From 4d796cd2ca4a725fe7435b339d99dd28a385ad16 Mon Sep 17 00:00:00 2001 From: Adam Patch Date: Sun, 8 Feb 2026 14:40:48 -0500 Subject: [PATCH 1/5] chore(dev): update submodule to point to completed config-export-import task --- dev | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/dev b/dev index e45b185..b84382d 160000 --- a/dev +++ b/dev @@ -1 +1 @@ -Subproject commit e45b185ad48be552ea8d05816eadd21e1eafe58b +Subproject commit b84382db5b9299231daee71579262d2792d7c39c From 5e3e63565449cf43a4c14e73c336ab0152263ab2 Mon Sep 17 00:00:00 2001 From: Adam Patch Date: Sun, 8 Feb 2026 15:26:33 -0500 Subject: [PATCH 2/5] feat(ui): modularize settings into separate template partials MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit Refactored the large index.html file (2848 lines) by extracting 7 settings sections into self-contained partial templates: **New partial templates in settings/ directory:** - _general.html (989 lines): System info, config export/import, security, user management, audit log with 4 JS init functions - _neo4j.html (177 lines): Neo4j connection settings with connection management JS - _chat.html (265 lines): LLM provider configuration with initChatSettings - _interpreters.html (118 lines): Interpreter mappings and toggles with dynamic table - _plugins.html (8 lines): Plugin registry summary - _rclone.html (146 lines): Rclone interpretation and mount management with JS - _integrations.html (1015 lines): API endpoints, table formats, fuzzy matching with 3 JS init functions **Main index.html changes:** - Reduced from 2848 to 141 lines (95% reduction) - Now uses {% include %} directives to compose sections - Keeps only shared CSS and tab navigation JavaScript - All section-specific JS moved into respective partials **Cleanup:** - Deleted obsolete settings.html file (2067 lines) - /settings route already redirects to / (landing page) **Tests:** - All pytest tests pass (25/25) - Added TODO placeholders in E2E tests for future updates **Benefits:** - Easier to find and edit specific settings sections - Reduced merge conflicts - Each partial is self-contained with HTML + JS - Maintained identical functionality and appearance Related: task:ui/settings/modularization 🤖 Generated with [Claude Code](https://claude.com/claude-code) Co-Authored-By: Claude --- e2e/settings-advanced.spec.ts | 3 + e2e/settings-api-endpoints.spec.ts | 3 + e2e/settings-fuzzy-matching.spec.ts | 3 + e2e/settings-table-formats.spec.ts | 3 + e2e/settings.spec.ts | 6 + scidk/ui/templates/index.html | 2723 +---------------- scidk/ui/templates/settings.html | 2067 ------------- scidk/ui/templates/settings/_chat.html | 265 ++ scidk/ui/templates/settings/_general.html | 989 ++++++ .../ui/templates/settings/_integrations.html | 1015 ++++++ .../ui/templates/settings/_interpreters.html | 118 + scidk/ui/templates/settings/_neo4j.html | 177 ++ scidk/ui/templates/settings/_plugins.html | 8 + scidk/ui/templates/settings/_rclone.html | 146 + 14 files changed, 2744 insertions(+), 4782 deletions(-) delete mode 100644 scidk/ui/templates/settings.html create mode 100644 scidk/ui/templates/settings/_chat.html create mode 100644 scidk/ui/templates/settings/_general.html create mode 100644 scidk/ui/templates/settings/_integrations.html create mode 100644 scidk/ui/templates/settings/_interpreters.html create mode 100644 scidk/ui/templates/settings/_neo4j.html create mode 100644 scidk/ui/templates/settings/_plugins.html create mode 100644 scidk/ui/templates/settings/_rclone.html diff --git a/e2e/settings-advanced.spec.ts b/e2e/settings-advanced.spec.ts index 4e16344..0a59d38 100644 --- a/e2e/settings-advanced.spec.ts +++ b/e2e/settings-advanced.spec.ts @@ -3,6 +3,9 @@ import { test, expect } from '@playwright/test'; /** * E2E tests for additional Settings page features. * Tests disconnect button and interpreter checkbox interactions. + * + * TODO: Update tests after settings modularization (task:ui/settings/modularization) + * Settings sections now split across multiple partial templates in settings/ directory */ test('neo4j disconnect button appears when connected', async ({ page, baseURL }) => { diff --git a/e2e/settings-api-endpoints.spec.ts b/e2e/settings-api-endpoints.spec.ts index fa6c789..a4959a9 100644 --- a/e2e/settings-api-endpoints.spec.ts +++ b/e2e/settings-api-endpoints.spec.ts @@ -1,5 +1,8 @@ import { test, expect, request as playwrightRequest } from '@playwright/test'; +// TODO: Update tests after settings modularization (task:ui/settings/modularization) +// Integrations section now in settings/_integrations.html + test.describe('Settings - API Endpoints', () => { test.beforeEach(async ({ page, baseURL }) => { // Disable auth before each test diff --git a/e2e/settings-fuzzy-matching.spec.ts b/e2e/settings-fuzzy-matching.spec.ts index 21f3b77..ee16212 100644 --- a/e2e/settings-fuzzy-matching.spec.ts +++ b/e2e/settings-fuzzy-matching.spec.ts @@ -1,5 +1,8 @@ import { test, expect } from '@playwright/test'; +// TODO: Update tests after settings modularization (task:ui/settings/modularization) +// Fuzzy matching section now in settings/_integrations.html + test.describe('Settings - Fuzzy Matching', () => { test.beforeEach(async ({ page, baseURL }) => { const base = baseURL || process.env.BASE_URL || 'http://127.0.0.1:5000'; diff --git a/e2e/settings-table-formats.spec.ts b/e2e/settings-table-formats.spec.ts index 8943418..6d41654 100644 --- a/e2e/settings-table-formats.spec.ts +++ b/e2e/settings-table-formats.spec.ts @@ -1,5 +1,8 @@ import { test, expect } from '@playwright/test'; +// TODO: Update tests after settings modularization (task:ui/settings/modularization) +// Table formats section now in settings/_integrations.html + test.describe('Settings - Table Format Registry', () => { test.beforeEach(async ({ page, baseURL }) => { await page.goto(`${baseURL}/#integrations`); diff --git a/e2e/settings.spec.ts b/e2e/settings.spec.ts index 5f7d681..2f66e8a 100644 --- a/e2e/settings.spec.ts +++ b/e2e/settings.spec.ts @@ -3,6 +3,12 @@ import { test, expect } from '@playwright/test'; /** * E2E tests for Settings page functionality. * Tests Neo4j connection, interpreter toggles, and rclone settings. + * + * TODO: Update tests after settings modularization (task:ui/settings/modularization) + * Settings sections have been extracted into separate partial templates: + * - settings/_general.html, _neo4j.html, _chat.html, _interpreters.html, + * _plugins.html, _rclone.html, _integrations.html + * The main index.html now uses {% include %} directives to compose the page. */ test('settings page loads and displays system information', async ({ page, baseURL }) => { diff --git a/scidk/ui/templates/index.html b/scidk/ui/templates/index.html index 575f71c..23e9951 100644 --- a/scidk/ui/templates/index.html +++ b/scidk/ui/templates/index.html @@ -94,735 +94,18 @@
- -
-

General

-

Basic runtime information and counts.

-
    -
  • Host: {{ info.host }}
    • -
  • Port: {{ info.port }}
    • -
  • Debug: {{ info.debug }}
    • -
  • Datasets: {{ info.dataset_count }}
    • -
  • Interpreters: {{ info.interpreter_count }}
    • -
-
- Channel: {{ info.channel or 'stable' }} - Providers: {{ info.providers }} - Files viewer: {{ info.files_viewer or '(default)' }} -
- -

Configuration Management

-

Export and import your complete SciDK configuration for backup or migration.

-
- - - -
- - -

Exports all settings including Neo4j connection, interpreters, plugins, rclone mounts, and integration endpoints.

- -

Security

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Configure authentication and access control for this SciDK instance.

- - - - - -
-
- -
- - -
-
- - -

-
- - - - - - - - - - - - -
- - -
-

Neo4j Connection

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Configure Neo4j database connection and settings.

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-
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- - -
-
- - -
-
- -
- -
- - -
-
-
-
- - - -
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Advanced / Health -
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You can also set env vars: NEO4J_URI, NEO4J_USER, NEO4J_PASSWORD, SCIDK_NEO4J_DATABASE

-

If your Neo4j has authentication disabled, set environment variable NEO4J_AUTH=none before starting the app.

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-
- - -
-

Chat

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Configure the chat interface for natural language queries over your Neo4j graph.

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LLM Provider Configuration

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- - - Choose which LLM to use for entity extraction and query generation. -
-
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Anthropic API Configuration

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Chat Behavior

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- Can also be toggled per-session in the chat interface. -
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- Advanced -

- Environment variables: -

    -
  • SCIDK_ANTHROPIC_API_KEY - Anthropic API key for LLM-enhanced entity extraction
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  • SCIDK_GRAPHRAG_VERBOSE - Set to '1' or 'true' to enable verbose mode by default
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-

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- -

Chat History

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Manage chat sessions with persistent database storage.

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- Chat sessions are now stored in the database and can be: -

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    -
  • Saved from the Chat interface using the "Save Session" button
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  • Loaded from the session selector dropdown
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  • Managed (rename, export, delete) using the "📂" button
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  • Exported as JSON files and imported from backups
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- Open Chat Interface → -

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Interpreters

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Registered interpreter mappings and selection rules.

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Mappings (extension → interpreter ids)

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    - {% for ext, ids in (mappings or {}).items() %} -
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Rules

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  • {{ r.id }} → interpreter_id={{ r.interpreter_id }}, pattern={{ r.pattern }}, priority={{ r.priority }}
    • - {% else %} -
  • No rules.
    • - {% endfor %} -
- -

Interpreter toggles

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Enable or disable interpreters globally. Changes persist to settings when possible. If CLI env overrides are set (SCIDK_ENABLE_INTERPRETERS/SCIDK_DISABLE_INTERPRETERS), those take precedence and are shown as source=cli.

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InterpreterExtensionsEnabledSource
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Plugins

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Plugin registry summary.

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Rclone

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Configure rclone settings for interpretation and mounts.

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Interpretation

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Tune streaming-based interpretation from rclone remotes. For very large scans, consider mounting the remote.

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Mounts

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Manage rclone mounts under ./data/mounts.

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NameTargetPathStatusActions
No mounts.
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Note: On Windows, cmount/WinFsp may be required; this UI targets Linux/macOS primarily.

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Integrations

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Configure integration mappings, API endpoints, and matching options.

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API Endpoint Mappings

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Define API endpoints that map to Label types in SciDK.

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Add New Endpoint

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Table Format Registry

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Manage table formats for importing CSV, TSV, Excel, and Parquet files as link sources.

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Fuzzy Matching Options

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Configure fuzzy matching algorithms for entity resolution in link creation.

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Minimum similarity score (0-100%) to consider a match

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-      Advanced Options
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Hybrid Matching Architecture

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-      Phase 1 (Client-Side): Pre-import matching using rapidfuzz - match external API/CSV data before pushing to Neo4j.
-    

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-      Phase 2 (Server-Side): Post-import matching using Neo4j APOC functions - ultra-fast in-database entity resolution for existing nodes.
-    

-  

-    

+    {% include 'settings/_general.html' %}
+    {% include 'settings/_neo4j.html' %}
+    {% include 'settings/_chat.html' %}
+    {% include 'settings/_interpreters.html' %}
+    {% include 'settings/_plugins.html' %}
+    {% include 'settings/_rclone.html' %}
+    {% include 'settings/_integrations.html' %}
   

 
 
 
-
 {% endblock %}
diff --git a/scidk/ui/templates/settings.html b/scidk/ui/templates/settings.html
deleted file mode 100644
index 625809e..0000000
--- a/scidk/ui/templates/settings.html
+++ /dev/null
@@ -1,2067 +0,0 @@
-{% extends 'base.html' %}
-{% block title %}-SciDK-> Settings{% endblock %}
-{% block head %}
-
-{% endblock %}
-{% block content %}
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-        Channel: {{ info.channel or 'stable' }}
-        Providers: {{ info.providers }}
-        Files viewer: {{ info.files_viewer or '(default)' }}
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Configuration Management

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Export and import your complete SciDK configuration for backup or migration.

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Neo4j Connection

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Configure Neo4j database connection and settings.

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Advanced / Health
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Configure the chat interface for natural language queries over your Neo4j graph.

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LLM Provider Configuration

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Manage stored chat sessions. (Feature in development)

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-          Coming soon: Persistent chat history storage, session management, and recall functionality.
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Interpreters

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Registered interpreter mappings and selection rules.

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Mappings (extension → interpreter ids)

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-    {% for ext, ids in (mappings or {}).items() %}
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  • {{ ext }} → {{ ids }}
    • 
-    {% else %}
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  • No mappings.
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Rules

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-    {% for r in (rules or []) %}
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    • 
-    {% else %}
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  • No rules.
    • 
-    {% endfor %}
-  

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Interpreter toggles

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Enable or disable interpreters globally. Changes persist to settings when possible. If CLI env overrides are set (SCIDK_ENABLE_INTERPRETERS/SCIDK_DISABLE_INTERPRETERS), those take precedence and are shown as source=cli.

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Plugins

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Plugin registry summary.

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    • 
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Rclone

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Configure rclone settings for interpretation and mounts.

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Interpretation

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Tune streaming-based interpretation from rclone remotes. For very large scans, consider mounting the remote.

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Mounts

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Manage rclone mounts under ./data/mounts.

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NameTargetPathStatusActions
No mounts.

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Note: On Windows, cmount/WinFsp may be required; this UI targets Linux/macOS primarily.

-    

-
-    
-    

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Integrations

-  
Configure integration mappings, API endpoints, and matching options.

-
-  
API Endpoint Mappings

-  
Define API endpoints that map to Label types in SciDK.

-
-  
-  

-    
Add New Endpoint

-    

-      

-        
-        
-      

-      

-        
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-      

-      

-        
-        
-      

-      

-        
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-        
-        
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-    

-    

-      
-      
-      
-    

-    

-  

-
-  
-  
Registered Endpoints

-  

-    
No endpoints registered yet

-  

-
-  
Table Format Registry

-  
Manage table formats for importing CSV, TSV, Excel, and Parquet files as link sources.

-
-  
-  

-    
Add Custom Format

-    

-      

-        
-        
-      

-      

-        
-        
-      

-      

-        
-        
-      

-      

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-      
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-    

-    

-
-    
-    
-  

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-  
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Registered Formats

-  

-    
Loading formats...

-  

-
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Fuzzy Matching Options

-  
Configure fuzzy matching algorithms for entity resolution in link creation.

-
-  
-  

-    
Global Fuzzy Matching Settings

-
-    
-    

-      

-        
-        
-        
Levenshtein: general fuzzy matching | Jaro-Winkler: names | Phonetic: sound-alike

-      

-      

-        
-        
-        
Minimum similarity score (0-100%) to consider a match

-      

-    

-
-    
-    

-      

-        

-          
-          
-        

-      

-      

-        

-          
-          
-        

-      

-      

-        

-          
-          
-        

-      

-    

-
-    
-    
-
-    
-    

-      Advanced Options
-      

-        

-          
-          
-        

-        

-          
-          
-        

-        

-          

-            
-            
-          

-        

-      

-    

-
-    
-    

-      
-      
-    

-    

-  

-
-  
-  

-    
Hybrid Matching Architecture

-    

-      Phase 1 (Client-Side): Pre-import matching using rapidfuzz - match external API/CSV data before pushing to Neo4j.
-    

-    

-      Phase 2 (Server-Side): Post-import matching using Neo4j APOC functions - ultra-fast in-database entity resolution for existing nodes.
-    

-  

-    

-  

-

-
-
-
-{% endblock %}
diff --git a/scidk/ui/templates/settings/_chat.html b/scidk/ui/templates/settings/_chat.html
new file mode 100644
index 0000000..6b2d8c2
--- /dev/null
+++ b/scidk/ui/templates/settings/_chat.html
@@ -0,0 +1,265 @@
+    
+    

+      
Chat

+      
Configure the chat interface for natural language queries over your Neo4j graph.

+
+      
LLM Provider Configuration

+      

+        

+          
+          
+          Choose which LLM to use for entity extraction and query generation.
+        

+      

+
+      
+      

+        
Anthropic API Configuration

+        

+          

+            
+            

+              
+              

+                
+                
+              

+            

+          

+          

+            
+            
+          

+        

+      

+
+      
+      
+
+      
+      
+
+      

+        
+      

+
+      
Chat Behavior

+      

+        

+          

+            
+            
+          

+          Can also be toggled per-session in the chat interface.
+        

+        

+          
+        

+      

+
+      

+        Advanced
+        

+          Environment variables:
+          
    
+            
  • SCIDK_ANTHROPIC_API_KEY - Anthropic API key for LLM-enhanced entity extraction
    • 
+            
  • SCIDK_GRAPHRAG_VERBOSE - Set to '1' or 'true' to enable verbose mode by default
    • 
+          

+        

+      

+
+      
Chat History

+      
Manage chat sessions with persistent database storage.

+      

+        

+          Chat sessions are now stored in the database and can be:
+        

+        
    
+          
  • Saved from the Chat interface using the "Save Session" button
    • 
+          
  • Loaded from the session selector dropdown
    • 
+          
  • Managed (rename, export, delete) using the "📂" button
    • 
+          
  • Exported as JSON files and imported from backups
    • 
+        

+        

+          Open Chat Interface →
+        

+      

+    

+
+
diff --git a/scidk/ui/templates/settings/_general.html b/scidk/ui/templates/settings/_general.html
new file mode 100644
index 0000000..aa83e69
--- /dev/null
+++ b/scidk/ui/templates/settings/_general.html
@@ -0,0 +1,989 @@
+    
+    

+      
General

+      
Basic runtime information and counts.

+      
    
+        
  • Host: {{ info.host }}
    • 
+        
  • Port: {{ info.port }}
    • 
+        
  • Debug: {{ info.debug }}
    • 
+        
  • Datasets: {{ info.dataset_count }}
    • 
+        
  • Interpreters: {{ info.interpreter_count }}
    • 
+      

+      

+        Channel: {{ info.channel or 'stable' }}
+        Providers: {{ info.providers }}
+        Files viewer: {{ info.files_viewer or '(default)' }}
+      

+
+      
Configuration Management

+      
Export and import your complete SciDK configuration for backup or migration.

+      

+        
+        
+        
+      

+      
+      
+      
Exports all settings including Neo4j connection, interpreters, plugins, rclone mounts, and integration endpoints.

+
+      
Security

+      
Configure authentication and access control for this SciDK instance.

+
+      
+      
+
+      
+      

+        

+          
+          

+            
+            
+          

+        

+        
+        
+        

+      

+
+      
+      
+
+      
+      
+
+      
+      
+
+      
+      
+    

+
+
diff --git a/scidk/ui/templates/settings/_integrations.html b/scidk/ui/templates/settings/_integrations.html
new file mode 100644
index 0000000..09fe694
--- /dev/null
+++ b/scidk/ui/templates/settings/_integrations.html
@@ -0,0 +1,1015 @@
+    
+    

+  
Integrations

+  
Configure integration mappings, API endpoints, and matching options.

+
+  
API Endpoint Mappings

+  
Define API endpoints that map to Label types in SciDK.

+
+  
+  

+    
Add New Endpoint

+    

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        
+        
+      

+    

+    

+      
+      
+      
+    

+    

+  

+
+  
+  
Registered Endpoints

+  

+    
No endpoints registered yet

+  

+
+  
Table Format Registry

+  
Manage table formats for importing CSV, TSV, Excel, and Parquet files as link sources.

+
+  
+  

+    
Add Custom Format

+    

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        
+        
+      

+      

+        

+          
+          
+        

+      

+    

+    

+      
+      
+    

+    

+      
+      
+      
+    

+    

+
+    
+    
+  

+
+  
+  
Registered Formats

+  

+    
Loading formats...

+  

+
+  
Fuzzy Matching Options

+  
Configure fuzzy matching algorithms for entity resolution in link creation.

+
+  
+  

+    
Global Fuzzy Matching Settings

+
+    
+    

+      

+        
+        
+        
Levenshtein: general fuzzy matching | Jaro-Winkler: names | Phonetic: sound-alike

+      

+      

+        
+        
+        
Minimum similarity score (0-100%) to consider a match

+      

+    

+
+    
+    

+      

+        

+          
+          
+        

+      

+      

+        

+          
+          
+        

+      

+      

+        

+          
+          
+        

+      

+    

+
+    
+    
+
+    
+    

+      Advanced Options
+      

+        

+          
+          
+        

+        

+          
+          
+        

+        

+          

+            
+            
+          

+        

+      

+    

+
+    
+    

+      
+      
+    

+    

+  

+
+  
+  

+    
Hybrid Matching Architecture

+    

+      Phase 1 (Client-Side): Pre-import matching using rapidfuzz - match external API/CSV data before pushing to Neo4j.
+    

+    

+      Phase 2 (Server-Side): Post-import matching using Neo4j APOC functions - ultra-fast in-database entity resolution for existing nodes.
+    

+  

+    

+
+
diff --git a/scidk/ui/templates/settings/_interpreters.html b/scidk/ui/templates/settings/_interpreters.html
new file mode 100644
index 0000000..170f9b2
--- /dev/null
+++ b/scidk/ui/templates/settings/_interpreters.html
@@ -0,0 +1,118 @@
+    
+    

+  
Interpreters

+  
Registered interpreter mappings and selection rules.

+  
Mappings (extension → interpreter ids)

+  
    
+    {% for ext, ids in (mappings or {}).items() %}
+      
  • {{ ext }} → {{ ids }}
    • 
+    {% else %}
+      
  • No mappings.
    • 
+    {% endfor %}
+  

+  
Rules

+  
    
+    {% for r in (rules or []) %}
+      
  • {{ r.id }} → interpreter_id={{ r.interpreter_id }}, pattern={{ r.pattern }}, priority={{ r.priority }}
    • 
+    {% else %}
+      
  • No rules.
    • 
+    {% endfor %}
+  

+
+  
Interpreter toggles

+  
Enable or disable interpreters globally. Changes persist to settings when possible. If CLI env overrides are set (SCIDK_ENABLE_INTERPRETERS/SCIDK_DISABLE_INTERPRETERS), those take precedence and are shown as source=cli.

+  
+  

+    
+      
+        
+          
+          
+          
+          
+        
+      
+      
+    
InterpreterExtensionsEnabledSource

+  

+  
+    

diff --git a/scidk/ui/templates/settings/_neo4j.html b/scidk/ui/templates/settings/_neo4j.html
new file mode 100644
index 0000000..c03816f
--- /dev/null
+++ b/scidk/ui/templates/settings/_neo4j.html
@@ -0,0 +1,177 @@
+

+  
Neo4j Connection

+  
Configure Neo4j database connection and settings.

+  

+    

+      
+      
+    

+    

+      
+      
+    

+    

+      
+      
+    

+    

+      
+      

+        
+        

+          
+          
+        

+      

+    

+    

+      
+      
+      
+      

+      
+    

+  

+  
Advanced / Health
+    

+      
+      
+    

+    
You can also set env vars: NEO4J_URI, NEO4J_USER, NEO4J_PASSWORD, SCIDK_NEO4J_DATABASE

+    
If your Neo4j has authentication disabled, set environment variable NEO4J_AUTH=none before starting the app.

+  

+

+
+
diff --git a/scidk/ui/templates/settings/_plugins.html b/scidk/ui/templates/settings/_plugins.html
new file mode 100644
index 0000000..da6977b
--- /dev/null
+++ b/scidk/ui/templates/settings/_plugins.html
@@ -0,0 +1,8 @@
+

+  
Plugins

+  
Plugin registry summary.

+  
    
+    
  • Registered interpreter count: {{ interp_count or 0 }}
    • 
+    
  • Extensions mapped: {{ ext_count or 0 }}
    • 
+  

+

diff --git a/scidk/ui/templates/settings/_rclone.html b/scidk/ui/templates/settings/_rclone.html
new file mode 100644
index 0000000..56a71a6
--- /dev/null
+++ b/scidk/ui/templates/settings/_rclone.html
@@ -0,0 +1,146 @@
+

+  
Rclone

+  
Configure rclone settings for interpretation and mounts.

+
+  
Interpretation

+  
Tune streaming-based interpretation from rclone remotes. For very large scans, consider mounting the remote.

+  

+    

+      
+      
+    

+    

+      
+      
+    

+    

+      
+      
+    

+  

+
+  
Mounts

+  
Manage rclone mounts under ./data/mounts.

+  

+    

+      
+      
+    

+    

+      
+      
+    

+    

+      
+      
+    

+    

+      

+        
+        
+      

+      
+    

+  

+  

+    
+  

+  
+    
+      
+    
+    
+      
+    
+  
NameTargetPathStatusActions
No mounts.

+  

+  
Note: On Windows, cmount/WinFsp may be required; this UI targets Linux/macOS primarily.

+

+
+

From 8d0bdb1359fb55ed3f4242b8f03f26e0809f88f5 Mon Sep 17 00:00:00 2001
From: Adam Patch 
Date: Sun, 8 Feb 2026 15:31:32 -0500
Subject: [PATCH 3/5] chore(dev): update submodule pointer for completed
 settings-modularization task

---
 dev | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev b/dev
index b84382d..ad6f67f 160000
--- a/dev
+++ b/dev
@@ -1 +1 @@
-Subproject commit b84382db5b9299231daee71579262d2792d7c39c
+Subproject commit ad6f67fbedb7d04036c5a19ce8cbad949bab692e

From f0eeb5b6f8d0840fa7f31d3af80fce7d7eb58a80 Mon Sep 17 00:00:00 2001
From: Adam Patch 
Date: Sun, 8 Feb 2026 15:43:03 -0500
Subject: [PATCH 4/5] feat(security): implement auto-lock after inactivity
 timeout
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

Adds comprehensive session locking functionality with:
- Server-side session lock/unlock API endpoints
- Client-side activity monitoring with configurable timeouts
- Lock screen overlay with password verification
- Auto-lock settings in Security section (1-120 minutes)
- Session lock state tracking in auth_sessions table
- Audit logging for lock/unlock events
- Failed unlock attempt tracking
- Middleware integration (returns 423 when locked)

Backend changes:
- Add locked/locked_at columns to auth_sessions table
- Add lock_session(), unlock_session(), is_session_locked() methods
- Add get_session_lock_info() for retrieving lock state
- Add migration for existing databases
- Add /api/auth/lock and /api/auth/unlock endpoints
- Add /api/settings/security/auto-lock GET/POST endpoints
- Update auth middleware to check session lock state

Frontend changes:
- Add ActivityMonitor JavaScript class in base.html
- Track mouse, keyboard, scroll, touch activity
- Auto-lock session after configured inactivity period
- Show lock screen overlay with username and lock time
- Password-only unlock (no username required)
- Auto-load lock screen if session already locked
- Add auto-lock enable/disable toggle in Settings
- Add timeout configuration (1-120 minutes)

Testing:
- 12 unit tests covering lock/unlock functionality
- Test session locking and unlocking
- Test password verification
- Test audit logging
- Test settings storage
- All tests passing

Acceptance criteria met:
✅ User can enable auto-lock in Settings > General > Security
✅ User can configure inactivity timeout (1-120 minutes)
✅ After configured inactivity, session is locked
✅ Locked session shows lock screen with password prompt
✅ User can unlock with password (no username required)
✅ Activity tracking includes mouse/keyboard/scroll/touch
✅ Lock screen shows username and time of lock
✅ Failed unlock attempts logged for security
✅ Unit tests verify functionality

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

Co-Authored-By: Claude 
---
 scidk/core/auth.py                        | 153 +++++++++++++++-
 scidk/ui/templates/base.html              | 214 ++++++++++++++++++++++
 scidk/ui/templates/settings/_general.html | 134 +++++++++++---
 scidk/web/auth_middleware.py              |  20 ++
 scidk/web/routes/api_auth.py              | 109 ++++++++++-
 scidk/web/routes/api_settings.py          | 175 ++++++++++++++++++
 tests/test_auto_lock.py                   | 208 +++++++++++++++++++++
 7 files changed, 980 insertions(+), 33 deletions(-)
 create mode 100644 tests/test_auto_lock.py

diff --git a/scidk/core/auth.py b/scidk/core/auth.py
index 5ba0afd..83f642f 100644
--- a/scidk/core/auth.py
+++ b/scidk/core/auth.py
@@ -66,7 +66,7 @@ def init_tables(self):
             """
         )
 
-        # Active sessions table (updated with user_id)
+        # Active sessions table (updated with user_id and locked state)
         self.db.execute(
             """
             CREATE TABLE IF NOT EXISTS auth_sessions (
@@ -76,6 +76,8 @@ def init_tables(self):
                 created_at REAL NOT NULL,
                 expires_at REAL NOT NULL,
                 last_activity REAL NOT NULL,
+                locked INTEGER DEFAULT 0,
+                locked_at REAL,
                 FOREIGN KEY (user_id) REFERENCES auth_users(id) ON DELETE CASCADE
             )
             """
@@ -112,6 +114,9 @@ def init_tables(self):
         # Auto-migrate from single-user to multi-user on first run
         self._migrate_to_multi_user()
 
+        # Migrate to add lock columns to auth_sessions
+        self._migrate_add_session_lock_columns()
+
     def _migrate_to_multi_user(self):
         """Migrate from single-user auth_config to multi-user auth_users table.
 
@@ -154,6 +159,25 @@ def _migrate_to_multi_user(self):
         except Exception as e:
             print(f"Migration warning: {e}")
 
+    def _migrate_add_session_lock_columns(self):
+        """Add locked and locked_at columns to auth_sessions table if they don't exist."""
+        try:
+            # Check if locked column exists
+            cur = self.db.execute("PRAGMA table_info(auth_sessions)")
+            columns = [row[1] for row in cur.fetchall()]
+
+            if 'locked' not in columns:
+                self.db.execute("ALTER TABLE auth_sessions ADD COLUMN locked INTEGER DEFAULT 0")
+                print("Added locked column to auth_sessions table")
+
+            if 'locked_at' not in columns:
+                self.db.execute("ALTER TABLE auth_sessions ADD COLUMN locked_at REAL")
+                print("Added locked_at column to auth_sessions table")
+
+            self.db.commit()
+        except Exception as e:
+            print(f"Migration warning (session lock columns): {e}")
+
     def is_enabled(self) -> bool:
         """Check if authentication is currently enabled.
 
@@ -906,6 +930,133 @@ def get_audit_log(self, since_timestamp: Optional[float] = None,
             print(f"AuthManager.get_audit_log error: {e}")
             return []
 
+    # ========== Session Locking ==========
+
+    def lock_session(self, token: str) -> bool:
+        """Lock a session (auto-lock feature).
+
+        Args:
+            token: Session token to lock
+
+        Returns:
+            bool: True if successful, False on error
+        """
+        try:
+            now = time.time()
+            self.db.execute(
+                "UPDATE auth_sessions SET locked = 1, locked_at = ? WHERE token = ?",
+                (now, token)
+            )
+            self.db.commit()
+            return True
+        except Exception as e:
+            print(f"AuthManager.lock_session error: {e}")
+            return False
+
+    def unlock_session(self, token: str, password: str) -> bool:
+        """Unlock a locked session with password verification.
+
+        Args:
+            token: Session token to unlock
+            password: Password to verify
+
+        Returns:
+            bool: True if unlock successful, False if password invalid or error
+        """
+        try:
+            # Get session info
+            cur = self.db.execute(
+                """
+                SELECT s.username, s.user_id, s.locked
+                FROM auth_sessions s
+                WHERE s.token = ?
+                """,
+                (token,)
+            )
+            row = cur.fetchone()
+
+            if not row or not row[2]:  # Not found or not locked
+                return False
+
+            username, user_id = row[0], row[1]
+
+            # Verify password (try multi-user first)
+            if user_id is not None:
+                user = self.verify_user_credentials(username, password)
+                if not user:
+                    return False
+            else:
+                # Legacy single-user verification
+                if not self.verify_credentials(username, password):
+                    return False
+
+            # Unlock session
+            self.db.execute(
+                "UPDATE auth_sessions SET locked = 0, locked_at = NULL WHERE token = ?",
+                (token,)
+            )
+            self.db.commit()
+
+            # Log successful unlock
+            ip_address = None  # Will be set by API route
+            self.log_audit(username, 'session_unlocked', 'Session unlocked', ip_address)
+
+            return True
+        except Exception as e:
+            print(f"AuthManager.unlock_session error: {e}")
+            return False
+
+    def is_session_locked(self, token: str) -> bool:
+        """Check if a session is currently locked.
+
+        Args:
+            token: Session token to check
+
+        Returns:
+            bool: True if session is locked, False otherwise
+        """
+        try:
+            cur = self.db.execute(
+                "SELECT locked FROM auth_sessions WHERE token = ?",
+                (token,)
+            )
+            row = cur.fetchone()
+            return bool(row and row[0]) if row else False
+        except Exception:
+            return False
+
+    def get_session_lock_info(self, token: str) -> Optional[Dict[str, Any]]:
+        """Get lock information for a session.
+
+        Args:
+            token: Session token
+
+        Returns:
+            dict or None: Lock info with keys: username, locked, locked_at
+        """
+        try:
+            cur = self.db.execute(
+                """
+                SELECT username, locked, locked_at
+                FROM auth_sessions
+                WHERE token = ?
+                """,
+                (token,)
+            )
+            row = cur.fetchone()
+
+            if not row:
+                return None
+
+            return {
+                'username': row[0],
+                'locked': bool(row[1]),
+                'locked_at': row[2],
+            }
+        except Exception as e:
+            print(f"AuthManager.get_session_lock_info error: {e}")
+            return None
+
     def close(self):
         """Close database connection."""
         try:
diff --git a/scidk/ui/templates/base.html b/scidk/ui/templates/base.html
index 7e832d7..7df4b81 100644
--- a/scidk/ui/templates/base.html
+++ b/scidk/ui/templates/base.html
@@ -122,6 +122,220 @@ 
Session Locked

+        
Locked at ${timeStr}

+        
User: ${username || 'Unknown'}

+        

+          
+          
+          
+        

+        
+      `;
+
+      lockScreen.appendChild(lockDialog);
+      document.body.appendChild(lockScreen);
+
+      // Handle unlock form submission
+      const unlockForm = document.getElementById('unlock-form');
+      const unlockPassword = document.getElementById('unlock-password');
+      const unlockError = document.getElementById('unlock-error');
+
+      unlockForm.addEventListener('submit', async (e) => {
+        e.preventDefault();
+
+        const password = unlockPassword.value;
+
+        if (!password) {
+          unlockError.textContent = 'Password is required';
+          unlockError.style.display = 'block';
+          return;
+        }
+
+        try {
+          const response = await fetch('/api/auth/unlock', {
+            method: 'POST',
+            headers: { 'Content-Type': 'application/json' },
+            body: JSON.stringify({ password }),
+          });
+
+          if (response.ok) {
+            // Unlock successful - remove lock screen and restart activity monitor
+            lockScreen.remove();
+
+            // Restart activity monitor if it was active
+            if (activityMonitor) {
+              const configResponse = await fetch('/api/settings/security/auto-lock');
+              const configData = await configResponse.json();
+              if (configData.status === 'success' && configData.config.enabled) {
+                activityMonitor.start();
+              }
+            }
+
+            // Optionally show success toast
+            window.toast('Session unlocked', 'success', 2000);
+          } else {
+            const data = await response.json();
+            unlockError.textContent = data.error || 'Invalid password';
+            unlockError.style.display = 'block';
+            unlockPassword.value = '';
+            unlockPassword.focus();
+          }
+        } catch (error) {
+          unlockError.textContent = 'Unlock failed. Please try again.';
+          unlockError.style.display = 'block';
+          console.error('Unlock error:', error);
+        }
+      });
+
+      // Focus password input
+      unlockPassword.focus();
+    }
+
+    // Initialize on page load
+    initAutoLock();
+
+    // Export for external use
+    window.scidkActivityMonitor = activityMonitor;
+  })();
 
 
 
diff --git a/scidk/ui/templates/settings/_general.html b/scidk/ui/templates/settings/_general.html
index aa83e69..e15cac0 100644
--- a/scidk/ui/templates/settings/_general.html
+++ b/scidk/ui/templates/settings/_general.html
@@ -62,6 +62,25 @@ 
Security

               
             
           
+          

+            
+            

+              
+              
+            

+            
+          

         
         
         

@@ -447,8 +466,9 @@ 
Configuration Backups

     const usernameInput = document.getElementById('security-username');
     const passwordInput = document.getElementById('security-password');
     const passwordShowCheck = document.getElementById('security-password-show');
-    const lockEnabledCheck = document.getElementById('security-lock-enabled');
-    const lockTimeoutContainer = document.getElementById('security-lock-timeout-container');
+    const autoLockEnabledCheck = document.getElementById('auto-lock-enabled');
+    const autoLockTimeoutContainer = document.getElementById('auto-lock-timeout-container');
+    const autoLockTimeoutInput = document.getElementById('auto-lock-timeout');
     const saveSecurityBtn = document.getElementById('btn-save-security');
     const statusP = document.getElementById('security-status');
 
@@ -475,6 +495,23 @@ 
Configuration Backups

       }
     }
 
+    // Load auto-lock config
+    async function loadAutoLockConfig() {
+      try {
+        const response = await fetch('/api/settings/security/auto-lock');
+        if (response.ok) {
+          const data = await response.json();
+          if (data.status === 'success' && data.config) {
+            autoLockEnabledCheck.checked = data.config.enabled || false;
+            autoLockTimeoutInput.value = data.config.timeout_minutes || 5;
+            autoLockTimeoutContainer.style.display = data.config.enabled ? 'block' : 'none';
+          }
+        }
+      } catch (error) {
+        console.error('Failed to load auto-lock config:', error);
+      }
+    }
+
     // Toggle auth settings visibility
     authEnabledCheck.addEventListener('change', () => {
       authSettingsDiv.style.display = authEnabledCheck.checked ? 'block' : 'none';
@@ -487,10 +524,10 @@ 
Configuration Backups

       });
     }
 
-    // Toggle lock timeout input (not yet implemented - future task)
-    if (lockEnabledCheck && lockTimeoutContainer) {
-      lockEnabledCheck.addEventListener('change', () => {
-        lockTimeoutContainer.style.display = lockEnabledCheck.checked ? 'block' : 'none';
+    // Toggle auto-lock timeout input
+    if (autoLockEnabledCheck && autoLockTimeoutContainer) {
+      autoLockEnabledCheck.addEventListener('change', () => {
+        autoLockTimeoutContainer.style.display = autoLockEnabledCheck.checked ? 'block' : 'none';
       });
     }
 
@@ -501,6 +538,10 @@ 
Configuration Backups

         const username = usernameInput.value.trim();
         const password = passwordInput.value.trim();
 
+        // Auto-lock settings
+        const autoLockEnabled = autoLockEnabledCheck.checked;
+        const autoLockTimeout = parseInt(autoLockTimeoutInput.value, 10);
+
         // Validation
         if (enabled && !username) {
           toast('Username is required when enabling authentication', 'error');
@@ -513,48 +554,80 @@ 
Configuration Backups

           return;
         }
 
+        // Validate auto-lock timeout
+        if (autoLockEnabled && (isNaN(autoLockTimeout) || autoLockTimeout < 1 || autoLockTimeout > 120)) {
+          toast('Auto-lock timeout must be between 1 and 120 minutes', 'error');
+          return;
+        }
+
         // Disable button during save
         saveSecurityBtn.disabled = true;
         saveSecurityBtn.textContent = 'Saving...';
         statusP.textContent = '';
 
         try {
-          const payload = { enabled, username };
+          // Save auth settings
+          const authPayload = { enabled, username };
           if (password) {
-            payload.password = password;
+            authPayload.password = password;
           }
 
-          const response = await fetch('/api/settings/security/auth', {
+          const authResponse = await fetch('/api/settings/security/auth', {
             method: 'POST',
             headers: {
               'Content-Type': 'application/json',
             },
-            body: JSON.stringify(payload),
+            body: JSON.stringify(authPayload),
           });
 
-          const data = await response.json();
+          const authData = await authResponse.json();
+
+          if (!authResponse.ok || authData.status !== 'success') {
+            toast(authData.error || 'Failed to save authentication settings', 'error');
+            statusP.textContent = '❌ ' + (authData.error || 'Failed to save');
+            statusP.style.color = '#b00';
+            return;
+          }
 
-          if (response.ok && data.status === 'success') {
-            toast('Security settings saved successfully', 'success');
-            statusP.textContent = enabled ?
-              '✅ Authentication is enabled. Users will need to log in to access SciDK.' :
-              'Authentication is disabled. SciDK is accessible without login.';
-            statusP.style.color = '#0a6';
+          // Save auto-lock settings
+          const autoLockPayload = {
+            enabled: autoLockEnabled,
+            timeout_minutes: autoLockTimeout
+          };
 
-            // Clear password field after successful save
-            passwordInput.value = '';
-            passwordInput.placeholder = '••••••••';
+          const autoLockResponse = await fetch('/api/settings/security/auto-lock', {
+            method: 'POST',
+            headers: {
+              'Content-Type': 'application/json',
+            },
+            body: JSON.stringify(autoLockPayload),
+          });
 
-            // If auth was enabled, redirect to login after a short delay
-            if (enabled) {
-              setTimeout(() => {
-                window.location.href = '/login';
-              }, 2000);
-            }
-          } else {
-            toast(data.error || 'Failed to save security settings', 'error');
-            statusP.textContent = '❌ ' + (data.error || 'Failed to save');
-            statusP.style.color = '#b00';
+          const autoLockData = await autoLockResponse.json();
+
+          if (!autoLockResponse.ok || autoLockData.status !== 'success') {
+            toast('Auth saved, but auto-lock settings failed to save', 'error');
+            statusP.textContent = '⚠️ Partial save - auto-lock settings not saved';
+            statusP.style.color = '#f80';
+            return;
+          }
+
+          // Both saved successfully
+          toast('Security settings saved successfully', 'success');
+          statusP.textContent = enabled ?
+            '✅ Authentication is enabled. Users will need to log in to access SciDK.' :
+            'Authentication is disabled. SciDK is accessible without login.';
+          statusP.style.color = '#0a6';
+
+          // Clear password field after successful save
+          passwordInput.value = '';
+          passwordInput.placeholder = '••••••••';
+
+          // If auth was enabled, redirect to login after a short delay
+          if (enabled) {
+            setTimeout(() => {
+              window.location.href = '/login';
+            }, 2000);
           }
         } catch (error) {
           toast('Connection error. Please try again.', 'error');
@@ -569,6 +642,7 @@ 
Configuration Backups

 
     // Load initial config
     loadAuthConfig();
+    loadAutoLockConfig();
 
     // Check if current user is admin and show user management/audit sections
     checkAdminAccess();
diff --git a/scidk/web/auth_middleware.py b/scidk/web/auth_middleware.py
index 4340fc6..c19bc30 100644
--- a/scidk/web/auth_middleware.py
+++ b/scidk/web/auth_middleware.py
@@ -13,6 +13,8 @@
     '/login',
     '/api/auth/login',
     '/api/auth/status',
+    '/api/auth/lock',  # Lock session (requires valid session, but allows locking)
+    '/api/auth/unlock',  # Unlock session (requires password, checked by endpoint)
     '/api/settings/security/auth',  # Allow disabling/checking auth config
     '/api/health',  # Health check endpoint (legitimately needs to be public)
     '/static',  # Prefix for static files
@@ -99,6 +101,24 @@ def check_auth():
             user = {'username': username, 'role': 'admin'}
 
     if user:
+        # Check if session is locked (only for non-lock-related routes)
+        if not is_public_route(request.path):
+            is_locked = auth.is_session_locked(token)
+            if is_locked:
+                # Session is locked - return 423 (Locked) status
+                if request.path.startswith('/api/'):
+                    from flask import jsonify
+                    lock_info = auth.get_session_lock_info(token)
+                    return jsonify({
+                        'error': 'Session locked',
+                        'locked': True,
+                        'locked_at': lock_info['locked_at'] if lock_info else None,
+                        'username': lock_info['username'] if lock_info else None,
+                    }), 423
+                else:
+                    # UI requests - this will be handled by JavaScript lock screen
+                    pass
+
         # Authentication successful - store user info in Flask g for access in routes
         from flask import g
         g.scidk_user = user['username']
diff --git a/scidk/web/routes/api_auth.py b/scidk/web/routes/api_auth.py
index a4af662..507ac13 100644
--- a/scidk/web/routes/api_auth.py
+++ b/scidk/web/routes/api_auth.py
@@ -167,13 +167,15 @@ def api_auth_status():
             "authenticated": true,
             "username": "admin",
             "auth_enabled": true,
-            "token_valid": true
+            "token_valid": true,
+            "session_locked": false
         }
         or
         200: {
             "authenticated": false,
             "auth_enabled": true,
-            "token_valid": false
+            "token_valid": false,
+            "session_locked": false
         }
     """
     auth = _get_auth_manager()
@@ -186,6 +188,7 @@ def api_auth_status():
             'username': None,
             'auth_enabled': False,
             'token_valid': False,
+            'session_locked': False,
         }), 200
 
     # Check if user has valid session (try multi-user first)
@@ -198,6 +201,9 @@ def api_auth_status():
         if username:
             user = {'username': username, 'role': 'admin', 'id': None}
 
+    # Check if session is locked
+    session_locked = auth.is_session_locked(token) if token else False
+
     if user:
         return jsonify({
             'authenticated': True,
@@ -206,6 +212,7 @@ def api_auth_status():
             'user_id': user.get('id'),
             'auth_enabled': True,
             'token_valid': True,
+            'session_locked': session_locked,
         }), 200
     else:
         return jsonify({
@@ -215,4 +222,102 @@ def api_auth_status():
             'user_id': None,
             'auth_enabled': True,
             'token_valid': False,
+            'session_locked': False,
         }), 200
+
+
+@bp.post('/lock')
+def api_auth_lock():
+    """Lock current session (auto-lock feature).
+
+    Returns:
+        200: {"success": true, "locked_at": timestamp}
+        400: {"success": false, "error": "No active session"}
+        503: {"success": false, "error": "Authentication not enabled"}
+    """
+    auth = _get_auth_manager()
+
+    # Check if auth is enabled
+    if not auth.is_enabled():
+        return jsonify({'success': False, 'error': 'Authentication not enabled'}), 503
+
+    token = _get_session_token()
+
+    if not token:
+        return jsonify({'success': False, 'error': 'No active session'}), 400
+
+    # Lock the session
+    success = auth.lock_session(token)
+
+    if success:
+        # Get lock info
+        lock_info = auth.get_session_lock_info(token)
+
+        # Log lock event
+        if lock_info:
+            ip_address = request.remote_addr
+            auth.log_audit(lock_info['username'], 'session_locked', 'Session locked', ip_address)
+
+        return jsonify({
+            'success': True,
+            'locked_at': lock_info['locked_at'] if lock_info else None,
+        }), 200
+    else:
+        return jsonify({'success': False, 'error': 'Failed to lock session'}), 500
+
+
+@bp.post('/unlock')
+def api_auth_unlock():
+    """Unlock a locked session with password verification.
+
+    Request body:
+        {
+            "password": "password123"
+        }
+
+    Returns:
+        200: {"success": true}
+        400: {"success": false, "error": "Missing password"}
+        401: {"success": false, "error": "Invalid password"}
+        400: {"success": false, "error": "No active session"}
+        503: {"success": false, "error": "Authentication not enabled"}
+    """
+    auth = _get_auth_manager()
+
+    # Check if auth is enabled
+    if not auth.is_enabled():
+        return jsonify({'success': False, 'error': 'Authentication not enabled'}), 503
+
+    token = _get_session_token()
+
+    if not token:
+        return jsonify({'success': False, 'error': 'No active session'}), 400
+
+    # Parse request body
+    data = request.get_json() or {}
+    password = data.get('password', '')
+
+    if not password:
+        return jsonify({'success': False, 'error': 'Missing password'}), 400
+
+    # Attempt unlock
+    success = auth.unlock_session(token, password)
+
+    if success:
+        # Get session info for audit log
+        lock_info = auth.get_session_lock_info(token)
+
+        if lock_info:
+            ip_address = request.remote_addr
+            auth.log_audit(lock_info['username'], 'session_unlocked', 'Session unlocked successfully', ip_address)
+
+        return jsonify({'success': True}), 200
+    else:
+        # Log failed unlock attempt
+        lock_info = auth.get_session_lock_info(token)
+        if lock_info:
+            ip_address = request.remote_addr
+            auth.log_failed_attempt(lock_info['username'], ip_address)
+            auth.log_audit(lock_info['username'], 'unlock_failed', 'Failed unlock attempt', ip_address)
+
+        return jsonify({'success': False, 'error': 'Invalid password'}), 401
diff --git a/scidk/web/routes/api_settings.py b/scidk/web/routes/api_settings.py
index b294aa1..66e9532 100644
--- a/scidk/web/routes/api_settings.py
+++ b/scidk/web/routes/api_settings.py
@@ -886,6 +886,181 @@ def update_security_auth_config():
         }), 500
 
 
+@bp.route('/settings/security/auto-lock', methods=['GET'])
+def get_auto_lock_config():
+    """
+    Get auto-lock configuration.
+
+    Returns:
+    {
+        "status": "success",
+        "config": {
+            "enabled": false,
+            "timeout_minutes": 5
+        }
+    }
+    """
+    try:
+        settings_db = current_app.config.get('SCIDK_SETTINGS_DB', 'scidk_settings.db')
+        import sqlite3
+        conn = sqlite3.connect(settings_db)
+        cur = conn.execute(
+            """
+            SELECT value FROM settings
+            WHERE key IN ('auto_lock_enabled', 'auto_lock_timeout_minutes')
+            """
+        )
+        rows = cur.fetchall()
+        conn.close()
+
+        config = {
+            'enabled': False,
+            'timeout_minutes': 5,  # Default 5 minutes
+        }
+
+        # Parse settings (stored as key-value pairs)
+        settings_dict = {}
+        conn = sqlite3.connect(settings_db)
+        cur = conn.execute("SELECT key, value FROM settings")
+        for row in cur.fetchall():
+            settings_dict[row[0]] = row[1]
+        conn.close()
+
+        if 'auto_lock_enabled' in settings_dict:
+            config['enabled'] = settings_dict['auto_lock_enabled'] == 'true'
+
+        if 'auto_lock_timeout_minutes' in settings_dict:
+            try:
+                config['timeout_minutes'] = int(settings_dict['auto_lock_timeout_minutes'])
+            except (ValueError, TypeError):
+                config['timeout_minutes'] = 5
+
+        return jsonify({
+            'status': 'success',
+            'config': config
+        }), 200
+    except Exception as e:
+        return jsonify({
+            'status': 'error',
+            'error': str(e)
+        }), 500
+
+
+@bp.route('/settings/security/auto-lock', methods=['POST', 'PUT'])
+def update_auto_lock_config():
+    """
+    Update auto-lock configuration.
+
+    Request body:
+    {
+        "enabled": true,
+        "timeout_minutes": 5
+    }
+
+    Returns:
+    {
+        "status": "success",
+        "config": {
+            "enabled": true,
+            "timeout_minutes": 5
+        }
+    }
+    """
+    try:
+        data = request.get_json()
+        if not data:
+            return jsonify({
+                'status': 'error',
+                'error': 'Request body must be JSON'
+            }), 400
+
+        enabled = data.get('enabled', False)
+        timeout_minutes = data.get('timeout_minutes', 5)
+
+        # Validation
+        if not isinstance(enabled, bool):
+            return jsonify({
+                'status': 'error',
+                'error': 'enabled must be a boolean'
+            }), 400
+
+        try:
+            timeout_minutes = int(timeout_minutes)
+        except (ValueError, TypeError):
+            return jsonify({
+                'status': 'error',
+                'error': 'timeout_minutes must be an integer'
+            }), 400
+
+        if timeout_minutes < 1 or timeout_minutes > 120:
+            return jsonify({
+                'status': 'error',
+                'error': 'timeout_minutes must be between 1 and 120'
+            }), 400
+
+        # Save settings
+        settings_db = current_app.config.get('SCIDK_SETTINGS_DB', 'scidk_settings.db')
+        import sqlite3
+        conn = sqlite3.connect(settings_db)
+
+        # Create settings table if it doesn't exist
+        conn.execute(
+            """
+            CREATE TABLE IF NOT EXISTS settings (
+                key TEXT PRIMARY KEY,
+                value TEXT,
+                updated_at REAL
+            )
+            """
+        )
+
+        import time
+        now = time.time()
+
+        # Upsert settings
+        conn.execute(
+            """
+            INSERT OR REPLACE INTO settings (key, value, updated_at)
+            VALUES ('auto_lock_enabled', ?, ?)
+            """,
+            ('true' if enabled else 'false', now)
+        )
+
+        conn.execute(
+            """
+            INSERT OR REPLACE INTO settings (key, value, updated_at)
+            VALUES ('auto_lock_timeout_minutes', ?, ?)
+            """,
+            (str(timeout_minutes), now)
+        )
+
+        conn.commit()
+        conn.close()
+
+        # Log audit event
+        auth = _get_auth_manager()
+        username = getattr(g, 'scidk_user', 'system')
+        auth.log_audit(
+            username,
+            'auto_lock_configured',
+            f'Auto-lock {"enabled" if enabled else "disabled"}, timeout: {timeout_minutes} minutes',
+            request.remote_addr
+        )
+
+        return jsonify({
+            'status': 'success',
+            'config': {
+                'enabled': enabled,
+                'timeout_minutes': timeout_minutes,
+            }
+        }), 200
+    except Exception as e:
+        return jsonify({
+            'status': 'error',
+            'error': str(e)
+        }), 500
+
+
 def _get_backup_manager():
     """Get or create BackupManager instance."""
     from ...core.backup_manager import get_backup_manager
diff --git a/tests/test_auto_lock.py b/tests/test_auto_lock.py
new file mode 100644
index 0000000..648f89a
--- /dev/null
+++ b/tests/test_auto_lock.py
@@ -0,0 +1,208 @@
+"""Tests for auto-lock functionality."""
+
+import pytest
+import time
+import sqlite3
+from scidk.core.auth import AuthManager
+
+
+@pytest.fixture
+def auth_manager(tmp_path):
+    """Create a temporary AuthManager for testing."""
+    db_path = tmp_path / 'test_auth.db'
+    manager = AuthManager(db_path=str(db_path))
+
+    # Create a test user
+    user_id = manager.create_user('testuser', 'testpass123', role='admin', created_by='system')
+    assert user_id is not None
+
+    yield manager
+
+    manager.close()
+
+
+def test_session_lock_columns_migration(tmp_path):
+    """Test that lock columns are added to auth_sessions table."""
+    db_path = tmp_path / 'test_migration.db'
+
+    # Create database without lock columns (simulate old schema)
+    conn = sqlite3.connect(str(db_path))
+    conn.execute('PRAGMA journal_mode=WAL;')
+    conn.execute(
+        """
+        CREATE TABLE auth_sessions (
+            token TEXT PRIMARY KEY,
+            username TEXT NOT NULL,
+            created_at REAL NOT NULL,
+            expires_at REAL NOT NULL,
+            last_activity REAL NOT NULL
+        )
+        """
+    )
+    conn.commit()
+    conn.close()
+
+    # Initialize AuthManager - should trigger migration
+    manager = AuthManager(db_path=str(db_path))
+
+    # Check that lock columns exist
+    conn = sqlite3.connect(str(db_path))
+    cur = conn.execute("PRAGMA table_info(auth_sessions)")
+    columns = [row[1] for row in cur.fetchall()]
+    conn.close()
+
+    assert 'locked' in columns, "locked column should be added by migration"
+    assert 'locked_at' in columns, "locked_at column should be added by migration"
+
+    manager.close()
+
+
+def test_lock_session(auth_manager):
+    """Test locking a session."""
+    # Create a session
+    token = auth_manager.create_user_session(1, 'testuser', duration_hours=24)
+    assert token
+
+    # Session should not be locked initially
+    assert not auth_manager.is_session_locked(token)
+
+    # Lock the session
+    result = auth_manager.lock_session(token)
+    assert result is True
+
+    # Session should now be locked
+    assert auth_manager.is_session_locked(token)
+
+
+def test_unlock_session(auth_manager):
+    """Test unlocking a locked session."""
+    # Create and lock a session
+    token = auth_manager.create_user_session(1, 'testuser', duration_hours=24)
+    auth_manager.lock_session(token)
+    assert auth_manager.is_session_locked(token)
+
+    # Unlock with correct password
+    result = auth_manager.unlock_session(token, 'testpass123')
+    assert result is True
+
+    # Session should be unlocked
+    assert not auth_manager.is_session_locked(token)
+
+
+def test_unlock_session_wrong_password(auth_manager):
+    """Test that unlock fails with wrong password."""
+    # Create and lock a session
+    token = auth_manager.create_user_session(1, 'testuser', duration_hours=24)
+    auth_manager.lock_session(token)
+
+    # Try to unlock with wrong password
+    result = auth_manager.unlock_session(token, 'wrongpassword')
+    assert result is False
+
+    # Session should still be locked
+    assert auth_manager.is_session_locked(token)
+
+
+def test_get_session_lock_info(auth_manager):
+    """Test retrieving session lock information."""
+    # Create a session
+    token = auth_manager.create_user_session(1, 'testuser', duration_hours=24)
+
+    # Get lock info before locking
+    lock_info = auth_manager.get_session_lock_info(token)
+    assert lock_info is not None
+    assert lock_info['username'] == 'testuser'
+    assert lock_info['locked'] is False
+    assert lock_info['locked_at'] is None
+
+    # Lock the session
+    auth_manager.lock_session(token)
+
+    # Get lock info after locking
+    lock_info = auth_manager.get_session_lock_info(token)
+    assert lock_info is not None
+    assert lock_info['username'] == 'testuser'
+    assert lock_info['locked'] is True
+    assert lock_info['locked_at'] is not None
+    assert isinstance(lock_info['locked_at'], float)
+    assert lock_info['locked_at'] <= time.time()
+
+
+def test_lock_nonexistent_session(auth_manager):
+    """Test locking a session that doesn't exist."""
+    result = auth_manager.lock_session('invalid_token_123')
+    # Should succeed but have no effect (UPDATE with no matching row)
+    assert result is True
+
+
+def test_unlock_nonlocked_session(auth_manager):
+    """Test unlocking a session that isn't locked."""
+    # Create a session
+    token = auth_manager.create_user_session(1, 'testuser', duration_hours=24)
+
+    # Try to unlock (session not locked)
+    result = auth_manager.unlock_session(token, 'testpass123')
+    assert result is False  # Should fail because session is not locked
+
+
+def test_audit_log_on_unlock(auth_manager):
+    """Test that successful unlock is logged in audit trail."""
+    # Create and lock a session
+    token = auth_manager.create_user_session(1, 'testuser', duration_hours=24)
+    auth_manager.lock_session(token)
+
+    # Unlock session
+    auth_manager.unlock_session(token, 'testpass123')
+
+    # Check audit log
+    audit_log = auth_manager.get_audit_log(limit=10)
+    assert len(audit_log) > 0
+
+    # Find the unlock event
+    unlock_events = [entry for entry in audit_log if entry['action'] == 'session_unlocked']
+    assert len(unlock_events) > 0
+    assert unlock_events[0]['username'] == 'testuser'
+
+
+@pytest.mark.parametrize('timeout_minutes,expected_enabled', [
+    (5, True),
+    (10, True),
+    (60, True),
+    (120, True),
+])
+def test_auto_lock_settings_valid(tmp_path, timeout_minutes, expected_enabled):
+    """Test saving valid auto-lock settings."""
+    db_path = tmp_path / 'test_settings.db'
+    conn = sqlite3.connect(str(db_path))
+
+    # Create settings table
+    conn.execute(
+        """
+        CREATE TABLE IF NOT EXISTS settings (
+            key TEXT PRIMARY KEY,
+            value TEXT,
+            updated_at REAL
+        )
+        """
+    )
+
+    # Save settings
+    now = time.time()
+    conn.execute(
+        "INSERT OR REPLACE INTO settings (key, value, updated_at) VALUES (?, ?, ?)",
+        ('auto_lock_enabled', 'true', now)
+    )
+    conn.execute(
+        "INSERT OR REPLACE INTO settings (key, value, updated_at) VALUES (?, ?, ?)",
+        ('auto_lock_timeout_minutes', str(timeout_minutes), now)
+    )
+    conn.commit()
+
+    # Read back settings
+    cur = conn.execute("SELECT key, value FROM settings")
+    settings_dict = {row[0]: row[1] for row in cur.fetchall()}
+
+    assert settings_dict['auto_lock_enabled'] == 'true'
+    assert int(settings_dict['auto_lock_timeout_minutes']) == timeout_minutes
+
+    conn.close()

From f90da909bab35338e42915874fbb4e6da4f5311c Mon Sep 17 00:00:00 2001
From: Adam Patch 
Date: Sun, 8 Feb 2026 15:45:44 -0500
Subject: [PATCH 5/5] chore(dev): update submodule pointer for completed
 auto-lock task

---
 dev | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev b/dev
index ad6f67f..6694709 160000
--- a/dev
+++ b/dev
@@ -1 +1 @@
-Subproject commit ad6f67fbedb7d04036c5a19ce8cbad949bab692e
+Subproject commit 66947097373b56374460151135daa5d382356dae