openvax / topiary

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LAST BUILD ON BRANCH fix/raise-min-python-311

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• fix/raise-min-python-311
• absent-vs-empty-audit
• add-agents-md
• add-cache-sharding
• add-cached-predictor
• add-model-colon-kind-syntax
• add-netmhc-cache-loaders
• add-protected-tissues-scope
• add-self-proteome-nearest
• align-custom-dsl-nodes-with-normalized-keys
• allele-class-mhcgnomes
• allele-free-rows
• allele-set
• antigen-fragment
• autowrap-allele-free
• bare-ident-brackets
• best-allele-aggregation
• cache-allele-nulls
• cache-duplicate-keys
• cache-key-allele-set
• cached-predictor-cli
• cached-predictor-vaxrank-polish
• canonical-methods
• centralize-amino-acid-data
• chore/295-335-ci-reliability
• chore/316-release-tooling
• chore/osteosarc-0.11
• chore/osteosarc-0.12
• chore/osteosarc-0.13
• chore/osteosarc-0.14
• chore/osteosarc-0.7
• chore/osteosarc-0.9
• chore/release-chain-cleanup
• chore/varcode-floor-122
• ci-caching
• cleanup-dsl-version-syntax
• cleanup-packaging-and-actions
• codex/mhctools-3-7-compat
• codex/predict-wt-peptides
• combine-predictor-results
• common-expression-vocabulary
• composition-tests
• consumer-guide
• context-forwarding
• correct-preference-claim
• cross-sample-evidence
• csv-fasta-inputs
• default-versions
• define-protein-fragment-init
• deps/gtfparse3-pandas3
• deps/osteosarc-0.1.2
• deslop/readme
• docs/313-317-stale-spec
• docs/382-413-stale-claims
• docs/human-friendly-pass
• docs/osteosarc-rearrangement-audit
• dsl-extensions
• dsl-polish
• dsl-polish-v5.0.1
• dsl-refactor-v5
• empty-bucket-and-merge-collision
• eval-context-default-methods
• evaluate-scores-helper
• expression-data
• expression-dsl-v2
• feat/124-oncoref-cta
• feat/contextual-cache-468
• feat/contextual-peptide-rescoring
• feat/historical-table-prediction-source
• feat/native-exacto-ingestion
• feat/occurrence-policy-audit
• feat/orf-evidence-reconciliation
• feat/osteosarc-rna-overlay
• feat/osteosarc-sid-fixtures
• feat/policy-coverage
• feat/self-match-evidence
• feat/versioned-ranking-profiles
• feature/571-shared-data
• feature/peptide-aware-isovar-context
• feature/peptide-property-dsl
• feature/report-wide-policy-terms
• feature/sv-interest-reports
• feature/table-combination-rescoring
• feature/weirdo-foreignness
• filter-auto-aggregate
• fix-127-autowrap-test
• fix-165-backfill-value-from-score
• fix-biopython-dependency
• fix-cache-mode-ignores-requested-alleles
• fix-cached-protein-scan-occurrence-context
• fix-cli-coverage-gap-error-handling
• fix-cli-oserror-message-regression
• fix-coverage-allele-set-and-half-life-dsl
• fix-coverage-error-str-and-cli-handling
• fix-cross-sample-evidence-review
• fix-declared-deps-and-dead-surface
• fix-deploy-python-selection
• fix-flank-mismatch-kind-coverage
• fix-lazy-model-discovery
• fix-peptiverse-fixture-mhctools-3446
• fix-pirlygenes-tissue-columns
• fix-pvacseq-presentation
• fix-review-followups-coverage-error-and-diagnostics
• fix-sort-ordering
• fix-wide-list-valued-annotations
• fix/304-374-cache-batches
• fix/307-protein-context-fallback
• fix/322-cli-help-flags
• fix/324-310-cli-errors
• fix/326-output-files
• fix/364-imported-mutation-geometry
• fix/388-preserve-terminal-flanks
• fix/390-isovar-hypothesis-comparisons
• fix/390-review-preserve-hypothesis-identities
• fix/397-repeated-isovar-translations
• fix/398-isovar-export-versions
• fix/409-reference-version-identity
• fix/410-measurement-context-roundtrip
• fix/414-reject-non-node-dsl-args
• fix/472-categorical-roundtrip
• fix/486-short-expression-tables
• fix/496-pandas3-baseline
• fix/507-pandas31-json-cells
• fix/517-protein-boundary-context
• fix/audit-continuity-shared-osteosarc
• fix/cache-loading-323
• fix/cache-scan-lengths-329
• fix/canonical-ensembl-ci-reference
• fix/ci-retries-and-test-collection
• fix/cli-results-325
• fix/consistent-numeric-columns
• fix/cufflinks-hidata-476
• fix/dsl-expression-roundtrip-448
• fix/dsl-literal-compatibility
• fix/dsl-transform-arguments-471
• fix/ensembl-ci-artifact-handoff
• fix/fragment-identity-and-typed-audit-inputs
• fix/human-audit-genetic-code
• fix/isovar-read-identity-contract
• fix/metadata-extra-collisions
• fix/metadata-extra-text-encoding
• fix/mixed-annotation-codec
• fix/osteosarc-all-variant-outcomes
• fix/pandas-warning-cleanup
• fix/readme-release-validation
• fix/reject-conflicting-measurements
• fix/release-preflight
• fix/release-warnings
• fix/require-osteosarc
• fix/sample-identity-and-review-findings
• fix/shared-fixture-mechanics
• fragment-counts-to-frame
• fragment-read-evidence
• from-predictions
• from-predictions-columns
• group-keys-everywhere
• guide-corrections
• haplotype-autoproject
• honest-dna-subject
• improve-cli-errors
• inline-blosum62
• io-wide-v4.11
• isovar-fragments
• isovar-run
• kind-mhc-dependence
• lazy-varcode-imports
• lens-loader
• lens-mapping-override
• lens-multi-version
• lens-version-agnostic
• master
• multi-model-disambiguation
• openvax_switch
• optional-dependency-extras
• peptide-level-named-allele
• peptide-provenance
• peptide-view
• peptide-view-followups
• per-peptide-alleles
• pirlygenes-5.1-expression-accessors
• plumb-kind-support
• pr-b-fragment-refactor
• promote-kind-aliases-public
• public-fragment-api
• pvacseq-branch-vocabulary
• pvacseq-loader
• read-evidence
• read-subject
• refactor-for-protein-sequences
• regression-all-blank-allele
• release-4.8.0
• remove-model-lookup-global
• restore-varcode-cli-parser-delegation
• rna-evidence-accessors
• scoped-fields-in-filters
• self-nearest-population
• shrink-cached-predictor-index
• simplify-eval-context-frame-names
• symmetric-ambiguous-amino-acid-distance
• symmetric-evidence-columns
• test-audit-v4.10
• test/osteosarc-additional-indels
• test/osteosarc-pvacseq-corpus
• tests/369-363-hygiene
• tests/openvax-v1
• topiary-result
• unify-release-python
• v4.10.0
• v4.11.0
• v4.11.1
• v4.11.2
• v4.12.0
• v4.3.0
• v4.3.1
• v4.3.2
• v4.4.0
• v4.5.0
• v4.5.1
• v4.6.0
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• v4.9.0
• v5.0.0
• v5.0.1
• v5.1.0
• v5.10.0
• v5.10.1
• v5.10.2
• v5.10.3
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• v5.10.5
• v5.10.6
• v5.10.7
• v5.10.8
• v5.11.0
• v5.12.0
• v5.13.0
• v5.14.0
• v5.14.1
• v5.15.0
• v5.16.1
• v5.16.2
• v5.17.1
• v5.18.0
• v5.18.1
• v5.19.0
• v5.2.0
• v5.20.0
• v5.20.1
• v5.21.0
• v5.21.1
• v5.22.0
• v5.26.0
• v5.27.0
• v5.28.0
• v5.28.2
• v5.29.0
• v5.30.0
• v5.31.0
• v5.31.1
• v5.32.0
• v5.33.0
• v5.34.0
• v5.35.0
• v5.35.1
• v5.36.0
• v5.37.0
• v5.38.0
• v5.39.0
• v5.39.1
• v5.4.0
• v5.40.0
• v5.41.0
• v5.42.0
• v5.43.0
• v5.44.0
• v5.45.0
• v5.45.1
• v5.46.0
• v5.47.0
• v5.48.0
• v5.48.1
• v5.49.0
• v5.49.1
• v5.5.0
• v5.51.0
• v5.52.0
• v5.52.1
• v5.52.10
• v5.52.2
• v5.52.3
• v5.52.4
• v5.52.5
• v5.52.6
• v5.52.7
• v5.52.8
• v5.52.9
• v5.53.0
• v5.55.1
• v5.57.0
• v5.58.0
• v5.59.0
• v5.59.1
• v5.59.2
• v5.6.0
• v5.60.0
• v5.60.1
• v5.60.2
• v5.60.3
• v5.61.0
• v5.62.0
• v5.63.0
• v5.64.0
• v5.65.0
• v5.65.1
• v5.65.2
• v5.66.0
• v5.67.0
• v5.67.1
• v5.68.0
• v5.68.1
• v5.68.2
• v5.68.3
• v5.69.0
• v5.70.0
• v5.70.1
• v5.70.2
• v5.71.1
• v5.71.2
• v5.72.0
• v5.73.0
• v5.74.0
• v5.75.0
• v5.76.0
• v5.77.0
• v5.78.0
• v5.79.0
• v5.8.0
• v5.80.0
• v5.81.0
• v5.82.0
• v5.83.0
• v5.84.0
• v5.84.1
• v5.84.2
• v5.84.3
• v5.85.0
• v5.85.1
• v5.86.0
• v5.9.0
• v5.9.1
• verify-isovar-integration
• verify-pirlygenes-integration

Build # 39446958659-2

Build Type

Pull #493

github

Committed by web-flow

Commit Message

Merge 876982f56 into 6abb60c29

Pull Request Pull Request #493: Require Python 3.11 and reconcile Isovar audit provenance

Coverage Stats

1 of 1 new or added line in 1 file covered. (100.0%)

2 existing lines in 1 file now uncovered.

10268 of 10972 relevant lines covered (93.58%)

0.94 hits per line