#!/usr/bin/env python3 """Validation for Leptospirosis Environmental Surveillance Dataset.""" import pandas as pd, numpy as np, matplotlib.pyplot as plt, os, glob def load_scenarios(data_dir='data'): dfs = {} for f in sorted(glob.glob(os.path.join(data_dir, 'lepto_*.csv'))): name = os.path.basename(f).replace('.csv', '')[6:] dfs[name] = pd.read_csv(f) return dfs def main(): dfs = load_scenarios() if not dfs: return all_df = pd.concat([df.assign(scenario=n) for n, df in dfs.items()], ignore_index=True) fig, axes = plt.subplots(4, 2, figsize=(16, 20)) fig.suptitle('Leptospirosis Environmental Surveillance — Validation Report', fontsize=14, fontweight='bold', y=0.98) colors = {'active_surveillance': '#2ecc71', 'moderate_awareness': '#f39c12', 'unrecognized_burden': '#e74c3c'} labels = {'active_surveillance': 'Active (TZ/KE)', 'moderate_awareness': 'Moderate (UG/MZ)', 'unrecognized_burden': 'Unrecognized (DRC/NG)'} scenarios = list(dfs.keys()) ax = axes[0, 0] metrics = ['Confirmed %', 'Misdiag\nMalaria %', 'Treated %', 'Deaths'] for i, s in enumerate(scenarios): d = dfs[s]; vals = [d['confirmed_lepto'].mean()*100, (d['initial_diagnosis']=='malaria').mean()*100, d['treated_antibiotics'].mean()*100, d['died'].sum()/100] ax.bar(np.arange(len(metrics))+i*0.25, vals, 0.25, label=labels.get(s,s), color=colors[s], alpha=0.8) ax.set_xticks(np.arange(len(metrics))+0.25); ax.set_xticklabels(metrics, fontsize=7); ax.set_ylabel('% / count/100'); ax.set_title('Panel 1: Key Metrics'); ax.legend(fontsize=7) ax = axes[0, 1] diags = ['leptospirosis','malaria','typhoid','unknown'] for i, s in enumerate(scenarios): vals = [dfs[s]['initial_diagnosis'].value_counts(normalize=True).get(d,0)*100 for d in diags] ax.bar(np.arange(len(diags))+i*0.25, vals, 0.25, label=labels.get(s,s), color=colors[s], alpha=0.8) ax.set_xticks(np.arange(len(diags))+0.25); ax.set_xticklabels(diags, fontsize=7); ax.set_ylabel('%'); ax.set_title('Panel 2: Initial Diagnosis'); ax.legend(fontsize=7) ax = axes[1, 0] exposures = ['flooding_exposure','rodent_exposure','animal_contact','contaminated_water'] for i, s in enumerate(scenarios): vals = [dfs[s][e].mean()*100 for e in exposures] ax.bar(np.arange(len(exposures))+i*0.25, vals, 0.25, label=labels.get(s,s), color=colors[s], alpha=0.8) ax.set_xticks(np.arange(len(exposures))+0.25); ax.set_xticklabels([e.replace('_','\n') for e in exposures], fontsize=5); ax.set_ylabel('%'); ax.set_title('Panel 3: Exposure Risk Factors'); ax.legend(fontsize=7) ax = axes[1, 1] sevs = ['mild','moderate','severe'] for i, s in enumerate(scenarios): vals = [dfs[s]['severity'].value_counts(normalize=True).get(sv,0)*100 for sv in sevs] ax.bar(np.arange(len(sevs))+i*0.25, vals, 0.25, label=labels.get(s,s), color=colors[s], alpha=0.8) ax.set_xticks(np.arange(len(sevs))+0.25); ax.set_xticklabels(sevs); ax.set_ylabel('%'); ax.set_title('Panel 4: Disease Severity'); ax.legend(fontsize=7) ax = axes[2, 0] for s in scenarios: ax.hist(dfs[s]['one_health_coordination'], bins=30, alpha=0.5, label=labels.get(s,s), color=colors[s], density=True) ax.set_xlabel('OH Score'); ax.set_title('Panel 5: One Health Coordination'); ax.legend(fontsize=7) ax = axes[2, 1] for s in scenarios: ax.hist(dfs[s]['water_sanitation_score'], bins=30, alpha=0.5, label=labels.get(s,s), color=colors[s], density=True) ax.set_xlabel('WASH Score'); ax.set_title('Panel 6: Water & Sanitation'); ax.legend(fontsize=7) ax = axes[3, 0] occs = ['rice_farmer','livestock_herder','fisher','urban_informal','child'] for i, s in enumerate(scenarios): vals = [dfs[s]['occupation'].value_counts(normalize=True).get(o,0)*100 for o in occs] ax.bar(np.arange(len(occs))+i*0.25, vals, 0.25, label=labels.get(s,s), color=colors[s], alpha=0.8) ax.set_xticks(np.arange(len(occs))+0.25); ax.set_xticklabels([o.replace('_','\n') for o in occs], fontsize=5); ax.set_ylabel('%'); ax.set_title('Panel 7: Occupation'); ax.legend(fontsize=7) ax = axes[3, 1] num_cols = ['confirmed_lepto','flooding_exposure','rodent_exposure','treated_antibiotics','one_health_coordination','died'] corr = all_df[num_cols].corr() im = ax.imshow(corr, cmap='RdBu_r', vmin=-1, vmax=1, aspect='auto') ax.set_xticks(range(len(num_cols))); ax.set_yticks(range(len(num_cols))) ax.set_xticklabels([c.replace('_','\n') for c in num_cols], fontsize=5, rotation=45, ha='right') ax.set_yticklabels([c.replace('_','\n') for c in num_cols], fontsize=5) ax.set_title('Panel 8: Correlation Heatmap'); fig.colorbar(im, ax=ax, fraction=0.046) plt.tight_layout(rect=[0,0,1,0.96]); plt.savefig('validation_report.png', dpi=150, bbox_inches='tight'); plt.close() print("Saved validation_report.png") if __name__ == '__main__': main()