diff --git a/cleanup_commands.sh b/cleanup_commands.sh
new file mode 100644
index 000000000..62230c265
--- /dev/null
+++ b/cleanup_commands.sh
@@ -0,0 +1,693 @@
+#!/usr/bin/env bash
+# =============================================================================
+# BRANCH CLEANUP — BioactivityDataAcquisition
+# Generated: 2026-03-02
+#
+# INVENTORY:
+#   Total remote branches:       2189
+#   Orphaned (no ancestor):      2120 → DELETE
+#   Merged (0 ahead):               2 → DELETE
+#   Legit stale dupes:             46 → DELETE
+#   Legit KEPT:                    ~20 → KEEP
+#
+# RUN: bash cleanup_commands.sh 2>&1 | tee cleanup.log
+# =============================================================================
+
+set -uo pipefail
+
+# ─── PHASE 1: Fully merged branches (0 commits ahead of main) ───
+echo "PHASE 1: Deleting 2 merged branches..."
+git push origin --delete AAA diagram-visual-experiments || true
+
+# ─── PHASE 2: Orphaned branches (no common ancestor with main) ───
+# These are from a prior git history rewrite. None can be rebased or merged.
+echo "PHASE 2: Deleting 2120 orphaned branches in batches of 20..."
+
+# Batch 1
+echo "  batch 1..."
+git push origin --delete analysis-duplication-report-1469604384134411955 analysis-field-extraction-2026-7528286794784158766 analysis-pipeline-fields-review-11108498440779345150 arch-fix-app-layer-deps-16990420293285994107 arch-fix-orchestration-layer-14734460217417983087 arch-fixes-pipelines-7472450588075809928 arch-metrics-factories-12743531178659526782 arch-refactor-factories-cli-961049343875853720 arch-refactor-gold-determinism-fix-v1-13460979397018951427 arch-refactor-uniprot-bootstrap-215855220787300195 arch-refactor-v5.1-890147827956189616 arch-review-governance-zorder-3714638242994394841 arch-review-refactor-15055078734783231580 arch-review-refactor-15570790413376175289 arch-review-refactor-1936710187868713491 arch-review-refactor-mar2026-16906384220884053377 arch-review-v5-6077392996036619826 arch/local-only-constraint-15149619528427687076 architectural-audit-2026-01-9763956268531489456 architectural-audit-dec-2025-9826091548291953123 || true
+sleep 1
+
+# Batch 2
+echo "  batch 2..."
+git push origin --delete architectural-audit-feb-2026-5761575418361093879 architectural-audit-mar-2026-13100366723288563294 architectural-audit-mar-2026-14303586048668003986 architectural-audit-may-2026-17711134272198308260 architectural-audit-report-3988165118761247356 architectural-hardening-phase-2-17450411922568876630 architectural-refactor-phase-1-15441751058603349086 architectural-refactoring-and-fixes-200968113232769188 architectural-refactoring-phase-1-4348894109394458022 architectural-refactoring-ports-and-pipelines-9339015095731270523 architectural-review-and-plan-17400105780693762271 async-adapters-fix-15851688986293958507 audit-2026-11735551064752123700 audit-2026-jan-16930148686158488576 audit-dec-2025-16170787118851606433 audit-docs-compliance-7565030314740168852 audit-fixes-jan-2026-11644470046639221750 audit-fixes-v5.0.6-15594976995992265906 audit-may-2026-13740797505448687577 audit-may-2026-14471813650696660826 || true
+sleep 1
+
+# Batch 3
+echo "  batch 3..."
+git push origin --delete audit-may-2026-6867040325783515760 audit-report-2025-12-16-529528903152698733 audit-report-2026-01-21-1575893736220173539 audit-report-2026-01-21-8552681706930918715 audit-report-2026-11580152095350304271 audit-report-dec-2025-237883425482117101 audit-report-dec-2025-9447105256464792087 audit-report-initial-12293824856470386981 audit-report-june-2026-14077823283840623038 audit-report-update-4936243789416728606 audit-report-update-9469797319417261874 audit-report-v2-9848660389579167420 audit-report-v2.0-18197474955864865300 audit-report-v2.1-5452382865629251421 audit-report-v5-11592121645238241084 audit-report-v5-11824937197109182869 audit-report-v5.0-8176302008870379132 audit-report-v5.7-2313320964702607427 audit-report-v5.8-536654348311634901 audit/architecture-review-2026-12434890608310099716 || true
+sleep 1
+
+# Batch 4
+echo "  batch 4..."
+git push origin --delete audit/metadata-jan-2026-2736062201302547011 backup_010-1 backup_03 backup_100 backup_101-1 backup_20251205 bolt-batch-writer-cache-8414203441594830291 bolt-batch-writer-cache-schema-4239533209901795432 bolt-batch-writer-optimization-17179666053785453298 bolt-batch-writer-perf-6325395261823875880 bolt-batch-writer-perf-optimization-4300856580656858023 bolt-batch-writer-schema-cache-4154801968188251426 bolt-bronze-alloc-opt-4810754358293948650 bolt-bronze-writer-optimization-5322332135007669972 bolt-bronze-writer-optimization-5694059606832452436 bolt-json-optimization-17575666362692405549 bolt-optimize-batch-writer-gold-2348029752397494898 bolt-optimize-batch-writer-loop-203557392299919454 bolt-optimize-bronzewriter-16904731924403243291 bolt-optimize-checkpoint-serialization-8018252404202585287 || true
+sleep 1
+
+# Batch 5
+echo "  batch 5..."
+git push origin --delete bolt-optimize-chembl-hashing-13178736840001098883 bolt-optimize-pubmed-date-3789117081982362004 bolt-optimize-pubmed-date-parsing-8283081052165591821 bolt-optimize-pubmed-identifiers-9455405533693776821 bolt-optimize-silver-writer-2356727444240081857 bolt-optimize-silver-writer-6952166425433176391 bolt-optimize-silver-writer-735813114114713276 bolt-optimize-uniprot-json-12039410772520527681 bolt-optimize-uniprot-orjson-12708554057758778588 bolt-orjson-optimization-7426181345217533983 bolt-perf-batch-writer-schema-cache-5176835169859924107 bolt-perf-pubmed-date-parsing-12532949572236019825 bolt-perf-pubmed-transformer-date-5922893198129129252 bolt-perf-pubmed-xml-extract-662657520878745278 bolt-performance-batchwriter-optimization-11646056302524535856 bolt-pubmed-date-extraction-optimization-10719411922497146945 bolt-pubmed-identifier-opt-169219971728294416 bolt-pubmed-optimization-11776621839494351834 bolt-silver-writer-optimization-11154284540065872566 bolt-silver-writer-optimization-3278037334374817272 || true
+sleep 1
+
+# Batch 6
+echo "  batch 6..."
+git push origin --delete bolt-silver-writer-optimization-4078771543740170219 bolt-silver-writer-optimization-7894939204007800549 bolt-silver-writer-perf-5880266767462610852 bolt/gold-writer-optimization-9251521540080561602 bolt/optimize-activity-transformer-6665327276233113023 bolt/optimize-base-transformer-serialization-3479399028077303058 bolt/optimize-batch-writer-1852874330139934576 bolt/optimize-batch-writer-gold-8224212234072549004 bolt/optimize-batch-writer-schema-caching-8032007826438983464 bolt/optimize-batch-writer-schema-columns-14114845907469784307 bolt/optimize-chembl-pipeline-16516969908648541761 bolt/optimize-date-extractor-2826375097710156585 bolt/optimize-nested-extraction-17082078161910505421 bolt/optimize-silver-serialization-17048994287352894847 bolt/optimize-silver-writer-13553046753343703003 bolt/optimize-silver-writer-14305130312494082531 bolt/optimize-silver-writer-4539369462564194106 bolt/optimize-silver-writer-5061550331081307667 bolt/optimize-silver-writer-filtering-16275368554400671306 bolt/optimize-uniprot-serialization-3472987041643436575 || true
+sleep 1
+
+# Batch 7
+echo "  batch 7..."
+git push origin --delete bolt/pubmed-transformer-optimization-1564101723275582547 bolt/silver-writer-optimization-8085015874627325572 bolt/uniprot-feature-optimization-1706687305301958106 chore/dead-code-cleanup-6996779578871562434 chore/domain-ports-cleanup-14593963438205539962 chore/github-templates claude/abstract-html-stripping-EP7js claude/actualize-pipeline-configs-adlPA claude/add-adapter-logging-vdgmk claude/add-adapter-metrics-t9Ifi claude/add-adr-028-extraction-filtering-aKoLV claude/add-adr-cross-references-l861z claude/add-architecture-diagrams-PsAuW claude/add-architecture-test-RergF claude/add-architecture-tests-Ui99m claude/add-architecture-tests-n4yen claude/add-audit-logging-heyBL claude/add-author-identifiers-00RIw claude/add-batch-processing-VUfnN claude/add-biblio-extractor-sd0Tu || true
+sleep 1
+
+# Batch 8
+echo "  batch 8..."
+git push origin --delete claude/add-bioetl-docstrings-85uTs claude/add-bioetl-docstrings-Qr2jg claude/add-bioetl-docstrings-uK37T claude/add-bioetl-docstrings-v1iyq claude/add-bioetl-tools-Ca8Lr claude/add-black-check-6iVw8 claude/add-black-check-MyHfF claude/add-bronzewriter-metrics-3zifW claude/add-chembl-activity-fields-G9vCv claude/add-chembl-cellline-schema-F4aKv claude/add-chembl-compound-record-Giilf claude/add-chembl-flattened-fields-rxX66 claude/add-chembl-missing-fields-FQpOa claude/add-chembl-schema-fields-vrF7m claude/add-chembl-sort-by-6syz1 claude/add-chembl-sort-by-ZevyH claude/add-circuit-breaker-metrics-geYQI claude/add-citation-dq-rules-Y2ZN5 claude/add-citations-upper-bound-I3KFN claude/add-cli-integration-tests-4r8mu || true
+sleep 1
+
+# Batch 9
+echo "  batch 9..."
+git push origin --delete claude/add-cli-tests-tWL11 claude/add-column-naming-tests-fF8GO claude/add-column-ordering-merge-LC308 claude/add-config-ci-invariants-J5MOm claude/add-config-validation-script-P8HCy claude/add-contract-testing-ci-job-YQlZQ claude/add-crossref-fields-3sN8U claude/add-crossref-id-fields-nEBF6 claude/add-crossref-schema-prompts-xzCdj claude/add-date-normalization-bOuTg claude/add-date-normalization-tests-Zn5Ab claude/add-date-normalization-xc4zh claude/add-date-validation-xNNbb claude/add-deprecation-warning-tests-02W4Q claude/add-di-architecture-test-ugElb claude/add-di-compliance-tests-FahcD claude/add-docs-security-rHN90 claude/add-docstrings-VYlWy claude/add-docstrings-bioetl-LW1KO claude/add-docstrings-bioetl-OioyU || true
+sleep 1
+
+# Batch 10
+echo "  batch 10..."
+git push origin --delete claude/add-document-extraction-params-2vHWY claude/add-domain-value-objects-XrncP claude/add-dq-config-tests-3PQto claude/add-dq-documentation-Le0U4 claude/add-dq-fields-publications-g4zHz claude/add-dq-reports-QP7Iy claude/add-dq-threshold-fail-aAhxC claude/add-dq-year-warning-KP3MS claude/add-dto-models-8RYxX claude/add-duplication-complexity-test-bBsTR claude/add-entity-type-transformers-vVSMz claude/add-env-var-linter-rules-GQsQg claude/add-extraction-params-0edaS claude/add-extraction-params-MO5gv claude/add-extraction-params-WvlsS claude/add-extraction-params-filtering-Pf9Bf claude/add-extraction-params-filtering-YFkfu claude/add-extraction-params-filtering-otX6Z claude/add-extractor-unit-tests-kS5Us claude/add-fencing-token-validation-xpCPe || true
+sleep 1
+
+# Batch 11
+echo "  batch 11..."
+git push origin --delete claude/add-filterable-datasource-protocol-YzUm7 claude/add-filterable-datasource-protocol-pZGFj claude/add-gold-lineage-l7o2O claude/add-governance-metadata-sidecar-SaT6a claude/add-health-aggregator-8XAEH claude/add-health-aggregator-FaN2n claude/add-health-check-logging-4AdfD claude/add-health-check-logging-PgacH claude/add-health-check-logging-httql claude/add-health-server-cli-cVBqF claude/add-http-test-coverage-zlDTI claude/add-import-linter-ci-RycHg claude/add-inchi-key-validation-L6JiM claude/add-ingestion-timestamp-YEEZ7 claude/add-isort-check-test-DP17n claude/add-json-schema-validation-ZULU4 claude/add-lock-context-storage-lnzqe claude/add-logger-metrics-ports-owqlQ claude/add-loggerport-writers-EIaao claude/add-lookup-metadata-extraction-ECupW || true
+sleep 1
+
+# Batch 12
+echo "  batch 12..."
+git push origin --delete claude/add-medallion-validation-PVC80 claude/add-memorylock-ttl-Thbmr claude/add-metadata-sidecar-files-UkKek claude/add-metrics-config-wcuV4 claude/add-metrics-service-iaBXL claude/add-missing-docstrings-GcgLR claude/add-missing-docstrings-S1fVe claude/add-missing-docstrings-YIhbo claude/add-missing-docstrings-YPt4I claude/add-missing-index-field-5DrED claude/add-openalex-schema-tests-EMWlx claude/add-pandera-validation-F9dkR claude/add-performance-tests-tSR2n claude/add-pii-hasher-parameter-KnXBt claude/add-pii-hashing-yF7Lt claude/add-pipeline-context-timestamp-xiHWf claude/add-pipeline-fsm-states-tyRI1 claude/add-pipeline-vacuum-tests-3H5Ho claude/add-pipeline-validation-BDm7a claude/add-port-documentation-VETzD || true
+sleep 1
+
+# Batch 13
+echo "  batch 13..."
+git push origin --delete claude/add-precommit-hook-FxAVU claude/add-protein-classification-xeFT8 claude/add-protein-cross-references-UQZi7 claude/add-provider-health-checks-nnsOe claude/add-pubchem-3d-descriptors-6cw8S claude/add-publication-entity-base-PrAkv claude/add-pubmed-gold-fields-DCSUd claude/add-pubmed-health-check-1TB8v claude/add-pubmed-semanticscholar-fields-g1BDl claude/add-pubmed-tests-G6PYS claude/add-pydantic-api-models-OCDLY claude/add-query-metadata-O8wAp claude/add-random-writers-test-NBM4c claude/add-rate-limiter-metrics-I3PgI claude/add-registry-tests-cdCGp claude/add-run-id-cli-output-0Aeqy claude/add-run-id-logging-72kpV claude/add-s2-publication-validation-bsgmf claude/add-security-health-monitoring-CqMcD claude/add-security-policy-PcYmm || true
+sleep 1
+
+# Batch 14
+echo "  batch 14..."
+git push origin --delete claude/add-semantic-scholar-provider-aB7dV claude/add-severity-field-Pbv4R claude/add-silver-schema-tests-ziFn6 claude/add-smoke-tests-target-9XV1c claude/add-smoke-tests-target-kLD1C claude/add-sort-by-configs-g3W2T claude/add-target-dto-fields-esgqo claude/add-test-formatter-check-iGbtq claude/add-testing-coverage-1u2ul claude/add-testing-coverage-lZssJ claude/add-timeouterror-export-Mxq4f claude/add-timezone-validation-TRBtT claude/add-tracing-context-rhjHO claude/add-tracing-spans-0jN9s claude/add-transform-version-urxHG claude/add-transformer-observability-cIva6 claude/add-transformer-observability-zwy6X claude/add-transformer-signature-tests-ZAkJT claude/add-transformer-tests-kTWoX claude/add-uniprot-idmapping-schema-lAaXq || true
+sleep 1
+
+# Batch 15
+echo "  batch 15..."
+git push origin --delete claude/add-unit-tests-WpXyq claude/add-value-objects-7E0ST claude/add-value-objects-MXyS3 claude/add-year-validation-yzvkt claude/adopt-data-normalization-service-JUmBP claude/adr-gold-strict-validation-6c8uk claude/ai-selfreview-prompt-1yewT claude/align-dq-field-names-SnDLx claude/align-pipeline-config-schema-bM7ks claude/align-pmid-types-eTg96 claude/align-ubiquitous-language-Y5Cb1 claude/align-year-validation-2ipPg claude/analyze-bioetl-config-piJBE claude/analyze-bioetl-interfaces-jB6zw claude/analyze-bioetl-pipelines-0XnVF claude/analyze-bioetl-pipelines-1HCRu claude/analyze-bioetl-pipelines-F1E7K claude/analyze-bioetl-pipelines-O1Kcw claude/analyze-pipeline-file-paths-4MbpC claude/analyze-pipeline-schemas-TARkZ || true
+sleep 1
+
+# Batch 16
+echo "  batch 16..."
+git push origin --delete claude/analyze-project-review-g9V5k claude/analyze-validation-matrix-kFck8 claude/apply-pubmedid-normalization-G5hL3 claude/architecture-audit-7fOlT claude/architecture-audit-Ltig4 claude/architecture-review-JIh0H claude/architecture-review-Km73r claude/architecture-review-gcGM6 claude/architecture-review-plan-k5AkK claude/architecture-review-refactor-0w9dQ claude/architecture-review-refactor-1A1Iu claude/architecture-review-refactor-1W8Om claude/architecture-review-refactor-23dr2 claude/architecture-review-refactor-3YM2p claude/architecture-review-refactor-3YRI3 claude/architecture-review-refactor-3dmzy claude/architecture-review-refactor-4dIk7 claude/architecture-review-refactor-5A7ls claude/architecture-review-refactor-5AbTE claude/architecture-review-refactor-5L9NR || true
+sleep 1
+
+# Batch 17
+echo "  batch 17..."
+git push origin --delete claude/architecture-review-refactor-6BzlT claude/architecture-review-refactor-6D4D9 claude/architecture-review-refactor-6Lhgi claude/architecture-review-refactor-7kzWM claude/architecture-review-refactor-8EsMg claude/architecture-review-refactor-8MSDw claude/architecture-review-refactor-9HaXw claude/architecture-review-refactor-DV3ud claude/architecture-review-refactor-EKdAo claude/architecture-review-refactor-EWSiw claude/architecture-review-refactor-Et1Kh claude/architecture-review-refactor-EyhZE claude/architecture-review-refactor-F6Ycc claude/architecture-review-refactor-FiH6K claude/architecture-review-refactor-Fkkxf claude/architecture-review-refactor-HKtSH claude/architecture-review-refactor-HPlmw claude/architecture-review-refactor-HeClY claude/architecture-review-refactor-Hxi7D claude/architecture-review-refactor-I6bwY || true
+sleep 1
+
+# Batch 18
+echo "  batch 18..."
+git push origin --delete claude/architecture-review-refactor-Ic7JD claude/architecture-review-refactor-IpcTV claude/architecture-review-refactor-JNFvr claude/architecture-review-refactor-KD4KE claude/architecture-review-refactor-KbXIX claude/architecture-review-refactor-LIoYn claude/architecture-review-refactor-MIUPW claude/architecture-review-refactor-MRUOa claude/architecture-review-refactor-Nqoye claude/architecture-review-refactor-NxW5t claude/architecture-review-refactor-OGAEN claude/architecture-review-refactor-OJUeK claude/architecture-review-refactor-OKoxf claude/architecture-review-refactor-ONJFd claude/architecture-review-refactor-OsquU claude/architecture-review-refactor-P81qT claude/architecture-review-refactor-PN7C0 claude/architecture-review-refactor-PTFfe claude/architecture-review-refactor-Px6fe claude/architecture-review-refactor-PyTzP || true
+sleep 1
+
+# Batch 19
+echo "  batch 19..."
+git push origin --delete claude/architecture-review-refactor-Q6n1U claude/architecture-review-refactor-RRuG7 claude/architecture-review-refactor-Sd5yz claude/architecture-review-refactor-TG31z claude/architecture-review-refactor-U8k0J claude/architecture-review-refactor-UD8bH claude/architecture-review-refactor-VTV9R claude/architecture-review-refactor-VZX9n claude/architecture-review-refactor-Vt1dT claude/architecture-review-refactor-WL2ox claude/architecture-review-refactor-YknG7 claude/architecture-review-refactor-ZZmyC claude/architecture-review-refactor-aGhF9 claude/architecture-review-refactor-aYmrl claude/architecture-review-refactor-aeFPC claude/architecture-review-refactor-arSEC claude/architecture-review-refactor-bAc2q claude/architecture-review-refactor-bHtxG claude/architecture-review-refactor-bLpte claude/architecture-review-refactor-baBcF || true
+sleep 1
+
+# Batch 20
+echo "  batch 20..."
+git push origin --delete claude/architecture-review-refactor-cF2oR claude/architecture-review-refactor-dtCmQ claude/architecture-review-refactor-e3bYA claude/architecture-review-refactor-f4lN8 claude/architecture-review-refactor-fs6cu claude/architecture-review-refactor-gVdpQ claude/architecture-review-refactor-hizY8 claude/architecture-review-refactor-je0TL claude/architecture-review-refactor-jvtUs claude/architecture-review-refactor-kpGmt claude/architecture-review-refactor-lBTiQ claude/architecture-review-refactor-n4tRJ claude/architecture-review-refactor-pmsat claude/architecture-review-refactor-qkvVf claude/architecture-review-refactor-r4SqX claude/architecture-review-refactor-rFWJb claude/architecture-review-refactor-rUMCf claude/architecture-review-refactor-s8JDD claude/architecture-review-refactor-sP4uF claude/architecture-review-refactor-sPwZa || true
+sleep 1
+
+# Batch 21
+echo "  batch 21..."
+git push origin --delete claude/architecture-review-refactor-uG2I7 claude/architecture-review-refactor-xHQZc claude/architecture-review-yPAXE claude/atomic-bronze-writer-7TAPp claude/audit-analysis-fixes-u9EkK claude/audit-application-layer-A71vt claude/audit-application-layer-CSvQG claude/audit-application-layer-NNJUO claude/audit-application-layer-VZjX6 claude/audit-application-layer-jvMwp claude/audit-architecture-docs-ajEZS claude/audit-architecture-docs-xZJA9 claude/audit-bioetl-architecture-0xCnj claude/audit-bioetl-architecture-5BINV claude/audit-bioetl-architecture-5O2ZT claude/audit-bioetl-architecture-5poCm claude/audit-bioetl-architecture-5rsAa claude/audit-bioetl-architecture-8zYeY claude/audit-bioetl-architecture-9FdFD claude/audit-bioetl-architecture-AeBsr || true
+sleep 1
+
+# Batch 22
+echo "  batch 22..."
+git push origin --delete claude/audit-bioetl-architecture-DGKjr claude/audit-bioetl-architecture-DHJiW claude/audit-bioetl-architecture-GigIw claude/audit-bioetl-architecture-Hg99m claude/audit-bioetl-architecture-IjmP3 claude/audit-bioetl-architecture-IplMz claude/audit-bioetl-architecture-KFFNr claude/audit-bioetl-architecture-KYNQD claude/audit-bioetl-architecture-LlAOc claude/audit-bioetl-architecture-MSnNg claude/audit-bioetl-architecture-OvxDu claude/audit-bioetl-architecture-PHdoD claude/audit-bioetl-architecture-PuHi9 claude/audit-bioetl-architecture-S1ozx claude/audit-bioetl-architecture-SWO0q claude/audit-bioetl-architecture-Tio8o claude/audit-bioetl-architecture-WlBU0 claude/audit-bioetl-architecture-X9H27 claude/audit-bioetl-architecture-XOApb claude/audit-bioetl-architecture-e8YsW || true
+sleep 1
+
+# Batch 23
+echo "  batch 23..."
+git push origin --delete claude/audit-bioetl-architecture-eyqDP claude/audit-bioetl-architecture-nzcRH claude/audit-bioetl-architecture-oGESb claude/audit-bioetl-architecture-rXML2 claude/audit-bioetl-architecture-ujuzZ claude/audit-bioetl-architecture-wUBAm claude/audit-bioetl-architecture-wo8Ub claude/audit-bioetl-architecture-zUeW5 claude/audit-bioetl-code-3BOwh claude/audit-bioetl-docs-2X6yZ claude/audit-bioetl-docs-BwSRY claude/audit-bioetl-docs-EfOgv claude/audit-bioetl-docs-GhQfI claude/audit-bioetl-docs-I9vER claude/audit-bioetl-docs-IsRga claude/audit-bioetl-docs-L9ock claude/audit-bioetl-docs-O4Toq claude/audit-bioetl-docs-PFm4e claude/audit-bioetl-docs-PFxZg claude/audit-bioetl-docs-RxzsC || true
+sleep 1
+
+# Batch 24
+echo "  batch 24..."
+git push origin --delete claude/audit-bioetl-docs-UeHVn claude/audit-bioetl-docs-YbeBs claude/audit-bioetl-docs-ccDFf claude/audit-bioetl-docs-fZxGI claude/audit-bioetl-docs-uA5Zk claude/audit-bioetl-docs-weobV claude/audit-bioetl-docs-xr0M6 claude/audit-bioetl-file-paths-J2ML8 claude/audit-bioetl-file-paths-UMIBS claude/audit-bioetl-metadata-RmHcz claude/audit-bioetl-metadata-Sncui claude/audit-bioetl-structure-lWsrG claude/audit-branches-merge-plan-ep6F4 claude/audit-code-docs-zMcgP claude/audit-code-documentation-kUsTO claude/audit-composite-schemas-QNCPg claude/audit-composition-layer-exrVm claude/audit-composition-layer-ge2CJ claude/audit-config-files-7li0g claude/audit-config-paths-6Fb4Y || true
+sleep 1
+
+# Batch 25
+echo "  batch 25..."
+git push origin --delete claude/audit-date-handling-MDfCd claude/audit-doc-branches-5V7qK claude/audit-documentation-2U4OL claude/audit-documentation-9AYo8 claude/audit-documentation-MJcVu claude/audit-documentation-PM9XH claude/audit-documentation-cBr7o claude/audit-documentation-jBDDd claude/audit-documentation-jCzxu claude/audit-documentation-rules-kbAhz claude/audit-domain-layer-8shP8 claude/audit-domain-layer-8xfVg claude/audit-domain-layer-HXNSF claude/audit-domain-layer-c8RbD claude/audit-domain-layer-nQu9V claude/audit-entity-naming-0zGaO claude/audit-entity-naming-Qb5cj claude/audit-entity-naming-pZN3D claude/audit-entity-type-Cjs81 claude/audit-etl-architecture-MUdAc || true
+sleep 1
+
+# Batch 26
+echo "  batch 26..."
+git push origin --delete claude/audit-etl-architecture-WwwoK claude/audit-etl-architecture-dc2sO claude/audit-facade-exports-lDGHG claude/audit-filtering-config-7Zhjk claude/audit-infrastructure-layer-2Ly08 claude/audit-infrastructure-layer-2MKh0 claude/audit-infrastructure-layer-IjNxH claude/audit-infrastructure-layer-Pn9EV claude/audit-infrastructure-layer-TmtmW claude/audit-infrastructure-layer-iTX4w claude/audit-infrastructure-layer-sDIse claude/audit-infrastructure-layer-zIt6o claude/audit-interfaces-layer-H6dVf claude/audit-interfaces-layer-PCYO2 claude/audit-interfaces-layer-d6M7K claude/audit-interfaces-layer-ogeq2 claude/audit-interfaces-layer-qzLii claude/audit-naming-compliance-iO06q claude/audit-package-structure-Wp6PW claude/audit-pipeline-configs-j4MnR || true
+sleep 1
+
+# Batch 27
+echo "  batch 27..."
+git push origin --delete claude/audit-publication-columns-gs9t5 claude/audit-refactoring-changes-RNoTN claude/audit-refactoring-plan-WqIvt claude/audit-refactoring-plans-23akP claude/audit-schema-fields-Ylq1j claude/audit-schema-mapping-ze3DT claude/automate-maintenance-scheduling-AfnT1 claude/automate-vacuum-retention-YnkYV claude/base-transformer-class-PFOg3 claude/bioetl-architecture-audit-4FXzL claude/bioetl-architecture-audit-7NdeL claude/bioetl-architecture-audit-7r3Zp claude/bioetl-architecture-audit-B78Zq claude/bioetl-architecture-audit-CYHdh claude/bioetl-architecture-audit-FnLlo claude/bioetl-architecture-audit-HnhSD claude/bioetl-architecture-audit-JgNRi claude/bioetl-architecture-audit-LhgZq claude/bioetl-architecture-audit-PC7Qu claude/bioetl-architecture-audit-Q0U9i || true
+sleep 1
+
+# Batch 28
+echo "  batch 28..."
+git push origin --delete claude/bioetl-architecture-audit-SuyKL claude/bioetl-architecture-audit-Z5gYd claude/bioetl-architecture-audit-ah6pM claude/bioetl-architecture-audit-dPvAa claude/bioetl-architecture-audit-dpBoI claude/bioetl-architecture-audit-fJcPU claude/bioetl-architecture-audit-gW88O claude/bioetl-architecture-audit-hib4H claude/bioetl-architecture-audit-jOYZd claude/bioetl-architecture-audit-kyj2k claude/bioetl-architecture-audit-nttXM claude/bioetl-architecture-audit-sqwn1 claude/bioetl-architecture-audit-vYB2J claude/bioetl-architecture-audit-x8swa claude/bioetl-architecture-auditor-YmvVU claude/bioetl-architecture-diagrams-fwHCZ claude/bioetl-architecture-layers-RMlfC claude/bioetl-audit-synthesis-p4dcf claude/bioetl-code-audit-491hA claude/bioetl-interface-alignment-3Wu8b || true
+sleep 1
+
+# Batch 29
+echo "  batch 29..."
+git push origin --delete claude/bioetl-interface-alignment-pCERo claude/bioetl-pipeline-docs-XSZsF claude/bioetl-publication-pipeline-SGtt4 claude/bioetl-schema-docs-lFSrT claude/bronze-extraction-params-hpsBG claude/bronze-input-validation-Dsw5R claude/bronze-metadata-tests-zVZyk claude/bronze-validation-refactor-aNeDD claude/centralize-cli-noop-deps-Ub3nQ claude/centralize-data-normalization-1JcjA claude/centralize-env-variables-E1bqr claude/centralize-timestamp-generation-lxmu5 claude/centralize-validation-config-dEtC3 claude/check-fix-error-WjQMd claude/chembl-activity-silver-layer-NUL41 claude/chembl-assay-analysis-ZlJ5x claude/chembl-assayparameters-pipeline-Otg4d claude/chembl-assayparameters-pipeline-vbHjV claude/chembl-cell-line-pipeline-Ahpuz claude/chembl-document-similarity-7zVtQ || true
+sleep 1
+
+# Batch 30
+echo "  batch 30..."
+git push origin --delete claude/chembl-document-similarity-R2pF0 claude/chembl-document-similarity-xmuk8 claude/chembl-document-term-pipeline-XvVX0 claude/chembl-documentation-WcNMP claude/chembl-documentterms-pipeline-5ount claude/chembl-documentterms-pipeline-aO8s5 claude/chembl-extraction-params-ZrIxS claude/chembl-health-check-MAJrx claude/chembl-molecule-pipeline-analysis-0nn2Q claude/chembl-moleculeform-pipeline-7QQrJ claude/chembl-moleculeform-pipeline-pYi9V claude/chembl-pipelines-implementation-Ow311 claude/chembl-proteinclass-pipeline-MEcCm claude/chembl-proteinclass-pipeline-lGiG2 claude/chembl-target-pipeline-refactor-PeJTE claude/chembl-target-relation-pipeline-VL2vc claude/chembl-targetrelation-pipeline-bovrY claude/clarify-tracing-port-otel-hvtRm claude/claude-md-mk2nvaw5bnravx0j-wczmu claude/clean-bootstrap-layer-7vWnI || true
+sleep 1
+
+# Batch 31
+echo "  batch 31..."
+git push origin --delete claude/clean-composition-root-Ppyah claude/cleanup-bioetl-docs-0cFIt claude/cleanup-bioetl-repo-RhXaD claude/cleanup-bioetl-repo-cREkx claude/cleanup-bioetl-root-ug9M8 claude/cleanup-bootstrap-imports-DqC97 claude/cleanup-dead-code-3ONoZ claude/cleanup-dead-code-EcuCA claude/cleanup-dead-code-HdyDr claude/cleanup-dead-code-LUHCN claude/cleanup-dead-code-LwNIH claude/cleanup-dead-code-U3ed5 claude/cleanup-dead-code-VUW4e claude/cleanup-dead-code-dAM0h claude/cleanup-dead-code-lIYfF claude/cleanup-dead-code-mnSWs claude/cleanup-dead-code-wUfdN claude/cleanup-dead-code-x13ur claude/cleanup-dead-code-y77AQ claude/cleanup-dead-code-ze3wF || true
+sleep 1
+
+# Batch 32
+echo "  batch 32..."
+git push origin --delete claude/cleanup-project-root-4CDNH claude/cleanup-services-datetime-pXcRx claude/cleanup-todo-comments-OMwxN claude/cleanup-unused-code-U6QPe claude/cleanup-unused-config-fields-7RY15 claude/code-inventory-audit-eUknn claude/code-inventory-audit-prompt-WYRi3 claude/code-inventory-duplication-audit-HsTsk claude/code-quality-static-analysis-3OMK3 claude/code-quality-static-analysis-Li0YN claude/code-quality-static-analysis-eYZ7f claude/collect-codex-branches-JrNs1 claude/collect-publication-types-dmJuX claude/complete-chembl-assay-pipeline-gj708 claude/complete-chembl-pipeline-RGwrg claude/complete-provider-registry-migration-t6U67 claude/composite-activity-dual-enrichment-FcFdX claude/composite-molecule-pipeline-fbvIy claude/config-gap-analysis-rLdGK claude/config-refactoring-plan-GBJxb || true
+sleep 1
+
+# Batch 33
+echo "  batch 33..."
+git push origin --delete claude/config-unification-migration-34WXf claude/consolidate-architecture-audits-EyVt3 claude/consolidate-audit-docs-zxHUU claude/consolidate-audit-findings-dILfy claude/consolidate-audit-report-rKTH6 claude/consolidate-audit-results-6ttDr claude/consolidate-data-paths-fixes-PH1x6 claude/consolidate-docs-ssot-jlj1g claude/consolidate-duplicate-dto-MvPB2 claude/consolidate-factories-1TFCV claude/consolidate-factories-J3cG6 claude/consolidate-factories-N5oSr claude/consolidate-factories-hQjwI claude/consolidate-filter-merge-e2aCF claude/consolidate-gold-contracts-QjvFh claude/consolidate-medallion-lifecycle-wJKhv claude/consolidate-pipeline-factories-zv07O claude/consolidate-pipeline-logic-Uhu5g claude/consolidate-ports-YygKF claude/consolidate-refactoring-plan-tetth || true
+sleep 1
+
+# Batch 34
+echo "  batch 34..."
+git push origin --delete claude/consolidate-refactoring-plans-0PIbf claude/consolidate-refactoring-plans-0fVC8 claude/consolidate-refactoring-plans-3b5wE claude/consolidate-refactoring-plans-4n8el claude/consolidate-refactoring-plans-6rX7i claude/consolidate-refactoring-plans-AKUNF claude/consolidate-refactoring-plans-AtkRL claude/consolidate-refactoring-plans-BRW8x claude/consolidate-refactoring-plans-CgwWR claude/consolidate-refactoring-plans-D63q0 claude/consolidate-refactoring-plans-DqBE1 claude/consolidate-refactoring-plans-EqPqs claude/consolidate-refactoring-plans-Fmj5v claude/consolidate-refactoring-plans-GJjiy claude/consolidate-refactoring-plans-GVdya claude/consolidate-refactoring-plans-GnSZ7 claude/consolidate-refactoring-plans-IMlIn claude/consolidate-refactoring-plans-JyDXU claude/consolidate-refactoring-plans-LpHXy claude/consolidate-refactoring-plans-Nr1yz || true
+sleep 1
+
+# Batch 35
+echo "  batch 35..."
+git push origin --delete claude/consolidate-refactoring-plans-OmfpP claude/consolidate-refactoring-plans-StXE2 claude/consolidate-refactoring-plans-VXGEG claude/consolidate-refactoring-plans-cZhvz claude/consolidate-refactoring-plans-d4mZi claude/consolidate-refactoring-plans-dfCd4 claude/consolidate-refactoring-plans-f9fnE claude/consolidate-refactoring-plans-fXqMj claude/consolidate-refactoring-plans-kENni claude/consolidate-refactoring-plans-kOiCV claude/consolidate-refactoring-plans-lsrMM claude/consolidate-refactoring-plans-qxZRB claude/consolidate-refactoring-plans-rWmCM claude/consolidate-refactoring-plans-vImSC claude/consolidate-refactoring-plans-xtMqk claude/consolidate-refactoring-plans-zpzXY claude/consolidate-schema-audit-dBU6O claude/consolidate-transformer-logic-zetBt claude/convert-molecular-weight-JWUL9 claude/convert-rules-requirements-AnC4U || true
+sleep 1
+
+# Batch 36
+echo "  batch 36..."
+git push origin --delete claude/create-app-services-G3zcB claude/create-column-order-vo-DjBoh claude/create-column-orderer-service-YvWxL claude/create-column-qualifier-dNmEb claude/create-column-renamer-service-fK2wZ claude/create-dq-config-files-dOkV7 claude/create-dqconfigloader-S6zfT claude/create-error-handling-adr-YGcqJ claude/create-executor-module-HrA7S claude/create-extraction-params-Exss5 claude/create-file-merger-script-TNbio claude/create-metrics-port-cY73p claude/create-normalization-service-uoyjN claude/create-publication-base-schema-qsHdz claude/crossref-author-reference-extraction-zQmwf claude/data-normalization-comparison-kK6Pp claude/ddd-architecture-analysis-LMtsb claude/ddd-architecture-analysis-lIcLO claude/debug-chembl-pipeline-rVxiO claude/debug-pipelines-limit-Rvvx4 || true
+sleep 1
+
+# Batch 37
+echo "  batch 37..."
+git push origin --delete claude/debug-tests-green-6FPP2 claude/debug-tests-green-WnQus claude/debug-tests-green-vh1HG claude/debug-uniprot-idmapping-byhJj claude/decompose-api-client-Spqvz claude/decompose-base-pipeline-1Yvns claude/decompose-base-pipeline-TXtlz claude/decompose-domain-exceptions-jbhUF claude/decompose-entities-file-DIH8U claude/decompose-infrastructure-components-UDGUS claude/decompose-normalization-service-7W56X claude/decompose-overloaded-classes-IZZMk claude/decompose-ports-file-4NHPQ claude/decompose-record-processor-sZSs5 claude/decompose-writer-modules-Ea3dO claude/decompose-xml-helpers-PVi66 claude/decouple-cli-infrastructure-DHVoJ claude/decouple-cli-infrastructure-g487a claude/decouple-http-layer-2PQsz claude/deduplicate-enricher-table-G533x || true
+sleep 1
+
+# Batch 38
+echo "  batch 38..."
+git push origin --delete claude/deduplicate-semanticscholar-transformer-7wrAO claude/default-output-directory-z2L1W claude/design-composite-pipeline-vnaUO claude/deterministic-composition-root-yg52x claude/dev-setup-script-Sq8dW claude/di-pipeline-runner-RRdFG claude/docs-security-audit-bErGz claude/docs-security-audit-rA5DX claude/document-architecture-refactor-DDUbc claude/document-batch-size-x9OXd claude/document-bioetl-architecture-3SljB claude/document-chembl-cell-line-fy58i claude/document-chembl-compound-a1Eoz claude/document-gold-contracts-9Hz9J claude/document-index-field-Thss1 claude/document-interface-imports-RRHFt claude/document-pipeline-enums-y4nVS claude/document-pipeline-schemas-UtnLn claude/document-pipeline-validation-cZ1Ai claude/document-similarity-matrix-l7odE || true
+sleep 1
+
+# Batch 39
+echo "  batch 39..."
+git push origin --delete claude/document-term-extraction-c5APV claude/document-timestamp-exceptions-GId6D claude/doi-normalization-i0C1d claude/doi-schema-validation-KLs5N claude/domain-logic-separation-1SIKM claude/downgrade-python-3-13-xM0wN claude/dry-aws-config-bvEnC claude/email-non-pii-docs-TRads claude/enable-chembl-csv-export-rnOvq claude/enable-skipped-tests-rgldV claude/enforce-layer-boundaries-u1Uxz claude/enhance-fsm-logging-YOZCK claude/enhance-source-metadata-api-UFjWh claude/expand-architecture-tests-4F2x0 claude/expand-bioetl-test-coverage-GBXc2 claude/expand-bioetl-test-coverage-ba384 claude/expand-bioetl-test-coverage-yipEE claude/expand-bioetl-tests-VmA7x claude/expand-cli-tests-ZcROa claude/expand-data-contracts-e6DjU || true
+sleep 1
+
+# Batch 40
+echo "  batch 40..."
+git push origin --delete claude/expand-e2e-tests-kV3NJ claude/expand-e2e-tests-sneOH claude/expand-port-contract-tests-kWAC9 claude/expand-publication-pipeline-aL9RZ claude/expand-refactoring-prompts-gZais claude/expand-value-objects-2TcQe claude/expand-value-objects-QXCSB claude/expand-vcr-cassettes-RLXUA claude/extend-checkpoint-fsm-state-JnzQE claude/extend-di-architecture-tests-V1n8c claude/extend-goldcolumnfilter-operators-dY1l1 claude/extend-typeddict-dq-config-0tPSc claude/extend-uniprot-schema-RzXNf claude/extract-base-chembl-transformer-clzty claude/extract-bronze-version-Gb37Y claude/extract-filter-config-Ex8kk claude/extract-gold-datacontract-B7drL claude/extract-goldvalidator-FFUTn claude/extract-pipeline-observer-Ml1KH claude/extract-pipeline-observer-haGeH || true
+sleep 1
+
+# Batch 41
+echo "  batch 41..."
+git push origin --delete claude/extract-pipeline-services-3QlZT claude/extract-pubmed-affiliations-dD8kI claude/extract-runner-services-1t5S5 claude/extract-transform-utils-Y2p2q claude/extract-transform-utils-xsThO claude/field-group-organization-KINdq claude/fill-gold-schema-metadata-dJIrD claude/fill-pipeline-metadata-ChAMi claude/final-validation-docs-eq7am claude/finalize-bioetl-docs-Fcv2k claude/finalize-bioetl-docs-MGLus claude/fix-activity-properties-nXVpa claude/fix-any-type-annotation-SeF7h claude/fix-arch-metrics-tests-2RykK claude/fix-arch-metrics-tests-7iRAr claude/fix-arch-metrics-tests-P1eiP claude/fix-arch-metrics-tests-Vq0C7 claude/fix-arch-metrics-tests-xKx0e claude/fix-arch-tests-1YnRf claude/fix-arch-tests-1dbrA || true
+sleep 1
+
+# Batch 42
+echo "  batch 42..."
+git push origin --delete claude/fix-arch-tests-IQGJC claude/fix-arch-tests-VhlE6 claude/fix-arch-tests-YZQE6 claude/fix-arch-tests-govNf claude/fix-arch-tests-metrics-NOuo7 claude/fix-arch-tests-nDu8P claude/fix-architecture-checks-A2LwY claude/fix-architecture-checks-eUoLO claude/fix-architecture-checks-fxWZc claude/fix-architecture-checks-uu3Ie claude/fix-architecture-dependencies-3lNgU claude/fix-architecture-metrics-0gGt2 claude/fix-architecture-metrics-0yZ8z claude/fix-architecture-metrics-1PTYw claude/fix-architecture-metrics-1R7et claude/fix-architecture-metrics-4ZuGv claude/fix-architecture-metrics-5jrmR claude/fix-architecture-metrics-5lz5z claude/fix-architecture-metrics-6bXQe claude/fix-architecture-metrics-7cNfS || true
+sleep 1
+
+# Batch 43
+echo "  batch 43..."
+git push origin --delete claude/fix-architecture-metrics-8zoEG claude/fix-architecture-metrics-AAvUW claude/fix-architecture-metrics-BjJNV claude/fix-architecture-metrics-GwFvn claude/fix-architecture-metrics-MAP5L claude/fix-architecture-metrics-RJeo0 claude/fix-architecture-metrics-RSKLO claude/fix-architecture-metrics-SbGy6 claude/fix-architecture-metrics-THYwz claude/fix-architecture-metrics-TQUen claude/fix-architecture-metrics-YEOmz claude/fix-architecture-metrics-c3osY claude/fix-architecture-metrics-cTdPw claude/fix-architecture-metrics-cZISp claude/fix-architecture-metrics-eACim claude/fix-architecture-metrics-tests-Yc9DR claude/fix-architecture-metrics-tests-miCsU claude/fix-architecture-metrics-tests-nbTTD claude/fix-architecture-metrics-wtafR claude/fix-architecture-metrics-zYEzK || true
+sleep 1
+
+# Batch 44
+echo "  batch 44..."
+git push origin --delete claude/fix-architecture-tests-DOrJp claude/fix-architecture-tests-Hjjdu claude/fix-architecture-tests-SHwE4 claude/fix-architecture-tests-ZrfRY claude/fix-architecture-tests-gsVur claude/fix-architecture-tests-iboxF claude/fix-architecture-tests-ibwdr claude/fix-architecture-tests-pystL claude/fix-architecture-tests-qvsx7 claude/fix-architecture-tests-r5FRA claude/fix-architecture-tests-s36H2 claude/fix-architecture-tests-tZo94 claude/fix-assay-extraction-dS2ET claude/fix-async-blocking-io-IWRZz claude/fix-async-blocking-io-XirrC claude/fix-authors-field-type-4UYqE claude/fix-authors-field-type-KMG1B claude/fix-baseline-assertions-Cj7Mv claude/fix-batching-performance-tests-ocWwO claude/fix-bioactivity-import-Z4YR2 || true
+sleep 1
+
+# Batch 45
+echo "  batch 45..."
+git push origin --delete claude/fix-bioactivity-test-JZw0J claude/fix-bioetl-audit-NnpMx claude/fix-bioetl-errors-eVG1R claude/fix-bioetl-missing-tests-KMEQK claude/fix-bioetl-tests-7Kpit claude/fix-bioetl-tests-85DwJ claude/fix-bioetl-tests-aGZZD claude/fix-bioetl-tests-ofY3D claude/fix-bioetl-tests-roxyp claude/fix-bioetl-type-errors-Rg0Xe claude/fix-black-formatting-5N3KQ claude/fix-bootstrap-logger-ELUI5 claude/fix-bootstrap-storage-HgcRw claude/fix-bronze-config-huluI claude/fix-bronze-dependencies-api-gYTeE claude/fix-bronze-validation-FfIBO claude/fix-bronzewriter-logging-di-El1Q7 claude/fix-bronzewriter-return-type-83W2G claude/fix-checkpoint-blocking-ops-WFUnG claude/fix-checkpoint-formatting-WLhen || true
+sleep 1
+
+# Batch 46
+echo "  batch 46..."
+git push origin --delete claude/fix-chembl-api-error-TioRg claude/fix-chembl-degraded-mode-OUSJc claude/fix-chembl-error-reset-lNEyp claude/fix-chembl-naming-mismatch-NMg1p claude/fix-chembl-network-error-StmR3 claude/fix-chembl-schema-FmjIw claude/fix-chembl-test-setup-Xlb9H claude/fix-ci-checks-BOXMy claude/fix-ci-checks-CNlwl claude/fix-ci-checks-FHyy5 claude/fix-ci-checks-YwsUs claude/fix-ci-checks-sfTJC claude/fix-ci-pipeline-failures-9x16z claude/fix-circuit-breaker-test-g2ahS claude/fix-class-size-test-Vw4Uv claude/fix-cli-command-example-Zn8yy claude/fix-code-complexity-8iwl8 claude/fix-code-complexity-XpyjI claude/fix-composite-merger-todos-U2LN1 claude/fix-conftest-xpass-5AZtu || true
+sleep 1
+
+# Batch 47
+echo "  batch 47..."
+git push origin --delete claude/fix-conftest-xpass-VTrNy claude/fix-crossref-affiliations-JbJws claude/fix-crossref-gold-schema-VX1Mp claude/fix-crossref-schema-AIrP1 claude/fix-data-paths-guides-LM3On claude/fix-data-paths-guides-rRanJ claude/fix-date-handling-bronze-pT3Xo claude/fix-datetime-string-conversion-wQxfO claude/fix-delta-parameters-oXZmq claude/fix-deprecated-dev-dependencies-zRXZv claude/fix-dev-dependencies-warning-qn73I claude/fix-di-base-sync-adapter-DSlMD claude/fix-di-violations-Vr9mu claude/fix-doc-broken-links-B05i9 claude/fix-document-year-type-3z1gv claude/fix-doi-regex-validation-UzTVT claude/fix-domain-complexity-hpxUD claude/fix-dq-columns-silver-jOovD claude/fix-dq-molecule-naming-a3cxb claude/fix-dq-nullable-mismatch-1anAc || true
+sleep 1
+
+# Batch 48
+echo "  batch 48..."
+git push origin --delete claude/fix-dq-report-metadata-tIA1T claude/fix-duplicate-metrics-server-1NdYb claude/fix-duplication-checks-3bJ4s claude/fix-duplication-complexity-JrOzW claude/fix-duplication-complexity-T8z83 claude/fix-duplication-complexity-checks-0N6E6 claude/fix-duplication-complexity-checks-1VFFO claude/fix-duplication-complexity-checks-5SSkX claude/fix-duplication-complexity-checks-CG25J claude/fix-duplication-complexity-checks-CszVc claude/fix-duplication-complexity-checks-EtnTz claude/fix-duplication-complexity-checks-FhzEC claude/fix-duplication-complexity-checks-H18u0 claude/fix-duplication-complexity-checks-JDXad claude/fix-duplication-complexity-checks-Lkpxf claude/fix-duplication-complexity-checks-OCThK claude/fix-duplication-complexity-checks-OT1Y1 claude/fix-duplication-complexity-checks-PHdGN claude/fix-duplication-complexity-checks-Qv1sk claude/fix-duplication-complexity-checks-RyPvb || true
+sleep 1
+
+# Batch 49
+echo "  batch 49..."
+git push origin --delete claude/fix-duplication-complexity-checks-TYEf7 claude/fix-duplication-complexity-checks-cM247 claude/fix-duplication-complexity-checks-hAUFs claude/fix-duplication-complexity-checks-kecId claude/fix-duplication-complexity-checks-rcnko claude/fix-duplication-complexity-checks-tV1Wc claude/fix-duplication-complexity-checks-vsSjp claude/fix-e2e-api-tests-M9JOg claude/fix-e2e-pipeline-tests-WUasW claude/fix-e2e-pipeline-timeout-icXbY claude/fix-e2e-test-timeout-X0B7q claude/fix-e2e-tests-Z5LPV claude/fix-env-and-types-Eu78d claude/fix-errors-DP83P claude/fix-factory-type-mismatch-Gycy6 claude/fix-failing-checks-BhtyF claude/fix-failing-checks-I1pE2 claude/fix-failing-checks-Rb0uP claude/fix-failing-checks-Trdnq claude/fix-failing-checks-d9tVS || true
+sleep 1
+
+# Batch 50
+echo "  batch 50..."
+git push origin --delete claude/fix-failing-checks-gpNaI claude/fix-failing-checks-hQbV5 claude/fix-failing-checks-iZqrB claude/fix-failing-checks-lu1xf claude/fix-failing-checks-p5rb8 claude/fix-failing-checks-xy56U claude/fix-failing-tests-5bTdw claude/fix-failing-tests-NI1p5 claude/fix-failing-tests-R134u claude/fix-failing-tests-ScdZe claude/fix-failing-tests-SuZ0l claude/fix-failing-tests-hviAL claude/fix-failing-tests-luTc0 claude/fix-failing-tests-x2kiU claude/fix-failing-tests-zehVb claude/fix-file-size-tests-DjiD1 claude/fix-formatting-tests-W2IQ0 claude/fix-formatting-tests-sGYNi claude/fix-gold-validator-schema-lqCwz claude/fix-hanging-tests-WnBMh || true
+sleep 1
+
+# Batch 51
+echo "  batch 51..."
+git push origin --delete claude/fix-hardcoded-config-params-743QK claude/fix-hardcoded-entity-id-E1q7x claude/fix-hash-performance-test-VFZkz claude/fix-health-server-import-epoCc claude/fix-http-retry-determinism-50imE claude/fix-http-retry-jitter-lxCnf claude/fix-import-sorting-HWh6E claude/fix-import-sorting-P7P15 claude/fix-import-sorting-RYGLS claude/fix-infrastructure-imports-4RUe0 claude/fix-int-float-coercions-g5Jji claude/fix-layer-boundaries-xFes1 claude/fix-ligand-efficiency-method-OhxvJ claude/fix-lint-checks-MBgll claude/fix-lint-checks-g6UJH claude/fix-lint-checks-oNdGF claude/fix-lint-complexity-959x1 claude/fix-lint-complexity-IGv4d claude/fix-lint-complexity-MOL8v claude/fix-lint-complexity-NRBZJ || true
+sleep 1
+
+# Batch 52
+echo "  batch 52..."
+git push origin --delete claude/fix-lint-complexity-checks-HcUS9 claude/fix-lint-complexity-checks-NrP6M claude/fix-lint-errors-RRBXB claude/fix-lint-quality-checks-AaIEE claude/fix-lint-tests-r0uEh claude/fix-lint-type-check-iZwRS claude/fix-lint-type-checks-3V7zu claude/fix-lint-type-checks-4CvlI claude/fix-lint-type-checks-4H0ds claude/fix-lint-type-checks-5Ndzs claude/fix-lint-type-checks-8v1OH claude/fix-lint-type-checks-Dj1xf claude/fix-lint-type-checks-FjdRf claude/fix-lint-type-checks-Fsg9i claude/fix-lint-type-checks-P4ECy claude/fix-lint-type-checks-PQYUM claude/fix-lint-type-checks-Qgt2D claude/fix-lint-type-checks-WsN8G claude/fix-lint-type-checks-aBrhy claude/fix-lint-type-checks-btanQ || true
+sleep 1
+
+# Batch 53
+echo "  batch 53..."
+git push origin --delete claude/fix-lint-type-checks-dUveU claude/fix-lint-type-checks-danVu claude/fix-lint-type-checks-dsw3A claude/fix-lint-type-checks-eHU2N claude/fix-lint-type-checks-eHU2N-1013032600532474932 claude/fix-lint-type-checks-gCMJO claude/fix-lint-type-checks-iqXkM claude/fix-lint-type-checks-nsmBk claude/fix-lint-type-checks-pl79d claude/fix-lint-type-checks-pzheH claude/fix-lint-type-checks-smA24 claude/fix-lint-type-checks-wgz7J claude/fix-lint-type-checks-xBEZq claude/fix-lint-type-checks-xU23j claude/fix-lint-type-checks-yr1RL claude/fix-lint-validation-checks-OqN5T claude/fix-lock-docs-mismatch-cXlBl claude/fix-lock-file-error-DnRYT claude/fix-logger-schema-mismatch-GMW07 claude/fix-loggerport-adapter-kGtR3 || true
+sleep 1
+
+# Batch 54
+echo "  batch 54..."
+git push origin --delete claude/fix-loggerport-violations-Ti1eD claude/fix-medium-issues-ymBLi claude/fix-memory-stats-test-Bn9xM claude/fix-memorylock-ttl-heartbeat-sFmHe claude/fix-mermaid-dryrun-6O0Az claude/fix-mermaid-validation-1ZJXq claude/fix-mermaid-validation-1db1Y claude/fix-mermaid-validation-8NtXj claude/fix-mermaid-validation-DjG8t claude/fix-mermaid-validation-EkviD claude/fix-mermaid-validation-HuDxZ claude/fix-mermaid-validation-Jh7nj claude/fix-mermaid-validation-JnmUm claude/fix-mermaid-validation-Rsdhs claude/fix-mermaid-validation-Zc15b claude/fix-mermaid-validation-gTY74 claude/fix-mermaid-validation-hVWr8 claude/fix-mermaid-validation-logVu claude/fix-mermaid-validation-ltBLa claude/fix-mermaid-validation-nbo7v || true
+sleep 1
+
+# Batch 55
+echo "  batch 55..."
+git push origin --delete claude/fix-metadata-determinism-KfIio claude/fix-metrics-checks-C6ynS claude/fix-metrics-checks-doG3M claude/fix-metrics-gauge-method-Eb4zh claude/fix-metrics-validation-6e8W5 claude/fix-metrics-validation-IOZa8 claude/fix-metrics-validation-RvkNg claude/fix-missing-test-dependencies-8NQA7 claude/fix-missing-test-dependencies-bWm0Y claude/fix-missing-test-file-EPZyP claude/fix-molecule-field-extraction-Csdor claude/fix-mypy-errors-FQsSk claude/fix-mypy-errors-kHEhw claude/fix-mypy-factories-fhkE5 claude/fix-mypy-pandera-error-BUuZl claude/fix-mypy-strict-errors-Nn92N claude/fix-mypy-strict-errors-RvySK claude/fix-mypy-strict-errors-suyEE claude/fix-mypy-type-error-mvlYL claude/fix-naive-datetime-n2xCF || true
+sleep 1
+
+# Batch 56
+echo "  batch 56..."
+git push origin --delete claude/fix-naming-inconsistency-aOb0m claude/fix-nondeterministic-timestamp-M9TKG claude/fix-observability-timestamps-6GWET claude/fix-openalex-empty-records-31EUr claude/fix-operation-state-error-KRAB7 claude/fix-pandas-build-error-BZVTO claude/fix-pandera-check-error-JulhZ claude/fix-pipeline-config-alignment-TvrYI claude/fix-pipeline-determinism-jecK2 claude/fix-pipeline-executor-docs-p1Rpe claude/fix-pipeline-registry-threading-9G50n claude/fix-pipelines-limit-RIir8 claude/fix-pmid-type-alignment-BunCj claude/fix-pmid-type-alignment-T6Cpa claude/fix-pmid-type-mismatch-fYmFl claude/fix-project-tests-bYoLe claude/fix-protein-classification-fields-g9SpV claude/fix-protocol-contracts-xFu02 claude/fix-pubchem-deprecation-RUPMb claude/fix-pubchem-double-limiting-T0DGj || true
+sleep 1
+
+# Batch 57
+echo "  batch 57..."
+git push origin --delete claude/fix-publication-deduplication-FoBpF claude/fix-publication-schema-ryUr5 claude/fix-publication-schema-tests-blI5v claude/fix-publication-term-saving-JqtCO claude/fix-pubmed-entity-naming-KKpLa claude/fix-pubmed-gold-schema-yxu6z claude/fix-pubmed-pii-security-NtpcU claude/fix-pubmed-pmid-type-gArqC claude/fix-pytest-asyncio-config-e0Gbs claude/fix-pytest-dependencies-C07ys claude/fix-pytest-dependencies-uWtCy claude/fix-pytest-imports-I2XLA claude/fix-redis-lock-test-RWY0M claude/fix-refactoring-plan-8WZWb claude/fix-refactoring-plan-LdNzF claude/fix-remaining-test-errors-GwGj4 claude/fix-schema-file-path-oS22u claude/fix-secrets-scan-gVESa claude/fix-secrets-scan-timeout-bSvgq claude/fix-signals-coverage-wGhrp || true
+sleep 1
+
+# Batch 58
+echo "  batch 58..."
+git push origin --delete claude/fix-silver-paths-ocDvA claude/fix-silver-runtime-fields-C6u0I claude/fix-silver-table-read-O7JBY claude/fix-silver-target-fields-DGTax claude/fix-skipped-tests-Aoyr6 claude/fix-storage-health-check-LROI6 claude/fix-test-dependencies-oIwlN claude/fix-test-errors-vHtz0 claude/fix-test-failures-mUgCM claude/fix-test-formatting-t2HJm claude/fix-test-run-all-bKSOJ claude/fix-tests-and-types-c1z2X claude/fix-text-encoding-Xdl4Q claude/fix-todo-mka9dotm6bxr83hg-lmvkp claude/fix-tracing-docs-cVV8R claude/fix-transformer-factory-docs-5Vbzo claude/fix-type-arch-tests-ptPWf claude/fix-type-checking-imports-uo6zI claude/fix-types-refactor-Ry0rx claude/fix-uniprot-audit-dates-SQXdh || true
+sleep 1
+
+# Batch 59
+echo "  batch 59..."
+git push origin --delete claude/fix-uniprot-complexity-b0WHp claude/fix-uniprot-imports-7lOKF claude/fix-uuid-replace-error-WbiMN claude/fix-validated-records-error-JnCUc claude/fix-validation-checks-0udYI claude/fix-validation-security-checks-7ew7d claude/fix-yaml-config-loading-7b54I claude/formalize-structlog-adapter-SN3db claude/format-batch-black-B79Ns claude/format-python-code-YBO96 claude/format-tests-black-ryWnw claude/fsm-checkpoint-resume-ozA6j claude/fsm-enrichment-transitions-cthSS claude/fsm-error-handling-n3G2Y claude/fsm-pipeline-integration-F6naR claude/fsm-pipeline-merge-cR0tD claude/gold-schema-contracts-t4Hun claude/gold-schema-contracts-ucmwF claude/grafana-dashboard-audit-I83e7 claude/grafana-dq-dashboard-1fHrH || true
+sleep 1
+
+# Batch 60
+echo "  batch 60..."
+git push origin --delete claude/handle-pipeline-closure-VcLpd claude/harmonize-publication-rule-I4qwm claude/heartbeat-config-qEfEF claude/hexagonal-architecture-bioetl-7Nja8 claude/hexagonal-architecture-bioetl-Neqgw claude/hexagonal-architecture-bioetl-eRS9U claude/immutable-config-fields-uw6q8 claude/implement-base-publication-transformer-inOZx claude/implement-detailed-plan-A8511 claude/implement-memory-lock-wait-Aq9DB claude/implement-pii-hashing-4aasg claude/implement-pii-hashing-CbUEn claude/implement-pubmed-aclose-pDCSG claude/implement-title-fallback-handler-QyfXL claude/implement-todo-item-WlnTH claude/implement-vacuum-archive-w9jZG claude/improve-agent-instructions-GJelI claude/improve-cli-coverage-OK49P claude/improve-cli-test-coverage-Ez6bC claude/improve-cli-test-coverage-VbUXW || true
+sleep 1
+
+# Batch 61
+echo "  batch 61..."
+git push origin --delete claude/improve-cli-test-coverage-adSNl claude/improve-cli-test-coverage-c8Ccy claude/improve-config-prompt-u5jvq claude/improve-diagram-quality-9XNfk claude/improve-exception-typing-MUjcx claude/improve-health-server-tests-KyptB claude/improve-interfaces-coverage-xODxt claude/improve-layer-separation-Us7H0 claude/improve-port-typing-fGTvj claude/improve-prompt-tests-PSOyZ claude/improve-prompt-update-docs-Titlj claude/improve-refactoring-plan-NeI6y claude/improve-refactoring-plan-Nw1v9 claude/improve-refactoring-plan-kH36Q claude/improve-refactoring-plan-z5tPw claude/improve-test-coverage-5PXZ9 claude/improve-test-coverage-UofcA claude/improve-test-coverage-ddepF claude/increase-coverage-threshold-afYRH claude/increase-test-coverage-BtljY || true
+sleep 1
+
+# Batch 62
+echo "  batch 62..."
+git push origin --delete claude/increase-test-coverage-Itit1 claude/instance-level-pipeline-registry-77q0F claude/integrate-api-request-collector-4pDHc claude/integrate-crossref-ports-gHHZ2 claude/integrate-crossref-provider-9JPbD claude/integrate-crossref-provider-BLdMW claude/integrate-dq-metrics-SFfCt claude/integrate-dq-monitor-NJws0 claude/integrate-dq-reports-7XfnR claude/integrate-dq-reports-KH54S claude/integrate-dqconfigloader-Q7a7B claude/integrate-gtopdb-provider-3JKur claude/integrate-healthaggregator-iY6oj claude/integrate-iuphar-pipeline-ipRNR claude/integrate-metadata-bronzewriter-9olZc claude/integrate-metadata-goldwriter-5D7OS claude/integrate-metadata-writing-dq56V claude/integrate-openalex-provider-1pqxi claude/integrate-writemodepolicy-ZS7gr claude/inventory-bioetl-diagrams-3EJsM || true
+sleep 1
+
+# Batch 63
+echo "  batch 63..."
+git push origin --delete claude/inventory-code-duplication-z4DSx claude/inventory-duplicate-detection-k8gol claude/isolate-benchmark-tests-uK4Wp claude/isolate-structlog-logger-eOxoW claude/justify-any-annotations-x1MJF claude/list-codex-branches-BCF5z claude/list-codex-branches-dmzYj claude/list-open-branches-K8RpF claude/loggerport-print-examples-TnvKh claude/lower-test-coverage-requirement-ln08s claude/medallion-invariant-validation-NEzio claude/medallion-policy-analysis-dEziu claude/medallion-policy-framework-IGm6R claude/medallion-write-modes-4CBLx claude/memory-efficient-batch-processing-qjewR claude/memory-efficient-batch-processing-xXfJb claude/merge-bioactivity-models-8M06F claude/merge-config-files-SWhwH claude/merge-executor-processor-eMpvc claude/merge-multiple-branches-7HpJX || true
+sleep 1
+
+# Batch 64
+echo "  batch 64..."
+git push origin --delete claude/merge-refactoring-plans-VEJI6 claude/metadata-coordinator-service-G0SaO claude/migrate-composite-deltareaderport-fvMHI claude/migrate-e2e-tests-api-FU6qp claude/migrate-openalex-topics-zPZie claude/migrate-uniprot-dq-config-7NDC3 claude/modify-metadata-writer-h8Zer claude/molecular-weight-conversion-FIpCZ claude/molecule-property-aliases-5mgUt claude/monitor-deprecated-aliases-ZQrsu claude/move-dq-fields-base-2zYsM claude/move-exceptions-interfaces-15LuM claude/move-hash-to-domain-zUdA7 claude/move-orjson-main-bxqsY claude/move-safety-guard-m3MTt claude/normalize-crossref-dates-YPOZR claude/normalize-doi-values-Ma5ba claude/normalize-lock-parameters-TgFB4 claude/normalize-open-access-status-XIYGV claude/normalize-pagination-params-eOVji || true
+sleep 1
+
+# Batch 65
+echo "  batch 65..."
+git push origin --delete claude/normalize-pii-hash-TAkue claude/normalize-pubmed-dates-ylXws claude/observability-composition-layer-9XXE2 claude/observability-database-automation-JXjm5 claude/observability-preflight-validation-pJUc0 claude/offload-fasta-parsing-2GdP0 claude/openalex-date-validation-BAb7H claude/openalex-fallback-strategy-7fkID claude/openalex-publication-docs-9511R claude/openalex-publication-pipeline-2pbD3 claude/optimize-bioetl-tests-8fk3N claude/optimize-bioetl-tests-FhYgG claude/optimize-bioetl-tests-HR4M8 claude/optimize-bioetl-tests-PcIFY claude/optimize-bioetl-tests-jD7Sp claude/optimize-bioetl-tests-wbRq6 claude/optimize-config-files-Qzl2r claude/optimize-config-files-UiLjt claude/optimize-json-serialization-aQpXL claude/optimize-memory-monitor-nbtpD || true
+sleep 1
+
+# Batch 66
+echo "  batch 66..."
+git push origin --delete claude/pandera-biodata-schemas-PN8ZV claude/pandera-chembl-schemas-JrQDJ claude/parameterize-datetime-e1bow claude/pipeline-documentation-wBLYV claude/pipeline-required-flag-YyAZK claude/pre-release-verification-e2AyI claude/preflight-check-cleanup-mkfaL claude/prepare-bioetl-production-HTsH5 claude/prepare-bioetl-v1-release-3aGYo claude/prepare-documentation-prompt-64gih claude/presentation-plan-VC8ad claude/production-readiness-enrichment-LaNDc claude/project-audit-documentation-PLbw3 claude/project-audit-plan-ZMF7I claude/project-preflight-cleanup-TYm3s claude/project-preflight-cleanup-Wj18M claude/project-preflight-cleanup-fua6B claude/propagate-run-id-9SqDS claude/propagate-run-id-uFMEO claude/provider-registration-api-BY5Cr || true
+sleep 1
+
+# Batch 67
+echo "  batch 67..."
+git push origin --delete claude/pubchem-extract-properties-ul7Ns claude/publication-fields-order-zMwUp claude/publication-incremental-policy-uD7EJ claude/publication-validation-analysis-QG4pB claude/publication-validation-analysis-QUOBW claude/publication-validation-analysis-Sf0u1 claude/publication-validation-analysis-Vgify claude/publication-validation-analysis-a5kn6 claude/publication-validation-analysis-mi2gN claude/publication-validation-analysis-olBBu claude/publication-validation-analysis-ul8IK claude/pubmed-title-fallback-pd8ex claude/pydantic-dq-config-schemas-3gQVt claude/rebuild-documentation-2Ow9B claude/record-uniprot-vcr-cassettes-5ibp2 claude/reduce-config-duplication-a12KY claude/reduce-cyclomatic-complexity-1iQzo claude/reduce-layer-coupling-di-quz5a claude/reduce-loc-exemptions-wAZYc claude/reduce-max-violations-O5eZh || true
+sleep 1
+
+# Batch 68
+echo "  batch 68..."
+git push origin --delete claude/reduce-pipeline-overrides-o4D2e claude/refactor-adapter-imports-3sUFO claude/refactor-aggregate-boundaries-RxpmN claude/refactor-bioetl-config-6RHqE claude/refactor-bioetl-config-f14LT claude/refactor-bioetl-duplication-GkP1c claude/refactor-bootstrap-pipeline-SfC1b claude/refactor-business-logic-layer-aWXYM claude/refactor-cli-separation-P125g claude/refactor-cli-separation-hPiHK claude/refactor-code-duplication-0pXgo claude/refactor-code-duplication-1VXKP claude/refactor-code-duplication-7FrXk claude/refactor-code-duplication-EoAt8 claude/refactor-code-duplication-GATp8 claude/refactor-code-duplication-JHj1y claude/refactor-code-duplication-NfP8Z claude/refactor-code-duplication-PAsZn claude/refactor-code-duplication-RipAN claude/refactor-code-duplication-XrQ9c || true
+sleep 1
+
+# Batch 69
+echo "  batch 69..."
+git push origin --delete claude/refactor-code-duplication-rTtgw claude/refactor-code-duplication-uVNpA claude/refactor-config-structure-vyRIX claude/refactor-crossref-extractors-0orTH claude/refactor-csv-export-KWLb2 claude/refactor-domain-exceptions-BgUql claude/refactor-dto-classes-RZjuU claude/refactor-duplicate-logic-fv2wy claude/refactor-entity-inheritance-w77HH claude/refactor-exceptions-dhIHT claude/refactor-filter-config-z73Wq claude/refactor-god-objects-RcILK claude/refactor-health-command-di-ZTB4h claude/refactor-http-client-srp-k0DBl claude/refactor-http-logger-injection-p3nmx claude/refactor-io-logic-layer-Nc1U6 claude/refactor-local-deployment-yYaGU claude/refactor-medallion-cleanup-b9An8 claude/refactor-normalization-domain-0bOYB claude/refactor-normalize-source-config-NXWaA || true
+sleep 1
+
+# Batch 70
+echo "  batch 70..."
+git push origin --delete claude/refactor-orchestrators-Ou2fl claude/refactor-pipeline-duplication-UcIS0 claude/refactor-pipeline-factory-MK2o9 claude/refactor-pipeline-runner-9lQvZ claude/refactor-pipeline-runner-Os3Vd claude/refactor-plan-review-Xoofm claude/refactor-plan-testing-tai8d claude/refactor-postrun-service-O4n6q claude/refactor-publication-mapping-dYPCO claude/refactor-publication-pagination-bnfeR claude/refactor-quarantine-service-LUPj7 claude/refactor-serialize-json-0Rw8k claude/refactor-serialize-json-O3icR claude/refactor-storage-contracts-eAXVu claude/refactoring-plan-fURYp claude/register-missing-transformers-wfNay claude/release-checklist-5Gxb8 claude/remove-bronze-versioning-ygAhQ claude/remove-cli-debug-output-Bff3z claude/remove-cloud-docstring-h7cwq || true
+sleep 1
+
+# Batch 71
+echo "  batch 71..."
+git push origin --delete claude/remove-config-duplication-xl2eF claude/remove-dead-code-Audji claude/remove-dead-code-M3Rpo claude/remove-dead-code-chembl-Bv4Xp claude/remove-dead-events-BEFKQ claude/remove-dead-objects-XVi3D claude/remove-deprecated-code-00pG9 claude/remove-deprecated-code-F0Cxt claude/remove-deprecated-code-Jfosr claude/remove-deprecated-code-MnV4U claude/remove-deprecated-code-WxLwo claude/remove-deprecated-code-ZGRjq claude/remove-deprecated-code-bq5dh claude/remove-deprecated-code-jREBU claude/remove-deprecated-code-kXee2 claude/remove-deprecated-code-liVDf claude/remove-deprecated-code-mgy3v claude/remove-deprecated-code-sc6Cu claude/remove-deprecated-code-vfMQY claude/remove-deprecated-methods-C3Dkc || true
+sleep 1
+
+# Batch 72
+echo "  batch 72..."
+git push origin --delete claude/remove-deprecated-protocols-OkNjb claude/remove-deprecated-shims-WbQRB claude/remove-deprecated-shims-onQpE claude/remove-deprecation-warnings-5YqSa claude/remove-docstring-composition-0vUYc claude/remove-domain-duplicates-B3dMx claude/remove-duplicate-fragments-CV862 claude/remove-duplicate-meta-fields-6rMVq claude/remove-executor-module-1fprZ claude/remove-hardcoded-user-agent-MTeb1 claude/remove-infrastructure-imports-2aXqd claude/remove-ingestion-ts-default-r8QqS claude/remove-kwargs-storage-adapter-0du5H claude/remove-legacy-cleanup-6M6jW claude/remove-legacy-fields-YACLE claude/remove-legacy-pipelines-wvb6P claude/remove-loader-fallback-q2AdV claude/remove-noop-metrics-duplicate-mwYQJ claude/remove-outdated-docs-Rpxye claude/remove-prefect-integration-OROFu || true
+sleep 1
+
+# Batch 73
+echo "  batch 73..."
+git push origin --delete claude/remove-prefix-strategy-24pU6 claude/remove-print-statements-A2yNs claude/remove-random-delays-Y6qW3 claude/remove-redis-requirement-04VxX claude/remove-thin-pipelines-cyvIZ claude/remove-todo-fixme-9kOGz claude/remove-transformer-fallback-BG9Or claude/remove-type-ignore-r4OQu claude/remove-unused-domain-code-FaIIi claude/remove-unused-domain-code-j9GAN claude/remove-unused-ignores-CUOmv claude/remove-unused-import-2pUql claude/remove-unused-import-HKBTH claude/remove-unused-publication-fields-MNB3c claude/remove-watermark-feature-BdRAE claude/rename-markdown-files-pN9TV claude/rename-seed-columns-MlATH claude/reorganize-field-groups-5UQVc claude/replace-executor-classes-VHoxN claude/replace-print-with-logger-57Mp9 || true
+sleep 1
+
+# Batch 74
+echo "  batch 74..."
+git push origin --delete claude/replace-sentinel-values-Eob8x claude/replace-typer-with-click-BrLdM claude/require-gold-schema-2Bikv claude/resolve-todo-comments-OcISv claude/resolve-todo-fixme-153SQ claude/review-agents-plan-gOVAH claude/review-and-fix-B8BMi claude/review-audit-fixes-iAfXF claude/review-audit-refactoring-QV3sm claude/review-bioetl-refactoring-cIJ40 claude/review-bioetl-refactoring-cPiaN claude/review-dto-refactoring-aeplv claude/review-project-plan-XJwAp claude/review-refactor-plan-mKkKR claude/review-refactoring-plan-26MyL claude/review-refactoring-plan-5pstH claude/review-refactoring-plan-ThxF7 claude/review-refactoring-plan-Z4vi9 claude/review-refactoring-plan-xMSVC claude/review-refactoring-plan-yWHyu || true
+sleep 1
+
+# Batch 75
+echo "  batch 75..."
+git push origin --delete claude/review-refactoring-plans-0qtyC claude/review-refactoring-plans-6F9BG claude/review-refactoring-plans-CFGpC claude/review-refactoring-plans-Rcbn3 claude/run-bioactivity-pipeline-Jx4Cu claude/run-chembl-pipeline-oafBO claude/run-pipelines-debug-67MUX claude/run-tests-coverage-report-Jxb5G claude/run-tests-coverage-report-aipHb claude/run-tests-coverage-report-wVkMr claude/run-tests-debug-Cnorg claude/run-tests-debug-Yo6uX claude/run-tests-fix-errors-7Ddbj claude/run-tests-fix-errors-8sywb claude/run-tests-fix-errors-9IQVn claude/run-tests-fix-errors-EUCex claude/run-tests-fix-errors-F83rc claude/run-tests-fix-errors-FUJ14 claude/run-tests-fix-errors-Lk1rj claude/run-tests-fix-errors-MxWya || true
+sleep 1
+
+# Batch 76
+echo "  batch 76..."
+git push origin --delete claude/run-tests-fix-errors-RmPkY claude/run-tests-fix-errors-XjPzI claude/run-tests-fix-errors-Y9xhA claude/run-tests-fix-errors-Zt7sf claude/run-tests-fix-errors-e4gLr claude/run-tests-fix-errors-iKjvB claude/run-tests-fix-errors-s4WxF claude/run-tests-fix-errors-wwc7J claude/run-tests-report-errors-gib7j claude/s3-connection-pooling-odbRO claude/schema-documentation-bioetl-jxEA0 claude/schema-drift-documentation-cnkdv claude/schema-drift-handling-KBdck claude/security-audit-alternatives-qIxwu claude/security-secrets-pii-39Kzp claude/semantic-scholar-date-validation-H5hsu claude/semantic-scholar-pipeline-bKdbr claude/semanticscholar-fallback-handler-bd0qI claude/semanticscholar-vcr-tests-Ioxyr claude/separate-cli-composition-J8Hp1 || true
+sleep 1
+
+# Batch 77
+echo "  batch 77..."
+git push origin --delete claude/separate-cli-composition-root-djoDN claude/setup-and-fix-tests-N7clv claude/setup-commitlint-action-Buory claude/setup-commitlint-action-leZJu claude/setup-github-actions-B1x5Q claude/setup-vacuum-cron-morFa claude/simplify-abstractions-OJb4P claude/simplify-dependency-injection-hLvON claude/simplify-storage-logging-C8tSL claude/smart-column-renaming-2LmzJ claude/split-architecture-tests-R4FB2 claude/split-bootstrap-cli-runtime-1x25a claude/stabilize-process-jitter-wvDhy claude/standardize-adapter-errors-S3kIO claude/standardize-adapter-errors-seCth claude/standardize-adapter-naming-r9xiw claude/standardize-adr-headers-e9s40 claude/standardize-bootstrap-functions-KVXr0 claude/standardize-chemical-fields-STzEh claude/standardize-citation-count-NxHHB || true
+sleep 1
+
+# Batch 78
+echo "  batch 78..."
+git push origin --delete claude/standardize-cli-terminology-6RUgg claude/standardize-column-order-6gpeX claude/standardize-docstring-terminology-HMAif claude/standardize-documentation-terms-kT8e0 claude/standardize-dq-filters-docs-eCA52 claude/standardize-event-names-5DqzU claude/standardize-event-names-RM0OF claude/standardize-field-naming-kRxjC claude/standardize-health-check-aisvr claude/standardize-logging-uxHZy claude/standardize-lookup-fields-1qEM0 claude/standardize-molecule-fields-OFKKu claude/standardize-nullability-whitespace-JPizn claude/standardize-pipeline-variables-gFEGo claude/standardize-pipeline-variables-sRnnM claude/standardize-pmid-types-SFPEw claude/standardize-port-imports-3Ujxa claude/standardize-provider-approaches-YJmZo claude/standardize-publication-types-Ti3Vm claude/standardize-test-coverage-docs-UqzpN || true
+sleep 1
+
+# Batch 79
+echo "  batch 79..."
+git push origin --delete claude/standardize-writer-naming-Z72yY claude/standardize-year-filter-bFZ8W claude/strengthen-aggregate-invariants-U4ztw claude/stricter-domain-types-jDg0S claude/study-bioetl-config-SWYWZ claude/study-bioetl-config-ULJbv claude/study-bioetl-config-structure-dljZv claude/sub-pr-2185 claude/sub-pr-2191 claude/sub-pr-2197 claude/sync-app-layer-docs-pUIXl claude/sync-circuitbreaker-ttl-4JplB claude/sync-cli-version-F2wGh claude/sync-docs-with-tests-4yetA claude/sync-domain-docs-WUnA3 claude/sync-observability-docs-9JhOa claude/sync-publication-schemas-1V8Ur claude/sync-readme-adr-010-Kn5F0 claude/sync-rules-ttl-heartbeat-3Dvea claude/sync-version-numbers-NMC5v || true
+sleep 1
+
+# Batch 80
+echo "  batch 80..."
+git push origin --delete claude/test-and-coverage-pTowq claude/test-bioetl-performance-iPQ9M claude/test-bioetl-performance-kp0EX claude/test-circuit-breaker-degradation-buwGL claude/test-fsm-pipeline-paT1l claude/test-interfaces-orchestration-iwqM4 claude/test-openalex-fallback-thtyM claude/test-watermark-extraction-MXauy claude/track-bronze-paths-CpZYr claude/type-event-collection-FsUsG claude/type-hints-registry-psWt6 claude/typed-bootstrap-contexts-hjAjc claude/unclear-task-jcUg1 claude/unified-cleanup-service-qwUVU claude/unified-observability-contract-WO8ja claude/unified-prompts-sync-L1xas claude/unified-retry-circuit-breaker-bvK2G claude/unify-abstract-tldr-fields-gLzbJ claude/unify-authors-format-rOqBd claude/unify-bioetl-paths-JbU85 || true
+sleep 1
+
+# Batch 81
+echo "  batch 81..."
+git push origin --delete claude/unify-bootstrap-errors-eiL8q claude/unify-cleanup-service-0dKq8 claude/unify-domain-terminology-IgriG claude/unify-domain-terminology-dPJrf claude/unify-entity-naming-3hQ7B claude/unify-entity-naming-CYbL9 claude/unify-entity-naming-WA4uz claude/unify-entity-naming-lq9uT claude/unify-entity-naming-zaGI1 claude/unify-factory-parameters-VmsJh claude/unify-fallback-strategies-yxAAs claude/unify-graceful-shutdown-pe1Kd claude/unify-health-check-7pGXh claude/unify-health-check-YZgsA claude/unify-http-client-5scpl claude/unify-identifier-validation-rhPtC claude/unify-json-serialization-8iAb8 claude/unify-logging-MGliH claude/unify-medallion-metadata-Qv4HP claude/unify-models-dtos-wA5NH || true
+sleep 1
+
+# Batch 82
+echo "  batch 82..."
+git push origin --delete claude/unify-observability-vb31B claude/unify-pages-dates-fields-AQLcD claude/unify-pipeline-classes-FpVJg claude/unify-pipeline-configs-Iz0tr claude/unify-pipeline-configs-kRxL6 claude/unify-pipeline-configs-y6DlY claude/unify-pipeline-factories-yYbDz claude/unify-pipeline-registries-p8MAq claude/unify-publication-columns-6Qqb0 claude/unify-publication-columns-KXdUp claude/unify-publication-schemas-UzQtB claude/unify-publication-type-enum-9jKcc claude/unify-pubmed-adapter-67A86 claude/unify-pubmed-extractors-rXAMS claude/unify-pubmed-pipeline-obCmT claude/unify-quarantine-pipeline-ueTWH claude/unify-registries-zgEJN claude/unify-registry-api-mOcpp claude/unify-terminology-XSZli claude/unify-terminology-qp455 || true
+sleep 1
+
+# Batch 83
+echo "  batch 83..."
+git push origin --delete claude/unify-transformers-ddjUH claude/unify-uniprotprotein-transformer-aW56v claude/unify-yaml-configs-rFDXl claude/uniprot-id-mapping-pipeline-66gqT claude/unit-test-generation-prompt-D09dg claude/universal-pipeline-service-VYc1Z claude/universal-run-all-command-gFrHU claude/update-adr-003-TuYQt claude/update-adr-025-GAlDE claude/update-adr-026-xrtB8 claude/update-analysis-plan-NF0Bl claude/update-api-docs-R0V6e claude/update-architecture-diagrams-bKXCs claude/update-audit-click-docs-Iudhu claude/update-bioetl-api-docs-Z7gNy claude/update-bioetl-docs-2QDK5 claude/update-bioetl-docs-A2h6W claude/update-bioetl-docs-BJwtG claude/update-bioetl-docs-Z894z claude/update-bioetl-docs-jP9xH || true
+sleep 1
+
+# Batch 84
+echo "  batch 84..."
+git push origin --delete claude/update-bioetl-plan-FLI2L claude/update-branch-prompt-HUfKe claude/update-chembl-docs-FANpb claude/update-chembl-paths-A41g9 claude/update-claude-md-8hpxB claude/update-coalesce-service-YZ10U claude/update-code-audit-report-aOveE claude/update-code-review-guide-Q1yiw claude/update-config-defaults-ELblf claude/update-date-docs-WFwjf claude/update-date-normalization-tests-HxMhF claude/update-docs-diagrams-JvKRa claude/update-docs-rules-ni1k8 claude/update-documentation-fi1GH claude/update-dq-threshold-0272s claude/update-entity-config-paths-WELGv claude/update-llm-docs-7zft2 claude/update-pipeline-configs-HBuaT claude/update-pipeline-docs-7bCrQ claude/update-project-docs-HW257 || true
+sleep 1
+
+# Batch 85
+echo "  batch 85..."
+git push origin --delete claude/update-psreadline-module-UIHKs claude/update-rules-ports-structure-saxZd claude/update-rules-statistics-biZXY claude/update-silver-schemas-recxi claude/update-testing-docs-LrzLt claude/update-tests-YDyQL claude/update-transformers-schema-V7Wha claude/update-validator-pipeline-BtUWZ claude/update-yaml-config-docs-ecBo2 claude/use-year-validation-constants-W0w50 claude/validate-bronze-writer-input-Dx1Fc claude/validate-composite-publication-vxqhL claude/validate-config-schemas-p1ixX claude/validate-medallion-invariants-zGRSK claude/validate-pipeline-fields-Gcdjo claude/validate-pipeline-fields-Sl5iz claude/validate-refactoring-plans-yfw6e claude/validate-rules-compliance-AT6et claude/validate-rules-compliance-WYFBz claude/validate-silver-writer-modes-8xP9N || true
+sleep 1
+
+# Batch 86
+echo "  batch 86..."
+git push origin --delete claude/validate-silver-writer-modes-XCLTa claude/validate-silver-writer-modes-YsO43 claude/validate-silver-writer-modes-wOchG claude/verify-adr-yaml-B5FRS claude/verify-config-usage-DvX3W claude/verify-crossref-extraction-rAJVB claude/verify-pubchem-transformer-aJW0h claude/verify-publication-field-mapping-SCgGL claude/verify-pubmed-extraction-PjKF2 claude/verify-semantic-scholar-pipeline-nbpcd codex/-api codex/add-canonical-schema-registry-and-generators codex/add-ci-workflow-for-contract-export-and-diff-check codex/add-composite-schemas-and-contracts codex/add-content_hash-configuration-section codex/add-contract-rules-and-governance codex/add-dq_rules-thresholds-to-pipeline-config codex/add-from_base-method-to-basefilterconfig codex/add-hash-policy-document-and-machine-readable-file codex/add-orjson-dependency-and-coverage-tests || true
+sleep 1
+
+# Batch 87
+echo "  batch 87..."
+git push origin --delete codex/add-scd2-rules-to-rules.md codex/add-schema-parity-verification-script codex/add-validation-for-soft-and-hard-fail-thresholds codex/align-code-to-rules-or-update-documentation codex/analyze-and-unify-column-names-for-pipelines codex/analyze-cyclical-dependencies-in-bioetl codex/analyze-extract_-functions-in-providers codex/audit-bioetl-configuration-structure codex/audit-bioetl-configuration-structure-9sa4bf codex/audit-bioetl-configuration-structure-shrax7 codex/audit-composite-target-and-fix-errors codex/audit-recent-branches-for-correctness-and-errors codex/build-inventory-and-update-documentation codex/choose-canonical-path-for-diagrams codex/classify-entities-for-history-retention codex/clean-up-temporary-files-and-update-gitignore codex/conduct-architectural-audit-for-bioetl codex/conduct-architectural-audit-for-bioetl-0d72iw codex/conduct-architectural-audit-for-bioetl-267bw6 codex/conduct-architectural-audit-for-bioetl-6k706u || true
+sleep 1
+
+# Batch 88
+echo "  batch 88..."
+git push origin --delete codex/conduct-architectural-audit-for-bioetl-7sbz2s codex/conduct-architectural-audit-for-bioetl-a9um58 codex/conduct-architectural-audit-for-bioetl-bjpj6f codex/conduct-architectural-audit-for-bioetl-c3a0l8 codex/conduct-architectural-audit-for-bioetl-ek16yo codex/conduct-architectural-audit-for-bioetl-ekp0my codex/conduct-architectural-audit-for-bioetl-jciscn codex/conduct-architectural-audit-for-bioetl-px0bxe codex/conduct-architectural-audit-for-bioetl-t4pr4g codex/conduct-architectural-audit-of-bioetl codex/conduct-architectural-audit-of-bioetl-2g1jxz codex/conduct-architectural-audit-of-bioetl-fjkwg2 codex/conduct-audit-of-modification-plan codex/conduct-code-inventory-and-duplication-audit codex/conduct-code-inventory-and-duplication-audit-3c56mh codex/conduct-code-inventory-and-duplication-audit-7h7iyr codex/conduct-code-inventory-and-duplication-audit-b4wzwo codex/conduct-comprehensive-documentation-audit codex/conduct-comprehensive-documentation-audit-h810m4 codex/conduct-data-schema-audit-for-bioetl-pipelines || true
+sleep 1
+
+# Batch 89
+echo "  batch 89..."
+git push origin --delete codex/conduct-data-schema-audit-for-bioetl-pipelines-oaswve codex/conduct-data-schema-audit-for-bioetl-pipelines-pbn8h6 codex/conduct-data-schema-audit-for-pipelines codex/conduct-data-schema-audit-for-pipelines-e8duku codex/conduct-data-schema-audit-for-pipelines-hqg4s2 codex/conduct-data-schema-audit-for-pipelines-wkhju1 codex/configure-test-execution-in-project codex/configure-test-execution-in-project-5tb4el codex/consolidate-_get_bioetl_version-in-domain codex/consolidate-_get_bioetl_version-to-domain-layer codex/count-mermaid-files-and-update-documentation codex/create-adr-034-document-for-schema-domain-pairs codex/create-and-update-architecture-diagrams-documentation codex/create-architectural-change-plan-for-bioetl codex/create-architectural-change-plan-for-bioetl-6v6zla codex/create-architectural-change-plan-for-bioetl-8x3vzl codex/create-architectural-change-plan-for-bioetl-f7msdt codex/create-cleanup_apply.sh-script codex/create-cli-script-for-cleanup-analysis codex/create-dataframemodel-classes-and-tests || true
+sleep 1
+
+# Batch 90
+echo "  batch 90..."
+git push origin --delete codex/create-diagram-catalog-documentation codex/create-github-workflow-for-schema-governance codex/create-leaf-registry-api-module codex/create-legacy-to-canonical-mapping-table codex/create-reference-documentation-for-contracts codex/create-root-cleanliness-audit-script codex/create-schema-governance-documentation codex/create-setup-script-for-bioetl codex/create-setup-script-for-bioetl-baza8k codex/create-setup-script-for-bioetl-en8i82 codex/create-setup-script-for-bioetl-yvh2ek codex/create-yaml-configuration-for-pipelines codex/define-bronze-format-and-validate-paths codex/define-canonical-schema-source-and-generate-artifacts codex/develop-user-instructions-for-codex codex/develop-user-instructions-for-codex-qwldm4 codex/develop-user-instructions-for-codex-rial2t codex/document-json-field-standards-and-impacts codex/document-migration-requirements-and-metrics codex/document-nullability-rules-for-pipelines || true
+sleep 1
+
+# Batch 91
+echo "  batch 91..."
+git push origin --delete codex/establish-canonical-format-for-classifier codex/establish-diagram-structure-and-update-documentation codex/establish-json-field-standards-and-documentation codex/establish-sort_by-rules-for-pipeline-configs codex/evaluate-and-rank-candidate-diagrams codex/expand-dq-report-schema codex/extend-contract-exporter-for-chembl-schemas codex/extract-base-class-for-metadata-builders codex/extract-documentation-from-_base.yaml-to-config-guide.md codex/extract-get_source_metadata-to-mixin codex/fix-canonical-naming-policy-in-rules.md codex/fix-composite.json-schema-contract codex/fix-data-paths-in-guides codex/fix-data-paths-in-guides-c2u4ii codex/fix-data-paths-in-guides-izi1v9 codex/fix-failing-architecture-metrics-tests codex/fix-failing-architecture-metrics-tests-9xrcx6 codex/fix-keyerror-for-pandas.series-in-validation codex/fix-missing-dependencies-for-pytest codex/fix-missing-dependencies-for-pytest-coverage || true
+sleep 1
+
+# Batch 92
+echo "  batch 92..."
+git push origin --delete codex/fix-pytest-failures-due-to-missing-dependencies codex/fix-pytest-plugin-environment-issues codex/fix-pytest-plugin-environment-issues-jqrr41 codex/fix-pytest-with-missing-dependencies codex/fix-pytest-with-missing-dependencies-p9kd1h codex/fix-schema-validation-errors-in-tests codex/fix-test-framework-and-dependencies codex/generate-nullable/type-matrix codex/implement-exporter-entrypoint-for-gold-contracts codex/implement-function-duplication-ast-analyzer codex/implement-stable-watermark-extraction codex/implement-unified-serialization-api-in-dq_serializer.py codex/improve-user-instructions-for-bioetl-project codex/improve-user-instructions-for-bioetl-project-3tnkqp codex/improve-user-instructions-for-bioetl-project-5rxkfj codex/improve-user-instructions-for-bioetl-project-mzn26t codex/improve-user-instructions-for-bioetl-project-wd1pb2 codex/improve-user-instructions-for-bioetl-project-zyhvp4 codex/investigate-test-failures-in-pytest codex/investigate-test-failures-in-pytest-jnzf8o || true
+sleep 1
+
+# Batch 93
+echo "  batch 93..."
+git push origin --delete codex/make-decision-on-coverage-file-storage codex/make-decision-on-coverage-file-storage-rx6kgk codex/map-_composite_-fields-to-baseoutputmetadata codex/mark-diagram-as-deprecated-and-remove-it codex/organize-test-files-and-enforce-naming-convention codex/refactor-application-path-and-add-schema-checks codex/refactor-bioetl-configuration-structure codex/refactor-bioetl-configuration-structure-3i5df9 codex/refactor-bioetl-configuration-structure-3znbpy codex/refactor-bioetl-configuration-structure-dwe5go codex/refactor-bioetl-configuration-structure-jl7hsb codex/refactor-bootstrap_pipeline_runner-logic codex/refactor-bootstrap_pipeline_runner-logic-e198jd codex/refactor-contracts-export-script codex/refactor-core-table-structure-and-documentation codex/refactor-domain-imports-and-dependencies codex/refactor-filtering-configuration-classes codex/refactor-lookup_methods-in-openalex.py codex/refactor-pipeline-config-and-converters codex/refactor-primary-keys-separation-in-configs || true
+sleep 1
+
+# Batch 94
+echo "  batch 94..."
+git push origin --delete codex/refactor-semanticscholar-and-pubchem-constants codex/refactor-semanticscholar-extractors codex/remove-_load_yaml-duplication-in-loaders codex/remove-dead-event-classes-from-events.py codex/remove-dead-event-classes-from-events.py-xtyvm3 codex/remove-duplicate-pipeline-classes codex/remove-openalexpublicationrecord-and-clean-up-imports codex/remove-str-from-write-mode-declarations codex/remove-unused-classes-from-dq_report.py codex/rename-config-directories-to-new-names codex/rename-deltalake-writer-file-to-silverwriter codex/rename-deployment-file-and-update-references codex/rename-lineagemetadata-to-compositelineagemetadata codex/rename-ratelimitconfig-to-ratelimitcontext codex/restore-test-setup-with-dependencies codex/review-recent-branches-and-merge-changes codex/review-recent-branches-and-merge-changes-vayd82 codex/review-refactoring-plan-and-prepare-tasks codex/review-refactoring-plan-and-prepare-tasks-3rbtlo codex/review-refactoring-proposals-and-prepare-tasks || true
+sleep 1
+
+# Batch 95
+echo "  batch 95..."
+git push origin --delete codex/review-refactoring-results-and-prepare-changes codex/revise-meta_fields-and-add-technical-fields codex/sub-pr-2191 codex/unify-dto-field-names-in-chembl.py codex/unify-dto-field-names-in-chembl.py-1ikmoz codex/unify-dto-field-names-in-chembl.py-6s96sh codex/unify-dto-field-names-in-chembl.py-8j7752 codex/unify-dto-field-names-in-chembl.py-by4p6i codex/unify-dto-field-names-in-chembl.py-ix6wjf codex/unify-dto-field-names-in-chembl.py-mwmn9z codex/update-adr-034-to-require-coverage-check codex/update-analysis-scope-and-requirements codex/update-architecture-diagrams-and-entities codex/update-architecture-documentation-components codex/update-architecture-layers-terminology codex/update-architecture-style-with-current-writers codex/update-aws-deployment-diagram codex/update-bioetl-project-documentation codex/update-chembl-activity-documentation codex/update-chembl-assay.md-reference || true
+sleep 1
+
+# Batch 96
+echo "  batch 96..."
+git push origin --delete codex/update-config_loader.py-to-handle-root-level-format codex/update-contract-exporter-and-documentation codex/update-contracts-governance-documentation codex/update-csv-config-file-values codex/update-description-for-delta-lake-writer-class codex/update-description-for-delta-lake-writer-diagram codex/update-diagram-catalog-for-500-candidates codex/update-diagram-overview-table codex/update-diagramming-policy-for-redis codex/update-diagrams-with-new-evaluation-criteria codex/update-documentation-for-chembl-entities codex/update-documentation-for-project_rules-reference codex/update-documentation-references-and-counts codex/update-documentation-structure-and-guides-list codex/update-documents-and-add-new-sections codex/update-file-paths-in-adr-020 codex/update-gold-contract-schemas-and-documentation codex/update-gold-schemas.md-for-chembl_publication codex/update-image-links-in-architecture-diagrams codex/update-import-audit-requirements-and-artifacts || true
+sleep 1
+
+# Batch 97
+echo "  batch 97..."
+git push origin --delete codex/update-import-in-layer-dependency-matrix codex/update-loc-numbers-and-method-signatures codex/update-lock-acquisition-flow-diagram codex/update-lock-manager-functionality codex/update-mermaid-block-in-documentation codex/update-naming-policy-requirements codex/update-pipeline-documentation-and-requirements codex/update-prompts-for-current-main-branch codex/update-publication-field-mapping-report codex/update-python-script-instructions codex/update-python-script-instructions-in-documentation codex/update-readme.md-for-pipelines codex/update-render_diagrams.sh-script codex/update-rules.md-with-new-contract-paths codex/update-schema-configs-and-ci-rules codex/update-source-code-map-in-docs codex/update-storageport-class-diagram codex/update-storageport-class-diagram-mo5epl codex/update-tooling-imports-and-schema-modules codex/update-transformers-section-in-architecture-docs || true
+sleep 1
+
+# Batch 98
+echo "  batch 98..."
+git push origin --delete codex/update-troubleshooting-documentation codex/update-yaml-config-files-with-field-groups codex/validate-and-consolidate-refactoring-plans column-renaming-composite-15162822549100536038 copilot/cleanup-root-folder-trash copilot/conduct-architecture-review copilot/fix-real-config-consistency copilot/refactor-duplicated-code copilot/render-diagrams-to-png copilot/sub-pr-1987 copilot/sub-pr-1987-again copilot/sub-pr-1990 copilot/sub-pr-1990-again copilot/sub-pr-2123 copilot/sub-pr-2186 copilot/sub-pr-2312 copilot/sub-pr-616 copilot/sub-pr-617 copilot/sub-pr-642 copilot/sub-pr-699 || true
+sleep 1
+
+# Batch 99
+echo "  batch 99..."
+git push origin --delete copilot/suggest-variable-function-names copilot/update-ci-workflow-configuration copilot/update-project-diagrams coverage-95-1601790032498549521 coverage-improvements-jules-6460441951880361424 datasource-factory-implementation-1042915723401731183 debt-elimination-plan-10073411805194635516 dependabot/github_actions/actions/github-script-8 dependabot/github_actions/docker/build-push-action-6 dependabot/github_actions/github/codeql-action-4 dependabot/github_actions/wagoid/commitlint-github-action-6 dependabot/pip/pandas-gte-2.0-and-lt-3.1 dependabot/pip/pytest-asyncio-gte-0.23-and-lt-2.0 dependabot/uv/uv-915b9422ef deterministic-writes-17809447220709303311 doc-updates-rules-naming-5677821733882250640 docs-consolidated-prompt-8465857236528878789 docs-sync-jan-21-13855656323701693992 docs/add-project-rules-2427749653857641890 docs/data-layers-5011711862682499159 || true
+sleep 1
+
+# Batch 100
+echo "  batch 100..."
+git push origin --delete docs/fix-memorylock-mkdocstrings-error-4991123448995242801 docs/forbid-redis-locks-6351966931242688387 docs/pipeline-guides-14218104035090673203 dynamic-config-loading-2726522386952382783 feat/prometheus-metrics-export-1245169041522933253 feat/pubmed-affiliations-3190392626365066148 feat/setup-env-script-3559659046981881363 feat/ssh-setup-script-8288760183586602972 feat/unify-cleanup-policies-7404155997830296012 feat/unify-output-metadata-3133247031459856235 fix-all-test-errors-10387642660932999620 fix-checkpoint-tests-collision-12875887147766461957 fix-crossref-pq-typo-1638147025297683597 fix-integration-test-docker-windows-7539880700663316648 fix-minio-healthcheck-19694443227308771 fix-test-architecture-paths-9541709786732359536 fix-test-failures-11126044129111137842 fix-tests-and-architecture-8240810158050636715 fix-tests-and-coverage-5199343300518503124 fix-tests-refactoring-1914579308277129840 || true
+sleep 1
+
+# Batch 101
+echo "  batch 101..."
+git push origin --delete fix/assay-extraction-logic-10552023030797140298 fix/base-pipeline-watermark-test-7680104785898541146 fix/chembl-publication-term-dto-9496869033038260303 fix/chembl-schema-parity-9353242872596638571 fix/composite-fallback-strategy-17289028304703943907 fix/crossref-m-code-9940257976323910117 fix/delta-writer-determinism-4524197662758830381 fix/oa-doi-validation fix/remove-quarantine-exclusion-12804371671970149193 fix/remove-quarantine-exclusion-6671882428755099306 fix/test-collection-error-7008029805066054055 hotfixes-and-quickwins-17748007125549841905 infra-metrics-improvement-14309696261926509115 integration-tests-pipelines-5038392372323738221 jules-11173321112583947796-657b8aa8 jules-17546412591644239142-44ec5546 jules/agent-instructions-14054860381498075442 jules/arch-tests-contracts-refactor-2028612461347664950 jules/fix-storage-io-and-contracts-1657715607139967160 jules/phase5-docs-governance-9094291470168286214 || true
+sleep 1
+
+# Batch 102
+echo "  batch 102..."
+git push origin --delete jules/refactor-adapters-and-tests-8235892134503716370 jules/refactor-architecture-review-7481968130285461406 jules/test-redis-lock-integration-9996733229395810880 main-9681139712318743345 main-backup-0020-1 main_backup_001_prefinal main_backup_202 main_backup_203 main_backup_210-1 main_backup_301-1 main_backup_400-1 main_backup_prefinal main_backup_publication main_backup_publication-02 main_backup_publication_03 main_bakup_100-10 main_ready_baseline_01 mainbakup_200-1 mainbakup_201-1 metrics-and-arch-tests-7949404118481086259 || true
+sleep 1
+
+# Batch 103
+echo "  batch 103..."
+git push origin --delete observability-prometheus-7589045378717794567 perf-pubmed-month-parsing-9805618935007356684 perf/optimize-medline-date-parser-4763130216659142523 perf/optimize-pubmed-date-extractor-18162140835621584468 perf/pubmed-date-validation-4421771446190918810 pipeline-observer-implementation-5558590752987884209 refactor/arch-cleanup-9757995658848276492 refactor/arch-review-fixes-537667481755808278 refactor/arch-review-implementation-17437805360800837750 refactor/arch-review-implementation-5718790389513062912 refactor/architecture-fixes-step2-4680366627565462887 refactor/architecture-fixes-v3-4102951645869453067 refactor/architecture-phase-1-6833242355443109343 refactor/architecture-review-pipelines-1968415027701957463 refactor/audit-findings-4614769524498882640 refactor/audit-report-update-and-test-17177418971954394193 refactor/base-pipeline-gold-logic-12561823104934770609 refactor/base-services-factory-11700551349185016110 refactor/bioetl-v2-cleanup-5223750500239546817 refactor/bootstrap-composition-2340242731457438747 || true
+sleep 1
+
+# Batch 104
+echo "  batch 104..."
+git push origin --delete refactor/bootstrap-pipeline-decomposition-1068879078646053654 refactor/chembl-gold-filters-18225265867548681276 refactor/composite-column-renaming-12408568818249191311 refactor/composition-root-5121375766221194552 refactor/config-isolation-13957590091962116846 refactor/config-mapper-p003-4815913173595563723 refactor/ddd-and-arch-tests-14999699862323416052 refactor/decouple-delta-writer-schema-5957069625235505621 refactor/domain-entities-and-audit-5570575780394298853 refactor/exceptions-structure-5861880531539847689 refactor/executor-types-11147141170067125658 refactor/factories-and-async-1439549627678429375 refactor/finalize-factory-consolidation-3756302591070352883 refactor/fix-state-arch-violations-11972045261974914081 refactor/logger-rename-and-audit-7907554789067030028 refactor/medallion-and-config-fixes-11794448898484081148 refactor/observability-and-safety-8236349533953834049 refactor/observability-e2e-docs-7665882449743036465 refactor/orjson-migration-17612160055045666266 refactor/pagination-mixin-16159423019144911162 || true
+sleep 1
+
+# Batch 105
+echo "  batch 105..."
+git push origin --delete refactor/phase-5-determinism-medallion-17509598475317068973 refactor/phase1-blockers-and-improvements-2852234305807539763 refactor/phase3-determinism-11899493671321513016 refactor/pipeline-config-strict-typing-15217768477628316946 refactor/pipeline-executor-parameter-object-5448478320003955072 refactor/pipeline-improvements-v5.3-858285311950007014 refactor/pipeline-resilience-and-contracts-4771898704804721030 refactor/pipeline-runner-config-3749688837333358024 refactor/registry-and-composition-15943408280405921966 refactor/remove-deprecated-code-4854432390158121025 refactor/remove-deprecated-components-10539219367039599684 refactor/sprint-1-critical-fixes-6614088741093591340 refactor/storage-factory-3514712313707817030 refactor/strict-typing-dq-config-12126682655001788673 refactor/v2-interfaces-tests-quarantine-14670789615170204789 refactor/watermark-value-object-12887384543943328551 release/5.0.0-prep-9073030360736679221 revert-1517-claude/actualize-pipeline-configs-adlPA revert-1697-claude/create-file-merger-script-TNbio revert-2191-claude/inventory-bioetl-diagrams-3EJsM || true
+sleep 1
+
+# Batch 106
+echo "  batch 106..."
+git push origin --delete revert-2318-claude/document-agents-skills-EB1Bj revert-494-architectural-hardening-phase-2-17450411922568876630 revert-495-docs/pipeline-guides-14218104035090673203 revert-882-claude/consolidate-refactoring-plans-AtkRL revert-947-claude/integrate-gtopdb-provider-3JKur schema-parity-silver-gold-12197771735270685762 setup-bioetl-v5-structure-13355984576244843790 setup-script-13919854023303248253 test-coverage-boost-16696045321793690925 test-coverage-boost-95-7363911718340673938 tests/checkpoint-manager-moto-9640376104918640883 tmp unify-data-source-signature-5246819906432628743 unify-publication-fields-17414248763488505682 unify-publication-gold-schemas-18165415016871609864 unit-tests-pipelines-513298756876257238 update-api-docs-site-2983482101176252646 update-rules-md-4331029461642576142 update-rules-md-v4.6-5955486133248921971 update-rules-v4.6-7719408203311990686 || true
+sleep 1
+
+echo "PHASE 2 done: 106 batches"
+
+# ─── PHASE 3: Stale duplicates among legit unmerged branches ───
+echo "PHASE 3: Deleting stale duplicate branches..."
+
+# codex diagram-optimization clones (4)
+git push origin --delete \
+  codex/update-bioetl-diagram-optimization-strategy-o3cgu7 \
+  codex/update-bioetl-diagram-optimization-strategy-bjue02 \
+  codex/update-bioetl-diagram-optimization-strategy-5ggeg1 \
+  codex/update-bioetl-diagram-optimization-strategy \
+  || true
+
+# codex diagram-audit-scripts dupe (1)
+git push origin --delete \
+  codex/create-diagram-audit-and-validation-scripts \
+  || true
+
+# codex agent-prompt clones (2)
+git push origin --delete \
+  codex/prepare-agent-prompt-for-comprehensive-testing-8sdkrg \
+  codex/prepare-agent-prompt-for-comprehensive-testing \
+  || true
+
+# codex optimize-diagrams clones (4)
+git push origin --delete \
+  codex/optimize-architectural-diagrams-for-bioetl-tiq70y \
+  codex/optimize-architectural-diagrams-for-bioetl-2humxt \
+  codex/optimize-architectural-diagrams-for-bioetl-0ibi1l \
+  codex/optimize-architectural-diagrams-for-bioetl \
+  || true
+
+# codex create-template clones (3)
+git push origin --delete \
+  codex/create-template-for-architecture-diagrams-su1tgu \
+  codex/create-template-for-architecture-diagrams-3nl3wr \
+  codex/create-template-for-architecture-diagrams \
+  || true
+
+# codex organism-classification clones (5)
+git push origin --delete \
+  codex/add-organism-classification-function-6l4eeu \
+  codex/add-organism-classification-function-2mbsv8 \
+  codex/add-organism-classification-function-ygp03t \
+  codex/add-organism-classification-function-jzh1tb \
+  codex/add-organism-classification-function \
+  || true
+
+# codex duplication-analysis clones (3)
+git push origin --delete \
+  codex/analyze-code-duplication-and-extract-logic-n50rpx \
+  codex/analyze-code-duplication-and-extract-logic-qds3s7 \
+  codex/analyze-code-duplication-and-extract-logic \
+  || true
+
+# codex refactor-merging clones (3)
+git push origin --delete \
+  codex/refactor-code-for-data-merging-after-reload-7ay1zg \
+  codex/refactor-code-for-data-merging-after-reload-fl4atb \
+  codex/refactor-code-for-data-merging-after-reload \
+  || true
+
+# Old bolt json dupes (2)
+git push origin --delete \
+  bolt/optimize-json-serialization-10380415512159935346 \
+  bolt/optimize-json-encoder-281119478804430183 \
+  || true
+
+# Superseded diagram branches (2)
+git push origin --delete \
+  diagram-policy-fix-4471433027912368756 \
+  codex/harmonize-color-scheme-across-diagrams \
+  || true
+
+# Old review/report/revert branches (3)
+git push origin --delete \
+  review/L1-orchestration-report-12080922047615625132 \
+  claude/review-jules-branches-mlqGX \
+  revert-2364-claude/audit-entity-naming-uZMRk \
+  || true
+
+# Stale codex docs/infra single-commit branches (12)
+git push origin --delete \
+  codex/update-bioetl-project-documentation-hvktvz \
+  codex/remove-deprecated-code-from-bioetl \
+  codex/update-version-in-documentation-and-add-ci-check \
+  codex/update-git-setup-and-pre-flight-script \
+  codex/update-documentation-with-latest-values-and-paths \
+  codex/update-documentation-for-current-version \
+  codex/update-adr-baseline-and-checklists \
+  codex/document-file-categories-for-data-directory \
+  codex/add-preflight-cleanup-script-with-dry-run \
+  codex/conduct-naming-compliance-audit \
+  codex/create-panel-inventory-for-bioetl-dq-v2 \
+  codex/revise-metrics-server-prompts-for-paths \
+  || true
+
+# Hexagonal variant dupe, old kubernetes/code-review (3)
+git push origin --delete \
+  claude/hexagonal-diagram-variants-6WGGT \
+  claude/bioetl-kubernetes-script-ftI9U \
+  claude/code-review-agent-prompt-Bpx2N \
+  || true
+
+# ─── DONE ───
+echo ""
+echo "============================================="
+echo " CLEANUP COMPLETE"
+echo " Deleted: ~2168 branches"
+echo " Remaining: ~20 branches"
+echo "============================================="
+echo ""
+echo "KEPT branches (for review/merge):"
+echo "  Diagram cluster:"
+echo "    claude/audit-fix-diagrams-hZglG              +13"
+echo "    claude/audit-diagram-docs-scripts-fUJUM       +8"
+echo "    claude/improve-diagram-design-K2XMN           +2"
+echo "    claude/hexagonal-diagram-variants-GcTSI       +3"
+echo "    claude/bioetl-architecture-prompts-v3-lLJJu   +8"
+echo "    codex/implement-diagram-auditing-scripts       +1"
+echo "    codex/update-architecture-documentation        +1"
+echo "    codex/update-parent-source-in-mermaid-file     +1"
+echo "  Agent/Reports:"
+echo "    fix-test-swarm-docs-*                         +1"
+echo "    fix-add-review-orchestrator-agent-*           +1"
+echo "    fix/py-test-swarm-reports-*                   +1"
+echo "    feat/qa-orchestrator-prompt-*                 +1"
+echo "    review-orchestrator-final-report-*            +1"
+echo "  Production:"
+echo "    bolt-optimize-strip-html-tags-*               +1"
+echo "    bolt/optimize-json-serialization-*            +1"
+echo "  Infra:"
+echo "    dependabot/github_actions/setup-uv-7          +1"
+echo "    setup-env-script-*                            +6"
+echo "    TMP01-01                                      +2"
+echo ""
+echo "Run: git fetch --prune origin"
+echo "to sync local tracking refs."
diff --git a/scripts/branches_to_delete.txt b/scripts/branches_to_delete.txt
new file mode 100644
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+claude/fix-metrics-validation-IOZa8
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+claude/fix-mypy-strict-errors-RvySK
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+claude/fix-refactoring-plan-8WZWb
+claude/gold-schema-contracts-t4Hun
+claude/hexagonal-architecture-bioetl-Neqgw
+claude/hexagonal-architecture-bioetl-7Nja8
+claude/hexagonal-diagram-variants-GcTSI
+claude/implement-pii-hashing-4aasg
+claude/improve-cli-test-coverage-adSNl
+claude/improve-cli-test-coverage-Ez6bC
+claude/improve-cli-test-coverage-VbUXW
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+claude/improve-test-coverage-ddepF
+claude/improve-test-coverage-5PXZ9
+claude/increase-test-coverage-BtljY
+claude/integrate-crossref-provider-9JPbD
+claude/integrate-dq-reports-KH54S
+claude/list-codex-branches-BCF5z
+claude/memory-efficient-batch-processing-xXfJb
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+claude/refactor-pipeline-runner-9lQvZ
+claude/refactor-serialize-json-O3icR
+claude/remove-dead-code-M3Rpo
+claude/remove-deprecated-code-bq5dh
+claude/remove-deprecated-code-00pG9
+claude/remove-deprecated-code-ZGRjq
+claude/remove-deprecated-code-kXee2
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+claude/remove-deprecated-code-F0Cxt
+claude/remove-deprecated-code-mgy3v
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+claude/remove-deprecated-code-vfMQY
+claude/remove-deprecated-code-sc6Cu
+claude/remove-deprecated-code-jREBU
+claude/remove-deprecated-code-liVDf
+claude/remove-deprecated-shims-onQpE
+claude/remove-unused-domain-code-j9GAN
+claude/remove-unused-import-HKBTH
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+claude/run-tests-fix-errors-Zt7sf
+claude/run-tests-fix-errors-FUJ14
+claude/setup-commitlint-action-Buory
+claude/standardize-adapter-errors-seCth
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+claude/standardize-pipeline-variables-sRnnM
+claude/study-bioetl-config-SWYWZ
+claude/test-bioetl-performance-iPQ9M
+claude/unify-domain-terminology-IgriG
+claude/unify-entity-naming-3hQ7B
+claude/unify-entity-naming-WA4uz
+claude/unify-entity-naming-lq9uT
+claude/unify-entity-naming-zaGI1
+claude/unify-health-check-YZgsA
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+claude/unify-pipeline-configs-y6DlY
+claude/unify-publication-columns-6Qqb0
+claude/unify-terminology-XSZli
+claude/update-bioetl-docs-2QDK5
+claude/update-bioetl-docs-BJwtG
+claude/update-bioetl-docs-Z894z
+claude/update-bioetl-docs-jP9xH
+claude/validate-pipeline-fields-Gcdjo
+claude/validate-rules-compliance-WYFBz
+claude/validate-silver-writer-modes-XCLTa
+claude/validate-silver-writer-modes-YsO43
+claude/validate-silver-writer-modes-8xP9N
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+codex/add-organism-classification-function-ygp03t
+codex/add-organism-classification-function-jzh1tb
+codex/analyze-code-duplication-and-extract-logic-qds3s7
+codex/audit-bioetl-configuration-structure-shrax7
+codex/conduct-architectural-audit-for-bioetl-7sbz2s
+codex/conduct-architectural-audit-for-bioetl-6k706u
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+codex/conduct-architectural-audit-for-bioetl-jciscn
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+codex/conduct-architectural-audit-for-bioetl-ek16yo
+codex/conduct-architectural-audit-for-bioetl-a9um58
+codex/conduct-architectural-audit-for-bioetl-267bw6
+codex/conduct-architectural-audit-for-bioetl-bjpj6f
+codex/conduct-architectural-audit-for-bioetl-t4pr4g
+codex/conduct-architectural-audit-of-bioetl-fjkwg2
+codex/conduct-code-inventory-and-duplication-audit-3c56mh
+codex/conduct-code-inventory-and-duplication-audit-7h7iyr
+codex/conduct-data-schema-audit-for-bioetl-pipelines-oaswve
+codex/conduct-data-schema-audit-for-pipelines-e8duku
+codex/conduct-data-schema-audit-for-pipelines-wkhju1
+codex/create-architectural-change-plan-for-bioetl-8x3vzl
+codex/create-architectural-change-plan-for-bioetl-f7msdt
+codex/create-setup-script-for-bioetl-baza8k
+codex/create-setup-script-for-bioetl-en8i82
+codex/create-template-for-architecture-diagrams-3nl3wr
+codex/develop-user-instructions-for-codex-qwldm4
+codex/fix-data-paths-in-guides-c2u4ii
+codex/improve-user-instructions-for-bioetl-project-mzn26t
+codex/improve-user-instructions-for-bioetl-project-5rxkfj
+codex/improve-user-instructions-for-bioetl-project-3tnkqp
+codex/improve-user-instructions-for-bioetl-project-zyhvp4
+codex/optimize-architectural-diagrams-for-bioetl-2humxt
+codex/optimize-architectural-diagrams-for-bioetl-0ibi1l
+codex/refactor-bioetl-configuration-structure-3znbpy
+codex/refactor-bioetl-configuration-structure-3i5df9
+codex/refactor-bioetl-configuration-structure-jl7hsb
+codex/refactor-code-for-data-merging-after-reload-fl4atb
+codex/remove-dead-event-classes-from-events.py
+codex/unify-dto-field-names-in-chembl.py-8j7752
+codex/unify-dto-field-names-in-chembl.py-by4p6i
+codex/unify-dto-field-names-in-chembl.py-1ikmoz
+codex/unify-dto-field-names-in-chembl.py-6s96sh
+codex/unify-dto-field-names-in-chembl.py-mwmn9z
+codex/unify-dto-field-names-in-chembl.py
+codex/update-bioetl-diagram-optimization-strategy-5ggeg1
+codex/update-bioetl-diagram-optimization-strategy-bjue02
+codex/update-description-for-delta-lake-writer-diagram
+bolt-bronze-writer-optimization-5694059606832452436
+bolt-optimize-silver-writer-6952166425433176391
+bolt-optimize-silver-writer-735813114114713276
+bolt-silver-writer-optimization-11154284540065872566
+bolt-silver-writer-optimization-7894939204007800549
+bolt-silver-writer-optimization-3278037334374817272
+bolt/optimize-json-serialization-10380415512159935346
+bolt/optimize-silver-writer-5061550331081307667
+bolt/optimize-silver-writer-14305130312494082531
+bolt/optimize-silver-writer-13553046753343703003
+refactor/arch-review-implementation-17437805360800837750
diff --git a/scripts/cleanup_branches.sh b/scripts/cleanup_branches.sh
new file mode 100755
index 000000000..b842afe06
--- /dev/null
+++ b/scripts/cleanup_branches.sh
@@ -0,0 +1,755 @@
+#!/bin/bash
+# BioETL Branch Cleanup Script
+# Generated: 2026-03-01
+# Scope: Waves 1-2 (merged + orphan + backups + duplicate clusters)
+# Total branches to delete: 679
+#
+# Usage:
+#   chmod +x cleanup_branches.sh
+#   ./cleanup_branches.sh          # dry-run (default)
+#   ./cleanup_branches.sh --execute # actually delete
+#   ./cleanup_branches.sh --execute --batch-size=50  # delete in batches of 50
+
+set -euo pipefail
+
+DRY_RUN=true
+BATCH_SIZE=100
+DELAY=2
+
+for arg in "$@"; do
+  case $arg in
+    --execute) DRY_RUN=false ;;
+    --batch-size=*) BATCH_SIZE="${arg#*=}" ;;
+  esac
+done
+
+BRANCHES=(
+  "AAA"
+  "diagram-visual-experiments"
+  "chore/github-templates"
+  "backup_010-1"
+  "backup_03"
+  "backup_100"
+  "backup_101-1"
+  "backup_20251205"
+  "main-backup-0020-1"
+  "main_backup_001_prefinal"
+  "main_backup_202"
+  "main_backup_203"
+  "main_backup_210-1"
+  "main_backup_301-1"
+  "main_backup_400-1"
+  "main_backup_prefinal"
+  "main_backup_publication"
+  "main_backup_publication-02"
+  "main_backup_publication_03"
+  "main_ready_baseline_01"
+  "mainbakup_200-1"
+  "mainbakup_201-1"
+  "copilot/sub-pr-1987"
+  "copilot/sub-pr-1987-again"
+  "copilot/sub-pr-1990"
+  "copilot/sub-pr-1990-again"
+  "copilot/sub-pr-2123"
+  "copilot/sub-pr-2186"
+  "copilot/sub-pr-2312"
+  "copilot/sub-pr-616"
+  "copilot/sub-pr-617"
+  "copilot/sub-pr-642"
+  "copilot/sub-pr-699"
+  "claude/add-architecture-tests-n4yen"
+  "claude/add-bioetl-docstrings-v1iyq"
+  "claude/add-bioetl-docstrings-Qr2jg"
+  "claude/add-bioetl-docstrings-uK37T"
+  "claude/add-black-check-MyHfF"
+  "claude/add-chembl-sort-by-6syz1"
+  "claude/add-date-normalization-bOuTg"
+  "claude/add-docstrings-bioetl-LW1KO"
+  "claude/add-extraction-params-0edaS"
+  "claude/add-extraction-params-WvlsS"
+  "claude/add-extraction-params-filtering-Pf9Bf"
+  "claude/add-extraction-params-filtering-YFkfu"
+  "claude/add-filterable-datasource-protocol-pZGFj"
+  "claude/add-health-aggregator-8XAEH"
+  "claude/add-health-check-logging-httql"
+  "claude/add-health-check-logging-4AdfD"
+  "claude/add-missing-docstrings-YPt4I"
+  "claude/add-missing-docstrings-GcgLR"
+  "claude/add-missing-docstrings-S1fVe"
+  "claude/add-smoke-tests-target-kLD1C"
+  "claude/add-testing-coverage-1u2ul"
+  "claude/add-transformer-observability-cIva6"
+  "claude/add-value-objects-MXyS3"
+  "claude/analyze-bioetl-pipelines-1HCRu"
+  "claude/analyze-bioetl-pipelines-F1E7K"
+  "claude/analyze-bioetl-pipelines-O1Kcw"
+  "claude/architecture-audit-Ltig4"
+  "claude/architecture-review-gcGM6"
+  "claude/architecture-review-yPAXE"
+  "claude/architecture-review-JIh0H"
+  "claude/architecture-review-refactor-je0TL"
+  "claude/architecture-review-refactor-PyTzP"
+  "claude/architecture-review-refactor-EyhZE"
+  "claude/architecture-review-refactor-n4tRJ"
+  "claude/architecture-review-refactor-3dmzy"
+  "claude/architecture-review-refactor-Vt1dT"
+  "claude/architecture-review-refactor-OsquU"
+  "claude/architecture-review-refactor-aeFPC"
+  "claude/architecture-review-refactor-U8k0J"
+  "claude/architecture-review-refactor-ONJFd"
+  "claude/architecture-review-refactor-hizY8"
+  "claude/architecture-review-refactor-EKdAo"
+  "claude/architecture-review-refactor-TG31z"
+  "claude/architecture-review-refactor-VZX9n"
+  "claude/architecture-review-refactor-1A1Iu"
+  "claude/architecture-review-refactor-8MSDw"
+  "claude/architecture-review-refactor-OGAEN"
+  "claude/architecture-review-refactor-P81qT"
+  "claude/architecture-review-refactor-WL2ox"
+  "claude/architecture-review-refactor-HKtSH"
+  "claude/architecture-review-refactor-F6Ycc"
+  "claude/architecture-review-refactor-1W8Om"
+  "claude/architecture-review-refactor-OKoxf"
+  "claude/architecture-review-refactor-PN7C0"
+  "claude/architecture-review-refactor-bAc2q"
+  "claude/architecture-review-refactor-MRUOa"
+  "claude/architecture-review-refactor-Ic7JD"
+  "claude/architecture-review-refactor-3YRI3"
+  "claude/architecture-review-refactor-sPwZa"
+  "claude/architecture-review-refactor-Hxi7D"
+  "claude/architecture-review-refactor-5L9NR"
+  "claude/architecture-review-refactor-0w9dQ"
+  "claude/architecture-review-refactor-LIoYn"
+  "claude/architecture-review-refactor-jvtUs"
+  "claude/architecture-review-refactor-lBTiQ"
+  "claude/architecture-review-refactor-IpcTV"
+  "claude/architecture-review-refactor-RRuG7"
+  "claude/architecture-review-refactor-6D4D9"
+  "claude/architecture-review-refactor-Q6n1U"
+  "claude/architecture-review-refactor-s8JDD"
+  "claude/architecture-review-refactor-cF2oR"
+  "claude/architecture-review-refactor-HPlmw"
+  "claude/architecture-review-refactor-4dIk7"
+  "claude/architecture-review-refactor-7kzWM"
+  "claude/architecture-review-refactor-arSEC"
+  "claude/architecture-review-refactor-NxW5t"
+  "claude/architecture-review-refactor-PTFfe"
+  "claude/architecture-review-refactor-5A7ls"
+  "claude/architecture-review-refactor-f4lN8"
+  "claude/architecture-review-refactor-gVdpQ"
+  "claude/architecture-review-refactor-MIUPW"
+  "claude/architecture-review-refactor-xHQZc"
+  "claude/architecture-review-refactor-VTV9R"
+  "claude/architecture-review-refactor-KbXIX"
+  "claude/architecture-review-refactor-6Lhgi"
+  "claude/architecture-review-refactor-YknG7"
+  "claude/architecture-review-refactor-dtCmQ"
+  "claude/architecture-review-refactor-r4SqX"
+  "claude/architecture-review-refactor-FiH6K"
+  "claude/architecture-review-refactor-JNFvr"
+  "claude/architecture-review-refactor-sP4uF"
+  "claude/architecture-review-refactor-Sd5yz"
+  "claude/architecture-review-refactor-rFWJb"
+  "claude/architecture-review-refactor-9HaXw"
+  "claude/architecture-review-refactor-e3bYA"
+  "claude/architecture-review-refactor-8EsMg"
+  "claude/architecture-review-refactor-23dr2"
+  "claude/architecture-review-refactor-uG2I7"
+  "claude/architecture-review-refactor-UD8bH"
+  "claude/architecture-review-refactor-DV3ud"
+  "claude/architecture-review-refactor-3YM2p"
+  "claude/architecture-review-refactor-Fkkxf"
+  "claude/architecture-review-refactor-HeClY"
+  "claude/architecture-review-refactor-5AbTE"
+  "claude/architecture-review-refactor-aGhF9"
+  "claude/architecture-review-refactor-kpGmt"
+  "claude/architecture-review-refactor-fs6cu"
+  "claude/architecture-review-refactor-EWSiw"
+  "claude/architecture-review-refactor-ZZmyC"
+  "claude/architecture-review-refactor-aYmrl"
+  "claude/architecture-review-refactor-bHtxG"
+  "claude/architecture-review-refactor-baBcF"
+  "claude/architecture-review-refactor-OJUeK"
+  "claude/architecture-review-refactor-rUMCf"
+  "claude/architecture-review-refactor-qkvVf"
+  "claude/architecture-review-refactor-Nqoye"
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+  "claude/improve-refactoring-plan-z5tPw"
+  "claude/improve-test-coverage-ddepF"
+  "claude/improve-test-coverage-5PXZ9"
+  "claude/increase-test-coverage-BtljY"
+  "claude/integrate-crossref-provider-9JPbD"
+  "claude/integrate-dq-reports-KH54S"
+  "claude/list-codex-branches-BCF5z"
+  "claude/memory-efficient-batch-processing-xXfJb"
+  "claude/optimize-bioetl-tests-PcIFY"
+  "claude/optimize-bioetl-tests-wbRq6"
+  "claude/optimize-bioetl-tests-jD7Sp"
+  "claude/optimize-bioetl-tests-FhYgG"
+  "claude/optimize-bioetl-tests-8fk3N"
+  "claude/optimize-config-files-Qzl2r"
+  "claude/project-preflight-cleanup-fua6B"
+  "claude/project-preflight-cleanup-TYm3s"
+  "claude/propagate-run-id-9SqDS"
+  "claude/publication-validation-analysis-QG4pB"
+  "claude/publication-validation-analysis-olBBu"
+  "claude/publication-validation-analysis-Sf0u1"
+  "claude/publication-validation-analysis-a5kn6"
+  "claude/publication-validation-analysis-ul8IK"
+  "claude/publication-validation-analysis-Vgify"
+  "claude/publication-validation-analysis-mi2gN"
+  "claude/refactor-bioetl-config-6RHqE"
+  "claude/refactor-cli-separation-hPiHK"
+  "claude/refactor-code-duplication-JHj1y"
+  "claude/refactor-code-duplication-RipAN"
+  "claude/refactor-code-duplication-0pXgo"
+  "claude/refactor-code-duplication-PAsZn"
+  "claude/refactor-code-duplication-1VXKP"
+  "claude/refactor-code-duplication-NfP8Z"
+  "claude/refactor-code-duplication-uVNpA"
+  "claude/refactor-code-duplication-EoAt8"
+  "claude/refactor-code-duplication-rTtgw"
+  "claude/refactor-code-duplication-7FrXk"
+  "claude/refactor-code-duplication-XrQ9c"
+  "claude/refactor-pipeline-runner-9lQvZ"
+  "claude/refactor-serialize-json-O3icR"
+  "claude/remove-dead-code-M3Rpo"
+  "claude/remove-deprecated-code-bq5dh"
+  "claude/remove-deprecated-code-00pG9"
+  "claude/remove-deprecated-code-ZGRjq"
+  "claude/remove-deprecated-code-kXee2"
+  "claude/remove-deprecated-code-WxLwo"
+  "claude/remove-deprecated-code-F0Cxt"
+  "claude/remove-deprecated-code-mgy3v"
+  "claude/remove-deprecated-code-Jfosr"
+  "claude/remove-deprecated-code-vfMQY"
+  "claude/remove-deprecated-code-sc6Cu"
+  "claude/remove-deprecated-code-jREBU"
+  "claude/remove-deprecated-code-liVDf"
+  "claude/remove-deprecated-shims-onQpE"
+  "claude/remove-unused-domain-code-j9GAN"
+  "claude/remove-unused-import-HKBTH"
+  "claude/review-bioetl-refactoring-cIJ40"
+  "claude/review-refactoring-plan-5pstH"
+  "claude/review-refactoring-plan-26MyL"
+  "claude/review-refactoring-plan-ThxF7"
+  "claude/review-refactoring-plan-yWHyu"
+  "claude/review-refactoring-plan-Z4vi9"
+  "claude/review-refactoring-plans-CFGpC"
+  "claude/review-refactoring-plans-0qtyC"
+  "claude/review-refactoring-plans-Rcbn3"
+  "claude/run-tests-coverage-report-Jxb5G"
+  "claude/run-tests-coverage-report-wVkMr"
+  "claude/run-tests-debug-Yo6uX"
+  "claude/run-tests-fix-errors-9IQVn"
+  "claude/run-tests-fix-errors-MxWya"
+  "claude/run-tests-fix-errors-8sywb"
+  "claude/run-tests-fix-errors-wwc7J"
+  "claude/run-tests-fix-errors-EUCex"
+  "claude/run-tests-fix-errors-F83rc"
+  "claude/run-tests-fix-errors-XjPzI"
+  "claude/run-tests-fix-errors-Lk1rj"
+  "claude/run-tests-fix-errors-iKjvB"
+  "claude/run-tests-fix-errors-RmPkY"
+  "claude/run-tests-fix-errors-Y9xhA"
+  "claude/run-tests-fix-errors-s4WxF"
+  "claude/run-tests-fix-errors-e4gLr"
+  "claude/run-tests-fix-errors-Zt7sf"
+  "claude/run-tests-fix-errors-FUJ14"
+  "claude/setup-commitlint-action-Buory"
+  "claude/standardize-adapter-errors-seCth"
+  "claude/standardize-event-names-5DqzU"
+  "claude/standardize-pipeline-variables-sRnnM"
+  "claude/study-bioetl-config-SWYWZ"
+  "claude/test-bioetl-performance-iPQ9M"
+  "claude/unify-domain-terminology-IgriG"
+  "claude/unify-entity-naming-3hQ7B"
+  "claude/unify-entity-naming-WA4uz"
+  "claude/unify-entity-naming-lq9uT"
+  "claude/unify-entity-naming-zaGI1"
+  "claude/unify-health-check-YZgsA"
+  "claude/unify-pipeline-configs-kRxL6"
+  "claude/unify-pipeline-configs-y6DlY"
+  "claude/unify-publication-columns-6Qqb0"
+  "claude/unify-terminology-XSZli"
+  "claude/update-bioetl-docs-2QDK5"
+  "claude/update-bioetl-docs-BJwtG"
+  "claude/update-bioetl-docs-Z894z"
+  "claude/update-bioetl-docs-jP9xH"
+  "claude/validate-pipeline-fields-Gcdjo"
+  "claude/validate-rules-compliance-WYFBz"
+  "claude/validate-silver-writer-modes-XCLTa"
+  "claude/validate-silver-writer-modes-YsO43"
+  "claude/validate-silver-writer-modes-8xP9N"
+  "codex/add-organism-classification-function-2mbsv8"
+  "codex/add-organism-classification-function-ygp03t"
+  "codex/add-organism-classification-function-jzh1tb"
+  "codex/analyze-code-duplication-and-extract-logic-qds3s7"
+  "codex/audit-bioetl-configuration-structure-shrax7"
+  "codex/conduct-architectural-audit-for-bioetl-7sbz2s"
+  "codex/conduct-architectural-audit-for-bioetl-6k706u"
+  "codex/conduct-architectural-audit-for-bioetl-px0bxe"
+  "codex/conduct-architectural-audit-for-bioetl-0d72iw"
+  "codex/conduct-architectural-audit-for-bioetl-jciscn"
+  "codex/conduct-architectural-audit-for-bioetl-ekp0my"
+  "codex/conduct-architectural-audit-for-bioetl-ek16yo"
+  "codex/conduct-architectural-audit-for-bioetl-a9um58"
+  "codex/conduct-architectural-audit-for-bioetl-267bw6"
+  "codex/conduct-architectural-audit-for-bioetl-bjpj6f"
+  "codex/conduct-architectural-audit-for-bioetl-t4pr4g"
+  "codex/conduct-architectural-audit-of-bioetl-fjkwg2"
+  "codex/conduct-code-inventory-and-duplication-audit-3c56mh"
+  "codex/conduct-code-inventory-and-duplication-audit-7h7iyr"
+  "codex/conduct-data-schema-audit-for-bioetl-pipelines-oaswve"
+  "codex/conduct-data-schema-audit-for-pipelines-e8duku"
+  "codex/conduct-data-schema-audit-for-pipelines-wkhju1"
+  "codex/create-architectural-change-plan-for-bioetl-8x3vzl"
+  "codex/create-architectural-change-plan-for-bioetl-f7msdt"
+  "codex/create-setup-script-for-bioetl-baza8k"
+  "codex/create-setup-script-for-bioetl-en8i82"
+  "codex/create-template-for-architecture-diagrams-3nl3wr"
+  "codex/develop-user-instructions-for-codex-qwldm4"
+  "codex/fix-data-paths-in-guides-c2u4ii"
+  "codex/improve-user-instructions-for-bioetl-project-mzn26t"
+  "codex/improve-user-instructions-for-bioetl-project-5rxkfj"
+  "codex/improve-user-instructions-for-bioetl-project-3tnkqp"
+  "codex/improve-user-instructions-for-bioetl-project-zyhvp4"
+  "codex/optimize-architectural-diagrams-for-bioetl-2humxt"
+  "codex/optimize-architectural-diagrams-for-bioetl-0ibi1l"
+  "codex/refactor-bioetl-configuration-structure-3znbpy"
+  "codex/refactor-bioetl-configuration-structure-3i5df9"
+  "codex/refactor-bioetl-configuration-structure-jl7hsb"
+  "codex/refactor-code-for-data-merging-after-reload-fl4atb"
+  "codex/remove-dead-event-classes-from-events.py"
+  "codex/unify-dto-field-names-in-chembl.py-8j7752"
+  "codex/unify-dto-field-names-in-chembl.py-by4p6i"
+  "codex/unify-dto-field-names-in-chembl.py-1ikmoz"
+  "codex/unify-dto-field-names-in-chembl.py-6s96sh"
+  "codex/unify-dto-field-names-in-chembl.py-mwmn9z"
+  "codex/unify-dto-field-names-in-chembl.py"
+  "codex/update-bioetl-diagram-optimization-strategy-5ggeg1"
+  "codex/update-bioetl-diagram-optimization-strategy-bjue02"
+  "codex/update-description-for-delta-lake-writer-diagram"
+  "bolt-bronze-writer-optimization-5694059606832452436"
+  "bolt-optimize-silver-writer-6952166425433176391"
+  "bolt-optimize-silver-writer-735813114114713276"
+  "bolt-silver-writer-optimization-11154284540065872566"
+  "bolt-silver-writer-optimization-7894939204007800549"
+  "bolt-silver-writer-optimization-3278037334374817272"
+  "bolt/optimize-json-serialization-10380415512159935346"
+  "bolt/optimize-silver-writer-5061550331081307667"
+  "bolt/optimize-silver-writer-14305130312494082531"
+  "bolt/optimize-silver-writer-13553046753343703003"
+  "refactor/arch-review-implementation-17437805360800837750"
+)
+
+TOTAL=${#BRANCHES[@]}
+echo "=== BioETL Branch Cleanup ==="
+echo "Total branches to delete: $TOTAL"
+echo "Batch size: $BATCH_SIZE"
+echo "Mode: $($DRY_RUN && echo 'DRY RUN' || echo 'EXECUTE')"
+echo ""
+
+if $DRY_RUN; then
+  echo "Branches that would be deleted:"
+  for branch in "${BRANCHES[@]}"; do
+    echo "  - $branch"
+  done
+  echo ""
+  echo "Run with --execute to actually delete these branches."
+  exit 0
+fi
+
+echo "Starting deletion in 5 seconds... (Ctrl+C to abort)"
+sleep 5
+
+deleted=0
+failed=0
+batch_count=0
+
+for branch in "${BRANCHES[@]}"; do
+  batch_count=$((batch_count + 1))
+  
+  echo "[$((deleted + failed + 1))/$TOTAL] Deleting: $branch"
+  if git push origin --delete "$branch" 2>/dev/null; then
+    deleted=$((deleted + 1))
+  else
+    echo "  FAILED: $branch"
+    failed=$((failed + 1))
+  fi
+  
+  # Pause between batches to avoid rate limiting
+  if [ $batch_count -ge $BATCH_SIZE ]; then
+    batch_count=0
+    echo "--- Batch complete. Pausing ${DELAY}s ---"
+    sleep $DELAY
+  fi
+done
+
+echo ""
+echo "=== Cleanup Complete ==="
+echo "Deleted: $deleted"
+echo "Failed:  $failed"
+echo "Total:   $TOTAL"