Update app.py

app.py

@@ -30,7 +30,7 @@ from mcp.alerts import check_alerts
 # Streamlit telemetry directory → /tmp
 os.environ.update({
     "STREAMLIT_DATA_DIR": "/tmp/.streamlit",
-    "XDG_STATE_HOME"    : "/tmp",
+    "XDG_STATE_HOME": "/tmp",
     "STREAMLIT_BROWSER_GATHERUSAGESTATS": "false",
 })
 pathlib.Path("/tmp/.streamlit").mkdir(parents=True, exist_ok=True)
@@ -55,7 +55,6 @@ def _pdf(papers: list[dict]) -> bytes:
         pdf.set_font("Helvetica", "B", 11)
         pdf.multi_cell(0, 7, _latin1_safe(f"{i}. {p.get('title','')}"))
         pdf.set_font("Helvetica", "", 9)
-        # fixed string literal with explicit newlines
         body = (
             f"{p.get('authors','')}\n"
             f"{p.get('summary','')}\n"
@@ -105,7 +104,7 @@ def render_ui():
 
     # Controls
     engine = st.radio("LLM engine", ["openai", "gemini"], horizontal=True)
-    query  = st.text_input("Enter biomedical question", placeholder="e.g. CRISPR glioblastoma therapy")
+    query = st.text_input("Enter biomedical question", placeholder="e.g. CRISPR glioblastoma therapy")
 
     # Alerts
     if get_workspace():
@@ -140,7 +139,7 @@ def render_ui():
     # Tabs
     tabs = st.tabs(["Results", "Genes", "Trials", "Variants", "Graph", "Metrics", "Visuals"])
 
-    # --- Results tab
+    # --- Results tab ---
     with tabs[0]:
         st.subheader("Literature")
         for i, p in enumerate(res['papers'], 1):
@@ -167,7 +166,7 @@ def render_ui():
         st.subheader("AI summary")
         st.info(res['ai_summary'])
 
-    # --- Genes tab
+    # --- Genes tab ---
     with tabs[1]:
         st.header("Gene / Variant signals")
         valid_genes = [g for g in res['genes'] if isinstance(g, dict)]
@@ -189,9 +188,11 @@ def render_ui():
             st.markdown("### DisGeNET links")
             st.json(gene_disease[:15])
 
-    # --- Trials tab
+    # --- Trials tab ---
     with tabs[2]:
         st.header("Clinical trials")
+        # Debug: show raw response
+        st.write("🔍 Raw trials response:", res['clinical_trials'])
         trials = res['clinical_trials']
         if not trials:
             st.info("No trials returned (rate-limited or none found).")
@@ -202,21 +203,23 @@ def render_ui():
                     f"Phase {t.get('phase','?')} | Status {t.get('status','?')}"
                 )
 
-    # --- Variants tab
+    # --- Variants tab ---
     with tabs[3]:
         st.header("Cancer variants (cBioPortal)")
+        # Debug: show raw response
+        st.write("🔍 Raw variants response:", res['variants'])
         variants = res['variants']
         if not variants:
             st.info("No variants for this gene/profile.")
         else:
             st.json(variants[:30])
 
-    # --- Graph tab
+    # --- Graph tab ---
     with tabs[4]:
         nodes, edges, cfg = build_agraph(res['papers'], res['umls'], res['drug_safety'])
         agraph(nodes, edges, cfg)
 
-    # --- Metrics tab
+    # --- Metrics tab ---
     with tabs[5]:
         G = build_nx([n.__dict__ for n in nodes], [e.__dict__ for e in edges])
         st.metric("Density", f"{get_density(G):.3f}")
@@ -225,13 +228,13 @@ def render_ui():
             lab = next((n.label for n in nodes if n.id == nid), nid)
             st.write(f"- {lab}  {sc:.3f}")
 
-    # --- Visuals tab
+    # --- Visuals tab ---
     with tabs[6]:
         years = [p.get('published') for p in res['papers'] if p.get('published')]
         if years:
             st.plotly_chart(px.histogram(years, nbins=12, title="Publication Year"))
 
-    # Follow-up QA (outside any tab)
+    # Follow-up QA (outside tabs)
     st.markdown("---")
     input_col, button_col = st.columns([4, 1])
     with input_col: