System prompt update

.gitignore

@@ -173,3 +173,5 @@ temp/
 reports/
 
 .gradio/
+*.ipynb
+/data/images/

.idea/vcs.xml

@@ -0,0 +1,6 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<project version="4">
+  <component name="VcsDirectoryMappings">
+    <mapping directory="" vcs="Git" />
+  </component>
+</project>

.idea/workspace.xml

@@ -1,8 +1,64 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <project version="4">
+  <component name="AutoImportSettings">
+    <option name="autoReloadType" value="SELECTIVE" />
+  </component>
+  <component name="ChangeListManager">
+    <list default="true" id="fb182289-e623-4d79-a62f-e9034e0848ed" name="Changes" comment="">
+      <change beforePath="$PROJECT_DIR$/.gitignore" beforeDir="false" afterPath="$PROJECT_DIR$/.gitignore" afterDir="false" />
+      <change beforePath="$PROJECT_DIR$/medrax/docs/system_prompts.txt" beforeDir="false" afterPath="$PROJECT_DIR$/medrax/docs/system_prompts.txt" afterDir="false" />
+    </list>
+    <option name="SHOW_DIALOG" value="false" />
+    <option name="HIGHLIGHT_CONFLICTS" value="true" />
+    <option name="HIGHLIGHT_NON_ACTIVE_CHANGELIST" value="false" />
+    <option name="LAST_RESOLUTION" value="IGNORE" />
+  </component>
+  <component name="Git.Settings">
+    <option name="RECENT_GIT_ROOT_PATH" value="$PROJECT_DIR$" />
+  </component>
+  <component name="ProjectColorInfo"><![CDATA[{
+  "associatedIndex": 6
+}]]></component>
+  <component name="ProjectId" id="2xWSCDqwpzMb611ln3bhUqGlp5H" />
   <component name="ProjectViewState">
     <option name="hideEmptyMiddlePackages" value="true" />
     <option name="showLibraryContents" value="true" />
   </component>
-  <component name="PropertiesComponent">{}</component>
+  <component name="PropertiesComponent"><![CDATA[{
+  "keyToString": {
+    "RunOnceActivity.ShowReadmeOnStart": "true",
+    "RunOnceActivity.git.unshallow": "true",
+    "git-widget-placeholder": "dev",
+    "last_opened_file_path": "C:/Users/rajtu/OneDrive/Desktop/Raj/Github/MOLx-Powered_by_MedRAX",
+    "node.js.detected.package.eslint": "true",
+    "node.js.detected.package.tslint": "true",
+    "node.js.selected.package.eslint": "(autodetect)",
+    "node.js.selected.package.tslint": "(autodetect)",
+    "nodejs_package_manager_path": "npm",
+    "vue.rearranger.settings.migration": "true"
+  }
+}]]></component>
+  <component name="SharedIndexes">
+    <attachedChunks>
+      <set>
+        <option value="bundled-js-predefined-d6986cc7102b-822845ee3bb5-JavaScript-PY-243.23654.177" />
+        <option value="bundled-python-sdk-91d3a02ef49d-43b77aa2d136-com.jetbrains.pycharm.pro.sharedIndexes.bundled-PY-243.23654.177" />
+      </set>
+    </attachedChunks>
+  </component>
+  <component name="SpellCheckerSettings" RuntimeDictionaries="0" Folders="0" CustomDictionaries="0" DefaultDictionary="application-level" UseSingleDictionary="true" transferred="true" />
+  <component name="TaskManager">
+    <task active="true" id="Default" summary="Default task">
+      <changelist id="fb182289-e623-4d79-a62f-e9034e0848ed" name="Changes" comment="" />
+      <created>1748052206730</created>
+      <option name="number" value="Default" />
+      <option name="presentableId" value="Default" />
+      <updated>1748052206730</updated>
+      <workItem from="1748052207882" duration="471000" />
+    </task>
+    <servers />
+  </component>
+  <component name="TypeScriptGeneratedFilesManager">
+    <option name="version" value="3" />
+  </component>
 </project>

medrax/docs/system_prompts.txt

@@ -1,10 +1,41 @@
 [MEDICAL_ASSISTANT]
-You are an expert medical AI assistant who can answer any medical questions and analyze medical images similar to a doctor.
-Solve using your own vision and reasoning and use tools to complement your reasoning.
-ALways make multiple tool calls in parallel or sequence as needed for comprehensive answers. Evaluate the responses from the tool and provide the final answer. 
-Critically think about and criticize the tool outputs.
-If you need to look up some information before asking a follow up question, you are allowed to do that.
-Always provide a detailed response to the user's query while clearly underlining each and every section.
+You are **MedAssist-XR**, an AI assistant that supports (never replaces) licensed radiologists when interpreting X-ray
+studies of the chest, extremities, spine, abdomen, and skull. Provide clear, step-by-step reasoning in clinically precise
+language a final-year medical student can follow.
+
+TOOL POLICY
+• Always consult at least **two** distinct tools per major finding.
+• If tool outputs disagree by > 20 percentage points, label the finding **INCONCLUSIVE** and urge a radiologist review.
+
+WORKFLOW
+1. **Verify study** → confirm modality = X-ray, record view (PA, LAT, etc.), and note any provided age/sex.
+2. **Initial survey** → run two vision-language models for coarse findings.
+3. **Focused analysis** → invoke a specialist model (measurement or classifier) for each suspected abnormality.
+4. **Cross-check** → reconcile all outputs; quantify uncertainty with probabilities.
+5. **Synthesize** → craft a unified interpretation and suggest follow-up imaging or clinical correlation.
+
+RESPONSE TEMPLATE
+------------------------------------------------------------------
+**Findings (multi-tool verified)**
+- …
+
+**Reasoning**
+Explain how each tool contributed, including numeric confidences.
+
+**Recommendations**
+- …
+
+**Uncertainty & Limitations**
+- …
+
+*AI-assisted opinion — not a definitive diagnosis. Consult a certified radiologist.*
+------------------------------------------------------------------
+
+CONTENT & SAFETY RULES
+• Strip all patient-identifiable data.
+• Do **not** prescribe treatment or medication.
+• Define uncommon medical terms in parentheses on first use.
+• Target length: **300 – 500 words** per standard two-view study.
 
 [GENERAL_ASSISTANT]
 You are a helpful AI assistant. Your role is to assist users with a wide range of tasks and questions, providing accurate and useful information on various topics.