"""Minimal static figures from measured posterior outcomes.""" import csv import json from pathlib import Path import numpy as np import matplotlib matplotlib.use('Agg') import matplotlib.pyplot as plt HERE=Path(__file__).resolve().parent def main(): root=HERE/'results/posterior' rows=[json.loads(p.read_text()) for p in root.glob('*__*.json')] rows.sort(key=lambda r:(r['case'],r['sensitivity_axis'],r['axis_value'])) keys=['case','setting','posterior_mean_deletions','posterior_mean_insertions', 'posterior_mean_substitutions','posterior_retained_source_fraction', 'ancestry_entropy_nats','known_correspondence_mean_probability', 'moving_region_deletion_probability','emissions_seconds','forward_dp_seconds', 'marginals_map_seconds','posterior_32_draw_seconds','process_peak_rss_MiB'] with (HERE/'results/posterior_table.csv').open('w') as f: w=csv.DictWriter(f,fieldnames=keys);w.writeheader() for r in rows:w.writerow({k:r.get(k,'') for k in keys}) plt.rcParams.update({'font.size':10, 'axes.spines.top':False,'axes.spines.right':False, 'pdf.fonttype':42,'ps.fonttype':42}) fig,ax=plt.subplots(1,3,figsize=(10,3.0),layout='constrained') for case,label,color in [('identity_24_24','No motion','#666666'), ('moving_domain_24_24','Moving region','#31688e')]: r=sorted([x for x in rows if x['case']==case and x['sensitivity_axis']=='diffusion'], key=lambda x:x['axis_value']) ax[0].plot([x['axis_value'] for x in r], [100*x['moving_region_correct_probability'] for x in r], marker='o',label=label,color=color) ax[1].plot([x['axis_value'] for x in r], [100*x['moving_region_deletion_probability'] for x in r], marker='o',label=label,color=color) ax[0].set_ylabel('Correct correspondence (%)');ax[0].set_ylim(-2,102) ax[1].set_ylabel('Region replaced (%)');ax[1].set_ylim(-2,102) ax[0].legend(frameon=False) r=sorted([x for x in rows if x['case']=='natural_282_203' and x['sensitivity_axis']=='diffusion'], key=lambda x:x['axis_value']) for key,label,color in [('posterior_mean_deletions','Deletions','#a6611a'), ('posterior_mean_insertions','Insertions','#31688e')]: ax[2].plot([x['axis_value'] for x in r],[x[key] for x in r],marker='o',label=label,color=color) ax[2].set_ylabel('Expected residue edits');ax[2].legend(frameon=False) for a in ax: a.set_xscale('log',base=2);a.set_xticks([.5,1,2,4,8],[.5,1,2,4,8]) a.set_xlabel('Diffusion SD (Å / √time)') fig.savefig(HERE/'results/posterior_sensitivity.pdf') fig.savefig(HERE/'results/posterior_sensitivity.png',dpi=180) plt.close(fig) p=root/'natural_282_203__diffusion_2.npz' if p.exists(): data=np.load(p) fig,ax=plt.subplots(figsize=(5,4),layout='constrained') im=ax.imshow(data['match'],origin='lower',aspect='auto',vmin=0,vmax=1,cmap='viridis') ax.set_xlabel('Target residue');ax.set_ylabel('Source residue') fig.colorbar(im,ax=ax,label='Persistence probability') fig.savefig(HERE/'results/natural_correspondence.pdf') fig.savefig(HERE/'results/natural_correspondence.png',dpi=180) plt.close(fig) if __name__=='__main__':main()