intentdna 1.0.0

package/dist/compiler/activate.js

@@ -0,0 +1,141 @@
+/**
+ * Intent DNA — Context Activator
+ *
+ * Given a cascaded DNA and an active context name, applies Regulatory Regions:
+ *   - amplify/suppress gene codons by factor
+ *   - activate/deactivate genes
+ *   - apply threshold overrides
+ *   - apply epigenetic markers with decay
+ */
+/**
+ * Apply a modifier to a gene's expression level.
+ */
+function applyModifier(level, mod) {
+    switch (mod.action) {
+        case "amplify":
+            return level * (mod.factor ?? 2.0);
+        case "suppress":
+            return level * (mod.factor ?? 0.5);
+        case "deactivate":
+            return 0;
+        case "activate":
+            return level === 0 ? 1.0 : level;
+        default:
+            return level;
+    }
+}
+/**
+ * Apply epigenetic markers to gene expression levels.
+ * Markers decay over time based on their decay factor and age.
+ */
+function applyEpigeneticMarkers(genes, markers) {
+    const now = Date.now();
+    for (const marker of markers) {
+        // Calculate decay based on time elapsed
+        const markerAge = marker.timestamp
+            ? (now - new Date(marker.timestamp).getTime()) / (1000 * 60 * 60 * 24) // days
+            : 0;
+        const decayedStrength = Math.pow(marker.decay, markerAge / 30); // decay per 30 days
+        if (decayedStrength < 0.01)
+            continue; // marker too old, skip
+        for (const effect of marker.effects) {
+            if (effect.gene && genes[effect.gene] && effect.action && effect.factor) {
+                const gene = genes[effect.gene];
+                const effectiveFactor = 1 + (effect.factor - 1) * decayedStrength;
+                if (effect.action === "amplify") {
+                    gene.expression_level *= effectiveFactor;
+                }
+                else if (effect.action === "suppress") {
+                    gene.expression_level *= effectiveFactor;
+                }
+            }
+            // Epigenetic attract/repel: inject codons into the gene
+            if (effect.type && effect.target && effect.gene && genes[effect.gene]) {
+                const gene = genes[effect.gene];
+                const exists = gene.codons.some((c) => (c.type === "attract" || c.type === "repel") &&
+                    c.type === effect.type && c.target === effect.target);
+                if (!exists) {
+                    gene.codons.push({ type: effect.type, target: effect.target });
+                }
+            }
+        }
+    }
+}
+/**
+ * Activate a cascaded DNA for a given context and role.
+ * Returns the final gene expression state ready for compilation to IR.
+ */
+export function activateDNA(cascaded, contextName = null, activeRole = null) {
+    // Initialize all genes at expression level 1.0
+    const activated = {};
+    for (const [name, gene] of Object.entries(cascaded.genes)) {
+        activated[name] = {
+            description: gene.description,
+            codons: [...gene.codons],
+            tags: [...(gene.tags ?? [])],
+            expression_level: 1.0,
+        };
+    }
+    // Apply context modifiers if a context is active
+    if (contextName && cascaded.contexts[contextName]) {
+        const ctx = cascaded.contexts[contextName];
+        // Apply gene modifiers
+        for (const mod of ctx.modifiers ?? []) {
+            if (activated[mod.gene]) {
+                activated[mod.gene].expression_level = applyModifier(activated[mod.gene].expression_level, mod);
+            }
+        }
+        // Deactivate genes
+        for (const g of ctx.deactivate_genes ?? []) {
+            if (activated[g]) {
+                activated[g].expression_level = 0;
+            }
+        }
+        // Activate genes (set to 1.0 if they were deactivated)
+        for (const g of ctx.activate_genes ?? []) {
+            if (activated[g] && activated[g].expression_level === 0) {
+                activated[g].expression_level = 1.0;
+            }
+        }
+        // Apply threshold overrides as new threshold codons
+        for (const override of ctx.threshold_overrides ?? []) {
+            // Find a gene to attach this to, or create a synthetic one
+            // For now, attach to the first gene that has a relevant sense codon
+            const targetGene = Object.values(activated)[0];
+            if (targetGene) {
+                targetGene.codons.push({
+                    type: "threshold",
+                    condition: override.condition,
+                });
+            }
+        }
+    }
+    // Apply role gene modifiers (after context, before epigenetic)
+    if (activeRole && cascaded.roles[activeRole]) {
+        const role = cascaded.roles[activeRole];
+        // Activate genes
+        for (const geneName of role.activates_genes ?? []) {
+            if (activated[geneName]) {
+                activated[geneName].expression_level =
+                    activated[geneName].expression_level === 0
+                        ? 1.0
+                        : activated[geneName].expression_level;
+            }
+        }
+        // Suppress genes
+        for (const geneName of role.suppresses_genes ?? []) {
+            if (activated[geneName]) {
+                activated[geneName].expression_level *= 0.1;
+            }
+        }
+    }
+    // Apply epigenetic markers
+    applyEpigeneticMarkers(activated, cascaded.epigenetic_markers);
+    return {
+        genes: activated,
+        active_context: contextName,
+        active_role: activeRole,
+        source_ids: cascaded.source_ids,
+    };
+}
+//# sourceMappingURL=activate.js.map

package/dist/compiler/activate.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"activate.js","sourceRoot":"","sources":["../../src/compiler/activate.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AA0BH;;GAEG;AACH,SAAS,aAAa,CAAC,KAAa,EAAE,GAAiB;IACrD,QAAQ,GAAG,CAAC,MAAM,EAAE,CAAC;QACnB,KAAK,SAAS;YACZ,OAAO,KAAK,GAAG,CAAC,GAAG,CAAC,MAAM,IAAI,GAAG,CAAC,CAAC;QACrC,KAAK,UAAU;YACb,OAAO,KAAK,GAAG,CAAC,GAAG,CAAC,MAAM,IAAI,GAAG,CAAC,CAAC;QACrC,KAAK,YAAY;YACf,OAAO,CAAC,CAAC;QACX,KAAK,UAAU;YACb,OAAO,KAAK,KAAK,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC;QACnC;YACE,OAAO,KAAK,CAAC;IACjB,CAAC;AACH,CAAC;AAED;;;GAGG;AACH,SAAS,sBAAsB,CAC7B,KAAoC,EACpC,OAA2B;IAE3B,MAAM,GAAG,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;IAEvB,KAAK,MAAM,MAAM,IAAI,OAAO,EAAE,CAAC;QAC7B,wCAAwC;QACxC,MAAM,SAAS,GAAG,MAAM,CAAC,SAAS;YAChC,CAAC,CAAC,CAAC,GAAG,GAAG,IAAI,IAAI,CAAC,MAAM,CAAC,SAAS,CAAC,CAAC,OAAO,EAAE,CAAC,GAAG,CAAC,IAAI,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,CAAC,CAAC,OAAO;YAC9E,CAAC,CAAC,CAAC,CAAC;QACN,MAAM,eAAe,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,EAAE,SAAS,GAAG,EAAE,CAAC,CAAC,CAAC,oBAAoB;QAEpF,IAAI,eAAe,GAAG,IAAI;YAAE,SAAS,CAAC,uBAAuB;QAE7D,KAAK,MAAM,MAAM,IAAI,MAAM,CAAC,OAAO,EAAE,CAAC;YACpC,IAAI,MAAM,CAAC,IAAI,IAAI,KAAK,CAAC,MAAM,CAAC,IAAI,CAAC,IAAI,MAAM,CAAC,MAAM,IAAI,MAAM,CAAC,MAAM,EAAE,CAAC;gBACxE,MAAM,IAAI,GAAG,KAAK,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC;gBAChC,MAAM,eAAe,GAAG,CAAC,GAAG,CAAC,MAAM,CAAC,MAAM,GAAG,CAAC,CAAC,GAAG,eAAe,CAAC;gBAElE,IAAI,MAAM,CAAC,MAAM,KAAK,SAAS,EAAE,CAAC;oBAChC,IAAI,CAAC,gBAAgB,IAAI,eAAe,CAAC;gBAC3C,CAAC;qBAAM,IAAI,MAAM,CAAC,MAAM,KAAK,UAAU,EAAE,CAAC;oBACxC,IAAI,CAAC,gBAAgB,IAAI,eAAe,CAAC;gBAC3C,CAAC;YACH,CAAC;YAED,wDAAwD;YACxD,IAAI,MAAM,CAAC,IAAI,IAAI,MAAM,CAAC,MAAM,IAAI,MAAM,CAAC,IAAI,IAAI,KAAK,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC;gBACtE,MAAM,IAAI,GAAG,KAAK,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC;gBAChC,MAAM,MAAM,GAAG,IAAI,CAAC,MAAM,CAAC,IAAI,CAC7B,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,KAAK,SAAS,IAAI,CAAC,CAAC,IAAI,KAAK,OAAO,CAAC;oBAC5C,CAAC,CAAC,IAAI,KAAK,MAAM,CAAC,IAAI,IAAI,CAAC,CAAC,MAAM,KAAK,MAAM,CAAC,MAAM,CAC5D,CAAC;gBACF,IAAI,CAAC,MAAM,EAAE,CAAC;oBACZ,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,IAAI,EAAE,MAAM,CAAC,IAAI,EAAE,MAAM,EAAE,MAAM,CAAC,MAAM,EAAE,CAAC,CAAC;gBACjE,CAAC;YACH,CAAC;QACH,CAAC;IACH,CAAC;AACH,CAAC;AAED;;;GAGG;AACH,MAAM,UAAU,WAAW,CACzB,QAAqB,EACrB,cAA6B,IAAI,EACjC,aAA4B,IAAI;IAEhC,+CAA+C;IAC/C,MAAM,SAAS,GAAkC,EAAE,CAAC;IAEpD,KAAK,MAAM,CAAC,IAAI,EAAE,IAAI,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,QAAQ,CAAC,KAAK,CAAC,EAAE,CAAC;QAC1D,SAAS,CAAC,IAAI,CAAC,GAAG;YAChB,WAAW,EAAE,IAAI,CAAC,WAAW;YAC7B,MAAM,EAAE,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC;YACxB,IAAI,EAAE,CAAC,GAAG,CAAC,IAAI,CAAC,IAAI,IAAI,EAAE,CAAC,CAAC;YAC5B,gBAAgB,EAAE,GAAG;SACtB,CAAC;IACJ,CAAC;IAED,iDAAiD;IACjD,IAAI,WAAW,IAAI,QAAQ,CAAC,QAAQ,CAAC,WAAW,CAAC,EAAE,CAAC;QAClD,MAAM,GAAG,GAAG,QAAQ,CAAC,QAAQ,CAAC,WAAW,CAAC,CAAC;QAE3C,uBAAuB;QACvB,KAAK,MAAM,GAAG,IAAI,GAAG,CAAC,SAAS,IAAI,EAAE,EAAE,CAAC;YACtC,IAAI,SAAS,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE,CAAC;gBACxB,SAAS,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,gBAAgB,GAAG,aAAa,CAClD,SAAS,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,gBAAgB,EACpC,GAAG,CACJ,CAAC;YACJ,CAAC;QACH,CAAC;QAED,mBAAmB;QACnB,KAAK,MAAM,CAAC,IAAI,GAAG,CAAC,gBAAgB,IAAI,EAAE,EAAE,CAAC;YAC3C,IAAI,SAAS,CAAC,CAAC,CAAC,EAAE,CAAC;gBACjB,SAAS,CAAC,CAAC,CAAC,CAAC,gBAAgB,GAAG,CAAC,CAAC;YACpC,CAAC;QACH,CAAC;QAED,uDAAuD;QACvD,KAAK,MAAM,CAAC,IAAI,GAAG,CAAC,cAAc,IAAI,EAAE,EAAE,CAAC;YACzC,IAAI,SAAS,CAAC,CAAC,CAAC,IAAI,SAAS,CAAC,CAAC,CAAC,CAAC,gBAAgB,KAAK,CAAC,EAAE,CAAC;gBACxD,SAAS,CAAC,CAAC,CAAC,CAAC,gBAAgB,GAAG,GAAG,CAAC;YACtC,CAAC;QACH,CAAC;QAED,oDAAoD;QACpD,KAAK,MAAM,QAAQ,IAAI,GAAG,CAAC,mBAAmB,IAAI,EAAE,EAAE,CAAC;YACrD,2DAA2D;YAC3D,oEAAoE;YACpE,MAAM,UAAU,GAAG,MAAM,CAAC,MAAM,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,CAAC;YAC/C,IAAI,UAAU,EAAE,CAAC;gBACf,UAAU,CAAC,MAAM,CAAC,IAAI,CAAC;oBACrB,IAAI,EAAE,WAAW;oBACjB,SAAS,EAAE,QAAQ,CAAC,SAAS;iBAC9B,CAAC,CAAC;YACL,CAAC;QACH,CAAC;IACH,CAAC;IAED,+DAA+D;IAC/D,IAAI,UAAU,IAAI,QAAQ,CAAC,KAAK,CAAC,UAAU,CAAC,EAAE,CAAC;QAC7C,MAAM,IAAI,GAAG,QAAQ,CAAC,KAAK,CAAC,UAAU,CAAC,CAAC;QAExC,iBAAiB;QACjB,KAAK,MAAM,QAAQ,IAAI,IAAI,CAAC,eAAe,IAAI,EAAE,EAAE,CAAC;YAClD,IAAI,SAAS,CAAC,QAAQ,CAAC,EAAE,CAAC;gBACxB,SAAS,CAAC,QAAQ,CAAC,CAAC,gBAAgB;oBAClC,SAAS,CAAC,QAAQ,CAAC,CAAC,gBAAgB,KAAK,CAAC;wBACxC,CAAC,CAAC,GAAG;wBACL,CAAC,CAAC,SAAS,CAAC,QAAQ,CAAC,CAAC,gBAAgB,CAAC;YAC7C,CAAC;QACH,CAAC;QAED,iBAAiB;QACjB,KAAK,MAAM,QAAQ,IAAI,IAAI,CAAC,gBAAgB,IAAI,EAAE,EAAE,CAAC;YACnD,IAAI,SAAS,CAAC,QAAQ,CAAC,EAAE,CAAC;gBACxB,SAAS,CAAC,QAAQ,CAAC,CAAC,gBAAgB,IAAI,GAAG,CAAC;YAC9C,CAAC;QACH,CAAC;IACH,CAAC;IAED,2BAA2B;IAC3B,sBAAsB,CAAC,SAAS,EAAE,QAAQ,CAAC,kBAAkB,CAAC,CAAC;IAE/D,OAAO;QACL,KAAK,EAAE,SAAS;QAChB,cAAc,EAAE,WAAW;QAC3B,WAAW,EAAE,UAAU;QACvB,UAAU,EAAE,QAAQ,CAAC,UAAU;KAChC,CAAC;AACJ,CAAC"}

package/dist/compiler/cascade.d.ts

@@ -0,0 +1,27 @@
+/**
+ * Intent DNA — Cascade Engine
+ *
+ * Merges multiple DNA layers following CSS-like cascade rules:
+ *   Species (0) → Enterprise (50) → Personal (100) → Context (150) → Task (200)
+ *
+ * Conflict resolution:
+ *   - threshold: never overridden by lower priority (like CSS !important)
+ *   - weight: higher priority overrides lower
+ *   - attract/repel: same target accumulates, different targets independent
+ *   - amplify/suppress: factors multiply (1.5x × 2.0x = 3.0x)
+ */
+import type { IntentDNA, Gene, ContextRegion, EpigeneticMarker, RoleDef, WorkflowDef } from "../schema/types.js";
+export interface CascadedDNA {
+    genes: Record<string, Gene>;
+    contexts: Record<string, ContextRegion>;
+    roles: Record<string, RoleDef>;
+    workflows: Record<string, WorkflowDef>;
+    epigenetic_markers: EpigeneticMarker[];
+    source_ids: string[];
+}
+/**
+ * Cascade multiple DNA layers into a single merged DNA.
+ * Input must be sorted by priority (lowest first).
+ */
+export declare function cascadeDNA(layers: IntentDNA[]): CascadedDNA;
+//# sourceMappingURL=cascade.d.ts.map

package/dist/compiler/cascade.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"cascade.d.ts","sourceRoot":"","sources":["../../src/compiler/cascade.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,KAAK,EAAE,SAAS,EAAE,IAAI,EAAS,aAAa,EAAE,gBAAgB,EAAE,OAAO,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAC;AAExH,MAAM,WAAW,WAAW;IAC1B,KAAK,EAAE,MAAM,CAAC,MAAM,EAAE,IAAI,CAAC,CAAC;IAC5B,QAAQ,EAAE,MAAM,CAAC,MAAM,EAAE,aAAa,CAAC,CAAC;IACxC,KAAK,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IAC/B,SAAS,EAAE,MAAM,CAAC,MAAM,EAAE,WAAW,CAAC,CAAC;IACvC,kBAAkB,EAAE,gBAAgB,EAAE,CAAC;IACvC,UAAU,EAAE,MAAM,EAAE,CAAC;CACtB;AAqED;;;GAGG;AACH,wBAAgB,UAAU,CAAC,MAAM,EAAE,SAAS,EAAE,GAAG,WAAW,CAqD3D"}

package/dist/compiler/cascade.js

@@ -0,0 +1,124 @@
+/**
+ * Intent DNA — Cascade Engine
+ *
+ * Merges multiple DNA layers following CSS-like cascade rules:
+ *   Species (0) → Enterprise (50) → Personal (100) → Context (150) → Task (200)
+ *
+ * Conflict resolution:
+ *   - threshold: never overridden by lower priority (like CSS !important)
+ *   - weight: higher priority overrides lower
+ *   - attract/repel: same target accumulates, different targets independent
+ *   - amplify/suppress: factors multiply (1.5x × 2.0x = 3.0x)
+ */
+/**
+ * Normalize workflow/workflows from an IntentDNA into a unified Record.
+ * Validation ensures workflow and workflows are mutually exclusive.
+ */
+function normalizeWorkflowsFromDNA(dna) {
+    if (dna.workflows)
+        return dna.workflows;
+    if (dna.workflow)
+        return { [dna.workflow.name]: dna.workflow };
+    return {};
+}
+/**
+ * Merge two genes with the same name. Higher priority gene wins for weights,
+ * thresholds are union-merged (both apply).
+ */
+function mergeGenes(base, override) {
+    const mergedCodons = [];
+    const baseThresholds = base.codons.filter((c) => c.type === "threshold");
+    const overrideThresholds = override.codons.filter((c) => c.type === "threshold");
+    // Thresholds: union (both layers' thresholds apply — never dropped)
+    const allThresholds = [...baseThresholds, ...overrideThresholds];
+    const seenConditions = new Set();
+    for (const t of allThresholds) {
+        if (t.type === "threshold" && !seenConditions.has(t.condition)) {
+            seenConditions.add(t.condition);
+            mergedCodons.push(t);
+        }
+    }
+    // Non-threshold codons: override replaces base for same type+target
+    const overrideNonThreshold = override.codons.filter((c) => c.type !== "threshold");
+    const baseNonThreshold = base.codons.filter((c) => c.type !== "threshold");
+    // Build a key for dedup
+    function codonKey(c) {
+        switch (c.type) {
+            case "attract":
+            case "repel":
+                return `${c.type}:${c.target}`;
+            case "weight":
+                return `weight:${c.a}:${c.b}`;
+            case "sense":
+                return `sense:${c.signal}`;
+            default:
+                return `${c.type}:unknown`;
+        }
+    }
+    const overrideKeys = new Set(overrideNonThreshold.map(codonKey));
+    // Keep base codons that aren't overridden
+    for (const c of baseNonThreshold) {
+        if (!overrideKeys.has(codonKey(c))) {
+            mergedCodons.push(c);
+        }
+    }
+    // Add all override codons
+    mergedCodons.push(...overrideNonThreshold);
+    return {
+        description: override.description || base.description,
+        codons: mergedCodons,
+        tags: [...new Set([...(base.tags ?? []), ...(override.tags ?? [])])],
+    };
+}
+/**
+ * Cascade multiple DNA layers into a single merged DNA.
+ * Input must be sorted by priority (lowest first).
+ */
+export function cascadeDNA(layers) {
+    // Sort by priority ascending (species first, task last)
+    const sorted = [...layers].sort((a, b) => a.cascade.priority - b.cascade.priority);
+    const mergedGenes = {};
+    const mergedContexts = {};
+    const mergedRoles = {};
+    const mergedWorkflows = {};
+    const allMarkers = [];
+    const sourceIds = [];
+    for (const dna of sorted) {
+        sourceIds.push(dna.id);
+        // Merge genes
+        for (const [name, gene] of Object.entries(dna.genes)) {
+            if (mergedGenes[name]) {
+                mergedGenes[name] = mergeGenes(mergedGenes[name], gene);
+            }
+            else {
+                mergedGenes[name] = { ...gene, codons: [...gene.codons] };
+            }
+        }
+        // Merge contexts (higher priority replaces entirely)
+        for (const [name, ctx] of Object.entries(dna.contexts ?? {})) {
+            mergedContexts[name] = ctx;
+        }
+        // Merge roles (higher priority replaces entirely)
+        for (const [name, role] of Object.entries(dna.roles ?? {})) {
+            mergedRoles[name] = role;
+        }
+        // Merge workflows: normalize then merge by name (higher priority replaces)
+        const normalized = normalizeWorkflowsFromDNA(dna);
+        for (const [name, wf] of Object.entries(normalized)) {
+            mergedWorkflows[name] = wf;
+        }
+        // Collect epigenetic markers
+        if (dna.epigenetic?.markers) {
+            allMarkers.push(...dna.epigenetic.markers);
+        }
+    }
+    return {
+        genes: mergedGenes,
+        contexts: mergedContexts,
+        roles: mergedRoles,
+        workflows: mergedWorkflows,
+        epigenetic_markers: allMarkers,
+        source_ids: sourceIds,
+    };
+}
+//# sourceMappingURL=cascade.js.map

package/dist/compiler/cascade.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"cascade.js","sourceRoot":"","sources":["../../src/compiler/cascade.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAaH;;;GAGG;AACH,SAAS,yBAAyB,CAAC,GAAc;IAC/C,IAAI,GAAG,CAAC,SAAS;QAAE,OAAO,GAAG,CAAC,SAAS,CAAC;IACxC,IAAI,GAAG,CAAC,QAAQ;QAAE,OAAO,EAAE,CAAC,GAAG,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE,GAAG,CAAC,QAAQ,EAAE,CAAC;IAC/D,OAAO,EAAE,CAAC;AACZ,CAAC;AAED;;;GAGG;AACH,SAAS,UAAU,CAAC,IAAU,EAAE,QAAc;IAC5C,MAAM,YAAY,GAAY,EAAE,CAAC;IACjC,MAAM,cAAc,GAAG,IAAI,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,WAAW,CAAC,CAAC;IACzE,MAAM,kBAAkB,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,WAAW,CAAC,CAAC;IAEjF,oEAAoE;IACpE,MAAM,aAAa,GAAG,CAAC,GAAG,cAAc,EAAE,GAAG,kBAAkB,CAAC,CAAC;IACjE,MAAM,cAAc,GAAG,IAAI,GAAG,EAAU,CAAC;IACzC,KAAK,MAAM,CAAC,IAAI,aAAa,EAAE,CAAC;QAC9B,IAAI,CAAC,CAAC,IAAI,KAAK,WAAW,IAAI,CAAC,cAAc,CAAC,GAAG,CAAC,CAAC,CAAC,SAAS,CAAC,EAAE,CAAC;YAC/D,cAAc,CAAC,GAAG,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC;YAChC,YAAY,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;QACvB,CAAC;IACH,CAAC;IAED,oEAAoE;IACpE,MAAM,oBAAoB,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,WAAW,CAAC,CAAC;IACnF,MAAM,gBAAgB,GAAG,IAAI,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,WAAW,CAAC,CAAC;IAE3E,wBAAwB;IACxB,SAAS,QAAQ,CAAC,CAAQ;QACxB,QAAQ,CAAC,CAAC,IAAI,EAAE,CAAC;YACf,KAAK,SAAS,CAAC;YACf,KAAK,OAAO;gBACV,OAAO,GAAG,CAAC,CAAC,IAAI,IAAI,CAAC,CAAC,MAAM,EAAE,CAAC;YACjC,KAAK,QAAQ;gBACX,OAAO,UAAU,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC;YAChC,KAAK,OAAO;gBACV,OAAO,SAAS,CAAC,CAAC,MAAM,EAAE,CAAC;YAC7B;gBACE,OAAO,GAAG,CAAC,CAAC,IAAI,UAAU,CAAC;QAC/B,CAAC;IACH,CAAC;IAED,MAAM,YAAY,GAAG,IAAI,GAAG,CAAC,oBAAoB,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAC;IAEjE,0CAA0C;IAC1C,KAAK,MAAM,CAAC,IAAI,gBAAgB,EAAE,CAAC;QACjC,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC;YACnC,YAAY,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;QACvB,CAAC;IACH,CAAC;IAED,0BAA0B;IAC1B,YAAY,CAAC,IAAI,CAAC,GAAG,oBAAoB,CAAC,CAAC;IAE3C,OAAO;QACL,WAAW,EAAE,QAAQ,CAAC,WAAW,IAAI,IAAI,CAAC,WAAW;QACrD,MAAM,EAAE,YAAY;QACpB,IAAI,EAAE,CAAC,GAAG,IAAI,GAAG,CAAC,CAAC,GAAG,CAAC,IAAI,CAAC,IAAI,IAAI,EAAE,CAAC,EAAE,GAAG,CAAC,QAAQ,CAAC,IAAI,IAAI,EAAE,CAAC,CAAC,CAAC,CAAC;KACrE,CAAC;AACJ,CAAC;AAED;;;GAGG;AACH,MAAM,UAAU,UAAU,CAAC,MAAmB;IAC5C,wDAAwD;IACxD,MAAM,MAAM,GAAG,CAAC,GAAG,MAAM,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAC;IAEnF,MAAM,WAAW,GAAyB,EAAE,CAAC;IAC7C,MAAM,cAAc,GAAkC,EAAE,CAAC;IACzD,MAAM,WAAW,GAA4B,EAAE,CAAC;IAChD,MAAM,eAAe,GAAgC,EAAE,CAAC;IACxD,MAAM,UAAU,GAAuB,EAAE,CAAC;IAC1C,MAAM,SAAS,GAAa,EAAE,CAAC;IAE/B,KAAK,MAAM,GAAG,IAAI,MAAM,EAAE,CAAC;QACzB,SAAS,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC;QAEvB,cAAc;QACd,KAAK,MAAM,CAAC,IAAI,EAAE,IAAI,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC;YACrD,IAAI,WAAW,CAAC,IAAI,CAAC,EAAE,CAAC;gBACtB,WAAW,CAAC,IAAI,CAAC,GAAG,UAAU,CAAC,WAAW,CAAC,IAAI,CAAC,EAAE,IAAI,CAAC,CAAC;YAC1D,CAAC;iBAAM,CAAC;gBACN,WAAW,CAAC,IAAI,CAAC,GAAG,EAAE,GAAG,IAAI,EAAE,MAAM,EAAE,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC,EAAE,CAAC;YAC5D,CAAC;QACH,CAAC;QAED,qDAAqD;QACrD,KAAK,MAAM,CAAC,IAAI,EAAE,GAAG,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,QAAQ,IAAI,EAAE,CAAC,EAAE,CAAC;YAC7D,cAAc,CAAC,IAAI,CAAC,GAAG,GAAG,CAAC;QAC7B,CAAC;QAED,kDAAkD;QAClD,KAAK,MAAM,CAAC,IAAI,EAAE,IAAI,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,KAAK,IAAI,EAAE,CAAC,EAAE,CAAC;YAC3D,WAAW,CAAC,IAAI,CAAC,GAAG,IAAI,CAAC;QAC3B,CAAC;QAED,2EAA2E;QAC3E,MAAM,UAAU,GAAG,yBAAyB,CAAC,GAAG,CAAC,CAAC;QAClD,KAAK,MAAM,CAAC,IAAI,EAAE,EAAE,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,UAAU,CAAC,EAAE,CAAC;YACpD,eAAe,CAAC,IAAI,CAAC,GAAG,EAAE,CAAC;QAC7B,CAAC;QAED,6BAA6B;QAC7B,IAAI,GAAG,CAAC,UAAU,EAAE,OAAO,EAAE,CAAC;YAC5B,UAAU,CAAC,IAAI,CAAC,GAAG,GAAG,CAAC,UAAU,CAAC,OAAO,CAAC,CAAC;QAC7C,CAAC;IACH,CAAC;IAED,OAAO;QACL,KAAK,EAAE,WAAW;QAClB,QAAQ,EAAE,cAAc;QACxB,KAAK,EAAE,WAAW;QAClB,SAAS,EAAE,eAAe;QAC1B,kBAAkB,EAAE,UAAU;QAC9B,UAAU,EAAE,SAAS;KACtB,CAAC;AACJ,CAAC"}

package/dist/compiler/compile.d.ts

@@ -0,0 +1,17 @@
+/**
+ * Intent DNA — IR Compiler
+ *
+ * Compiles activated DNA into framework-agnostic Constraint IR.
+ * The IR is then consumed by framework-specific Runtime adapters.
+ *
+ * Compilation pipeline:
+ *   DNA files → cascade → activate → compile (this) → IR → runtime adapter
+ */
+import type { ConstraintIR } from "../schema/types.js";
+import type { ActivatedDNA } from "./activate.js";
+import type { CascadedDNA } from "./cascade.js";
+/**
+ * Compile activated DNA into a Constraint IR.
+ */
+export declare function compileDNA(activated: ActivatedDNA, cascaded?: CascadedDNA): ConstraintIR;
+//# sourceMappingURL=compile.d.ts.map

package/dist/compiler/compile.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"compile.d.ts","sourceRoot":"","sources":["../../src/compiler/compile.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,KAAK,EACV,YAAY,EAUb,MAAM,oBAAoB,CAAC;AAC5B,OAAO,KAAK,EAAE,YAAY,EAAiB,MAAM,eAAe,CAAC;AACjE,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,cAAc,CAAC;AA6JhD;;GAEG;AACH,wBAAgB,UAAU,CAAC,SAAS,EAAE,YAAY,EAAE,QAAQ,CAAC,EAAE,WAAW,GAAG,YAAY,CA8ExF"}

package/dist/compiler/compile.js

@@ -0,0 +1,219 @@
+/**
+ * Intent DNA — IR Compiler
+ *
+ * Compiles activated DNA into framework-agnostic Constraint IR.
+ * The IR is then consumed by framework-specific Runtime adapters.
+ *
+ * Compilation pipeline:
+ *   DNA files → cascade → activate → compile (this) → IR → runtime adapter
+ */
+/**
+ * Map expression level to directive priority.
+ */
+function expressionToPriority(level) {
+    if (level >= 1.5)
+        return "high";
+    if (level >= 1.0)
+        return "medium";
+    return "low";
+}
+/**
+ * Generate prompt directives from a gene's codons.
+ * These become part of the system prompt.
+ */
+function geneToDirectives(name, gene) {
+    if (gene.expression_level === 0)
+        return [];
+    const directives = [];
+    const priority = expressionToPriority(gene.expression_level);
+    // Collect attract/repel into a coherent directive
+    const attracts = [];
+    const repels = [];
+    const weights = [];
+    for (const codon of gene.codons) {
+        switch (codon.type) {
+            case "attract":
+                attracts.push(codon.target);
+                break;
+            case "repel":
+                repels.push(codon.target);
+                break;
+            case "weight":
+                weights.push(`${codon.a}(${Math.round(codon.ratio * 100)}%) vs ${codon.b}(${Math.round((1 - codon.ratio) * 100)}%)`);
+                break;
+        }
+    }
+    // Build a natural language directive
+    const parts = [];
+    parts.push(`[${name}] ${gene.description}.`);
+    if (attracts.length > 0) {
+        parts.push(`Prefer: ${attracts.join(", ")}.`);
+    }
+    if (repels.length > 0) {
+        parts.push(`Avoid: ${repels.join(", ")}.`);
+    }
+    if (weights.length > 0) {
+        parts.push(`Trade-offs: ${weights.join("; ")}.`);
+    }
+    if (parts.length > 1) {
+        directives.push({
+            priority,
+            text: parts.join(" "),
+            source_gene: name,
+        });
+    }
+    return directives;
+}
+/**
+ * Extract tool filters from threshold and repel codons.
+ */
+function geneToToolFilters(name, gene) {
+    if (gene.expression_level === 0)
+        return [];
+    const filters = [];
+    for (const codon of gene.codons) {
+        if (codon.type === "repel") {
+            filters.push({
+                action: "deprioritize",
+                target: codon.target,
+                reason: `DNA gene '${name}' repels '${codon.target}'`,
+                source_gene: name,
+            });
+        }
+    }
+    return filters;
+}
+/**
+ * Extract pre-execution gates from threshold and sense codons.
+ */
+function geneToGates(name, gene) {
+    if (gene.expression_level === 0)
+        return [];
+    const gates = [];
+    for (const codon of gene.codons) {
+        if (codon.type === "threshold") {
+            gates.push({
+                condition: codon.condition,
+                action: "block",
+                message: `DNA threshold violation: ${codon.condition} (gene: ${name})`,
+                source_gene: name,
+            });
+        }
+        if (codon.type === "sense" && codon.response === "escalate_to_human") {
+            gates.push({
+                condition: codon.signal,
+                action: "escalate",
+                message: `DNA requires human approval for: ${codon.signal} (gene: ${name})`,
+                source_gene: name,
+            });
+        }
+        if (codon.type === "sense" && codon.response === "block") {
+            gates.push({
+                condition: codon.signal,
+                action: "block",
+                message: `DNA blocks action on signal: ${codon.signal} (gene: ${name})`,
+                source_gene: name,
+            });
+        }
+    }
+    return gates;
+}
+/**
+ * Extract post-execution validators from sense codons.
+ */
+function geneToValidators(name, gene) {
+    if (gene.expression_level === 0)
+        return [];
+    const validators = [];
+    for (const codon of gene.codons) {
+        if (codon.type === "sense" && codon.response === "verify_before_share") {
+            validators.push({
+                check: `verify_data_sharing_${codon.signal}`,
+                source_gene: name,
+            });
+        }
+        if (codon.type === "sense" && codon.response === "retry_with_more_depth") {
+            validators.push({
+                check: "output_completeness",
+                threshold: gene.expression_level >= 2.0 ? 0.9 : 0.7,
+                source_gene: name,
+            });
+        }
+    }
+    return validators;
+}
+/**
+ * Compile activated DNA into a Constraint IR.
+ */
+export function compileDNA(activated, cascaded) {
+    const directives = [];
+    const toolFilters = [];
+    const gates = [];
+    const validators = [];
+    const injections = [];
+    for (const [name, gene] of Object.entries(activated.genes)) {
+        directives.push(...geneToDirectives(name, gene));
+        toolFilters.push(...geneToToolFilters(name, gene));
+        gates.push(...geneToGates(name, gene));
+        validators.push(...geneToValidators(name, gene));
+    }
+    // Compile role constraints
+    let roleToolPermissions;
+    let roleScope;
+    if (activated.active_role && cascaded?.roles[activated.active_role]) {
+        const role = cascaded.roles[activated.active_role];
+        roleToolPermissions = role.tool_permissions;
+        roleScope = role.scope;
+        // Generate tool filters from role permissions
+        if (role.tool_permissions?.deny) {
+            for (const tool of role.tool_permissions.deny) {
+                toolFilters.push({
+                    action: "remove",
+                    target: tool,
+                    reason: `Role '${activated.active_role}' denies tool '${tool}'`,
+                    source_gene: "",
+                    source_role: activated.active_role,
+                });
+            }
+        }
+        if (role.tool_permissions?.allow) {
+            toolFilters.push({
+                action: "warn",
+                reason: `Role '${activated.active_role}' restricts tools to allow list`,
+                source_gene: "",
+                source_role: activated.active_role,
+            });
+        }
+    }
+    // Build roles_scope_map from all cascaded roles
+    const rolesScopeMap = [];
+    if (cascaded?.roles) {
+        for (const [name, role] of Object.entries(cascaded.roles)) {
+            if (role.scope || role.tool_permissions) {
+                rolesScopeMap.push({
+                    role_name: name,
+                    scope: role.scope ?? {},
+                    tool_permissions: role.tool_permissions,
+                });
+            }
+        }
+    }
+    // Sort directives by priority
+    const priorityOrder = { high: 0, medium: 1, low: 2 };
+    directives.sort((a, b) => priorityOrder[a.priority] - priorityOrder[b.priority]);
+    return {
+        prompt_directives: directives,
+        tool_filters: toolFilters,
+        pre_execution_gates: gates,
+        post_execution_validators: validators,
+        context_injections: injections,
+        source_dna_ids: activated.source_ids,
+        compiled_at: new Date().toISOString(),
+        active_context: activated.active_context ?? undefined,
+        active_role: activated.active_role ?? undefined,
+        role_tool_permissions: roleToolPermissions,
+        role_scope: roleScope,
+        roles_scope_map: rolesScopeMap.length > 0 ? rolesScopeMap : undefined,
+    };
+}
+//# sourceMappingURL=compile.js.map

package/dist/compiler/compile.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"compile.js","sourceRoot":"","sources":["../../src/compiler/compile.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAiBH;;GAEG;AACH,SAAS,oBAAoB,CAAC,KAAa;IACzC,IAAI,KAAK,IAAI,GAAG;QAAE,OAAO,MAAM,CAAC;IAChC,IAAI,KAAK,IAAI,GAAG;QAAE,OAAO,QAAQ,CAAC;IAClC,OAAO,KAAK,CAAC;AACf,CAAC;AAED;;;GAGG;AACH,SAAS,gBAAgB,CAAC,IAAY,EAAE,IAAmB;IACzD,IAAI,IAAI,CAAC,gBAAgB,KAAK,CAAC;QAAE,OAAO,EAAE,CAAC;IAE3C,MAAM,UAAU,GAAsB,EAAE,CAAC;IACzC,MAAM,QAAQ,GAAG,oBAAoB,CAAC,IAAI,CAAC,gBAAgB,CAAC,CAAC;IAE7D,kDAAkD;IAClD,MAAM,QAAQ,GAAa,EAAE,CAAC;IAC9B,MAAM,MAAM,GAAa,EAAE,CAAC;IAC5B,MAAM,OAAO,GAAa,EAAE,CAAC;IAE7B,KAAK,MAAM,KAAK,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;QAChC,QAAQ,KAAK,CAAC,IAAI,EAAE,CAAC;YACnB,KAAK,SAAS;gBACZ,QAAQ,CAAC,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC;gBAC5B,MAAM;YACR,KAAK,OAAO;gBACV,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC;gBAC1B,MAAM;YACR,KAAK,QAAQ;gBACX,OAAO,CAAC,IAAI,CACV,GAAG,KAAK,CAAC,CAAC,IAAI,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,KAAK,GAAG,GAAG,CAAC,SAAS,KAAK,CAAC,CAAC,IAAI,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,GAAG,KAAK,CAAC,KAAK,CAAC,GAAG,GAAG,CAAC,IAAI,CACvG,CAAC;gBACF,MAAM;QACV,CAAC;IACH,CAAC;IAED,qCAAqC;IACrC,MAAM,KAAK,GAAa,EAAE,CAAC;IAC3B,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,KAAK,IAAI,CAAC,WAAW,GAAG,CAAC,CAAC;IAE7C,IAAI,QAAQ,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QACxB,KAAK,CAAC,IAAI,CAAC,WAAW,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;IAChD,CAAC;IACD,IAAI,MAAM,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QACtB,KAAK,CAAC,IAAI,CAAC,UAAU,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;IAC7C,CAAC;IACD,IAAI,OAAO,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QACvB,KAAK,CAAC,IAAI,CAAC,eAAe,OAAO,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;IACnD,CAAC;IAED,IAAI,KAAK,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QACrB,UAAU,CAAC,IAAI,CAAC;YACd,QAAQ;YACR,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC;YACrB,WAAW,EAAE,IAAI;SAClB,CAAC,CAAC;IACL,CAAC;IAED,OAAO,UAAU,CAAC;AACpB,CAAC;AAED;;GAEG;AACH,SAAS,iBAAiB,CAAC,IAAY,EAAE,IAAmB;IAC1D,IAAI,IAAI,CAAC,gBAAgB,KAAK,CAAC;QAAE,OAAO,EAAE,CAAC;IAE3C,MAAM,OAAO,GAAiB,EAAE,CAAC;IAEjC,KAAK,MAAM,KAAK,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;QAChC,IAAI,KAAK,CAAC,IAAI,KAAK,OAAO,EAAE,CAAC;YAC3B,OAAO,CAAC,IAAI,CAAC;gBACX,MAAM,EAAE,cAAc;gBACtB,MAAM,EAAE,KAAK,CAAC,MAAM;gBACpB,MAAM,EAAE,aAAa,IAAI,aAAa,KAAK,CAAC,MAAM,GAAG;gBACrD,WAAW,EAAE,IAAI;aAClB,CAAC,CAAC;QACL,CAAC;IACH,CAAC;IAED,OAAO,OAAO,CAAC;AACjB,CAAC;AAED;;GAEG;AACH,SAAS,WAAW,CAAC,IAAY,EAAE,IAAmB;IACpD,IAAI,IAAI,CAAC,gBAAgB,KAAK,CAAC;QAAE,OAAO,EAAE,CAAC;IAE3C,MAAM,KAAK,GAAuB,EAAE,CAAC;IAErC,KAAK,MAAM,KAAK,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;QAChC,IAAI,KAAK,CAAC,IAAI,KAAK,WAAW,EAAE,CAAC;YAC/B,KAAK,CAAC,IAAI,CAAC;gBACT,SAAS,EAAE,KAAK,CAAC,SAAS;gBAC1B,MAAM,EAAE,OAAO;gBACf,OAAO,EAAE,4BAA4B,KAAK,CAAC,SAAS,WAAW,IAAI,GAAG;gBACtE,WAAW,EAAE,IAAI;aAClB,CAAC,CAAC;QACL,CAAC;QAED,IAAI,KAAK,CAAC,IAAI,KAAK,OAAO,IAAI,KAAK,CAAC,QAAQ,KAAK,mBAAmB,EAAE,CAAC;YACrE,KAAK,CAAC,IAAI,CAAC;gBACT,SAAS,EAAE,KAAK,CAAC,MAAM;gBACvB,MAAM,EAAE,UAAU;gBAClB,OAAO,EAAE,oCAAoC,KAAK,CAAC,MAAM,WAAW,IAAI,GAAG;gBAC3E,WAAW,EAAE,IAAI;aAClB,CAAC,CAAC;QACL,CAAC;QAED,IAAI,KAAK,CAAC,IAAI,KAAK,OAAO,IAAI,KAAK,CAAC,QAAQ,KAAK,OAAO,EAAE,CAAC;YACzD,KAAK,CAAC,IAAI,CAAC;gBACT,SAAS,EAAE,KAAK,CAAC,MAAM;gBACvB,MAAM,EAAE,OAAO;gBACf,OAAO,EAAE,gCAAgC,KAAK,CAAC,MAAM,WAAW,IAAI,GAAG;gBACvE,WAAW,EAAE,IAAI;aAClB,CAAC,CAAC;QACL,CAAC;IACH,CAAC;IAED,OAAO,KAAK,CAAC;AACf,CAAC;AAED;;GAEG;AACH,SAAS,gBAAgB,CAAC,IAAY,EAAE,IAAmB;IACzD,IAAI,IAAI,CAAC,gBAAgB,KAAK,CAAC;QAAE,OAAO,EAAE,CAAC;IAE3C,MAAM,UAAU,GAA6B,EAAE,CAAC;IAEhD,KAAK,MAAM,KAAK,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;QAChC,IAAI,KAAK,CAAC,IAAI,KAAK,OAAO,IAAI,KAAK,CAAC,QAAQ,KAAK,qBAAqB,EAAE,CAAC;YACvE,UAAU,CAAC,IAAI,CAAC;gBACd,KAAK,EAAE,uBAAuB,KAAK,CAAC,MAAM,EAAE;gBAC5C,WAAW,EAAE,IAAI;aAClB,CAAC,CAAC;QACL,CAAC;QAED,IAAI,KAAK,CAAC,IAAI,KAAK,OAAO,IAAI,KAAK,CAAC,QAAQ,KAAK,uBAAuB,EAAE,CAAC;YACzE,UAAU,CAAC,IAAI,CAAC;gBACd,KAAK,EAAE,qBAAqB;gBAC5B,SAAS,EAAE,IAAI,CAAC,gBAAgB,IAAI,GAAG,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,GAAG;gBACnD,WAAW,EAAE,IAAI;aAClB,CAAC,CAAC;QACL,CAAC;IACH,CAAC;IAED,OAAO,UAAU,CAAC;AACpB,CAAC;AAED;;GAEG;AACH,MAAM,UAAU,UAAU,CAAC,SAAuB,EAAE,QAAsB;IACxE,MAAM,UAAU,GAAsB,EAAE,CAAC;IACzC,MAAM,WAAW,GAAiB,EAAE,CAAC;IACrC,MAAM,KAAK,GAAuB,EAAE,CAAC;IACrC,MAAM,UAAU,GAA6B,EAAE,CAAC;IAChD,MAAM,UAAU,GAAuB,EAAE,CAAC;IAE1C,KAAK,MAAM,CAAC,IAAI,EAAE,IAAI,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,SAAS,CAAC,KAAK,CAAC,EAAE,CAAC;QAC3D,UAAU,CAAC,IAAI,CAAC,GAAG,gBAAgB,CAAC,IAAI,EAAE,IAAI,CAAC,CAAC,CAAC;QACjD,WAAW,CAAC,IAAI,CAAC,GAAG,iBAAiB,CAAC,IAAI,EAAE,IAAI,CAAC,CAAC,CAAC;QACnD,KAAK,CAAC,IAAI,CAAC,GAAG,WAAW,CAAC,IAAI,EAAE,IAAI,CAAC,CAAC,CAAC;QACvC,UAAU,CAAC,IAAI,CAAC,GAAG,gBAAgB,CAAC,IAAI,EAAE,IAAI,CAAC,CAAC,CAAC;IACnD,CAAC;IAED,2BAA2B;IAC3B,IAAI,mBAAgD,CAAC;IACrD,IAAI,SAA+B,CAAC;IAEpC,IAAI,SAAS,CAAC,WAAW,IAAI,QAAQ,EAAE,KAAK,CAAC,SAAS,CAAC,WAAW,CAAC,EAAE,CAAC;QACpE,MAAM,IAAI,GAAG,QAAQ,CAAC,KAAK,CAAC,SAAS,CAAC,WAAW,CAAC,CAAC;QACnD,mBAAmB,GAAG,IAAI,CAAC,gBAAgB,CAAC;QAC5C,SAAS,GAAG,IAAI,CAAC,KAAK,CAAC;QAEvB,8CAA8C;QAC9C,IAAI,IAAI,CAAC,gBAAgB,EAAE,IAAI,EAAE,CAAC;YAChC,KAAK,MAAM,IAAI,IAAI,IAAI,CAAC,gBAAgB,CAAC,IAAI,EAAE,CAAC;gBAC9C,WAAW,CAAC,IAAI,CAAC;oBACf,MAAM,EAAE,QAAQ;oBAChB,MAAM,EAAE,IAAI;oBACZ,MAAM,EAAE,SAAS,SAAS,CAAC,WAAW,kBAAkB,IAAI,GAAG;oBAC/D,WAAW,EAAE,EAAE;oBACf,WAAW,EAAE,SAAS,CAAC,WAAW;iBACnC,CAAC,CAAC;YACL,CAAC;QACH,CAAC;QAED,IAAI,IAAI,CAAC,gBAAgB,EAAE,KAAK,EAAE,CAAC;YACjC,WAAW,CAAC,IAAI,CAAC;gBACf,MAAM,EAAE,MAAM;gBACd,MAAM,EAAE,SAAS,SAAS,CAAC,WAAW,iCAAiC;gBACvE,WAAW,EAAE,EAAE;gBACf,WAAW,EAAE,SAAS,CAAC,WAAW;aACnC,CAAC,CAAC;QACL,CAAC;IACH,CAAC;IAED,gDAAgD;IAChD,MAAM,aAAa,GAAqB,EAAE,CAAC;IAC3C,IAAI,QAAQ,EAAE,KAAK,EAAE,CAAC;QACpB,KAAK,MAAM,CAAC,IAAI,EAAE,IAAI,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,QAAQ,CAAC,KAAK,CAAC,EAAE,CAAC;YAC1D,IAAI,IAAI,CAAC,KAAK,IAAI,IAAI,CAAC,gBAAgB,EAAE,CAAC;gBACxC,aAAa,CAAC,IAAI,CAAC;oBACjB,SAAS,EAAE,IAAI;oBACf,KAAK,EAAE,IAAI,CAAC,KAAK,IAAI,EAAE;oBACvB,gBAAgB,EAAE,IAAI,CAAC,gBAAgB;iBACxC,CAAC,CAAC;YACL,CAAC;QACH,CAAC;IACH,CAAC;IAED,8BAA8B;IAC9B,MAAM,aAAa,GAAG,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,EAAE,CAAC,EAAE,GAAG,EAAE,CAAC,EAAE,CAAC;IACrD,UAAU,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,aAAa,CAAC,CAAC,CAAC,QAAQ,CAAC,GAAG,aAAa,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC;IAEjF,OAAO;QACL,iBAAiB,EAAE,UAAU;QAC7B,YAAY,EAAE,WAAW;QACzB,mBAAmB,EAAE,KAAK;QAC1B,yBAAyB,EAAE,UAAU;QACrC,kBAAkB,EAAE,UAAU;QAC9B,cAAc,EAAE,SAAS,CAAC,UAAU;QACpC,WAAW,EAAE,IAAI,IAAI,EAAE,CAAC,WAAW,EAAE;QACrC,cAAc,EAAE,SAAS,CAAC,cAAc,IAAI,SAAS;QACrD,WAAW,EAAE,SAAS,CAAC,WAAW,IAAI,SAAS;QAC/C,qBAAqB,EAAE,mBAAmB;QAC1C,UAAU,EAAE,SAAS;QACrB,eAAe,EAAE,aAAa,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,aAAa,CAAC,CAAC,CAAC,SAAS;KACtE,CAAC;AACJ,CAAC"}

package/dist/compiler/index.d.ts

@@ -0,0 +1,28 @@
+/**
+ * Intent DNA — Compiler
+ *
+ * Full compilation pipeline:
+ *   DNA files → parse → cascade → activate (+ epigenetic) → compile → IR
+ */
+import type { IntentDNA, ConstraintIR, EpigeneticMarker } from "../schema/types.js";
+export { cascadeDNA } from "./cascade.js";
+export { activateDNA } from "./activate.js";
+export { compileDNA } from "./compile.js";
+export { compileWorkflow } from "./workflow.js";
+export type { CompileWorkflowOptions, CompileWorkflowResult, CompileWorkflowError, } from "./workflow.js";
+/**
+ * Load and parse a DNA file from disk.
+ */
+export declare function loadDNA(filePath: string): Promise<IntentDNA>;
+export interface CompileOptions {
+    context?: string;
+    role?: string;
+    /** Additional epigenetic markers from evolution store */
+    epigenetic_markers?: EpigeneticMarker[];
+}
+/**
+ * Full compilation pipeline: load DNA files, cascade, activate context, compile to IR.
+ * Optionally injects stored epigenetic markers from the evolution engine.
+ */
+export declare function compileFromFiles(filePaths: string[], contextOrOptions?: string | CompileOptions): Promise<ConstraintIR>;
+//# sourceMappingURL=index.d.ts.map

package/dist/compiler/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/compiler/index.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAGH,OAAO,KAAK,EAAE,SAAS,EAAE,YAAY,EAAE,gBAAgB,EAAE,MAAM,oBAAoB,CAAC;AAOpF,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC1C,OAAO,EAAE,WAAW,EAAE,MAAM,eAAe,CAAC;AAC5C,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC1C,OAAO,EAAE,eAAe,EAAE,MAAM,eAAe,CAAC;AAChD,YAAY,EACV,sBAAsB,EACtB,qBAAqB,EACrB,oBAAoB,GACrB,MAAM,eAAe,CAAC;AAEvB;;GAEG;AACH,wBAAsB,OAAO,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,SAAS,CAAC,CAYlE;AAED,MAAM,WAAW,cAAc;IAC7B,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,yDAAyD;IACzD,kBAAkB,CAAC,EAAE,gBAAgB,EAAE,CAAC;CACzC;AAED;;;GAGG;AACH,wBAAsB,gBAAgB,CACpC,SAAS,EAAE,MAAM,EAAE,EACnB,gBAAgB,CAAC,EAAE,MAAM,GAAG,cAAc,GACzC,OAAO,CAAC,YAAY,CAAC,CAoBvB"}

package/dist/compiler/index.js

@@ -0,0 +1,51 @@
+/**
+ * Intent DNA — Compiler
+ *
+ * Full compilation pipeline:
+ *   DNA files → parse → cascade → activate (+ epigenetic) → compile → IR
+ */
+import { readFile } from "node:fs/promises";
+import { validateDNA } from "../schema/validate.js";
+import { parseYAML } from "../schema/yaml-parser.js";
+import { cascadeDNA } from "./cascade.js";
+import { activateDNA } from "./activate.js";
+import { compileDNA } from "./compile.js";
+export { cascadeDNA } from "./cascade.js";
+export { activateDNA } from "./activate.js";
+export { compileDNA } from "./compile.js";
+export { compileWorkflow } from "./workflow.js";
+/**
+ * Load and parse a DNA file from disk.
+ */
+export async function loadDNA(filePath) {
+    const raw = await readFile(filePath, "utf-8");
+    const isYAML = filePath.endsWith(".yaml") || filePath.endsWith(".yml");
+    const dna = (isYAML ? parseYAML(raw) : JSON.parse(raw));
+    const result = validateDNA(dna);
+    if (!result.valid) {
+        const messages = result.errors.map((e) => `  ${e.path}: ${e.message}`).join("\n");
+        throw new Error(`Invalid DNA file ${filePath}:\n${messages}`);
+    }
+    return dna;
+}
+/**
+ * Full compilation pipeline: load DNA files, cascade, activate context, compile to IR.
+ * Optionally injects stored epigenetic markers from the evolution engine.
+ */
+export async function compileFromFiles(filePaths, contextOrOptions) {
+    const opts = typeof contextOrOptions === "string"
+        ? { context: contextOrOptions }
+        : contextOrOptions ?? {};
+    const dnas = [];
+    for (const path of filePaths) {
+        dnas.push(await loadDNA(path));
+    }
+    const cascaded = cascadeDNA(dnas);
+    // Inject stored epigenetic markers if provided
+    if (opts.epigenetic_markers && opts.epigenetic_markers.length > 0) {
+        cascaded.epigenetic_markers.push(...opts.epigenetic_markers);
+    }
+    const activated = activateDNA(cascaded, opts.context ?? null, opts.role ?? null);
+    return compileDNA(activated, cascaded);
+}
+//# sourceMappingURL=index.js.map

package/dist/compiler/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/compiler/index.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,QAAQ,EAAE,MAAM,kBAAkB,CAAC;AAE5C,OAAO,EAAE,WAAW,EAAE,MAAM,uBAAuB,CAAC;AACpD,OAAO,EAAE,SAAS,EAAE,MAAM,0BAA0B,CAAC;AACrD,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC1C,OAAO,EAAE,WAAW,EAAE,MAAM,eAAe,CAAC;AAC5C,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAE1C,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC1C,OAAO,EAAE,WAAW,EAAE,MAAM,eAAe,CAAC;AAC5C,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC1C,OAAO,EAAE,eAAe,EAAE,MAAM,eAAe,CAAC;AAOhD;;GAEG;AACH,MAAM,CAAC,KAAK,UAAU,OAAO,CAAC,QAAgB;IAC5C,MAAM,GAAG,GAAG,MAAM,QAAQ,CAAC,QAAQ,EAAE,OAAO,CAAC,CAAC;IAC9C,MAAM,MAAM,GAAG,QAAQ,CAAC,QAAQ,CAAC,OAAO,CAAC,IAAI,QAAQ,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;IACvE,MAAM,GAAG,GAAG,CAAC,MAAM,CAAC,CAAC,CAAC,SAAS,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAc,CAAC;IAErE,MAAM,MAAM,GAAG,WAAW,CAAC,GAAG,CAAC,CAAC;IAChC,IAAI,CAAC,MAAM,CAAC,KAAK,EAAE,CAAC;QAClB,MAAM,QAAQ,GAAG,MAAM,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,KAAK,CAAC,CAAC,IAAI,KAAK,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QAClF,MAAM,IAAI,KAAK,CAAC,oBAAoB,QAAQ,MAAM,QAAQ,EAAE,CAAC,CAAC;IAChE,CAAC;IAED,OAAO,GAAG,CAAC;AACb,CAAC;AASD;;;GAGG;AACH,MAAM,CAAC,KAAK,UAAU,gBAAgB,CACpC,SAAmB,EACnB,gBAA0C;IAE1C,MAAM,IAAI,GAAmB,OAAO,gBAAgB,KAAK,QAAQ;QAC/D,CAAC,CAAC,EAAE,OAAO,EAAE,gBAAgB,EAAE;QAC/B,CAAC,CAAC,gBAAgB,IAAI,EAAE,CAAC;IAE3B,MAAM,IAAI,GAAgB,EAAE,CAAC;IAE7B,KAAK,MAAM,IAAI,IAAI,SAAS,EAAE,CAAC;QAC7B,IAAI,CAAC,IAAI,CAAC,MAAM,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC;IACjC,CAAC;IAED,MAAM,QAAQ,GAAG,UAAU,CAAC,IAAI,CAAC,CAAC;IAElC,+CAA+C;IAC/C,IAAI,IAAI,CAAC,kBAAkB,IAAI,IAAI,CAAC,kBAAkB,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QAClE,QAAQ,CAAC,kBAAkB,CAAC,IAAI,CAAC,GAAG,IAAI,CAAC,kBAAkB,CAAC,CAAC;IAC/D,CAAC;IAED,MAAM,SAAS,GAAG,WAAW,CAAC,QAAQ,EAAE,IAAI,CAAC,OAAO,IAAI,IAAI,EAAE,IAAI,CAAC,IAAI,IAAI,IAAI,CAAC,CAAC;IACjF,OAAO,UAAU,CAAC,SAAS,EAAE,QAAQ,CAAC,CAAC;AACzC,CAAC"}