pmem-ai 0.6.0 → 0.6.1

package/CHANGELOG.md

@@ -2,6 +2,30 @@
 
 All notable changes to pmem are documented here.
 
+## 0.6.1 - Actionable Update Suggestions
+
+### Added
+
+- Aggregate duplicate `update --suggest` items by `target + reason + matched_file`, with counts and `sources` arrays.
+- Split suggestion output into `blocking_for_verify`, `current_suggestions`, and `historical_dirty_flags` groups.
+- Add machine-readable severity metadata per suggestion: `severity`, `blocks_verify`, `is_duplicate`, `is_historical`.
+- Compact output summarizing affected cards, blocking issues, hidden duplicates, and hidden history.
+- `--include-history` flag to inspect historical dirty flags that are hidden by default.
+- Shared `checkStaleMemory()` in `src/core/consistency.ts`, aligning `update --suggest` with `pmem verify`.
+- Structured JSON output with `summary`, `message`, `next_steps`, and `groups` for agent decision-making.
+- v0.6.1 E2E test suite covering duplicate aggregation, historical hiding, include-history, missing DB, and blocking groups.
+
+### Changed
+
+- `update --suggest --format json` output restructured from flat arrays to `summary` + `groups`.
+- `pmem verify` stale-memory check now delegates to shared `checkStaleMemory()` from `consistency.ts`.
+- `update --suggest` exit code: only hidden historical items return 0; missing/corrupt DB returns 2 (runtime error).
+
+### Fixed
+
+- Long-term projects no longer see repeated dirty flags and historical suggestions flooding `update --suggest` output.
+- `pmem verify` 100/100 and `update --suggest` now semantically aligned — verify-clean projects see "No blocking memory consistency issues."
+
 ## 0.6.0 - Agent-native Workflow Polish
 
 ### Added

package/dist/commands/update.d.ts

@@ -7,6 +7,7 @@ export declare function updateCommand(options: {
     suggest?: boolean;
     applySuggestion?: string;
     format?: string;
+    includeHistory?: boolean;
 }): void;
 export declare function markDirtyCommand(reason: string, options?: {
     auto?: boolean;

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

@@ -1 +1 @@
-{"version":3,"file":"update.d.ts","sourceRoot":"","sources":["../../src/commands/update.ts"],"names":[],"mappings":"AAUA,wBAAgB,aAAa,CAAC,OAAO,EAAE;IACrC,IAAI,CAAC,EAAE,OAAO,CAAC;IACf,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,KAAK,CAAC,EAAE,OAAO,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,MAAM,CAAC,EAAE,MAAM,CAAC;CACjB,GAAG,IAAI,CAyCP;AAED,wBAAgB,gBAAgB,CAAC,MAAM,EAAE,MAAM,EAAE,OAAO,GAAE;IAAE,IAAI,CAAC,EAAE,OAAO,CAAA;CAAO,GAAG,IAAI,CA8FvF"}
+{"version":3,"file":"update.d.ts","sourceRoot":"","sources":["../../src/commands/update.ts"],"names":[],"mappings":"AAaA,wBAAgB,aAAa,CAAC,OAAO,EAAE;IACrC,IAAI,CAAC,EAAE,OAAO,CAAC;IACf,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,KAAK,CAAC,EAAE,OAAO,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,cAAc,CAAC,EAAE,OAAO,CAAC;CAC1B,GAAG,IAAI,CAyCP;AAED,wBAAgB,gBAAgB,CAAC,MAAM,EAAE,MAAM,EAAE,OAAO,GAAE;IAAE,IAAI,CAAC,EAAE,OAAO,CAAA;CAAO,GAAG,IAAI,CA8FvF"}

package/dist/commands/update.js

@@ -42,6 +42,7 @@ const manifest_1 = require("../core/manifest");
 const rebuild_1 = require("./rebuild");
 const db_1 = require("../core/db");
 const git_1 = require("../core/git");
+const consistency_1 = require("../core/consistency");
 const PMEM_DIR = '.pmem';
 function updateCommand(options) {
     const cwd = process.cwd();
@@ -57,7 +58,7 @@ function updateCommand(options) {
     }
     // --suggest: show intelligent update suggestions
     if (options.suggest) {
-        suggestActions(pmemPath, options.format);
+        suggestActions(pmemPath, options.format, options.includeHistory);
         return;
     }
     // --apply-suggestion: apply a specific suggestion
@@ -358,132 +359,301 @@ function listSourceFiles(root) {
     walk(root);
     return results;
 }
-function generateSuggestions(pmemPath) {
+/**
+ * Extract the matched file path from a dirty flag reason string.
+ * Handles formats like "file_changed: path/to/file" or plain text.
+ */
+function extractMatchedFile(reason) {
+    const match = reason.match(/^file_changed:\s*(.+)/);
+    if (match) {
+        return match[1].trim();
+    }
+    return null;
+}
+/**
+ * Build the aggregation key for a dirty flag: target + reason + matched_file.
+ */
+function aggregationKey(flag) {
+    const mf = extractMatchedFile(flag.reason);
+    return `${flag.target}||${flag.reason}||${mf ?? ''}`;
+}
+/**
+ * Find the most recent session end time.
+ * Returns null if no ended session exists.
+ */
+function getLatestSessionEnd(pmemPath) {
+    try {
+        const db = (0, db_1.openDatabase)(pmemPath);
+        const row = db.prepare("SELECT ended_at FROM sessions WHERE ended_at IS NOT NULL ORDER BY ended_at DESC LIMIT 1").get();
+        return row?.ended_at ?? null;
+    }
+    catch {
+        return null;
+    }
+}
+/**
+ * Get the active (un-ended) session if one exists.
+ */
+function getActiveSessionStart(pmemPath) {
+    try {
+        const db = (0, db_1.openDatabase)(pmemPath);
+        const row = db.prepare("SELECT started_at FROM sessions WHERE ended_at IS NULL ORDER BY started_at DESC LIMIT 1").get();
+        return row?.started_at ?? null;
+    }
+    catch {
+        return null;
+    }
+}
+function generateSuggestions(pmemPath, includeHistory = false) {
     const dbPath = path.join(pmemPath, 'pmem.db');
     if (!(0, fs_1.fileExists)(dbPath)) {
-        console.log('No SQLite database. Run pmem rebuild first.');
-        process.exit(2);
+        return {
+            summary: { affected_cards: 0, blocking: 0, warning: 0, info: 0, duplicates_hidden: 0, historical_hidden: 0, verify_blocking: false },
+            message: 'No SQLite database. Run pmem rebuild first.',
+            next_steps: ['Run `pmem rebuild` to create the database index.'],
+            groups: { blocking_for_verify: [], current_suggestions: [], historical_dirty_flags: [] },
+            error: true,
+        };
     }
     let db;
     try {
         db = (0, db_1.openDatabase)(pmemPath);
     }
     catch {
-        console.log('No SQLite database. Run pmem rebuild first.');
-        process.exit(2);
+        return {
+            summary: { affected_cards: 0, blocking: 0, warning: 0, info: 0, duplicates_hidden: 0, historical_hidden: 0, verify_blocking: false },
+            message: 'Cannot open database. Run pmem rebuild first.',
+            next_steps: ['Run `pmem rebuild` to recreate the database.'],
+            groups: { blocking_for_verify: [], current_suggestions: [], historical_dirty_flags: [] },
+            error: true,
+        };
     }
-    const unresolved = (0, db_1.getUnresolvedDirtyFlags)(db);
-    const suggestions = [];
-    // Card-level dirty flags → update_card suggestions
-    for (const flag of unresolved) {
-        if (flag.scope === 'card') {
-            suggestions.push({
-                id: `suggest-${suggestions.length + 1}`,
-                action: 'update_card',
-                target: flag.target,
-                reason: flag.reason,
-                priority: 'high',
-            });
-        }
-    }
-    // Project-level dirty → create_trace or confirm suggestions
-    for (const flag of unresolved) {
-        if (flag.scope === 'project') {
-            suggestions.push({
-                id: `suggest-${suggestions.length + 1}`,
-                action: 'create_trace',
-                target: flag.target,
-                reason: flag.reason,
-                priority: 'medium',
-            });
+    // 1. Get raw dirty flags with full details
+    const allFlags = (0, db_1.getUnresolvedDirtyFlagsDetailed)(db);
+    // 2. Run shared stale-memory consistency check
+    const staleIssues = (0, consistency_1.checkStaleMemory)(pmemPath);
+    // Build lookup: card_id → set of stale file paths
+    const staleByCard = new Map();
+    for (const issue of staleIssues) {
+        if (issue.card_id) {
+            if (!staleByCard.has(issue.card_id)) {
+                staleByCard.set(issue.card_id, new Set());
+            }
+            if (issue.file_path) {
+                staleByCard.get(issue.card_id).add(issue.file_path);
+            }
         }
     }
-    // Check state.md freshness
-    let stateFreshness = 'fresh';
-    const statePath = path.join(pmemPath, 'state.md');
-    if ((0, fs_1.fileExists)(statePath)) {
-        const fs = require('fs');
-        const stat = fs.statSync(statePath);
-        const hoursSinceUpdate = (Date.now() - stat.mtimeMs) / (1000 * 60 * 60);
-        if (hoursSinceUpdate > 24) {
-            stateFreshness = 'stale';
+    // 3. Aggregate dirty flags by target + reason + matched_file
+    const groups = new Map();
+    for (const flag of allFlags) {
+        const key = aggregationKey(flag);
+        if (!groups.has(key)) {
+            groups.set(key, []);
         }
+        groups.get(key).push(flag);
     }
-    if (stateFreshness === 'stale') {
-        suggestions.push({
-            id: `suggest-${suggestions.length + 1}`,
-            action: 'update_state',
-            target: 'state.md',
-            reason: 'state.md has not been updated in over 24 hours',
-            priority: 'medium',
-        });
+    // 4. Get session boundaries for historical classification
+    const latestSessionEnd = getLatestSessionEnd(pmemPath);
+    const activeSessionStart = getActiveSessionStart(pmemPath);
+    const sessionBoundary = latestSessionEnd || activeSessionStart;
+    // 5. Get total card count for affected_cards
+    const cardCount = getCardCount(pmemPath);
+    // 6. Classify each aggregated group
+    const blockingForVerify = [];
+    const currentSuggestions = [];
+    const historicalDirtyFlags = [];
+    for (const [key, flags] of groups) {
+        const representative = flags[0];
+        const matchedFile = extractMatchedFile(representative.reason);
+        // Determine if this group blocks verify
+        let blocksVerify = false;
+        if (representative.scope === 'card' && staleByCard.has(representative.target)) {
+            const staleFiles = staleByCard.get(representative.target);
+            if (matchedFile && staleFiles.has(matchedFile)) {
+                blocksVerify = true;
+            }
+            else if (!matchedFile) {
+                // Card is in stale list, even if we can't match the specific file
+                blocksVerify = true;
+            }
+        }
+        // Determine severity
+        let severity;
+        if (blocksVerify) {
+            severity = 'blocking';
+        }
+        else if (representative.scope === 'card') {
+            severity = 'warning';
+        }
+        else {
+            severity = 'info';
+        }
+        // Historical classification
+        const allCreatedAts = flags.map(f => f.created_at).sort();
+        const latestCreated = allCreatedAts[allCreatedAts.length - 1];
+        const earliestCreated = allCreatedAts[0];
+        const isMulti = flags.length > 1;
+        let isHistorical = false;
+        let isDuplicate = false;
+        if (blocksVerify) {
+            // Blocking items are never historical
+            isHistorical = false;
+            isDuplicate = isMulti;
+        }
+        else if (sessionBoundary && latestCreated < sessionBoundary) {
+            // All flags are from before the session boundary → historical
+            isHistorical = true;
+            isDuplicate = isMulti;
+        }
+        else if (isMulti && sessionBoundary && latestCreated < sessionBoundary) {
+            // Multiple flags, all old → historical duplicate
+            isHistorical = true;
+            isDuplicate = true;
+        }
+        else {
+            // Default: keep in current
+            isHistorical = false;
+            isDuplicate = isMulti;
+        }
+        const aggregated = {
+            target: representative.target,
+            reason: representative.reason,
+            matched_file: matchedFile,
+            count: flags.length,
+            severity,
+            blocks_verify: blocksVerify,
+            is_duplicate: isDuplicate,
+            is_historical: isHistorical,
+            created_at_first: earliestCreated,
+            created_at_last: latestCreated,
+            sources: flags.map(f => ({
+                scope: f.scope,
+                target: f.target,
+                reason: f.reason,
+                created_at: f.created_at,
+                session_id: f.session_id,
+            })),
+        };
+        if (blocksVerify) {
+            blockingForVerify.push(aggregated);
+        }
+        else if (isHistorical) {
+            historicalDirtyFlags.push(aggregated);
+        }
+        else {
+            currentSuggestions.push(aggregated);
+        }
     }
-    // Check next.md content
-    const nextPath = path.join(pmemPath, 'next.md');
-    let nextEmpty = false;
-    if ((0, fs_1.fileExists)(nextPath)) {
-        const content = (0, fs_1.readFile)(nextPath) || '';
-        if (content.replace(/#.*\n/g, '').trim().length < 50) {
-            nextEmpty = true;
-        }
-    }
-    if (nextEmpty) {
-        suggestions.push({
-            id: `suggest-${suggestions.length + 1}`,
-            action: 'update_next',
-            target: 'next.md',
-            reason: 'next.md appears to have minimal content',
-            priority: 'low',
-        });
-    }
-    (0, db_1.closeDatabase)();
-    return { dirtyFlags: unresolved, stateFreshness, suggestions };
+    // 7. Compute summary
+    const uniqueAffectedCards = new Set();
+    for (const item of [...blockingForVerify, ...currentSuggestions]) {
+        uniqueAffectedCards.add(item.target);
+    }
+    const duplicatesHidden = [...blockingForVerify, ...currentSuggestions, ...historicalDirtyFlags]
+        .filter(g => g.count > 1)
+        .reduce((sum, g) => sum + (g.count - 1), 0);
+    const summary = {
+        affected_cards: uniqueAffectedCards.size,
+        blocking: blockingForVerify.length,
+        warning: currentSuggestions.filter(g => g.severity === 'warning').length,
+        info: currentSuggestions.filter(g => g.severity === 'info').length,
+        duplicates_hidden: duplicatesHidden,
+        historical_hidden: includeHistory ? 0 : historicalDirtyFlags.length,
+        verify_blocking: blockingForVerify.length > 0,
+    };
+    // 8. Build message and next steps
+    const message = buildSuggestMessage(summary, cardCount);
+    const nextSteps = buildSuggestNextSteps(summary, cardCount);
+    return {
+        summary,
+        message,
+        next_steps: nextSteps,
+        groups: {
+            blocking_for_verify: blockingForVerify,
+            current_suggestions: currentSuggestions,
+            historical_dirty_flags: includeHistory ? historicalDirtyFlags : [],
+        },
+    };
 }
-function suggestActions(pmemPath, format) {
-    const { dirtyFlags, stateFreshness, suggestions } = generateSuggestions(pmemPath);
-    // Build contextual message and next steps for empty results
-    const cardCount = getCardCount(pmemPath);
-    const message = buildSuggestMessage(suggestions, dirtyFlags, cardCount);
-    const nextSteps = buildSuggestNextSteps(suggestions, dirtyFlags, cardCount);
+function suggestActions(pmemPath, format, includeHistory) {
+    const report = generateSuggestions(pmemPath, includeHistory);
     if (format === 'json') {
         console.log(JSON.stringify({
-            dirty_flags: dirtyFlags,
-            state_freshness: stateFreshness,
-            suggestions,
-            message,
-            next_steps: nextSteps,
+            summary: report.summary,
+            message: report.message,
+            next_steps: report.next_steps,
+            groups: report.groups,
         }, null, 2));
     }
     else {
-        if (dirtyFlags.length > 0) {
-            console.log(`Dirty flags: ${dirtyFlags.length}`);
-            for (const flag of dirtyFlags) {
-                console.log(`  [${flag.scope}] ${flag.target}: ${flag.reason}`);
+        // Compact output
+        console.log('Memory update suggestions');
+        console.log('');
+        console.log(`Affected cards: ${report.summary.affected_cards}`);
+        console.log(`Blocking for verify: ${report.summary.blocking}`);
+        console.log(`Current suggestions: ${report.summary.warning + report.summary.info}`);
+        console.log(`Historical hidden: ${report.summary.historical_hidden}`);
+        console.log(`Duplicate flags hidden: ${report.summary.duplicates_hidden}`);
+        // Blocking section
+        if (report.groups.blocking_for_verify.length > 0) {
+            console.log('');
+            console.log('Blocking:');
+            for (const item of report.groups.blocking_for_verify) {
+                const filePart = (item.matched_file && !item.reason.includes(item.matched_file)) ? `, ${item.matched_file}` : '';
+                const countPart = item.count > 1 ? `, count ${item.count}` : '';
+                console.log(`  - ${item.target} (${item.reason}${filePart}${countPart})`);
             }
         }
-        else {
-            console.log('No unresolved dirty flags.');
-        }
-        console.log(`State freshness: ${stateFreshness}`);
-        if (suggestions.length > 0) {
-            console.log(`\nSuggestions (${suggestions.length}):`);
-            for (const s of suggestions) {
-                console.log(`  ${s.id}: [${s.priority}] ${s.action} ${s.target}`);
-                console.log(`    ${s.reason}`);
+        // Current section
+        if (report.groups.current_suggestions.length > 0) {
+            console.log('');
+            console.log('Current:');
+            for (const item of report.groups.current_suggestions) {
+                const filePart = (item.matched_file && !item.reason.includes(item.matched_file)) ? `, ${item.matched_file}` : '';
+                const countPart = item.count > 1 ? `, count ${item.count}` : '';
+                console.log(`  - ${item.target} (${item.reason}${filePart}${countPart})`);
             }
         }
+        // Historical section (only when --include-history)
+        if (includeHistory && report.groups.historical_dirty_flags.length > 0) {
+            console.log('');
+            console.log('Historical:');
+            for (const item of report.groups.historical_dirty_flags) {
+                const filePart = (item.matched_file && !item.reason.includes(item.matched_file)) ? `, ${item.matched_file}` : '';
+                const countPart = item.count > 1 ? `, count ${item.count}` : '';
+                console.log(`  - ${item.target} (${item.reason}${filePart}${countPart})`);
+            }
+        }
+        // Message
+        console.log('');
+        if (report.summary.blocking > 0) {
+            console.log(report.message);
+        }
         else {
-            console.log(`\n${message}`);
-            if (nextSteps.length > 0) {
-                console.log('\nNext steps:');
-                for (const step of nextSteps) {
-                    console.log(`  ${step}`);
-                }
+            console.log('No blocking memory consistency issues.');
+            if (report.summary.historical_hidden > 0) {
+                console.log('Historical suggestions available with --include-history.');
             }
         }
+        // Next steps
+        if (report.next_steps.length > 0) {
+            console.log('');
+            console.log('Next:');
+            for (const step of report.next_steps) {
+                console.log(`  - ${step}`);
+            }
+        }
+    }
+    // Exit code: 2 for runtime errors (missing DB, etc.)
+    if (report.error) {
+        process.exit(2);
     }
-    const hasSuggestions = suggestions.length > 0;
-    process.exit(hasSuggestions ? 1 : 0);
+    // Exit code: 1 if there are blocking or current suggestions (actionable items)
+    // Exit 0 if only hidden history or nothing at all
+    const hasActionable = report.summary.blocking > 0 ||
+        (report.summary.warning + report.summary.info) > 0;
+    process.exit(hasActionable ? 1 : 0);
 }
 function getCardCount(pmemPath) {
     try {
@@ -495,45 +665,70 @@ function getCardCount(pmemPath) {
         return 0;
     }
 }
-function buildSuggestMessage(suggestions, dirtyFlags, cardCount) {
-    if (suggestions.length > 0) {
-        return `${suggestions.length} suggestion(s) found.`;
-    }
-    if (dirtyFlags.length > 0) {
-        return 'Dirty flags exist but no matching suggestions could be generated.';
-    }
+function buildSuggestMessage(summary, cardCount) {
     if (cardCount === 0) {
         return 'No memory cards found. Create a first module, decision, or task card to start building project memory.';
     }
+    if (summary.blocking > 0 || summary.warning > 0 || summary.info > 0) {
+        const parts = [];
+        if (summary.blocking > 0)
+            parts.push(`${summary.blocking} blocking memory consistency issue(s)`);
+        if (summary.warning > 0)
+            parts.push(`${summary.warning} current suggestion(s)`);
+        if (summary.info > 0)
+            parts.push(`${summary.info} informational item(s)`);
+        return parts.join(' and ') + '.';
+    }
     return 'No suggestions. Memory is up to date.';
 }
-function buildSuggestNextSteps(suggestions, dirtyFlags, cardCount) {
-    if (suggestions.length > 0)
-        return [];
+function buildSuggestNextSteps(summary, cardCount) {
     const steps = [];
     if (cardCount === 0) {
         steps.push('Create a module card with source_files pointing to your code');
         steps.push('Run `pmem rebuild` after creating cards');
         steps.push('Then try `pmem status` and `pmem mark-dirty --auto`');
     }
-    else if (dirtyFlags.length === 0) {
-        steps.push('Edit some source files, then run `pmem status` and `pmem mark-dirty --auto`');
-        steps.push('Run `pmem verify` to check overall memory consistency');
+    else if (summary.blocking > 0 || summary.warning > 0) {
+        steps.push('Update or confirm affected cards with pmem update --confirm -s "<summary>" -n "<next step>"');
+        steps.push('Use --include-history to inspect older dirty flags.');
+    }
+    else if (summary.historical_hidden > 0) {
+        steps.push('Use --include-history to inspect older dirty flags.');
+        steps.push('Run `pmem verify` to check overall memory consistency.');
     }
     else {
-        steps.push('Run `pmem update --confirm` to manually record changes');
-        steps.push('Check that dirty cards have source_files defined in their frontmatter');
+        steps.push('Edit some source files, then run `pmem status` and `pmem mark-dirty --auto`');
+        steps.push('Run `pmem verify` to check overall memory consistency');
     }
     return steps;
 }
 function applySuggestionAction(pmemPath, suggestionId) {
-    // Re-derive suggestions to find the matching one
-    const { suggestions, dirtyFlags } = generateSuggestions(pmemPath);
-    const match = suggestions.find(s => s.id === suggestionId);
+    // Re-derive suggestions to find the matching one (with history included for full search)
+    const report = generateSuggestions(pmemPath, true);
+    // Flatten all groups into a single searchable list with generated IDs
+    const flatList = [];
+    let idx = 1;
+    for (const item of report.groups.blocking_for_verify) {
+        const action = item.reason.startsWith('file_changed') ? 'update_card' : 'create_trace';
+        flatList.push({ id: `suggest-${idx}`, item, action });
+        idx++;
+    }
+    for (const item of report.groups.current_suggestions) {
+        const action = item.reason.startsWith('file_changed') ? 'update_card' : 'create_trace';
+        flatList.push({ id: `suggest-${idx}`, item, action });
+        idx++;
+    }
+    for (const item of report.groups.historical_dirty_flags) {
+        const action = item.reason.startsWith('file_changed') ? 'update_card' : 'create_trace';
+        flatList.push({ id: `suggest-${idx}`, item, action });
+        idx++;
+    }
+    const match = flatList.find(s => s.id === suggestionId);
     if (!match) {
         console.log(`Suggestion "${suggestionId}" not found. Available suggestions:`);
-        for (const s of suggestions) {
-            console.log(`  ${s.id}: ${s.action} ${s.target}`);
+        for (const s of flatList) {
+            const filePart = s.item.matched_file ? `, ${s.item.matched_file}` : '';
+            console.log(`  ${s.id}: ${s.action} ${s.item.target} (${s.item.reason}${filePart})`);
         }
         process.exit(2);
     }
@@ -542,14 +737,17 @@ function applySuggestionAction(pmemPath, suggestionId) {
         console.log('No SQLite database. Run pmem rebuild first.');
         process.exit(2);
     }
-    switch (match.action) {
+    const action = match.action;
+    const target = match.item.target;
+    const reason = match.item.reason;
+    switch (action) {
         case 'update_card': {
             const db = (0, db_1.openDatabase)(pmemPath);
             // Mark the card's last_verified_at as expired
-            db.prepare("UPDATE cards SET last_verified_at = ? WHERE id = ?").run(new Date(0).toISOString(), match.target);
+            db.prepare("UPDATE cards SET last_verified_at = ? WHERE id = ?").run(new Date(0).toISOString(), target);
             (0, db_1.closeDatabase)();
-            console.log(`Marked card "${match.target}" as needing verification.`);
-            console.log(`  Reason: ${match.reason}`);
+            console.log(`Marked card "${target}" as needing verification.`);
+            console.log(`  Reason: ${reason}`);
             break;
         }
         case 'create_trace': {
@@ -568,35 +766,37 @@ type: trace
 created: ${today}
 ---
 
-# Trace: ${match.reason}
+# Trace: ${reason}
 
 ## What Changed
-${match.reason}
+${reason}
 
 ## Next
 Continue as planned.
 `);
             console.log(`Auto-created trace: traces/${today}-${traceNum}.md`);
-            console.log(`  Reason: ${match.reason}`);
-            // Log in SQLite
+            console.log(`  Reason: ${reason}`);
+            // Resolve the associated dirty flags
             const db = (0, db_1.openDatabase)(pmemPath);
             const activeSession = (0, db_1.getActiveSession)(db);
-            (0, db_1.insertUpdateLog)(db, 'auto_trace', match.reason, activeSession?.id, [`trace.${today}-${traceNum}`], true);
+            // Resolve all dirty flags matching this target+reason
+            (0, db_1.resolveDirtyFlags)(db, 'card', target);
+            (0, db_1.insertUpdateLog)(db, 'auto_trace', reason, activeSession?.id, [`trace.${today}-${traceNum}`], true);
             (0, db_1.closeDatabase)();
             break;
         }
         case 'update_state': {
-            console.log(`Action required: ${match.reason}`);
+            console.log(`Action required: ${reason}`);
             console.log('  Please run `pmem update --confirm` to update state.md.');
             break;
         }
         case 'update_next': {
-            console.log(`Action required: ${match.reason}`);
+            console.log(`Action required: ${reason}`);
             console.log('  Please run `pmem update --confirm --next "<next step>"` to update next.md.');
             break;
         }
         default: {
-            console.log(`Unknown action "${match.action}" for suggestion ${suggestionId}.`);
+            console.log(`Unknown action "${action}" for suggestion ${suggestionId}.`);
             process.exit(2);
         }
     }