@inflexa-ai/harness 0.45.0 → 0.46.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/README.md +6 -3
- package/dist/agents/conversation-agent.d.ts +19 -3
- package/dist/agents/conversation-agent.js +49 -30
- package/dist/agents/report-session-agent.d.ts +15 -15
- package/dist/agents/report-session-agent.js +23 -15
- package/dist/agents/sandbox/index.d.ts +1 -1
- package/dist/agents/sandbox/index.js +1 -1
- package/dist/agents/sandbox/shared.d.ts +35 -16
- package/dist/agents/sandbox/shared.js +63 -24
- package/dist/agents/sandbox/translational-safety-agent.js +26 -0
- package/dist/agents/sandbox/types.d.ts +26 -3
- package/dist/agents/sandbox/validate-skills.d.ts +2 -2
- package/dist/agents/sandbox/validate-skills.js +3 -1
- package/dist/agents/sandbox-catalog.d.ts +16 -2
- package/dist/agents/sandbox-catalog.js +22 -3
- package/dist/agents/system-prompt.d.ts +2 -2
- package/dist/app/approve-plan.d.ts +5 -2
- package/dist/app/approve-plan.js +1 -1
- package/dist/app/chat-turn-workflow.d.ts +114 -0
- package/dist/app/chat-turn-workflow.js +307 -0
- package/dist/app/chat-turn.d.ts +85 -57
- package/dist/app/chat-turn.js +125 -99
- package/dist/app/data-profile-orientation.js +10 -8
- package/dist/app/data-profile-view.d.ts +4 -4
- package/dist/app/data-profile-view.js +9 -8
- package/dist/app/in-process-turn.d.ts +42 -0
- package/dist/app/in-process-turn.js +139 -0
- package/dist/app/message-assembly.d.ts +10 -4
- package/dist/app/message-assembly.js +13 -8
- package/dist/app/report-session-runtime.d.ts +4 -4
- package/dist/app/report-session-runtime.js +36 -21
- package/dist/app/spawn-report-session.d.ts +33 -28
- package/dist/app/spawn-report-session.js +25 -40
- package/dist/app/synthesize-run.d.ts +22 -16
- package/dist/app/synthesize-run.js +41 -35
- package/dist/app/work.d.ts +96 -0
- package/dist/app/work.js +147 -0
- package/dist/auth/local-auth-context.d.ts +1 -3
- package/dist/auth/local-auth-context.js +1 -3
- package/dist/auth/local-run-authorizer.d.ts +1 -1
- package/dist/auth/local-run-authorizer.js +5 -3
- package/dist/auth/types.d.ts +26 -26
- package/dist/billing/cached-resolver.d.ts +4 -4
- package/dist/billing/run-charge.d.ts +5 -8
- package/dist/billing/run-charge.js +2 -2
- package/dist/billing/usage-recorder.d.ts +9 -9
- package/dist/citations/aggregate.js +1 -1
- package/dist/citations/clients/arxiv.d.ts +2 -2
- package/dist/citations/clients/arxiv.js +12 -4
- package/dist/citations/clients/common.js +4 -2
- package/dist/citations/clients/crossref.d.ts +2 -2
- package/dist/citations/clients/crossref.js +37 -37
- package/dist/citations/clients/doi-registry.js +15 -16
- package/dist/citations/clients/pubmed.d.ts +2 -2
- package/dist/citations/clients/pubmed.js +20 -13
- package/dist/citations/clients/semantic-scholar.d.ts +2 -2
- package/dist/citations/clients/semantic-scholar.js +9 -9
- package/dist/citations/compare.js +2 -2
- package/dist/citations/match.d.ts +2 -2
- package/dist/citations/match.js +12 -7
- package/dist/citations/normalize.js +35 -26
- package/dist/citations/plan.js +6 -2
- package/dist/citations/resolve.d.ts +6 -6
- package/dist/citations/resolve.js +34 -25
- package/dist/citations/types.d.ts +77 -77
- package/dist/config/environment-stores.d.ts +10 -8
- package/dist/config/resource-limits.js +1 -3
- package/dist/contracts/analogy-report.d.ts +7 -7
- package/dist/contracts/analogy-report.js +2 -2
- package/dist/contracts/chat-events.d.ts +46 -22
- package/dist/contracts/chat-events.js +1 -1
- package/dist/contracts/chat-frame.d.ts +15 -5
- package/dist/contracts/chat-frame.js +67 -40
- package/dist/contracts/chat-parts.d.ts +130 -67
- package/dist/contracts/chat-parts.js +1 -0
- package/dist/contracts/content-url.js +16 -2
- package/dist/contracts/data-profile.d.ts +38 -38
- package/dist/contracts/index.d.ts +3 -3
- package/dist/contracts/index.js +1 -1
- package/dist/contracts/message.d.ts +6 -6
- package/dist/contracts/organ-system.d.ts +11 -11
- package/dist/contracts/part-registry.d.ts +5 -4
- package/dist/contracts/part-registry.js +5 -0
- package/dist/contracts/profile-vocabulary.d.ts +11 -10
- package/dist/contracts/profile-vocabulary.js +10 -3
- package/dist/contracts/report-blocks.d.ts +329 -329
- package/dist/contracts/report-reference.d.ts +105 -81
- package/dist/contracts/report-reference.js +30 -13
- package/dist/contracts/schemas/chat-events.d.ts +45 -6
- package/dist/contracts/schemas/chat-events.js +16 -0
- package/dist/contracts/schemas/chat-parts.d.ts +214 -102
- package/dist/contracts/schemas/chat-parts.js +50 -7
- package/dist/contracts/schemas/index.d.ts +1 -1
- package/dist/contracts/schemas/index.js +1 -1
- package/dist/contracts/severity.d.ts +1 -1
- package/dist/contracts/structure-source.d.ts +3 -3
- package/dist/contracts/structure-source.js +6 -2
- package/dist/contracts/subagent-activity.d.ts +2 -2
- package/dist/contracts/subagent-activity.js +5 -3
- package/dist/contracts/usage.d.ts +2 -2
- package/dist/data/safety-panel-schema.d.ts +25 -25
- package/dist/data/safety-panel-schema.js +13 -4
- package/dist/execution/artifact-metadata.d.ts +23 -15
- package/dist/execution/artifact-metadata.js +33 -10
- package/dist/execution/artifact-record.d.ts +2 -2
- package/dist/execution/artifact-registration.d.ts +5 -5
- package/dist/execution/artifact-registry.d.ts +8 -8
- package/dist/execution/dbos-run-launcher.d.ts +24 -4
- package/dist/execution/dbos-run-launcher.js +58 -4
- package/dist/execution/dbos-workflow-purger.d.ts +7 -6
- package/dist/execution/dbos-workflow-purger.js +29 -21
- package/dist/execution/input-signature.d.ts +2 -2
- package/dist/execution/post-step-pipeline.d.ts +9 -9
- package/dist/execution/post-step-pipeline.js +1 -1
- package/dist/execution/post-step.js +2 -2
- package/dist/execution/reconcile-manifest.d.ts +4 -4
- package/dist/execution/reconcile-manifest.js +3 -2
- package/dist/execution/run-authorizer.d.ts +46 -37
- package/dist/execution/run-authorizer.js +8 -8
- package/dist/execution/run-canceler.d.ts +39 -17
- package/dist/execution/run-canceler.js +137 -28
- package/dist/execution/run-end-record.d.ts +29 -0
- package/dist/execution/run-end-record.js +27 -0
- package/dist/execution/run-event-parts.d.ts +0 -8
- package/dist/execution/run-event-parts.js +29 -24
- package/dist/execution/run-event-stream.d.ts +8 -8
- package/dist/execution/run-event-stream.js +3 -4
- package/dist/execution/run-launcher.d.ts +4 -4
- package/dist/execution/run-synthesis.d.ts +49 -48
- package/dist/execution/run-synthesis.js +96 -255
- package/dist/execution/staged-input.d.ts +2 -2
- package/dist/execution/step-summary.d.ts +6 -6
- package/dist/execution/step-summary.js +4 -8
- package/dist/execution/topo-sort.js +4 -3
- package/dist/execution/workflow-purger.d.ts +2 -2
- package/dist/index.d.ts +25 -24
- package/dist/index.js +36 -37
- package/dist/input-sanitization.js +9 -2
- package/dist/input-scan/clustering.d.ts +6 -6
- package/dist/input-scan/clustering.js +11 -5
- package/dist/input-scan/companions.js +3 -2
- package/dist/input-scan/detect-sets.d.ts +2 -2
- package/dist/input-scan/detect-sets.js +25 -21
- package/dist/input-scan/enrich.d.ts +6 -6
- package/dist/input-scan/enrich.js +29 -12
- package/dist/input-scan/formats.d.ts +2 -2
- package/dist/input-scan/formats.js +8 -2
- package/dist/input-scan/markers.d.ts +2 -2
- package/dist/input-scan/markers.js +14 -5
- package/dist/input-scan/menu.d.ts +10 -10
- package/dist/input-scan/menu.js +0 -0
- package/dist/input-scan/quarantine.d.ts +2 -2
- package/dist/input-scan/quarantine.js +23 -18
- package/dist/input-scan/readout-budget.d.ts +2 -2
- package/dist/input-scan/readout-budget.js +1 -1
- package/dist/input-scan/readout.d.ts +2 -2
- package/dist/input-scan/readout.js +47 -34
- package/dist/input-scan/scan.d.ts +2 -2
- package/dist/input-scan/scan.js +7 -5
- package/dist/input-scan/set-types.d.ts +28 -28
- package/dist/input-scan/shapes.d.ts +4 -4
- package/dist/input-scan/shapes.js +0 -0
- package/dist/input-scan/templates.d.ts +10 -10
- package/dist/input-scan/templates.js +30 -22
- package/dist/input-scan/tokens.d.ts +6 -4
- package/dist/input-scan/tokens.js +100 -38
- package/dist/input-scan/types.d.ts +22 -22
- package/dist/lib/async-utils.d.ts +3 -7
- package/dist/lib/async-utils.js +5 -9
- package/dist/lib/cache.js +1 -1
- package/dist/lib/chrome.d.ts +46 -6
- package/dist/lib/console-logger.js +2 -2
- package/dist/lib/db-result.d.ts +22 -6
- package/dist/lib/db-result.js +9 -13
- package/dist/lib/eyes.d.ts +4 -4
- package/dist/lib/eyes.js +1 -1
- package/dist/lib/fs-helpers.js +18 -6
- package/dist/lib/fs-result.d.ts +1 -0
- package/dist/lib/fs-result.js +5 -6
- package/dist/lib/hooks.d.ts +23 -7
- package/dist/lib/hooks.js +17 -3
- package/dist/lib/host-concurrency.js +3 -2
- package/dist/lib/logger.d.ts +2 -2
- package/dist/lib/logger.js +2 -1
- package/dist/lib/metrics.d.ts +1 -1
- package/dist/lib/null-proto.d.ts +6 -0
- package/dist/lib/null-proto.js +17 -0
- package/dist/lib/otel-spans.d.ts +1 -1
- package/dist/lib/otel-spans.js +9 -5
- package/dist/lib/otel.d.ts +4 -2
- package/dist/lib/otel.js +10 -2
- package/dist/lib/page-capture.d.ts +8 -8
- package/dist/lib/page-capture.js +9 -4
- package/dist/lib/parse-json.d.ts +5 -0
- package/dist/lib/parse-json.js +12 -0
- package/dist/lib/present.d.ts +12 -0
- package/dist/lib/present.js +39 -0
- package/dist/lib/rate-limit.d.ts +4 -4
- package/dist/lib/rate-limit.js +12 -13
- package/dist/lib/regulatory-corpus/fetch-fda-guidance.d.ts +4 -4
- package/dist/lib/regulatory-corpus/fetch-fda-guidance.js +4 -10
- package/dist/lib/regulatory-corpus/fetch-ich.d.ts +4 -4
- package/dist/lib/regulatory-corpus/fetch-ich.js +18 -14
- package/dist/lib/regulatory-corpus/normalize-whitespace.d.ts +6 -0
- package/dist/lib/regulatory-corpus/normalize-whitespace.js +41 -0
- package/dist/lib/regulatory-corpus.d.ts +10 -10
- package/dist/lib/regulatory-corpus.js +3 -1
- package/dist/lib/result.d.ts +10 -11
- package/dist/lib/result.js +15 -13
- package/dist/lib/storage.d.ts +2 -2
- package/dist/lib/test/async-iterable.d.ts +9 -0
- package/dist/lib/test/async-iterable.js +28 -0
- package/dist/lib/test/request-url.d.ts +5 -0
- package/dist/lib/test/request-url.js +7 -0
- package/dist/lib/test/result-assert.d.ts +12 -0
- package/dist/lib/test/result-assert.js +17 -0
- package/dist/lib/test/text-shapes.d.ts +24 -0
- package/dist/lib/test/text-shapes.js +63 -0
- package/dist/lib/text.d.ts +22 -0
- package/dist/lib/text.js +68 -0
- package/dist/lib/thrown.d.ts +18 -0
- package/dist/lib/thrown.js +30 -0
- package/dist/lib/unknown-array.d.ts +6 -0
- package/dist/lib/unknown-array.js +8 -0
- package/dist/lib/unknown-containers.d.ts +14 -0
- package/dist/lib/unknown-containers.js +17 -0
- package/dist/lib/unknown-text.d.ts +8 -0
- package/dist/lib/unknown-text.js +28 -0
- package/dist/lib/zod-issue-shape.d.ts +1 -1
- package/dist/lib/zod-issue-shape.js +31 -31
- package/dist/lib/zod-issues.d.ts +3 -3
- package/dist/lib/zod-issues.js +30 -17
- package/dist/literature/sources/arxiv.d.ts +6 -6
- package/dist/literature/sources/arxiv.js +92 -35
- package/dist/literature/sources/http.d.ts +2 -2
- package/dist/literature/sources/http.js +16 -15
- package/dist/literature/sources/pubmed.d.ts +16 -16
- package/dist/literature/sources/pubmed.js +96 -61
- package/dist/literature/sources/semantic-scholar.d.ts +8 -8
- package/dist/literature/sources/semantic-scholar.js +22 -13
- package/dist/loop/accounting.d.ts +63 -0
- package/dist/loop/accounting.js +141 -0
- package/dist/loop/call-policy.d.ts +73 -0
- package/dist/loop/call-policy.js +109 -0
- package/dist/loop/chat-stream.d.ts +62 -0
- package/dist/loop/chat-stream.js +237 -0
- package/dist/loop/compaction.d.ts +14 -9
- package/dist/loop/compaction.js +17 -0
- package/dist/loop/metrics.d.ts +12 -15
- package/dist/loop/metrics.js +14 -26
- package/dist/loop/run-loop.d.ts +233 -0
- package/dist/loop/run-loop.js +770 -0
- package/dist/loop/sub-agent.d.ts +61 -0
- package/dist/loop/sub-agent.js +161 -0
- package/dist/loop/tool-adapter.d.ts +98 -0
- package/dist/loop/tool-adapter.js +364 -0
- package/dist/loop/tool-detail.d.ts +1 -1
- package/dist/loop/tool-detail.js +6 -5
- package/dist/loop/tool-outcome.d.ts +1 -1
- package/dist/loop/tool-output.d.ts +4 -4
- package/dist/loop/tool-output.js +2 -2
- package/dist/loop/turn-credentials.d.ts +34 -0
- package/dist/loop/turn-credentials.js +73 -0
- package/dist/loop/types.d.ts +34 -37
- package/dist/loop/types.js +2 -7
- package/dist/memory/ai-sdk-message-storage.d.ts +5 -5
- package/dist/memory/ai-sdk-message-storage.js +13 -11
- package/dist/memory/card-builders.d.ts +14 -14
- package/dist/memory/card-builders.js +19 -15
- package/dist/memory/conversation-display-recorder.d.ts +22 -6
- package/dist/memory/conversation-display-recorder.js +64 -20
- package/dist/memory/conversation-display-replay.js +3 -2
- package/dist/memory/conversation-display-storage.d.ts +15 -7
- package/dist/memory/conversation-display-storage.js +141 -36
- package/dist/memory/conversation-view.d.ts +4 -4
- package/dist/memory/conversation-view.js +5 -4
- package/dist/memory/count-tokens.js +10 -8
- package/dist/memory/derive-thread-title.d.ts +0 -13
- package/dist/memory/derive-thread-title.js +2 -1
- package/dist/memory/message-backfill.d.ts +12 -5
- package/dist/memory/message-backfill.js +5 -3
- package/dist/memory/thread-history.d.ts +66 -24
- package/dist/memory/thread-history.js +212 -79
- package/dist/memory/thread-store.d.ts +26 -17
- package/dist/memory/thread-store.js +15 -9
- package/dist/memory/tool-call-integrity.d.ts +2 -2
- package/dist/memory/tool-call-integrity.js +4 -3
- package/dist/memory/working-memory.d.ts +16 -12
- package/dist/memory/working-memory.js +72 -61
- package/dist/prompts/briefing.d.ts +63 -9
- package/dist/prompts/briefing.js +130 -3
- package/dist/prompts/planner.js +13 -2
- package/dist/prompts/synthesis-agent.d.ts +1 -1
- package/dist/prompts/synthesis-agent.js +6 -14
- package/dist/provenance/collector.d.ts +6 -6
- package/dist/provenance/collector.js +15 -8
- package/dist/provenance/exec-frame.d.ts +2 -2
- package/dist/provenance/exec-frame.js +6 -1
- package/dist/provenance/seam.d.ts +24 -19
- package/dist/provenance/seam.js +7 -5
- package/dist/provenance/types.d.ts +6 -6
- package/dist/providers/ai-sdk.d.ts +113 -62
- package/dist/providers/ai-sdk.js +303 -458
- package/dist/providers/embedding.d.ts +2 -2
- package/dist/providers/embedding.js +1 -1
- package/dist/providers/errors.d.ts +22 -2
- package/dist/providers/errors.js +98 -50
- package/dist/providers/prompt-cache.d.ts +8 -8
- package/dist/providers/prompt-cache.js +13 -11
- package/dist/providers/reasoning.d.ts +2 -2
- package/dist/providers/reasoning.js +2 -2
- package/dist/providers/types.d.ts +59 -92
- package/dist/reference-data/catalog.d.ts +2 -15
- package/dist/reference-data/catalog.js +166 -10
- package/dist/reference-data/receipt.d.ts +2 -2
- package/dist/report-model/assert-rules.js +1 -1
- package/dist/report-model/authoring-grammar.d.ts +209 -231
- package/dist/report-model/block-walk.d.ts +10 -10
- package/dist/report-model/block-walk.js +2 -0
- package/dist/report-model/draft-finish.d.ts +8 -8
- package/dist/report-model/draft-finish.js +1 -1
- package/dist/report-model/draft-hash.js +8 -7
- package/dist/report-model/draft-operations.d.ts +22 -10
- package/dist/report-model/draft-operations.js +48 -30
- package/dist/report-model/draft-read.d.ts +19 -7
- package/dist/report-model/draft-read.js +16 -6
- package/dist/report-model/draft.d.ts +844 -2
- package/dist/report-model/draft.js +3 -1
- package/dist/report-model/fixture-resolver.js +39 -16
- package/dist/report-model/pin-snapshot.d.ts +2 -2
- package/dist/report-model/pin-snapshot.js +15 -15
- package/dist/report-model/production-resolver.d.ts +18 -18
- package/dist/report-model/production-resolver.js +50 -42
- package/dist/report-model/reference-resolver.d.ts +26 -10
- package/dist/report-model/reference-resolver.js +68 -5
- package/dist/report-model/reference-stamp.js +30 -38
- package/dist/report-model/structural-validation.js +12 -4
- package/dist/report-model/validate.d.ts +7 -7
- package/dist/report-model/validate.js +6 -6
- package/dist/report-render/assets.d.ts +2 -2
- package/dist/report-render/assets.js +27 -3
- package/dist/report-render/chart-export.d.ts +10 -2
- package/dist/report-render/chart-export.js +37 -11
- package/dist/report-render/chart-presets.d.ts +8 -8
- package/dist/report-render/chart-presets.js +3 -3
- package/dist/report-render/chart-renderers.d.ts +23 -16
- package/dist/report-render/chart-renderers.js +74 -53
- package/dist/report-render/chart-toolbox.d.ts +2 -2
- package/dist/report-render/chart-toolbox.js +7 -6
- package/dist/report-render/chart.d.ts +15 -16
- package/dist/report-render/chart.js +369 -252
- package/dist/report-render/design.d.ts +36 -297
- package/dist/report-render/design.js +0 -12
- package/dist/report-render/figures/common.d.ts +12 -12
- package/dist/report-render/figures/common.js +42 -31
- package/dist/report-render/figures/dendrogram.d.ts +3 -3
- package/dist/report-render/figures/dendrogram.js +10 -10
- package/dist/report-render/figures/dense.js +15 -8
- package/dist/report-render/figures/dotplot.js +46 -33
- package/dist/report-render/figures/embedding.js +52 -43
- package/dist/report-render/figures/equal-units.d.ts +10 -10
- package/dist/report-render/figures/equal-units.js +27 -27
- package/dist/report-render/figures/forest.js +9 -7
- package/dist/report-render/figures/gsea.js +21 -11
- package/dist/report-render/figures/heatmap.js +13 -9
- package/dist/report-render/figures/index.d.ts +10 -10
- package/dist/report-render/figures/index.js +4 -2
- package/dist/report-render/figures/km.js +10 -9
- package/dist/report-render/figures/label-room.d.ts +12 -12
- package/dist/report-render/figures/label-room.js +7 -2
- package/dist/report-render/figures/locuszoom.d.ts +2 -2
- package/dist/report-render/figures/locuszoom.js +59 -31
- package/dist/report-render/figures/lollipop.js +3 -2
- package/dist/report-render/figures/ma.js +8 -4
- package/dist/report-render/figures/manhattan.d.ts +1 -2
- package/dist/report-render/figures/manhattan.js +52 -34
- package/dist/report-render/figures/oncoprint.js +4 -5
- package/dist/report-render/figures/pca.js +25 -11
- package/dist/report-render/figures/qq.js +20 -9
- package/dist/report-render/figures/roc.js +1 -1
- package/dist/report-render/figures/sankey.d.ts +2 -2
- package/dist/report-render/figures/sankey.js +11 -10
- package/dist/report-render/figures/upset.d.ts +6 -6
- package/dist/report-render/figures/upset.js +7 -4
- package/dist/report-render/figures/volcano.js +12 -10
- package/dist/report-render/hybrid-svg.d.ts +4 -4
- package/dist/report-render/hybrid-svg.js +7 -5
- package/dist/report-render/number-format.d.ts +4 -4
- package/dist/report-render/number-format.js +62 -27
- package/dist/report-render/page.js +2 -1
- package/dist/report-render/provenance-data.d.ts +2 -2
- package/dist/report-render/references.d.ts +4 -4
- package/dist/report-render/render.d.ts +2 -2
- package/dist/report-render/render.js +10 -11
- package/dist/report-render/script-json.js +1 -1
- package/dist/report-render/table-data.d.ts +6 -6
- package/dist/report-render/test/options.d.ts +49 -0
- package/dist/report-render/test/options.js +143 -0
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- package/dist/workflows/pause.d.ts +71 -0
- package/dist/workflows/pause.js +173 -0
- package/dist/workflows/sandbox-step.d.ts +50 -61
- package/dist/workflows/sandbox-step.js +99 -106
- package/dist/workflows/test/sql-writes.d.ts +21 -0
- package/dist/workflows/test/sql-writes.js +36 -0
- package/dist/workspace/filesystem.d.ts +6 -6
- package/dist/workspace/filesystem.js +10 -8
- package/dist/workspace/paths.d.ts +1 -1
- package/dist/workspace/paths.js +15 -4
- package/dist/workspace/search-config.d.ts +2 -2
- package/dist/workspace/search-config.js +1 -1
- package/package.json +25 -22
- package/dist/loop/continue-agent.d.ts +0 -40
- package/dist/loop/continue-agent.js +0 -38
- package/dist/loop/genai-spans.d.ts +0 -47
- package/dist/loop/genai-spans.js +0 -134
- package/dist/loop/run-agent.d.ts +0 -236
- package/dist/loop/run-agent.js +0 -1110
- package/dist/loop/run-step.d.ts +0 -29
- package/dist/loop/run-step.js +0 -34
- package/dist/loop/run-to-terminal.d.ts +0 -66
- package/dist/loop/run-to-terminal.js +0 -90
- package/dist/loop/tool-mask.d.ts +0 -23
- package/dist/loop/tool-mask.js +0 -46
- package/dist/providers/streaming-chat.d.ts +0 -32
- package/dist/providers/streaming-chat.js +0 -91
- package/dist/tasks/derive-table-exec.d.ts +0 -54
- package/dist/tasks/derive-table-exec.js +0 -86
- package/dist/workflows/suspension.d.ts +0 -32
- package/dist/workflows/suspension.js +0 -38
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@@ -16,61 +16,61 @@ import type { FormatCount, UnstructuredEntry } from "./types.js";
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import type { SlotTokenClass } from "./tokens.js";
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/** Why a file never reached the menu. */
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export type QuarantineReason = "os-junk" | "editor-temp" | "partial-download" | "atomic-write-temp";
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export
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export type QuarantineReasonCount = {
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}
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};
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/**
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*/
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export
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export type QuarantineSummary = {
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readonly count: number;
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readonly totalBytes: number;
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}
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};
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/** A helper file that carries no meaning apart from the data file it serves. */
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export
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export type CompanionFile = {
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readonly path: string;
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/** The suffix that identified it — `.tbi`, `.bai`, `.md5`. */
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}
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};
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/**
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* A data file plus its companions — the logical unit the pipeline mines and counts.
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*
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* Membership counts logical units, so a variant file and its index are one member, and
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*/
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export
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export type MemberFile = {
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readonly name: string;
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readonly size: number;
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readonly format: string;
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readonly wrapper?: string;
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readonly companions: readonly CompanionFile[];
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}
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export
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};
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export type SetMember = MemberFile & {
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/** Companion suffixes the rest of the set carries and this member does not. */
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};
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export type IncompleteMember = {
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}
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};
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/**
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export
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export type SetCompleteness = {
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/** Suffixes enough of the set carries that their absence is a gap, not a variation. */
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readonly expectedCompanions: readonly string[];
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readonly completeMembers: number;
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readonly incompleteMembers: number;
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readonly incompleteSample: readonly IncompleteMember[];
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};
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export type SlotLocation = "directory" | "name";
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/**
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* A varying position in a set's path template.
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* rests on. The complete value set stays on {@link DetectedSets.slotValues},
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*/
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export
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export type SetSlot = {
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/** Unique within one scan, so a cross-check can name the slot it links to. */
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readonly location: SlotLocation;
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readonly sameAsSlot?: string;
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/** Members whose two positions disagreed, when the link was made despite them. */
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readonly crossCheckMismatches?: number;
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}
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};
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/** A template rendered as a sequence: concatenating it reproduces {@link DetectedSet.pathTemplate}. */
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export type TemplateSegment = {
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readonly kind: "literal";
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*/
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export type SetOrigin = "marker" | "mined" | "prefix" | "family" | "catch-all";
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/** Compression wrappers observed across a set's members. `none` names the uncompressed. */
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export
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export type WrapperCount = {
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readonly count: number;
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}
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export
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};
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export type DetectedSet = {
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/** Stable within one scan (`set-1`, `set-2`, …). */
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readonly id: string;
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readonly origin: SetOrigin;
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readonly examplePaths: readonly string[];
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/** Complete membership. Host-side: the bounded projection is everything above. */
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};
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/**
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* Files no set speaks for, in aggregate.
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*
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* set count proportional to the file count. Whether these are notable singletons worth
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* describing or an unclassified remainder is the agent's determination.
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*/
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export
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export type LeftoverFiles = {
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readonly memberCount: number;
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/** Members plus the companions riding on them, so it adds up against `keptFileCount`. */
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readonly fileCount: number;
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readonly totalBytes: number;
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readonly sample: readonly UnstructuredEntry[];
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}
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export
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};
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export type SetRepresentative = {
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/**
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* Which files a header readout should open.
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*
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* by construction, so a readout per file buys nothing and costs the enrichment budget
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* this pipeline exists to bound.
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*/
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export
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export type ReadoutSelection = {
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readonly representatives: readonly SetRepresentative[];
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/** Leftover paths — the files no set speaks for, each read on its own. Bounded. */
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readonly individual: readonly string[];
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* header for some leftovers and not others has to be told which.
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*/
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}
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export
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};
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export type DetectedSets = {
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readonly fileCount: number;
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/** Files that survived quarantine — the denominator coverage is measured against. */
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*/
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}
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};
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/** Values sampled per variable position. The sample is the agent's decision material. */
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export declare const MAX_SAMPLE_VALUES = 20;
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type AtomKind = "alpha" | "digit" | "delim";
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type Atom = {
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readonly kind: AtomKind;
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readonly value: string;
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}
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};
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/**
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* Split a filename stem into runs of letters, runs of digits, and the delimiters
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* between them. Splitting INSIDE a token is what makes `PT001_D0_rep1` three
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export declare function tokenizeStem(stem: string): readonly Atom[];
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/** The name stem — the basename with its extension chain removed. */
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export declare function nameStem(fileName: string): string;
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export
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export type ObservedShapes = {
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readonly shapes: readonly FileShape[];
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readonly unstructured: UnstructuredFiles;
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readonly valueOverlaps: readonly ShapeValueOverlap[];
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@@ -40,7 +40,7 @@ export interface ObservedShapes {
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readonly positionValues: ReadonlyMap<string, readonly (readonly string[])[]>;
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/** True when the shape list was capped and the remainder folded into the aggregate. */
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}
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};
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/** Observe the shapes of a scanned file set. Pure — no I/O, no container, no model. */
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export declare function observeShapes(files: readonly ScannedFile[]): ObservedShapes;
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export {};
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Binary file
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@@ -15,17 +15,17 @@
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import type { MemberFile, SlotLocation } from "./set-types.js";
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import type { NameToken, SlotTokenClass, TokenKind } from "./tokens.js";
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/** A member with the directory-slot values of the context it was found in. */
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export
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export type ContextFile = MemberFile & {
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readonly varValues: readonly string[];
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}
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export
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};
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export type MinedItem = {
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readonly file: ContextFile;
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readonly tokens: readonly NameToken[];
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readonly suffix: string;
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readonly skeleton: string;
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}
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};
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export type MinedKind = "tokens" | "prefix" | "family" | "catch-all";
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export
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export type MinedGroup = {
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readonly kind: MinedKind;
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readonly tokenKinds: readonly TokenKind[];
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/** The shared literal head, when the group was claimed by prefix mining. */
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@@ -35,9 +35,9 @@ export interface MinedGroup {
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readonly suffixes: Map<string, number>;
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items: MinedItem[];
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distinct?: number[];
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}
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};
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/** A slot before the assembly stamps it with an id. */
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export
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export type DraftSlot = {
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readonly location: SlotLocation;
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readonly index: number;
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readonly tokenClass: SlotTokenClass;
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@@ -45,8 +45,8 @@ export interface DraftSlot {
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readonly minLength?: number;
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readonly maxLength?: number;
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readonly skeleton?: string;
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prefix?: string;
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suffix?: string;
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readonly distinctValues: number;
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readonly sampleValues: readonly string[];
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/** The complete value set — bounded projection is `sampleValues`. */
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sameAs?: number;
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crossCheckMismatches?: number;
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}
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};
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export type DraftSegment = {
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readonly kind: "literal";
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readonly text: string;
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@@ -13,6 +13,8 @@
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13
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* claims the rest where the repetition across directories is itself the structure.
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14
14
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*/
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15
|
import { DATE_SYMBOL, DIGIT_SYMBOL, ID_SYMBOL, classifyValues, commonAffixes, isDateToken, maskAffix, skeletonOf, tokenizeName } from "./tokens.js";
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16
|
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import { presentAt, presentFirst } from "../lib/present.js";
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import { isAllDigits } from "../lib/text.js";
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import { MAX_SLOT_SAMPLE_VALUES, MIN_AFFIX_LENGTH, MIN_CATCH_ALL_MEMBERS, MIN_FAMILY_SET_MEMBERS, MIN_PREFIX_SET_MEMBERS } from "./tuning.js";
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function toItem(file) {
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18
20
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const { tokens, suffix } = tokenizeName(file.name);
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@@ -49,10 +51,10 @@ function distinctCounts(group) {
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49
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function isVariable(group, position) {
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50
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|
if (group.tokenKinds[position] === "id")
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return true;
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|
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|
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return distinctCounts(group)
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|
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return presentAt(distinctCounts(group), position, "distinct counts") > 1;
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53
55
|
}
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56
|
function mergeGroups(groups) {
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|
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const head = groups
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57
|
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const head = presentFirst(groups, "merged template group");
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|
56
58
|
const suffixes = new Map();
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|
57
59
|
const items = [];
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58
60
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for (const group of groups) {
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@@ -86,21 +88,22 @@ function mergeVariants(groups) {
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86
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const next = [];
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87
89
|
let merged = false;
|
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88
90
|
for (const family of families.values()) {
|
|
91
|
+
const head = presentFirst(family, "template family");
|
|
89
92
|
if (family.length === 1) {
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next.push(
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next.push(head);
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|
91
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continue;
|
|
92
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}
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|
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-
const positions =
|
|
96
|
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const positions = head.tokenKinds.length;
|
|
94
97
|
let mergedHere = false;
|
|
95
98
|
for (let p = 0; p < positions && !mergedHere; p++) {
|
|
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|
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const kind =
|
|
99
|
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const kind = head.tokenKinds[p];
|
|
97
100
|
if (kind !== "alpha" && kind !== "digit")
|
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101
|
continue;
|
|
99
102
|
const buckets = new Map();
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|
100
103
|
for (const group of family) {
|
|
101
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|
// Every member of a group shares its literal tokens, so the first row
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|
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105
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// identifies the whole group at this position.
|
|
103
|
-
const row = group.items
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|
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|
+
const row = presentFirst(group.items, "group items").tokens;
|
|
104
107
|
const key = row.map((token, i) => (i === p || isVariable(group, i) ? "" : token.value)).join(" ");
|
|
105
108
|
const bucket = buckets.get(key);
|
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106
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|
if (bucket)
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@@ -111,7 +114,7 @@ function mergeVariants(groups) {
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if ([...buckets.values()].every((bucket) => bucket.length === 1))
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continue;
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116
|
for (const bucket of buckets.values())
|
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|
-
next.push(bucket.length === 1 ? bucket
|
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|
+
next.push(bucket.length === 1 ? presentFirst(bucket, "variant bucket") : mergeGroups(bucket));
|
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118
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mergedHere = true;
|
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119
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merged = true;
|
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120
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}
|
|
@@ -124,7 +127,7 @@ function mergeVariants(groups) {
|
|
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124
127
|
}
|
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125
128
|
const byStem = new Map();
|
|
126
129
|
for (const group of current) {
|
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|
-
const row = group.items
|
|
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|
+
const row = presentFirst(group.items, "group items").tokens;
|
|
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131
|
const key = `${group.tokenKinds.join(",")} ${row.map((token, i) => (isVariable(group, i) ? "" : token.value)).join(" ")}`;
|
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132
|
const bucket = byStem.get(key);
|
|
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133
|
if (bucket)
|
|
@@ -132,7 +135,7 @@ function mergeVariants(groups) {
|
|
|
132
135
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else
|
|
133
136
|
byStem.set(key, [group]);
|
|
134
137
|
}
|
|
135
|
-
return [...byStem.values()].map((bucket) => (bucket.length === 1 ? bucket
|
|
138
|
+
return [...byStem.values()].map((bucket) => (bucket.length === 1 ? presentFirst(bucket, "stem bucket") : mergeGroups(bucket)));
|
|
136
139
|
}
|
|
137
140
|
function symbolOf(token) {
|
|
138
141
|
if (token.kind === "id")
|
|
@@ -224,7 +227,7 @@ function collapseFamilies(residue) {
|
|
|
224
227
|
rest.push(...items);
|
|
225
228
|
continue;
|
|
226
229
|
}
|
|
227
|
-
const head = items
|
|
230
|
+
const head = presentFirst(items, "family items");
|
|
228
231
|
sets.push(newGroup("family", {
|
|
229
232
|
tokenKinds: head.tokens.map((token) => token.kind),
|
|
230
233
|
suffix: head.suffix,
|
|
@@ -261,7 +264,7 @@ export function mineContext(files) {
|
|
|
261
264
|
if (group.items.length >= 2)
|
|
262
265
|
sets.push(group);
|
|
263
266
|
else
|
|
264
|
-
singletons.push(group.items
|
|
267
|
+
singletons.push(presentFirst(group.items, "template group items"));
|
|
265
268
|
}
|
|
266
269
|
const prefixes = minePrefixes(singletons);
|
|
267
270
|
sets.push(...prefixes.sets);
|
|
@@ -279,7 +282,7 @@ export function describeSlot(rawValues, location, index) {
|
|
|
279
282
|
suffix = "";
|
|
280
283
|
// A number and a date are each one value: slicing a shared year off them would
|
|
281
284
|
// report a date as a literal prefix plus a pattern.
|
|
282
|
-
if (distinct.every(
|
|
285
|
+
if (distinct.every(isAllDigits) || distinct.every((value) => isDateToken(value))) {
|
|
283
286
|
prefix = "";
|
|
284
287
|
suffix = "";
|
|
285
288
|
}
|
|
@@ -287,28 +290,32 @@ export function describeSlot(rawValues, location, index) {
|
|
|
287
290
|
const cores = distinct.map(strip);
|
|
288
291
|
const observed = classifyValues(cores);
|
|
289
292
|
const sorted = [...cores].sort((a, b) => a.localeCompare(b, "en"));
|
|
290
|
-
|
|
293
|
+
const slot = {
|
|
291
294
|
location,
|
|
292
295
|
index,
|
|
293
296
|
tokenClass: observed.tokenClass,
|
|
294
|
-
|
|
295
|
-
|
|
296
|
-
|
|
297
|
-
|
|
298
|
-
...(suffix ? { suffix } : {}),
|
|
297
|
+
width: observed.width,
|
|
298
|
+
minLength: observed.minLength,
|
|
299
|
+
maxLength: observed.maxLength,
|
|
300
|
+
skeleton: observed.skeleton,
|
|
299
301
|
distinctValues: distinct.length,
|
|
300
302
|
sampleValues: sorted.slice(0, MAX_SLOT_SAMPLE_VALUES),
|
|
301
303
|
values: cores,
|
|
302
304
|
memberValues: rawValues.map(strip),
|
|
303
305
|
};
|
|
306
|
+
if (prefix)
|
|
307
|
+
slot.prefix = prefix;
|
|
308
|
+
if (suffix)
|
|
309
|
+
slot.suffix = suffix;
|
|
310
|
+
return slot;
|
|
304
311
|
}
|
|
305
312
|
/** The template token a slot renders as. */
|
|
306
313
|
export function slotToken(slot) {
|
|
307
314
|
switch (slot.tokenClass) {
|
|
308
315
|
case "digits-fixed":
|
|
309
|
-
return `<digits:${slot.width}>`;
|
|
316
|
+
return `<digits:${String(slot.width)}>`;
|
|
310
317
|
case "pattern":
|
|
311
|
-
return `<pattern:${slot.skeleton}>`;
|
|
318
|
+
return `<pattern:${String(slot.skeleton)}>`;
|
|
312
319
|
default:
|
|
313
320
|
return `<${slot.tokenClass}>`;
|
|
314
321
|
}
|
|
@@ -356,8 +363,9 @@ export function describeGroup(group) {
|
|
|
356
363
|
for (let i = 0; i < group.tokenKinds.length; i++) {
|
|
357
364
|
const values = group.items.map((item) => item.tokens[i]?.value ?? "");
|
|
358
365
|
const distinct = new Set(values);
|
|
359
|
-
|
|
360
|
-
|
|
366
|
+
const [literal] = distinct;
|
|
367
|
+
if (literal !== undefined && distinct.size === 1 && group.tokenKinds[i] !== "id") {
|
|
368
|
+
segments.push({ kind: "literal", text: literal });
|
|
361
369
|
continue;
|
|
362
370
|
}
|
|
363
371
|
pushSlot(describeSlot(values, "name", i));
|
|
@@ -12,10 +12,10 @@
|
|
|
12
12
|
* specific class every one of its values satisfies.
|
|
13
13
|
*/
|
|
14
14
|
export type TokenKind = "alpha" | "digit" | "delim" | "id" | "date";
|
|
15
|
-
export
|
|
15
|
+
export type NameToken = {
|
|
16
16
|
readonly kind: TokenKind;
|
|
17
17
|
readonly value: string;
|
|
18
|
-
}
|
|
18
|
+
};
|
|
19
19
|
export declare const ID_SYMBOL = "ID";
|
|
20
20
|
export declare const DIGIT_SYMBOL = "#";
|
|
21
21
|
export declare const DATE_SYMBOL = "@";
|
|
@@ -31,6 +31,8 @@ export declare function splitStem(fileName: string): {
|
|
|
31
31
|
stem: string;
|
|
32
32
|
suffix: string;
|
|
33
33
|
};
|
|
34
|
+
export declare function isAsciiLetter(char: string): boolean;
|
|
35
|
+
export declare function isAsciiDigit(char: string): boolean;
|
|
34
36
|
/**
|
|
35
37
|
* A machine-issued identifier: a UUID, a fixed-length hex digest, or a long
|
|
36
38
|
* class-mixed base64url token that is structurally random.
|
|
@@ -63,7 +65,7 @@ export declare function tokenizeName(fileName: string): {
|
|
|
63
65
|
export declare function skeletonOf(tokens: readonly NameToken[]): string;
|
|
64
66
|
export declare function maskSegment(segment: string): string;
|
|
65
67
|
export type SlotTokenClass = "constant" | "date" | "digits-fixed" | "digits" | "hex" | "opaque-id" | "word" | "pattern" | "any";
|
|
66
|
-
export
|
|
68
|
+
export type ValueClass = {
|
|
67
69
|
readonly tokenClass: SlotTokenClass;
|
|
68
70
|
/** Digit width, when every value is a fixed-width number. */
|
|
69
71
|
readonly width?: number;
|
|
@@ -71,7 +73,7 @@ export interface ValueClass {
|
|
|
71
73
|
readonly maxLength?: number;
|
|
72
74
|
/** The shared masked form, when the class is `pattern`. */
|
|
73
75
|
readonly skeleton?: string;
|
|
74
|
-
}
|
|
76
|
+
};
|
|
75
77
|
/** Place a set of observed values on the lattice, most specific class first. */
|
|
76
78
|
export declare function classifyValues(values: readonly string[]): ValueClass;
|
|
77
79
|
/**
|