-with-base_url
• issues/achave11-ucsc/2070-rm-warning-supp
• issues/achave11-ucsc/271-drop-snapsht
• issues/achave11-ucsc/289-log-rawbody
• issues/achave11-ucsc/299-fix-false-unauthorized
• issues/achave11-ucsc/300-zap-context
• issues/achave11-ucsc/311-clam-failed-alarm
• issues/achave11-ucsc/320-false-disclosure
• issues/achave11-ucsc/4560-dispose-of-workaround
• issues/achave11-ucsc/4890-fix-gitlab-mounting
• issues/achave11-ucsc/5096-fix-it
• issues/achave11-ucsc/5257-del-workarounds
• issues/achave11-ucsc/5428-check-branch-script
• issues/achave11-ucsc/6134-revert-reversion
• issues/achave11-ucsc/6134-update-s3-policy
• issues/achave11-ucsc/6141-ssm-agent
• issues/achave11-ucsc/6160-7218-amazon-linux-2023
• issues/achave11-ucsc/6205-add-contact-to-swagger
• issues/achave11-ucsc/6331-plan-cert-exp
• issues/achave11-ucsc/6404-log-req-body
• issues/achave11-ucsc/6404-log-req-body-2
• issues/achave11-ucsc/6429-bump-python
• issues/achave11-ucsc/6675-rm-bookworm-workarounds
• issues/achave11-ucsc/6684-fix-disk-alarms
• issues/achave11-ucsc/6736-reduce-alarm-threshold
• issues/achave11-ucsc/6751-make-dcp44-default
• issues/achave11-ucsc/6754-rm-ma-4rm-environment
• issues/achave11-ucsc/6758-index-dcp45
• issues/achave11-ucsc/6774-update-awscli
• issues/achave11-ucsc/6781-improve-failed-queues-handling
• issues/achave11-ucsc/6809-disable-bot-control
• issues/achave11-ucsc/6889-remove-labels
• issues/achave11-ucsc/6889-use-gh-api
• issues/achave11-ucsc/6918-vpn-timeout
• issues/achave11-ucsc/6941-CL-improvements
• issues/achave11-ucsc/6961-bump-docker
• issues/achave11-ucsc/7030-lean-snapshots-schedule
• issues/achave11-ucsc/7057-index-lm9
• issues/achave11-ucsc/7059-add-checker-script
• issues/achave11-ucsc/7115-prod-dcp48-default
• issues/achave11-ucsc/7128-HCA-atlas-support
• issues/achave11-ucsc/7139-validate_snapshots
• issues/achave11-ucsc/7143-dcp49
• issues/achave11-ucsc/7194-make-dcp50-default
• issues/achave11-ucsc/7217-make-lm9-default
• issues/achave11-ucsc/7219-tf-timeouts-fix
• issues/achave11-ucsc/7228-bump-TF-version
• issues/achave11-ucsc/7230-drop-anvil10-snaps
• issues/achave11-ucsc/7260-index-dcp51
• issues/achave11-ucsc/7261-bump-GL-AMI
• issues/achave11-ucsc/7294-timer-comnts
• issues/achave11-ucsc/7299-mirror-cl-item
• issues/achave11-ucsc/7315-index-dcp52
• issues/achave11-ucsc/7316-eliminate-literal-null-responses
• issues/achave11-ucsc/7329-rm-anvil10
• issues/achave11-ucsc/7347-reintroduce-anvil10_sources
• issues/achave11-ucsc/7363-change-defaults
• issues/achave11-ucsc/7383-debian-trixi
• issues/achave11-ucsc/7383-debian-trixie
• issues/achave11-ucsc/7405-update-terraform
• issues/achave11-ucsc/7441-bump-clamscan-alarm-period
• issues/achave11-ucsc/7443-bump-timeout
• issues/achave11-ucsc/7451-chanege-snapthot-id
• issues/achave11-ucsc/7468-bump-swagger
• issues/achave11-ucsc/7474-remove-priority-labels
• issues/achave11-ucsc/7514-make-dcp54-default
• issues/achave11-ucsc/7529-index-anvil12
• issues/achave11-ucsc/7538-modify-IT
• issues/achave11-ucsc/7552-index-dcp55
• issues/achave11-ucsc/7585-7590-update-defaults
• issues/achave11-ucsc/7606-terraform-1.14
• issues/achave11-ucsc/7607-python3.14
• issues/achave11-ucsc/7608-bump-docker
• issues/achave11-ucsc/7617-index-lm10-snapshots
• issues/achave11-ucsc/7633-eliminate-requests-usages
• issues/achave11-ucsc/7658-dcp56
• issues/achave11-ucsc/7716-fix-leftover-images
• issues/achave11-ucsc/7730-pin-runtime
• issues/achave11-ucsc/7776-silent-fail
• issues/achave11-ucsc/7781-containerd
• issues/achave11-ucsc/7800-anvil13
• issues/achave11-ucsc/7811-anvil13-default
• issues/achave11-ucsc/7819-7831-dcp
• issues/achave11-ucsc/7839-remove-deprecated-dos
• issues/achave11-ucsc/7843-claude.md
• issues/achave11-ucsc/7848-autoupdates-AL2023
• issues/achave11-ucsc/7856-update-providers
• issues/achave11-ucsc/7857-terraform-updates
• issues/achave11-ucsc/7890-dcp58-default
• issues/achave11-ucsc/7899-drop-CCDG_Broad_AI
• issues/achave11-ucsc/7909-SA-handover
• issues/achave11-ucsc/7937-update-template
• issues/achave11/1783-prevent-future-dep
• issues/achave11/1907-donor-age-hits-response
• issues/achave11/2362-windows-curl-download
• issues/achave11/4011-slack-sns-integration
• issues/achave11/4673-eliminate-burner-account
• issues/achave11/7242-bdbag-deprecation
• issues/amar/2750-partition-prefix-source
• issues/collaborative/2846-invalid-related_files-compact-manifest
• issues/danielsotirhos/4419-onboarding-instructions-for-terra-membership
• issues/danielsotirhos/4425-cell-suspension-from-cell-suspension
• issues/danielsotirhos/4858-add-git-secrets-to-prerequisites
• issues/danielsotirhos/4877-return-4xx-for-invalid-order-param
• issues/danielsotirhos/4878-return-4xx-for-invalid-version-param
• issues/danielsotirhos/4921-lm3-catalog
• issues/danielsotirhos/4921-lm3-catalog-2
• issues/dsotirho-ucsc/234-csp-fallback
• issues/dsotirho-ucsc/280-cloudwatch-alarms
• issues/dsotirho-ucsc/4450-browser-csp
• issues/dsotirho-ucsc/5555-rate-limit-on-http-method
• issues/dsotirho-ucsc/5736-update-python-to-3-12
• issues/dsotirho-ucsc/5747-replace-deleted-ecr-images
• issues/dsotirho-ucsc/5896-log-test-durations
• issues/dsotirho-ucsc/5918-manifest-post
• issues/dsotirho-ucsc/5927-layer-and-lambda-race
• issues/dsotirho-ucsc/5927-layer-and-lambda-race-2
• issues/dsotirho-ucsc/5927-layer-and-lambda-race-3
• issues/dsotirho-ucsc/5953-datetime-deprecation
• issues/dsotirho-ucsc/6070-log-durations
• issues/dsotirho-ucsc/6070-log-durations-2
• issues/dsotirho-ucsc/6070-log-durations-3
• issues/dsotirho-ucsc/6114-prune
• issues/dsotirho-ucsc/6123-manifest-content-hash
• issues/dsotirho-ucsc/6123-manifest-hash
• issues/dsotirho-ucsc/6196-hca-duos-id
• issues/dsotirho-ucsc/6516-drs-uri-property
• issues/dsotirho-ucsc/6533-blocked-ips-trigger-alarm
• issues/dsotirho-ucsc/6547-github-code-scanning
• issues/dsotirho-ucsc/6549-rename-anvil-fields
• issues/dsotirho-ucsc/6549-rename-anvil-fields-2
• issues/dsotirho-ucsc/6620-duos-id
• issues/dsotirho-ucsc/6666-schema-validation
• issues/dsotirho-ucsc/6667-no-rows-query-response
• issues/dsotirho-ucsc/6681-deploy-shared-progress
• issues/dsotirho-ucsc/6739-log-file-size
• issues/dsotirho-ucsc/6742-push-data-browser-from-tag
• issues/dsotirho-ucsc/6766-aws-config-service-linked-role
• issues/dsotirho-ucsc/6766-aws-config-service-linked-role-2
• issues/dsotirho-ucsc/6793-accumulator-overflow
• issues/dsotirho-ucsc/6813-annual-review-audited-events
• issues/dsotirho-ucsc/6850-redundant-manifest-generation
• issues/dsotirho-ucsc/6930-sprint-assignment
• issues/dsotirho-ucsc/6940-anvil9
• issues/dsotirho-ucsc/6952-dcp47
• issues/dsotirho-ucsc/6969-curl-resume-transfers
• issues/dsotirho-ucsc/6970-retry-on-429
• issues/dsotirho-ucsc/6980-block-requests-by-user-agent
• issues/dsotirho-ucsc/6980-block-requests-by-user-agent-2
• issues/dsotirho-ucsc/6986-inspector-findings-export
• issues/dsotirho-ucsc/6990-set-accumulator
• issues/dsotirho-ucsc/6991-anvil9-default
• issues/dsotirho-ucsc/7005-redundant-anvil-field
• issues/dsotirho-ucsc/7021-document-scan-procedure
• issues/dsotirho-ucsc/7050-queue-dependency
• issues/dsotirho-ucsc/7064-dcp48
• issues/dsotirho-ucsc/7083-log-index-attempt
• issues/dsotirho-ucsc/7092-blocked-user-agent-alarm
• issues/dsotirho-ucsc/7100-schedule-zap-scan
• issues/dsotirho-ucsc/7128-tissue-atlas
• issues/dsotirho-ucsc/7147-dashboard
• issues/dsotirho-ucsc/7168-index-anvil10
• issues/dsotirho-ucsc/7172-index-dcp50
• issues/dsotirho-ucsc/7198-reindex-lm9
• issues/dsotirho-ucsc/7201-anvil-file-size-totals
• issues/dsotirho-ucsc/7205-waf-blocked-alarm
• issues/dsotirho-ucsc/7243-null-file-size-column
• issues/dsotirho-ucsc/7254-snapshot-id
• issues/dsotirho-ucsc/7278-waf-rate-limit-alarm
• issues/dsotirho-ucsc/7287-post-deploy
• issues/dsotirho-ucsc/7327-waf-blocked-alarm-metric
• issues/dsotirho-ucsc/7359-curl-retry
• issues/dsotirho-ucsc/7372-license-files
• issues/dsotirho-ucsc/7386-waf-alarm
• issues/dsotirho-ucsc/7392-dcp53
• issues/dsotirho-ucsc/7398-disjunctivity
• issues/dsotirho-ucsc/7404-log-failed-tdr-requests
• issues/dsotirho-ucsc/7432-lambda-memory
• issues/dsotirho-ucsc/7448-errors-from-tdr
• issues/dsotirho-ucsc/7452-tdr-timeout
• issues/dsotirho-ucsc/7455-dcp53-default
• issues/dsotirho-ucsc/7456-dcp54
• issues/dsotirho-ucsc/7464-test-repository-files
• issues/dsotirho-ucsc/7469-document-429-response
• issues/dsotirho-ucsc/7469-document-429-response-2
• issues/dsotirho-ucsc/7470-error-codes
• issues/dsotirho-ucsc/7516-cgm
• issues/dsotirho-ucsc/7539-macos-13-retired
• issues/dsotirho-ucsc/7543-add-mirrorable-source
• issues/dsotirho-ucsc/7544-contribute-retry-threshold
• issues/dsotirho-ucsc/7582-anvil12-snapshots
• issues/dsotirho-ucsc/7611-index-dcp56
• issues/dsotirho-ucsc/7642-waf-blocked-threshold
• issues/dsotirho-ucsc/7643-data-browser-documentation
• issues/dsotirho-ucsc/7689-zap-documentation
• issues/dsotirho-ucsc/7731-lungmap-strata
• issues/dsotirho-ucsc/7739-index-dcp57
• issues/dsotirho-ucsc/7744-index-anvil13
• issues/dsotirho-ucsc/7760-waf-rules
• issues/dsotirho-ucsc/7820-inspector-finding-links
• issues/dsotirho-ucsc/7867-metric-filter-patterns
• issues/dsotirho-ucsc/7883-function-not-found
• issues/dsotirho-ucsc/7911-tdr-timeouts
• issues/dsotirho-ucsc/7913-add-dcp59
• issues/dsotirho-ucsc/7921-remove-gregor-datasets
• issues/dsotirho-ucsc/7983-add-anvil14
• issues/hannes-ucsc/212-manifest-filters
• issues/hannes-ucsc/2653-test-duration
• issues/hannes-ucsc/284-wheels
• issues/hannes-ucsc/3631-lungmap-drs-uris
• issues/hannes-ucsc/6083-http-logs
• issues/hannes-ucsc/6090_bq_cve
• issues/hannes-ucsc/6281-mypy-2
• issues/hannes-ucsc/6320-stale-env
• issues/hannes-ucsc/6441-expired-manifest
• issues/hannes-ucsc/6709-bq-emu-timestamp
• issues/hannes-ucsc/6731-es
• issues/hannes-ucsc/6731-es-2
• issues/hannes-ucsc/6777-urllib3
• issues/hannes-ucsc/6779-es-opensearch
• issues/hannes-ucsc/6779-opensearch
• issues/hannes-ucsc/6809-robots
• issues/hannes-ucsc/6821-mypy-1
• issues/hannes-ucsc/6821-mypy-10
• issues/hannes-ucsc/6821-mypy-11
• issues/hannes-ucsc/6821-mypy-12
• issues/hannes-ucsc/6821-mypy-2
• issues/hannes-ucsc/6821-mypy-3
• issues/hannes-ucsc/6821-mypy-4
• issues/hannes-ucsc/6821-mypy-5
• issues/hannes-ucsc/6821-mypy-6
• issues/hannes-ucsc/6821-mypy-7
• issues/hannes-ucsc/6821-mypy-9
• issues/hannes-ucsc/6850-manifest-race
• issues/hannes-ucsc/6883-null-duos-id
• issues/hannes-ucsc/6938-mirror-doc
• issues/hannes-ucsc/7095-mirror-messages
• issues/hannes-ucsc/7104-polymorphic
• issues/hannes-ucsc/7117-pycharm-update
• issues/hannes-ucsc/7221-primed-props
• issues/hannes-ucsc/7288-resumable-md5
• issues/hannes-ucsc/7384-revert-browser
• issues/hannes-ucsc/7384-revert-browser-2
• issues/hannes-ucsc/7391-zenhub-github
• issues/hannes-ucsc/7391-zenhub-github-2
• issues/hannes-ucsc/7419-mirror-dupes
• issues/hannes-ucsc/7489-header-logs
• issues/hannes-ucsc/7496-refactor-hca-file
• issues/hannes-ucsc/7499-7230-duos
• issues/hannes-ucsc/7528-bundle-partition
• issues/hannes-ucsc/7530-trim-pycharm
• issues/hannes-ucsc/7662-storage-object-exists
• issues/hannes-ucsc/7673
• issues/hannes-ucsc/7761-list-public-sources
• issues/hannes-ucsc/7801-furl
• issues/hannes-ucsc/7950-oauth-sm
• issues/hannes-ucsc/7952-expose-source-config
• issues/hannes-ucsc/7954-oauth-flow
• issues/hannes-ucsc/7963-oauth-flag
• issues/hannes-ucsc/7974-create-pr-script
• issues/hannes-ucsc/filter-validation
• issues/hannes/2755-tdr-sources
• issues/nadove-ucsc/5256-optimize-reenable-anvil-joiner-rejection
• issues/nadove-ucsc/5582-unicode-decode-error-log-forwarder
• issues/nadove-ucsc/6066-add-relations-verbatim-pfb-manifest-anvil
• issues/nadove-ucsc/6139-improve-handling-duos-replicas
• issues/nadove-ucsc/6420-exclude-tracebacks-error-responses
• issues/nadove-ucsc/6546-update-swagger-ui
• issues/nadove-ucsc/6648-optimistic-lock-contention-hca-replicas
• issues/nadove-ucsc/6648-optimistic-lock-contention-hca-replicas-2
• issues/nadove-ucsc/6740-rate-limit-download-requests-globally-hca-prod
• issues/nadove-ucsc/6765-it-fails-no-index
• issues/nadove-ucsc/6782-remove-portal-service
• issues/nadove-ucsc/6791-untagged-route-swagger-ui
• issues/nadove-ucsc/6793-log-outer-entity-type-accumulator-overflow
• issues/nadove-ucsc/6821-cover-metadata-plugins-with-mypy
• issues/nadove-ucsc/6821-query-service-mypy
• issues/nadove-ucsc/6843-verbatim-pfb-fails-with-common-prefix
• issues/nadove-ucsc/6857-prototype-mirroring-single-hca-file
• issues/nadove-ucsc/6859-create-mirror-queues-bucket
• issues/nadove-ucsc/6860-fix-mirror-source-script-group-ids
• issues/nadove-ucsc/6860-implment-mirror-source
• issues/nadove-ucsc/6861-encapsulate-repository-file
• issues/nadove-ucsc/6861-implement-mirror-partition
• issues/nadove-ucsc/6862-implement-mirror-file
• issues/nadove-ucsc/6871-verbatim-pfb-manifest-fails-missing-duos
• issues/nadove-ucsc/6898-filters-break-verbatim-handover
• issues/nadove-ucsc/6906-chained-prs-fail-immediately-check-branch
• issues/nadove-ucsc/6928-test-can-bundle-fails-seed
• issues/nadove-ucsc/6929-temporarily-disable-exporting-relations
• issues/nadove-ucsc/6949-test-verabtim-pfb-manifest-fails-relations-disabled
• issues/nadove-ucsc/6965-replicate-replica-indices
• issues/nadove-ucsc/6988-file-size-aggregation-broken-anvil
• issues/nadove-ucsc/7009-mirror-script-broken
• issues/nadove-ucsc/7011-azulclient-remote-mirror-spends-time-partitioning
• issues/nadove-ucsc/7040-partition-prefix-validation
• issues/nadove-ucsc/7066-configure-mirroring-per-catalog-source
• issues/nadove-ucsc/7069-verify-digest-mirror
• issues/nadove-ucsc/7076-populate-schema-info-objects
• issues/nadove-ucsc/7099-optionall-use-external-bucket-mirroring
• issues/nadove-ucsc/7109-improve-logging
• issues/nadove-ucsc/7122-prefer-mirrored-copy-files
• issues/nadove-ucsc/7125-inconsistent-message-group-ids
• issues/nadove-ucsc/7125-inconsistent-message-group-ids-2
• issues/nadove-ucsc/7126-mirror-queue-stall-detection
• issues/nadove-ucsc/7130-remove-dcp-type-mime-param
• issues/nadove-ucsc/7134-mirror-file-fail-object-exists
• issues/nadove-ucsc/7145-improve-mirroring-it
• issues/nadove-ucsc/7146-ensure-mirror-script-does-nothing-wo-args
• issues/nadove-ucsc/7148+7153
• issues/nadove-ucsc/7148-make-deploy-fails-attributeerror
• issues/nadove-ucsc/7151-add-mirror-uri-column-compact-manifest
• issues/nadove-ucsc/7153-repository-files-fails-hex-digest-requirement-anvil
• issues/nadove-ucsc/7154-anvil-uses-nonstandard-md5-enconding
• issues/nadove-ucsc/7169-difficult-to-purge-mirror-queues
• issues/nadove-ucsc/7170-log-import-sqs-msg-attrs-on-recepit
• issues/nadove-ucsc/7170-log-import-sqs-msg-attrs-on-recepit-2
• issues/nadove-ucsc/7173-listobject-shortcut-mirror-partition
• issues/nadove-ucsc/7190-cannot-generate-unfiltered-jsonl-manifest
• issues/nadove-ucsc/7193-content-type-info-objects-inconsistent-with-index
• issues/nadove-ucsc/7193-content-type-info-objects-inconsistent-with-index-2
• issues/nadove-ucsc/7244-reenable-content-type-validation-except-lm
• issues/nadove-ucsc/7265-mirrored-file-objects-content-type
• issues/nadove-ucsc/7305-polymorphic-sourceref
• issues/nadove-ucsc/7305-refactor-source-config
• issues/nadove-ucsc/7305-reorganize-source-spec-parsing
• issues/nadove-ucsc/7305-separate-prefix-source-spec
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Build # 16451486401

Build Type

Pull #7281

github

Committed by web-flow

Commit Message

Merge 64739d151 into 406cf7762

Pull Request Pull Request #7281: Upgrade dependencies 2025-07-07 (#7257, #7261)

Coverage Stats

19422 of 22793 relevant lines covered (85.21%)

0.85 hits per line