Fix 'qmd status' output for new schema

- Display collections by name instead of full path
- Show virtual path format: qmd://name/
- Add context count per collection
- Include helpful command examples (ls, get, search)
- Update "no collections" message to reference collection add
- Sort collections alphabetically by name

Closes qmd-rhd

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

.beads/issues.jsonl

@@ -3,12 +3,12 @@
 {"id":"qmd-ama","title":"Refactor database system","description":"All documents should be stored as content addressable hash, e.g. hash, doc, created_at,\n┃ updated_at. documents should be a file system layer on top e.g. collection, path, hash,\n┃ created_at, updated_at. (collection,path)\n┃\n┃\n\n┃ All documents should be stored as content addressable hash, e.g. hash, doc, created_at,\n┃ updated_at. documents should be a file system layer on top e.g. collection_id, path, hash,\n┃ created_at, updated_at. (collection,path) is unique. There is also collection which stores PWD\n┃ + glob pattern, name (\\w+). Every document is treated as path qmd://collection.name/","notes":"## Completed\n- ✅ Implemented content-addressable storage (content table with hash→doc mapping)\n- ✅ Refactored documents table as file system layer (collection_id, path, hash)\n- ✅ Added collection names (e.g., \"pages\", \"journals\", \"archive\")\n- ✅ Implemented virtual paths (qmd://collection-name/path/to/file.md)\n- ✅ Added hierarchical context support (collection-scoped)\n- ✅ Successfully migrated existing database\n- ✅ Updated search functions to work with new schema\n- ✅ Updated indexing logic to use content-addressable storage\n- ✅ Orphaned content hash cleanup\n\n## Still TODO\n- Fix migration SQL to properly extract basename (currently needs manual fix)\n- Implement `qmd collection add . --name \u003cname\u003e --mask '**/*.md'`\n- Implement `qmd ls [path]` for exploring virtual file tree","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-10T10:57:35.497489-05:00","updated_at":"2025-12-12T15:39:48.879143-05:00","closed_at":"2025-12-12T15:39:48.879143-05:00"}
 {"id":"qmd-bx1","title":"Fix migration SQL for proper basename extraction","description":"The migration currently generates collection names incorrectly (uses full path instead of basename). Need to fix the SQL in migrateToContentAddressable to properly extract the directory basename.","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-12-12T15:29:53.757723-05:00","updated_at":"2025-12-12T15:50:29.349134-05:00","closed_at":"2025-12-12T15:50:29.349134-05:00","dependencies":[{"issue_id":"qmd-bx1","depends_on_id":"qmd-ama","type":"discovered-from","created_at":"2025-12-12T15:29:53.758524-05:00","created_by":"daemon"}]}
 {"id":"qmd-c0m","title":"Comprehensive CLI review and consistency pass","description":"Review entire CLI command structure:\n- Consistent naming (add vs create, remove vs delete)\n- Consistent flag usage (--name, --mask, etc)\n- Update help text for all commands\n- Ensure virtual paths work everywhere\n- Test all commands end-to-end","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-12T15:29:38.083564-05:00","updated_at":"2025-12-12T16:06:51.544695-05:00","closed_at":"2025-12-12T16:06:51.544695-05:00"}
-{"id":"qmd-deh","title":"Refactor database introduce qmd collection *","description":"","status":"open","priority":2,"issue_type":"task","created_at":"2025-12-10T10:56:04.516137-05:00","updated_at":"2025-12-10T10:56:04.516137-05:00"}
+{"id":"qmd-deh","title":"Refactor database introduce qmd collection *","description":"","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-10T10:56:04.516137-05:00","updated_at":"2025-12-12T16:12:12.349428-05:00","closed_at":"2025-12-12T16:12:12.349428-05:00"}
 {"id":"qmd-dmi","title":"Implement 'qmd collection' commands","description":"Add explicit collection management:\n- qmd collection add . --name \u003cname\u003e --mask '**/*.md'\n- qmd collection list\n- qmd collection remove \u003cname\u003e\n\nThis gives users control over collection names and patterns.","status":"closed","priority":1,"issue_type":"feature","created_at":"2025-12-12T15:29:53.810666-05:00","updated_at":"2025-12-12T16:02:08.079158-05:00","closed_at":"2025-12-12T16:02:08.079158-05:00","dependencies":[{"issue_id":"qmd-dmi","depends_on_id":"qmd-ama","type":"discovered-from","created_at":"2025-12-12T15:29:53.811294-05:00","created_by":"daemon"}]}
 {"id":"qmd-e2c","title":"Implement 'qmd ls' command","description":"Add command to explore virtual file tree:\n- qmd ls → list all collections\n- qmd ls \u003ccollection\u003e → list files in collection\n- qmd ls \u003ccollection\u003e/\u003cpath\u003e → list files under path\nOutput: flat list of qmd:// paths","status":"closed","priority":1,"issue_type":"feature","created_at":"2025-12-12T15:29:53.859804-05:00","updated_at":"2025-12-12T15:55:12.777701-05:00","closed_at":"2025-12-12T15:55:12.777701-05:00","dependencies":[{"issue_id":"qmd-e2c","depends_on_id":"qmd-ama","type":"discovered-from","created_at":"2025-12-12T15:29:53.860535-05:00","created_by":"daemon"}]}
 {"id":"qmd-j9z","title":"Add unit tests for content addressable hashes","description":"add same file from multiple places and verify that they both point at same hash. drop one collection and the content stays.","status":"open","priority":3,"issue_type":"task","created_at":"2025-12-12T15:39:15.459504-05:00","updated_at":"2025-12-12T15:39:15.459504-05:00"}
-{"id":"qmd-p1h","title":"Create collection add|remove","description":"","status":"open","priority":2,"issue_type":"task","created_at":"2025-12-10T10:57:00.717864-05:00","updated_at":"2025-12-10T10:57:00.717864-05:00"}
-{"id":"qmd-rhd","title":"Fix 'qmd status' output for new schema","description":"Update status to show collections by name, cleaner context display, virtual path examples.","status":"open","priority":2,"issue_type":"task","created_at":"2025-12-12T15:29:54.020596-05:00","updated_at":"2025-12-12T15:29:54.020596-05:00","dependencies":[{"issue_id":"qmd-rhd","depends_on_id":"qmd-ama","type":"discovered-from","created_at":"2025-12-12T15:29:54.021095-05:00","created_by":"daemon"}]}
+{"id":"qmd-p1h","title":"Create collection add|remove","description":"","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-10T10:57:00.717864-05:00","updated_at":"2025-12-12T16:12:00.557003-05:00","closed_at":"2025-12-12T16:12:00.557003-05:00"}
+{"id":"qmd-rhd","title":"Fix 'qmd status' output for new schema","description":"Update status to show collections by name, cleaner context display, virtual path examples.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-12T15:29:54.020596-05:00","updated_at":"2025-12-12T16:13:28.08389-05:00","closed_at":"2025-12-12T16:13:28.08389-05:00","dependencies":[{"issue_id":"qmd-rhd","depends_on_id":"qmd-ama","type":"discovered-from","created_at":"2025-12-12T15:29:54.021095-05:00","created_by":"daemon"}]}
 {"id":"qmd-s1y","title":"Update 'qmd add-context' for collection scoping","description":"Update add-context to work with collection-scoped contexts using new path_contexts schema.","notes":"Refactoring to:\n- qmd context add [path] \"text\" (defaults to current collection if in one)\n- qmd context list\n- qmd context rm \u003cpath\u003e\n- Support \"/\" for global/system context\n- Auto-detect collection from pwd","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-12T15:29:54.076582-05:00","updated_at":"2025-12-12T15:37:47.683263-05:00","closed_at":"2025-12-12T15:37:47.683263-05:00"}
 {"id":"qmd-vro","title":"Update 'qmd get' to support virtual paths","description":"Allow qmd get to accept both virtual paths (qmd://journals/...) and filesystem paths, plus fuzzy matching by filename.","status":"closed","priority":0,"issue_type":"task","created_at":"2025-12-12T15:29:53.963113-05:00","updated_at":"2025-12-12T15:47:29.178955-05:00","closed_at":"2025-12-12T15:47:29.178955-05:00","dependencies":[{"issue_id":"qmd-vro","depends_on_id":"qmd-ama","type":"discovered-from","created_at":"2025-12-12T15:29:53.963641-05:00","created_by":"daemon"}]}
 {"id":"qmd-x19","title":"Update 'qmd add-context' for collection-scoped contexts","description":"Update add-context to work with collections:\n- qmd add-context \u003ccollection\u003e/\u003cpath\u003e \"context description\"\n- Support both virtual and filesystem paths\n- Update to use new path_contexts schema","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-12T15:29:38.142575-05:00","updated_at":"2025-12-12T15:53:00.525001-05:00","closed_at":"2025-12-12T15:53:00.525001-05:00"}

qmd.ts

@@ -421,15 +421,15 @@ function showStatus(): void {
 
   // Collections info
   const collections = db.prepare(`
-    SELECT c.id, c.pwd, c.glob_pattern, c.created_at,
+    SELECT c.id, c.name, c.pwd, c.glob_pattern, c.created_at,
            COUNT(d.id) as doc_count,
            SUM(CASE WHEN d.active = 1 THEN 1 ELSE 0 END) as active_count,
            MAX(d.modified_at) as last_modified
     FROM collections c
     LEFT JOIN documents d ON d.collection_id = c.id
     GROUP BY c.id
-    ORDER BY c.created_at DESC
-  `).all() as { id: number; pwd: string; glob_pattern: string; created_at: string; doc_count: number; active_count: number; last_modified: string | null }[];
+    ORDER BY c.name
+  `).all() as { id: number; name: string; pwd: string; glob_pattern: string; created_at: string; doc_count: number; active_count: number; last_modified: string | null }[];
 
   // Overall stats
   const totalDocs = db.prepare(`SELECT COUNT(*) as count FROM documents WHERE active = 1`).get() as { count: number };
@@ -454,27 +454,45 @@ function showStatus(): void {
     console.log(`  Updated:  ${formatTimeAgo(lastUpdate)}`);
   }
 
-  // Get all path contexts
-  const pathContexts = db.prepare(`SELECT path_prefix, context FROM path_contexts ORDER BY path_prefix`).all() as { path_prefix: string; context: string }[];
+  // Get context counts per collection
+  const contextCounts = db.prepare(`
+    SELECT collection_id, COUNT(*) as count
+    FROM path_contexts
+    GROUP BY collection_id
+  `).all() as { collection_id: number; count: number }[];
+  const contextCountMap = new Map(contextCounts.map(c => [c.collection_id, c.count]));
 
   if (collections.length > 0) {
     console.log(`\n${c.bold}Collections${c.reset}`);
     for (const col of collections) {
       const lastMod = col.last_modified ? formatTimeAgo(new Date(col.last_modified)) : "never";
-      console.log(`  ${c.cyan}${col.pwd}${c.reset}`);
-      console.log(`    ${col.glob_pattern} → ${col.active_count} docs (updated ${lastMod})`);
-
-      // Show contexts that match this collection's path
-      const matchingContexts = pathContexts.filter(ctx =>
-        ctx.path_prefix.startsWith(col.pwd) || col.pwd.startsWith(ctx.path_prefix)
-      );
-      for (const ctx of matchingContexts) {
-        const displayPath = shortPath(ctx.path_prefix);
-        console.log(`    ${c.dim}context: ${displayPath} → "${ctx.context}"${c.reset}`);
+      const contextCount = contextCountMap.get(col.id) || 0;
+
+      console.log(`  ${c.cyan}${col.name}${c.reset} ${c.dim}(qmd://${col.name}/)${c.reset}`);
+      console.log(`    ${c.dim}Path:${c.reset}     ${col.pwd}`);
+      console.log(`    ${c.dim}Pattern:${c.reset}  ${col.glob_pattern}`);
+      console.log(`    ${c.dim}Files:${c.reset}    ${col.active_count} (updated ${lastMod})`);
+      if (contextCount > 0) {
+        console.log(`    ${c.dim}Contexts:${c.reset} ${contextCount}`);
       }
     }
+
+    // Show examples of virtual paths
+    console.log(`\n${c.bold}Examples${c.reset}`);
+    console.log(`  ${c.dim}# List files in a collection${c.reset}`);
+    if (collections.length > 0) {
+      console.log(`  qmd ls ${collections[0].name}`);
+    }
+    console.log(`  ${c.dim}# Get a document${c.reset}`);
+    if (collections.length > 0) {
+      console.log(`  qmd get qmd://${collections[0].name}/path/to/file.md`);
+    }
+    console.log(`  ${c.dim}# Search within a collection${c.reset}`);
+    if (collections.length > 0) {
+      console.log(`  qmd search "query" -c ${collections[0].name}`);
+    }
   } else {
-    console.log(`\n${c.dim}No collections. Run 'qmd add .' to index markdown files.${c.reset}`);
+    console.log(`\n${c.dim}No collections. Run 'qmd collection add .' to index markdown files.${c.reset}`);
   }
 
   closeDb();