Fix saliency (len(models) bug), cache demo LLM outputs
Browse files
app.py
CHANGED
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@@ -141,6 +141,64 @@ _VLLM_URL = os.environ.get("VLLM_BASE_URL", "")
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_LLM_MODEL = "Yatsuiii/asd-interpreter-merged"
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_HF_TOKEN = os.environ.get("HF_TOKEN", "")
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_SYSTEM_PROMPT = (
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"You are a clinical AI assistant specializing in functional MRI brain "
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"connectivity analysis for autism spectrum disorder (ASD) diagnosis support. "
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@@ -431,7 +489,7 @@ def _saliency_figure(sal, p_mean, net_names=None, net_bounds=None, net_colors=No
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ax3.set_box_aspect([1.2, 1.4, 1.0])
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fig.suptitle(
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f"Gradient Saliency · p(ASD) = {p_mean:.3f} ·
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color="#444", fontsize=8.5, y=1.02,
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)
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plt.tight_layout()
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@@ -704,7 +762,12 @@ AI-assisted screening only · Not a clinical diagnosis · Findings must be integ
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# LLM clinical interpretation (only attempt if GPU is available)
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import os
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-
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llm_block = f'<div style="color:#cbd5e1;font-size:0.85rem;line-height:1.7;white-space:pre-wrap">{llm_text}</div>'
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report += f"""
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<div style="background:#0f1a1a;border:1px solid #1a3a3a;border-radius:8px;padding:18px 24px;margin-top:12px">
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_LLM_MODEL = "Yatsuiii/asd-interpreter-merged"
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_HF_TOKEN = os.environ.get("HF_TOKEN", "")
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# Pre-generated reports for demo subjects (instant display, no LLM latency)
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_DEMO_LLM_CACHE = {
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"sample_asd_stanford.1D": """ICD-10: F84.0 (Childhood Autism) / F84.1 (Atypical Autism)
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Ensemble Confidence: HIGH · p(ASD) = 0.841 · 19/20 site-blind models agree
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IMPRESSION
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Strong ASD-consistent functional connectivity profile. The ensemble shows high cross-site agreement, indicating the pattern is robust to scanner and acquisition differences across the 20 ABIDE sites.
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CONNECTIVITY FINDINGS
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• Default Mode Network shows reduced long-range coherence, consistent with atypical self-referential processing reported in ASD
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• Elevated saliency in Frontoparietal ↔ Subcortical pathways, suggesting atypical executive-limbic coupling
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• Visual network exhibits disproportionate connectivity weight relative to DMN — consistent with sensory hypersensitivity profiles in ASD
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CROSS-SITE CONSISTENCY
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19/20 site-blind models agree — pattern is not attributable to scanner artifacts (Stanford site held out during training).
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SUPPORTING LITERATURE
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• Rudie et al. 2012 — Reduced functional integration in ASD
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• Washington et al. 2014 — Dysmaturation of the default mode network in autism
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AI-assisted screening only · Not a clinical diagnosis · Requires full ADOS-2 and developmental history evaluation""",
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"sample_tc_yale.1D": """ICD-10: Z03.89 (No diagnosis) — Typical Connectivity Profile
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Ensemble Confidence: HIGH (TC) · p(ASD) = 0.143 · 18/20 site-blind models predict Typical Control
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IMPRESSION
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Connectivity profile is consistent with neurotypical development. The ensemble shows strong agreement against ASD classification across held-out sites.
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CONNECTIVITY FINDINGS
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• Default Mode Network coherence within expected range for age-matched neurotypical controls
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• Frontoparietal ↔ DMN anticorrelation preserved — consistent with intact task-positive/task-negative network segregation
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• Salience network lateralization within normative bounds
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CROSS-SITE CONSISTENCY
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18/20 site-blind models predict Typical Control — Yale site held out during training, result generalizes across scanner environments.
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AI-assisted screening only · Not a clinical diagnosis · Findings must be integrated with full clinical assessment""",
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"sample_borderline_trinity.1D": """ICD-10: F84.5 (Asperger Syndrome) — Borderline / Uncertain
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Ensemble Confidence: LOW/UNCERTAIN · p(ASD) = 0.523 · 11/20 site-blind models predict ASD
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IMPRESSION
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Borderline connectivity profile with high inter-model variance. The ensemble is split, indicating this subject falls near the decision boundary. Clinical evaluation is essential — GCN classification alone is insufficient for borderline cases.
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CONNECTIVITY FINDINGS
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• Default Mode Network shows mild coherence reduction, below the threshold seen in clear ASD cases
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• Frontoparietal network saliency is elevated but inconsistent across site-blind models
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• Salience network shows atypical lateralization in a subset of models only
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CROSS-SITE CONSISTENCY
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11/20 models predict ASD, 9/20 predict Typical Control. High variance suggests scanner-site sensitivity — Trinity site held out during training.
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RECOMMENDATION
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Full neuropsychological evaluation recommended including ADOS-2, ADI-R, and cognitive assessment. Borderline fMRI profiles are common in high-functioning ASD and require multi-modal diagnostic workup.
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AI-assisted screening only · Not a clinical diagnosis"""
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}
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_SYSTEM_PROMPT = (
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"You are a clinical AI assistant specializing in functional MRI brain "
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"connectivity analysis for autism spectrum disorder (ASD) diagnosis support. "
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ax3.set_box_aspect([1.2, 1.4, 1.0])
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fig.suptitle(
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f"Gradient Saliency · p(ASD) = {p_mean:.3f} · 20-model LOSO ensemble · CC200 → Yeo-7 networks",
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color="#444", fontsize=8.5, y=1.02,
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)
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plt.tight_layout()
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# LLM clinical interpretation (only attempt if GPU is available)
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import os
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# Use cached report for demo subjects (instant), else call AMD MI300X
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_demo_key = os.path.basename(file_path) if file_path else ""
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if _demo_key in _DEMO_LLM_CACHE:
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llm_text = _DEMO_LLM_CACHE[_demo_key]
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else:
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llm_text = _llm_report(p_mean, per_model, net_saliency=net_saliency)
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llm_block = f'<div style="color:#cbd5e1;font-size:0.85rem;line-height:1.7;white-space:pre-wrap">{llm_text}</div>'
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report += f"""
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<div style="background:#0f1a1a;border:1px solid #1a3a3a;border-radius:8px;padding:18px 24px;margin-top:12px">
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