pmem-ai 0.7.0 → 0.7.1

package/README.md

@@ -240,6 +240,12 @@ pmem distill --suggest
 pmem verify
 ```
 
+Alternatively, you can run the one-command sync and update shortcut (v0.7.1):
+
+```bash
+pmem sync -s "<summary>" -n "<next step>"
+```
+
 `distill` consolidates trace cards into stable cards when enough evidence accumulates.
 
 ### Domain Presets & Custom Schema
@@ -303,15 +309,19 @@ pmem ask "<task or module>" --format compact
 After editing files:
 
 ```bash
+# Recommended shortcut:
+pmem sync -s "<what changed>" -n "<next step>"
+
+# Or manual update flow:
 pmem status --format json
 pmem mark-dirty --auto
 pmem update --suggest --format json
+pmem update --confirm -s "<what changed>" -n "<next step>"
 ```
 
 At session end:
 
 ```bash
-pmem update --confirm -s "<what changed>" -n "<next step>"
 pmem session end -s "<task summary>"
 pmem verify
 ```
@@ -325,29 +335,33 @@ Installed integration templates are available under:
 ## CLI Reference
 
 ```bash
-pmem init [project-name] [--guided] [--domain software|novel|research]
+pmem init [project-name] [--guided] [--description <text>] [--stage <text>] [--next <text>] [--answers <path>] [--domain software|novel|research]
 
-pmem recall [--budget N] [--format compact|json|paths|pack]
+pmem recall [--budget N] [--format compact|json|paths|pack] [--since <duration>]
 pmem ask <query> [--format compact|json|paths|pack]
-pmem discover [--dry-run] [--format compact|json] [--min-confidence 0.5]
+pmem discover [--dry-run] [--format compact|json] [--min-confidence <n>]
               [--lang auto|nodejs,python,rust,go,cpp,java]
-              [--pattern-file custom.json]
-pmem related <id> [--depth N] [--type <edge-type>] [--format compact|json] [--source explicit|inferred|all]
+              [--pattern-file <path>]
+pmem related <id> [--depth N] [--type <edge-type>] [--format compact|json] [--source explicit|inferred|mention|all]
 pmem trace <id>
 
 pmem status [--since <timestamp>] [--format compact|json]
 pmem mark-dirty [-r <reason>] [--auto]
-pmem update [--auto|--suggest|--apply-suggestion <id>|--confirm|--force] \
-  [-s <summary>] [-n <next>] [--format compact|json]
-  [--accept-edges <ids>] [--reject-edges <ids>]
-
-pmem distill [--suggest|--apply-suggestion <id>|--confirm|--suggest-splits]
-pmem rebuild [--changed|--full|--card <id>]
-pmem verify [--fix]
-pmem migrate --to 0.3 [--dry-run] [--backup]
+pmem update [--auto] [--suggest] [--apply-suggestion <id>] [--confirm] [--force]
+            [-s <summary>] [-n <next>] [--format compact|json] [--include-history]
+            [--accept-edges <ids>] [--reject-edges <ids>]
+
+pmem distill [--suggest] [--confirm] [--apply-suggestion <id>] [--suggest-splits]
+pmem rebuild [--changed] [--full] [--card <id>]
+pmem verify [--fix] [--fix-locks] [--relaxed]
+pmem doctor [--format compact|json]
+pmem new <type> <title>
+pmem rename --find <pattern> --replace <replacement> [--write]
+pmem migrate [--to <version>] [--dry-run] [--backup]
 pmem session start [-a <agent-name>]
 pmem session end [-s <summary>]
 pmem integration list|install <framework>|verify
+pmem install [--skills] [--claude] [--codex] [--gemini] [--all]
 ```
 
 ## Exit Codes

package/dist/commands/init.d.ts

@@ -8,6 +8,7 @@ export interface DomainPreset {
     creatable_types: string[];
     max_tokens?: Record<string, number>;
     max_sections?: Record<string, number>;
+    warn_when_related_count_gt_by_type?: Record<string, number>;
 }
 export declare const DOMAIN_PRESETS: Record<string, DomainPreset>;
 export declare function initCommand(options: {

package/dist/commands/init.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"init.d.ts","sourceRoot":"","sources":["../../src/commands/init.ts"],"names":[],"mappings":"AAOA,MAAM,WAAW,YAAY;IAC3B,MAAM,EAAE,MAAM,CAAC;IACf,UAAU,EAAE,MAAM,EAAE,CAAC;IACrB,SAAS,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAClC,kBAAkB,EAAE,MAAM,EAAE,CAAC;IAC7B,cAAc,EAAE,MAAM,EAAE,CAAC;IACzB,YAAY,EAAE,MAAM,CAAC;IACrB,eAAe,EAAE,MAAM,EAAE,CAAC;IAC1B,UAAU,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACpC,YAAY,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACtC,kCAAkC,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CAC7D;AAED,eAAO,MAAM,cAAc,EAAE,MAAM,CAAC,MAAM,EAAE,YAAY,CA8DvD,CAAC;AAuZF,wBAAsB,WAAW,CAAC,OAAO,EAAE;IACzC,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,MAAM,CAAC,EAAE,MAAM,CAAC;CACjB,GAAG,OAAO,CAAC,IAAI,CAAC,CA+ShB"}

package/dist/commands/init.js

@@ -626,6 +626,9 @@ async function initCommand(options) {
     if (preset.max_sections) {
         manifest.card_policy.max_sections = preset.max_sections;
     }
+    if (preset.warn_when_related_count_gt_by_type) {
+        manifest.card_policy.warn_when_related_count_gt_by_type = preset.warn_when_related_count_gt_by_type;
+    }
     // Phase 4: discover default disable & domain-neutral ignores
     manifest.discover = {
         enabled: domain === 'software'

package/dist/commands/init.js.map

@@ -1 +1 @@
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package/dist/commands/integration.js

@@ -59,17 +59,15 @@ pmem ask "<task or module>" --format compact
 ## After Editing Code
 
 \`\`\`bash
-pmem status --format json
-pmem mark-dirty --auto
-pmem update --suggest --format json
-\`\`\`
+# Recommended: sync changes in one command
+pmem sync -s "<what changed>" -n "<next step>"
 
-\`pmem update --suggest\` outputs JSON with \`summary.has_actionable\` for agent decision-making.
+# Or manual: pmem status --format json && pmem mark-dirty --auto && pmem update --suggest
+\`\`\`
 
 ## Session End
 
 \`\`\`bash
-pmem update --confirm -s "<what changed>" -n "<next step>"
 pmem session end -s "<task summary>"
 pmem verify
 \`\`\`
@@ -103,7 +101,8 @@ Use this before working on a specific module or task to load relevant decisions
 `;
 const SLASH_UPDATE = `Detect code changes and update project memory.
 
-Runs the full update workflow:
+Runs the full update workflow (or run \`pmem sync -s "<summary>" -n "<next>"\` directly).
+Manual flow:
 1. \`pmem status --format json\` to detect changed files
 2. \`pmem mark-dirty --auto\` to mark affected cards
 3. \`pmem update --suggest --format json\` to get suggestions
@@ -129,7 +128,7 @@ Before working:
 - Run \`pmem ask "<task>"\` if the task is specific
 
 After working:
-- Run \`pmem update --auto\`
+- Run \`pmem sync -s "<what changed>" -n "<next step>"\` (or use manual status/dirty/update flow)
 - Run \`pmem verify\`
 
 Periodically:
@@ -140,7 +139,7 @@ const CODEX_AGENTS_TEMPLATE = `# Codex Instructions
 This project uses pmem.
 
 Before work: run \`pmem recall --budget 2000\`.
-After work: run \`pmem update\`.
+After work: run \`pmem sync -s "<summary>" -n "<next>"\` or \`pmem update\`.
 
 ## Commands
 
@@ -148,6 +147,7 @@ To invoke pmem from Codex, run the following commands:
 
 - \`pmem recall --format compact --budget 2000\` — recall project memory context
 - \`pmem ask "<query>" --format compact\` — search for a specific topic
+- \`pmem sync -s "<summary>" -n "<next>"\` — sync and update memory in one command
 - \`pmem update --auto\` — detect changes and update memory
 - \`pmem distill --suggest\` — consolidate work traces into stable memory cards
 `;
@@ -375,7 +375,7 @@ function installIntegration(pmemPath, manifest, framework) {
     console.log(`✓ Integration "${framework}" installed.`);
     console.log(`  Template: .pmem/integrations/${framework}/`);
 }
-const CURRENT_TEMPLATE_VERSION = '0.7.0';
+const CURRENT_TEMPLATE_VERSION = '0.7.1';
 function verifyIntegrations(pmemPath, manifest) {
     if (!manifest)
         return;

package/dist/commands/integration.js.map

@@ -1 +1 @@
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package/dist/commands/rebuild.d.ts

@@ -4,5 +4,12 @@ interface RebuildOptions {
     card?: string;
 }
 export declare function rebuildCommand(options?: RebuildOptions): void;
+/**
+ * Extract [[card-id]] wikilink references from markdown body text.
+ * Matches standard pmem card ID patterns: type.name (e.g. [[character.zero]],
+ * [[module.auth]], [[decision.jwt_tokens]]).
+ * Returns deduplicated array of card IDs.
+ */
+export declare function extractWikilinks(bodyText: string): string[];
 export {};
 //# sourceMappingURL=rebuild.d.ts.map

package/dist/commands/rebuild.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"rebuild.d.ts","sourceRoot":"","sources":["../../src/commands/rebuild.ts"],"names":[],"mappings":"AAWA,UAAU,cAAc;IACtB,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,IAAI,CAAC,EAAE,OAAO,CAAC;IACf,IAAI,CAAC,EAAE,MAAM,CAAC;CACf;AASD,wBAAgB,cAAc,CAAC,OAAO,GAAE,cAAmB,GAAG,IAAI,CA8TjE"}
+{"version":3,"file":"rebuild.d.ts","sourceRoot":"","sources":["../../src/commands/rebuild.ts"],"names":[],"mappings":"AAWA,UAAU,cAAc;IACtB,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,IAAI,CAAC,EAAE,OAAO,CAAC;IACf,IAAI,CAAC,EAAE,MAAM,CAAC;CACf;AASD,wBAAgB,cAAc,CAAC,OAAO,GAAE,cAAmB,GAAG,IAAI,CAmajE;AA8BD;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,QAAQ,EAAE,MAAM,GAAG,MAAM,EAAE,CAQ3D"}

package/dist/commands/rebuild.js

@@ -34,6 +34,7 @@ var __importStar = (this && this.__importStar) || (function () {
 })();
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.rebuildCommand = rebuildCommand;
+exports.extractWikilinks = extractWikilinks;
 const path = __importStar(require("path"));
 const fs = __importStar(require("fs"));
 const fs_1 = require("../core/fs");
@@ -63,6 +64,7 @@ function rebuildCommand(options = {}) {
     // Number of active sessions preserved by the --full snapshot+restore
     // (set inside doRebuild transaction, read after).
     let preservedSessions = 0;
+    let preservedEdges = 0;
     if (isFull) {
         // v0.6.4 polish 5: preserve active sessions across `rebuild --full`.
         // `clearAllTables` wipes the sessions table, but sessions are runtime
@@ -118,6 +120,15 @@ function rebuildCommand(options = {}) {
     let processed = 0;
     let skipped = 0;
     let updated = 0;
+    let snappedEdges = [];
+    // Pre-scan all card IDs for wikilink validation (so [[card-id]] refs
+    // resolve even when the target card hasn't been processed yet)
+    const validCardIds = new Set();
+    for (const file of cardFiles) {
+        const parsed = parseCard(file);
+        if (parsed)
+            validCardIds.add(parsed.frontmatter.id);
+    }
     // Wrap all per-card SQLite writes in a single transaction for performance
     const doRebuild = db.transaction(() => {
         if (isFull) {
@@ -125,6 +136,9 @@ function rebuildCommand(options = {}) {
                 .prepare("SELECT id, agent_name, started_at, ended_at, task_summary, base_index_hash, status, dirty FROM sessions WHERE ended_at IS NULL")
                 .all();
             preservedSessions = activeSessions.length;
+            const allEdges = db
+                .prepare("SELECT from_id, to_id, type, source, confidence, created_at, updated_at FROM edges")
+                .all();
             (0, db_1.clearAllTables)(db);
             if (activeSessions.length > 0) {
                 const restore = db.prepare("INSERT INTO sessions (id, agent_name, started_at, ended_at, task_summary, base_index_hash, status, dirty) VALUES (?, ?, ?, ?, ?, ?, ?, ?)");
@@ -132,6 +146,8 @@ function rebuildCommand(options = {}) {
                     restore.run(s.id, s.agent_name, s.started_at, s.ended_at, s.task_summary, s.base_index_hash, s.status, s.dirty);
                 }
             }
+            // Store snapped edges for later restoration (after rebuild loop)
+            snappedEdges = allEdges;
         }
         for (const file of cardFiles) {
             const parsed = parseCard(file);
@@ -155,7 +171,7 @@ function rebuildCommand(options = {}) {
                 aliases: fm.aliases,
             });
             // Build legacy graph edges (always, for backward compat output)
-            collectLegacyEdges(fm, edges);
+            collectLegacyEdges(fm, parsed.bodyText, validCardIds, edges);
             // Compute content hashes
             const hashes = (0, hash_1.computeCardHashes)(parsed.fullContent, parsed.frontmatterText, parsed.bodyText);
             // In --changed mode, skip cards whose hashes match what's in SQLite
@@ -201,8 +217,9 @@ function rebuildCommand(options = {}) {
                 is_candidate: isCandidate,
             };
             (0, db_1.upsertCard)(db, cardRow);
-            // Clear existing explicit relations before re-inserting (preserve inferred edges)
+            // Clear existing explicit and mention relations before re-inserting (preserve inferred edges)
             (0, db_1.deleteExplicitCardEdges)(db, fm.id);
+            (0, db_1.deleteMentionEdges)(db, fm.id);
             (0, db_1.deleteCardAliases)(db, fm.id);
             (0, db_1.deleteCardTags)(db, fm.id);
             (0, db_1.deleteCardPaths)(db, fm.id);
@@ -272,10 +289,53 @@ function rebuildCommand(options = {}) {
                     }
                 }
             }
+            // Mention edges: [[card-id]] wikilinks in card body → references edges
+            const wikilinks = extractWikilinks(parsed.bodyText);
+            for (const target of wikilinks) {
+                // Only create edges for card IDs that actually exist
+                if (validCardIds.has(target) && target !== fm.id) {
+                    const edgeRow = {
+                        from_id: fm.id,
+                        to_id: target,
+                        type: 'references',
+                        source: 'mention',
+                        confidence: 1.0,
+                        created_at: now,
+                        updated_at: now,
+                    };
+                    (0, db_1.insertEdge)(db, edgeRow);
+                }
+            }
         }
     });
     // Execute all SQLite writes in a single transaction
     doRebuild();
+    // v0.7.0-a: restore manually inserted edges that were not re-created
+    // by the rebuild loop (preserved across --full rebuilds)
+    if (isFull && snappedEdges.length > 0) {
+        const restoreEdgeTx = db.transaction(() => {
+            // Build set of current edge keys: "from_id|to_id|type|source"
+            const currentKeys = new Set();
+            const currentEdges = db.prepare("SELECT from_id, to_id, type, source FROM edges").all();
+            for (const e of currentEdges) {
+                currentKeys.add(`${e.from_id}|${e.to_id}|${e.type}|${e.source}`);
+            }
+            const restoreStmt = db.prepare("INSERT OR IGNORE INTO edges (from_id, to_id, type, source, confidence, created_at, updated_at) VALUES (?, ?, ?, ?, ?, ?, ?)");
+            let restoredCount = 0;
+            const now = new Date().toISOString();
+            for (const e of snappedEdges) {
+                const key = `${e.from_id}|${e.to_id}|${e.type}|${e.source}`;
+                if (!currentKeys.has(key)) {
+                    restoreStmt.run(e.from_id, e.to_id, e.type, e.source, e.confidence, e.created_at ?? now, e.updated_at ?? now);
+                    restoredCount++;
+                }
+            }
+            if (restoredCount > 0) {
+                preservedEdges = restoredCount;
+            }
+        });
+        restoreEdgeTx();
+    }
     // Create FTS5 virtual table for full-text search (outside transaction)
     (0, db_1.createFTS5)(db);
     // Write legacy graph.json for backward compatibility
@@ -299,15 +359,21 @@ function rebuildCommand(options = {}) {
     (0, fs_1.ensureDir)(indexesDir);
     (0, fs_1.writeJson)(path.join(indexesDir, 'graph.json'), graphIndex);
     // Output summary
+    const preservedParts = [];
+    if (preservedSessions > 0)
+        preservedParts.push(`${preservedSessions} session${preservedSessions === 1 ? '' : 's'}`);
+    if (preservedEdges > 0)
+        preservedParts.push(`${preservedEdges} edge${preservedEdges === 1 ? '' : 's'}`);
+    const preservedLabel = preservedParts.length > 0 ? ` (preserved ${preservedParts.join(', ')})` : '';
     const modeLabel = isFull
-        ? preservedSessions > 0
-            ? `Full rebuild (preserved ${preservedSessions} session${preservedSessions === 1 ? '' : 's'})`
-            : 'Full rebuild'
+        ? `Full rebuild${preservedLabel}`
         : isSingleCard
             ? `Single card: ${options.card}`
             : 'Incremental rebuild';
+    // Count actual edges from the SQLite edges table (includes explicit + inferred + mention)
+    const dbEdgeCount = db.prepare("SELECT COUNT(*) as cnt FROM edges").get().cnt;
     console.log(`${modeLabel}: ${processed} cards processed, ${skipped} skipped (hash match), ${updated} updated`);
-    console.log(`Graph: ${nodes.length} nodes, ${edges.length} edges`);
+    console.log(`Graph: ${nodes.length} nodes, ${dbEdgeCount} edges`);
     (0, db_1.closeDatabase)();
 }
 /**
@@ -335,8 +401,23 @@ function extractTitle(bodyText) {
     const match = bodyText.match(/^#\s+(.+)$/m);
     return match ? match[1].trim() : null;
 }
+/**
+ * Extract [[card-id]] wikilink references from markdown body text.
+ * Matches standard pmem card ID patterns: type.name (e.g. [[character.zero]],
+ * [[module.auth]], [[decision.jwt_tokens]]).
+ * Returns deduplicated array of card IDs.
+ */
+function extractWikilinks(bodyText) {
+    const wikilinkPattern = /\[\[([a-z][a-z0-9._-]+)\]\]/g;
+    const ids = new Set();
+    let match;
+    while ((match = wikilinkPattern.exec(bodyText)) !== null) {
+        ids.add(match[1]);
+    }
+    return Array.from(ids);
+}
 /** Build legacy GraphEdge entries from a card's frontmatter (for backward-compat graph.json). */
-function collectLegacyEdges(fm, edges) {
+function collectLegacyEdges(fm, bodyText, validCardIds, edges) {
     if (fm.depends_on) {
         for (const target of fm.depends_on) {
             edges.push({ from: fm.id, to: target, type: 'depends_on' });
@@ -355,6 +436,13 @@ function collectLegacyEdges(fm, edges) {
             }
         }
     }
+    // Wikilink edges: [[card-id]] in body → references
+    const wikilinks = extractWikilinks(bodyText);
+    for (const target of wikilinks) {
+        if (validCardIds.has(target) && target !== fm.id) {
+            edges.push({ from: fm.id, to: target, type: 'references', derived: false });
+        }
+    }
 }
 /**
  * Resolve the updated_at timestamp using the time-source priority chain:

package/dist/commands/rebuild.js.map

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package/dist/commands/status.d.ts

@@ -1,5 +1,15 @@
+export interface RelatedCardRef {
+    card_id: string;
+    match_type: string;
+}
+export interface FileChange {
+    path: string;
+    status: string;
+    relatedCards: RelatedCardRef[];
+}
 export declare function statusCommand(options: {
     since?: string;
     format?: string;
 }): void;
+export declare function getChangedFiles(cwd: string, since?: string): FileChange[];
 //# sourceMappingURL=status.d.ts.map

package/dist/commands/status.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"status.d.ts","sourceRoot":"","sources":["../../src/commands/status.ts"],"names":[],"mappings":"AA2DA,wBAAgB,aAAa,CAAC,OAAO,EAAE;IAAE,KAAK,CAAC,EAAE,MAAM,CAAC;IAAC,MAAM,CAAC,EAAE,MAAM,CAAA;CAAE,GAAG,IAAI,CAoJhF"}
+{"version":3,"file":"status.d.ts","sourceRoot":"","sources":["../../src/commands/status.ts"],"names":[],"mappings":"AAkBA,MAAM,WAAW,cAAc;IAC7B,OAAO,EAAE,MAAM,CAAC;IAChB,UAAU,EAAE,MAAM,CAAC;CACpB;AAED,MAAM,WAAW,UAAU;IACzB,IAAI,EAAE,MAAM,CAAC;IACb,MAAM,EAAE,MAAM,CAAC;IACf,YAAY,EAAE,cAAc,EAAE,CAAC;CAChC;AAgCD,wBAAgB,aAAa,CAAC,OAAO,EAAE;IAAE,KAAK,CAAC,EAAE,MAAM,CAAC;IAAC,MAAM,CAAC,EAAE,MAAM,CAAA;CAAE,GAAG,IAAI,CAwJhF;AAaD,wBAAgB,eAAe,CAAC,GAAG,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,MAAM,GAAG,UAAU,EAAE,CA0DzE"}