rails-doctor 0.1.0 → 0.2.0

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data/CHANGELOG.md

@@ -1,5 +1,12 @@
 # Changelog
 
+## 0.2.0
+
+- Improved Rails schema parsing for inline indexes, single-column indexes, scoped uniqueness validations, partial unique indexes, and string-backed foreign keys.
+- Added normalized tool-run statuses and report notes so nonzero advisory tool exits are easier to interpret.
+- Added deeper `rails-doctor init --profile deep` setup guidance with exact companion-tool install commands.
+- Bumped the JSON output schema to `1.2` for tool-run status metadata.
+
 ## 0.1.0
 
 - Initial Rails Doctor CLI and gem scaffold.

data/README.md

@@ -1,3 +1,7 @@
+<p align="center">
+  <img src="site/assets/rails-doctor-logo.png" alt="" width="220">
+</p>
+
 # Rails Doctor
 
 [![CI](https://github.com/joshsaintjacque/rails-doctor/actions/workflows/ci.yml/badge.svg)](https://github.com/joshsaintjacque/rails-doctor/actions/workflows/ci.yml)

data/docs/output-schema.md

@@ -1,6 +1,6 @@
 # Output Schema
 
-`rails-doctor --format json` emits schema version `1.1`.
+`rails-doctor --format json` emits schema version `1.2`.
 
 Top-level fields:
 
@@ -54,4 +54,18 @@ Each finding contains:
 
 Agents should treat `agent_instruction` and `suggested_commands` as guidance, not permission to mutate code. Mutation only occurs through an explicit agent workflow outside JSON report generation.
 
+Each tool run contains:
+
+- `name`
+- `available`
+- `skipped`
+- `command`
+- `exit_status`
+- `duration_ms`
+- `skip_reason`
+- `status`
+- `metadata`
+
+`status` is one of `completed`, `completed_with_findings`, `completed_with_filtered_findings`, `adapter_failed`, `skipped`, or `nonzero_exit`. Raw tool exit codes are preserved in `exit_status`; `status` describes Rails Doctor's normalized interpretation for the current report. Nonzero exits may still be `completed` when the adapter parsed no actionable findings. `metadata.status_explanation` explains nonzero exits that need interpretation, and `metadata.parsed_finding_count` records how many findings the adapter produced before report filtering or deduplication.
+
 `metadata` includes detected Ruby and Rails versions, current branch, optional base ref, and changed files used for changed-file scoring.

data/examples/report.html

@@ -103,6 +103,12 @@
       font-family: ui-monospace, SFMono-Regular, Menlo, monospace;
       font-size: 13px;
     }
+            .tool-note {
+              padding: 14px 0;
+              border-top: 1px solid var(--line);
+            }
+            .tool-note strong { display: block; margin-bottom: 4px; }
+            .tool-meta { color: var(--muted); font-size: 13px; }
             details { border-top: 1px solid var(--line); padding: 14px 0; }
             summary { cursor: pointer; font-weight: 700; }
             pre { white-space: pre-wrap; overflow: auto; background: #171717; color: #f7f5f0; padding: 16px; }
@@ -141,7 +147,7 @@
       <div class="score-ring">
         <div class="score-label">Overall health</div>
         <div class="score-number">0</div>
-        <div>Changed files: <strong>100</strong> · Confidence: <strong>100%</strong></div>
+        <div>Changed files: <strong>86</strong> · Confidence: <strong>100%</strong></div>
       </div>
     </div>
   </header>
@@ -152,7 +158,7 @@
               <div class="metric"><span>Medium</span><strong>10</strong></div>
               <div class="metric"><span>Coverage</span><strong>48.00%</strong></div>
               <div class="metric"><span>Skipped</span><strong>0</strong></div>
-              <div class="metric"><span>Duration</span><strong>600ms</strong></div>
+              <div class="metric"><span>Duration</span><strong>1497ms</strong></div>
             </section>
 
             <section class="section">
@@ -326,6 +332,43 @@
 - medium: Update the deprecated API usage and add a regression test when behavior could change.</pre>
     </section>
 
+    <section class="section">
+      <h2>Tool Run Notes</h2>
+
+
+          <div class="tool-note">
+            <strong>rubocop</strong>
+            <div class="tool-meta">Status: completed_with_findings · Exit: 1</div>
+            <p>The tool exited nonzero and Rails Doctor normalized actionable findings from its output.</p>
+          </div>
+
+          <div class="tool-note">
+            <strong>brakeman</strong>
+            <div class="tool-meta">Status: completed_with_findings · Exit: 3</div>
+            <p>The tool exited nonzero and Rails Doctor normalized actionable findings from its output.</p>
+          </div>
+
+          <div class="tool-note">
+            <strong>bundler_audit</strong>
+            <div class="tool-meta">Status: completed_with_findings · Exit: 1</div>
+            <p>The tool exited nonzero and Rails Doctor normalized actionable findings from its output.</p>
+          </div>
+
+          <div class="tool-note">
+            <strong>reek</strong>
+            <div class="tool-meta">Status: completed_with_findings · Exit: 2</div>
+            <p>The tool exited nonzero and Rails Doctor normalized actionable findings from its output.</p>
+          </div>
+
+          <div class="tool-note">
+            <strong>dependency_freshness</strong>
+            <div class="tool-meta">Status: completed_with_findings · Exit: 1</div>
+            <p>The tool exited nonzero and Rails Doctor normalized actionable findings from its output.</p>
+          </div>
+
+
+    </section>
+
     <section class="section">
       <h2>Findings</h2>
       <div class="filters" role="toolbar" aria-label="Finding filters">
@@ -536,7 +579,71 @@
               <td>dependency_freshness</td>
               <td>dependency-freshness</td>
               <td>Gemfile.lock</td>
-              <td><strong>rack appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+              <td><strong>brakeman appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>bundler-audit appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>flay appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>flog appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>prosopite appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>rails appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>rubocop appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>rubocop-rails appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
+            </tr>
+
+            <tr data-severity="low">
+              <td><span class="chip low">low</span></td>
+              <td>dependency_freshness</td>
+              <td>dependency-freshness</td>
+              <td>Gemfile.lock</td>
+              <td><strong>strong_migrations appears to be outdated</strong><br>Review the update risk and update in a separate dependency-focused change.</td>
             </tr>
 
         </tbody>
@@ -569,11 +676,11 @@
 
             <tr>
               <td>Gemfile.lock</td>
-              <td>8</td>
-              <td>2</td>
-              <td>0</td>
-              <td>false</td>
-              <td>Inherited file with 2 findings across dependency-security, dependency-freshness.</td>
+              <td>29</td>
+              <td>10</td>
+              <td>3</td>
+              <td>true</td>
+              <td>Changed file with 10 findings across dependency-security, dependency-freshness.</td>
             </tr>
 
             <tr>
@@ -628,51 +735,51 @@
 
 
         <details>
-          <summary>rubocop</summary>
+          <summary>rubocop · completed_with_findings · exit 1</summary>
           <pre>{&quot;files&quot;:[{&quot;path&quot;:&quot;app/models/post.rb&quot;,&quot;offenses&quot;:[{&quot;severity&quot;:&quot;warning&quot;,&quot;message&quot;:&quot;Use Time.current instead of Time.now.&quot;,&quot;cop_name&quot;:&quot;Rails/TimeZone&quot;,&quot;location&quot;:{&quot;line&quot;:6}}]}]}
 \n</pre>
         </details>
 
         <details>
-          <summary>brakeman</summary>
+          <summary>brakeman · completed_with_findings · exit 3</summary>
           <pre>{&quot;warnings&quot;:[{&quot;warning_type&quot;:&quot;SQL Injection&quot;,&quot;message&quot;:&quot;Possible SQL injection&quot;,&quot;file&quot;:&quot;app/models/post.rb&quot;,&quot;line&quot;:8,&quot;confidence&quot;:&quot;High&quot;,&quot;fingerprint&quot;:&quot;abc123&quot;,&quot;link&quot;:&quot;https://brakemanscanner.org/docs/warning_types/sql_injection/&quot;}]}
 \n</pre>
         </details>
 
         <details>
-          <summary>bundler_audit</summary>
+          <summary>bundler_audit · completed_with_findings · exit 1</summary>
           <pre>{&quot;results&quot;:[{&quot;gem&quot;:{&quot;name&quot;:&quot;rack&quot;},&quot;advisory&quot;:{&quot;id&quot;:&quot;CVE-2099-0001&quot;,&quot;title&quot;:&quot;Example vulnerability&quot;,&quot;criticality&quot;:&quot;high&quot;,&quot;url&quot;:&quot;https://example.test/advisory&quot;}}]}
 \n</pre>
         </details>
 
         <details>
-          <summary>zeitwerk</summary>
+          <summary>zeitwerk · completed · exit 0</summary>
           <pre>Hold on, I am eager loading the application.
 All is good!
 \n</pre>
         </details>
 
         <details>
-          <summary>reek</summary>
+          <summary>reek · completed_with_findings · exit 2</summary>
           <pre>[{&quot;context&quot;:&quot;Post#publish!&quot;,&quot;lines&quot;:[4],&quot;message&quot;:&quot;has the smell of too many statements&quot;,&quot;smell_type&quot;:&quot;TooManyStatements&quot;,&quot;source&quot;:&quot;app/models/post.rb&quot;}]
 \n</pre>
         </details>
 
         <details>
-          <summary>test_runner</summary>
+          <summary>test_runner · completed_with_findings · exit 0</summary>
           <pre>DEPRECATION WARNING: old API is deprecated
 Prosopite: N+1 queries detected for Post =&gt; [:user]
 \n</pre>
         </details>
 
         <details>
-          <summary>flog</summary>
+          <summary>flog · completed_with_findings · exit 0</summary>
           <pre>  32.5 Post#publish! app/models/post.rb:4
 \n</pre>
         </details>
 
         <details>
-          <summary>flay</summary>
+          <summary>flay · completed_with_findings · exit 0</summary>
           <pre>Similar code found in :iter (mass = 42)
   app/models/post.rb:4
   app/models/user.rb:2
@@ -680,14 +787,25 @@ Prosopite: N+1 queries detected for Post =&gt; [:user]
         </details>
 
         <details>
-          <summary>dependency_freshness</summary>
-          <pre>rack (newest 3.0.0, installed 2.2.0)
-\n</pre>
+          <summary>dependency_freshness · completed_with_findings · exit 1</summary>
+          <pre>
+brakeman (newest 8.0.4, installed 7.0.0)
+bundler-audit (newest 0.9.3, installed 0.9.0)
+flay (newest 2.14.4, installed 2.13.3)
+flog (newest 4.9.4, installed 4.8.0)
+prosopite (newest 2.2.0, installed 1.4.0)
+rails (newest 8.1.3, installed 8.0.0, requested ~&gt; 8.0)
+rubocop (newest 1.87.0, installed 1.70.0)
+rubocop-rails (newest 2.35.3, installed 2.28.0)
+strong_migrations (newest 2.8.0, installed 2.0.0)
+\nFetching gem metadata from https://rubygems.org/..........
+Resolving dependencies...
+</pre>
         </details>
 
     </section>
   </main>
-  <script type="application/json" id="rails-doctor-data">{"schema_version":"1.1","generated_at":"2026-05-30T20:00:00Z","project_root":"/path/to/app","profile":"deep","metadata":{"rails_app":true,"ruby_version":"3.4.1","rails_version":"8.0.0","changed_files":[]},"summary":{"profile":"deep","duration_ms":600,"finding_count":24,"severity_counts":{"medium":10,"critical":1,"high":10,"low":3},"skipped_tools":[],"score":{"overall":0,"changed_files":100,"confidence":100,"penalties":[{"id":"rd-gfnxqbg1qkup","severity":"medium","file":"app/models/post.rb","message":"Rails/TimeZone: Use Time.current instead of Time.now.","penalty":3.0},{"id":"rd-op6mq8hfnm99","severity":"critical","file":"app/models/post.rb","message":"SQL Injection: Possible SQL injection","penalty":15.0},{"id":"rd-habnfsz1zgdj","severity":"high","file":"Gemfile.lock","message":"rack: Example vulnerability","penalty":7.0},{"id":"rd-2er9zgsavtk6","severity":"medium","file":"app/models/post.rb","message":"TooManyStatements: has the smell of too many statements","penalty":3.0},{"id":"rd-ci7ub1199rvp","severity":"low","file":"config/initializers/strong_migrations.rb","message":"strong_migrations is installed but no initializer was found","penalty":0.75},{"id":"rd-iad8kr5ch7mh","severity":"high","file":"db/schema.rb","message":"posts.user_id has no index","penalty":7.0},{"id":"rd-nd2oek4kujwu","severity":"high","file":"app/models/user.rb","message":"users.email has a Rails uniqueness validation without a unique database index","penalty":5.25},{"id":"rd-p9vqylkxcybn","severity":"high","file":"config/routes.rb","message":"Routes reference missing ghosts_controller.rb","penalty":7.0},{"id":"rd-stmr7t8qmjti","severity":"high","file":"app/controllers/posts_controller.rb","message":"Route points to missing posts#create","penalty":7.0},{"id":"rd-c9eld5z4i9rf","severity":"high","file":"app/controllers/posts_controller.rb","message":"Route points to missing posts#destroy","penalty":7.0},{"id":"rd-hdn01soot3gf","severity":"high","file":"app/controllers/posts_controller.rb","message":"Route points to missing posts#edit","penalty":7.0},{"id":"rd-ygjxjocmpubf","severity":"high","file":"app/controllers/posts_controller.rb","message":"Route points to missing posts#new","penalty":7.0},{"id":"rd-q2wm1ehy5qn","severity":"medium","file":"app/controllers/posts_controller.rb","message":"posts#show has no matching template or explicit response","penalty":2.25},{"id":"rd-w4g0okt214t6","severity":"high","file":"app/controllers/posts_controller.rb","message":"Route points to missing posts#update","penalty":7.0},{"id":"rd-elkkq3siut9a","severity":"low","file":"app/controllers/posts_controller.rb","message":"posts#archive is not referenced by simple route analysis","penalty":0.4},{"id":"rd-4f2vjquwx6t4","severity":"medium","file":"app/models/post.rb","message":"1 TODO/FIXME/HACK marker in 10 lines","penalty":2.25},{"id":"rd-4dacnomu05u7","severity":"medium","file":null,"message":"DEPRECATION WARNING: old API is deprecated","penalty":2.25},{"id":"rd-bg982jjw6xt3","severity":"high","file":null,"message":"Prosopite: N+1 queries detected for Post =\u003e [:user]","penalty":5.25},{"id":"rd-qx8han58wk0o","severity":"medium","file":null,"message":"Line coverage 48.00% is below the 90.00% threshold","penalty":3.0},{"id":"rd-9ikgvif63uif","severity":"medium","file":"app/controllers/posts_controller.rb","message":"app/controllers/posts_controller.rb line coverage 22.22% is below the 80.00% per-file threshold","penalty":3.0},{"id":"rd-s83lai6gkb0r","severity":"medium","file":"app/models/post.rb","message":"app/models/post.rb line coverage 44.44% is below the 80.00% per-file threshold","penalty":3.0},{"id":"rd-l380zgdih1jq","severity":"medium","file":"app/models/post.rb","message":"High complexity score 32.5 for Post#publish!","penalty":2.25},{"id":"rd-xq812p6rik5z","severity":"medium","file":"app/models/post.rb","message":"Similar code group 1 across app/models/post.rb:4, app/models/user.rb:2","penalty":2.25},{"id":"rd-7wpu6grg34b2","severity":"low","file":"Gemfile.lock","message":"rack appears to be outdated","penalty":0.75}],"top_score_movers":[{"id":"rd-op6mq8hfnm99","severity":"critical","file":"app/models/post.rb","message":"SQL Injection: Possible SQL injection","penalty":15.0},{"id":"rd-habnfsz1zgdj","severity":"high","file":"Gemfile.lock","message":"rack: Example vulnerability","penalty":7.0},{"id":"rd-w4g0okt214t6","severity":"high","file":"app/controllers/posts_controller.rb","message":"Route points to missing posts#update","penalty":7.0},{"id":"rd-ygjxjocmpubf","severity":"high","file":"app/controllers/posts_controller.rb","message":"Route points to missing posts#new","penalty":7.0},{"id":"rd-iad8kr5ch7mh","severity":"high","file":"db/schema.rb","message":"posts.user_id has no 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Use Time.current instead of Time.now.","recommendation":"Fix the RuboCop offense or document why this cop should be configured differently.","agent_instruction":"Apply a minimal change that satisfies Rails/TimeZone. Preserve behavior and run the relevant tests.","suggested_commands":["bundle exec rubocop app/models/post.rb"],"metadata":{}},{"id":"rd-op6mq8hfnm99","severity":"critical","category":"security","tool":"brakeman","file":"app/models/post.rb","line":8,"confidence":"high","message":"SQL Injection: Possible SQL injection","recommendation":"Review Brakeman guidance: https://brakemanscanner.org/docs/warning_types/sql_injection/","agent_instruction":"Fix this security finding with the smallest behavior-preserving change. Prefer framework-safe APIs and add regression tests.","suggested_commands":[],"metadata":{"fingerprint":"abc123"}},{"id":"rd-habnfsz1zgdj","severity":"high","category":"dependency-security","tool":"bundler_audit","file":"Gemfile.lock","confidence":"high","message":"rack: Example vulnerability","recommendation":"Update rack to a patched version and rerun Bundler Audit.","agent_instruction":"Update the vulnerable gem conservatively, refresh the lockfile, and run the test suite.","suggested_commands":["bundle update rack","bundle exec bundle-audit check"],"metadata":{"advisory":"CVE-2099-0001","url":"https://example.test/advisory"}},{"id":"rd-2er9zgsavtk6","severity":"medium","category":"code-smell","tool":"reek","file":"app/models/post.rb","line":4,"confidence":"high","message":"TooManyStatements: has the smell of too many statements","recommendation":"Refactor the local smell without broad behavior changes.","agent_instruction":"Refactor only the affected method/class. 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