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authorYurenHao0426 <Blackhao0426@gmail.com>2026-06-14 04:06:32 -0500
committerYurenHao0426 <Blackhao0426@gmail.com>2026-06-14 04:06:32 -0500
commitaa73718eb6427d7da3b9cb416275802d90c4b2ed (patch)
treeb68b0a664fb650744ef934a1c22abd740a7b62a6 /paper/figures
parent827c658fa9a750f3c6ebdb87703762f10f69f6ff (diff)
Add new experiment scripts, figures, and paper assets; untrack pyc/build artifactsHEADmaster
Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Diffstat (limited to 'paper/figures')
-rw-r--r--paper/figures/3arc.pdfbin0 -> 22447 bytes
-rw-r--r--paper/figures/3arcnew.pdfbin0 -> 22454 bytes
-rw-r--r--paper/figures/3arcnew_cropped.pdfbin0 -> 58401 bytes
-rw-r--r--paper/figures/fig1_audit_hero.pdfbin0 -> 54506 bytes
-rw-r--r--paper/figures/fig1_audit_hero.pngbin0 -> 246321 bytes
-rw-r--r--paper/figures/fig1_combined.pdfbin0 -> 458517 bytes
-rw-r--r--paper/figures/fig1_combined.pngbin0 -> 529831 bytes
-rw-r--r--paper/figures/fig1_panels_abc.pdfbin0 -> 47025 bytes
-rw-r--r--paper/figures/fig3a_temporal_resmlp.pdfbin0 -> 31175 bytes
-rw-r--r--paper/figures/fig3a_temporal_resmlp.pngbin0 -> 150113 bytes
-rw-r--r--paper/figures/fig3b_crossarch_3row.pdfbin0 -> 52139 bytes
-rw-r--r--paper/figures/fig3b_crossarch_3row.pngbin0 -> 380161 bytes
-rw-r--r--paper/figures/fig3b_temporal_crossarch.pdfbin0 -> 40564 bytes
-rw-r--r--paper/figures/fig3b_temporal_crossarch.pngbin0 -> 254005 bytes
-rw-r--r--paper/figures/fig4_penalty_rescue.pdfbin34201 -> 37235 bytes
-rw-r--r--paper/figures/fig4_penalty_rescue.pngbin0 -> 168931 bytes
-rw-r--r--paper/figures/fig_d512L2_panelA.pdfbin0 -> 30850 bytes
-rw-r--r--paper/figures/fig_d512L2_panelA.pngbin0 -> 73483 bytes
-rw-r--r--paper/figures/fig_nooutln_temporal.pdfbin0 -> 30888 bytes
-rw-r--r--paper/figures/fig_nooutln_temporal.pngbin0 -> 179525 bytes
-rw-r--r--paper/figures/render_fig1_audit_hero.py210
-rw-r--r--paper/figures/render_fig3_temporal.py192
-rw-r--r--paper/figures/render_fig3b_crossarch_3row.py123
-rw-r--r--paper/figures/render_fig4_penalty.py167
-rw-r--r--paper/figures/render_fig_d512L2_panelA.py92
-rw-r--r--paper/figures/render_fig_nooutln_temporal.py96
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diff --git a/paper/figures/render_fig1_audit_hero.py b/paper/figures/render_fig1_audit_hero.py
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+"""
+Render Figure 1: Four-panel audit hero figure.
+
+Panel (arch): Architecture diagram (3arc.pdf, merged from external)
+Panel A: Standard pair (accuracy × aggregate Γ) — all 3 methods in the green zone
+Panel B: Per-layer cosine — FA and DFA form an X-cross, BP flat at 1.0
+Panel C: Per-layer ||g_l|| — BP flat, FA gentle decay, DFA cliff
+"""
+import os
+import json
+import matplotlib
+matplotlib.use("Agg")
+import matplotlib.pyplot as plt
+import matplotlib.patches as mpatches
+from matplotlib.backends.backend_pdf import PdfPages
+import numpy as np
+from PIL import Image
+import subprocess
+
+REPO_ROOT = "/home/yurenh2/fa"
+
+# ─── DATA ────────────────────────────────────────────────────────────────
+
+# Panel A: accuracy and aggregate Γ (3-seed means where available)
+# BP: from protocol_audit (d=256 L=4, 3-seed)
+# FA: from fa_main_audit (d=256 L=4, 3-seed)
+# DFA: from protocol_audit + paper
+
+panel_a = {
+ "BP": {"acc": 0.6147, "gamma": 1.0},
+ "FA": {"acc": 0.401, "gamma": 0.250},
+ "DFA": {"acc": 0.306, "gamma": 0.100},
+}
+
+# Panel B: per-layer cosine (4 blocks, l=0..3)
+# BP: by definition cos(bp_grad, bp_grad) = 1.0
+# FA: 3-seed mean from fa_main_audit
+# DFA: from d=512 L=4 s42 final (pattern robust across d/L)
+panel_b = {
+ "BP": [1.0, 1.0, 1.0, 1.0],
+ "FA": [0.016, 0.072, -0.085, 0.997],
+ "DFA": [0.400, 0.001, -0.0004, -0.002],
+}
+
+# Panel C: per-layer ||g_l|| (5 layers, l=0..4)
+# All from d=256 L=4 s42 (protocol_audit for BP/DFA, fa_main_audit for FA)
+panel_c = {
+ "BP": [4.40e-4, 4.71e-4, 4.79e-4, 4.53e-4, 3.70e-4],
+ "FA": [1.79e-5, 1.21e-6, 8.85e-7, 8.89e-7, 8.89e-7],
+ "DFA": [4.39e-7, 4.19e-9, 4.18e-9, 4.17e-9, 4.17e-9],
+}
+
+CLAMP_EPS = 1e-8 # PyTorch F.cosine_similarity default eps
+
+# ─── STYLE ───────────────────────────────────────────────────────────────
+
+COLORS = {"BP": "#2166ac", "FA": "#e08214", "DFA": "#b2182b"}
+MARKERS = {"BP": "o", "FA": "s", "DFA": "D"}
+plt.rcParams.update({
+ "font.size": 9,
+ "axes.labelsize": 10,
+ "axes.titlesize": 10,
+ "legend.fontsize": 8,
+ "xtick.labelsize": 8,
+ "ytick.labelsize": 8,
+ "font.family": "serif",
+})
+
+fig, axes = plt.subplots(1, 3, figsize=(10.5, 4.5))
+fig.subplots_adjust(wspace=0.38, left=0.06, right=0.97, bottom=0.30, top=0.94)
+
+# ─── PANEL A: Standard pair (x=Γ, y=acc) ────────────────────────────────
+
+ax = axes[0]
+ax.set_title("(A) Standard reporting pair", fontsize=9, fontweight="bold", loc="left")
+
+# Axes: x = aggregate Γ (cosine), y = test accuracy
+x_lim = (-0.22, 1.12)
+y_lim = (-0.02, 0.72)
+
+# Four quadrants: boundaries at x=0 (cos=0) and y=0.10 (chance)
+# Upper-right (green): cos > 0 AND acc > chance
+ax.fill_between([0, x_lim[1]], 0.10, y_lim[1], color="#c8e6c9", alpha=0.5, zorder=0)
+# Lower-left (red): cos < 0 AND acc < chance
+ax.fill_between([x_lim[0], 0], y_lim[0], 0.10, color="#ffcdd2", alpha=0.5, zorder=0)
+# Upper-left (light gray): cos < 0 AND acc > chance
+ax.fill_between([x_lim[0], 0], 0.10, y_lim[1], color="#f5f5f5", alpha=0.6, zorder=0)
+# Lower-right (light gray): cos > 0 AND acc < chance
+ax.fill_between([0, x_lim[1]], y_lim[0], 0.10, color="#f5f5f5", alpha=0.6, zorder=0)
+
+# Quadrant boundary lines
+ax.axvline(0, color="gray", lw=0.6, ls="--", zorder=1)
+ax.axhline(0.10, color="gray", lw=0.6, ls="--", zorder=1)
+
+# Quadrant labels
+ax.text(-0.11, 0.41, "cos < 0,\nacc > chance", fontsize=6.5, color="#888",
+ ha="center", va="center", style="italic", rotation=90)
+ax.text(0.55, 0.04, "cos > 0,\nacc < chance", fontsize=6.5, color="#888",
+ ha="center", va="center", style="italic")
+ax.text(0.55, 0.41, '"looks like\n learning"', fontsize=7, color="#388e3c",
+ ha="center", va="center", fontweight="bold")
+ax.text(-0.11, 0.04, "neither", fontsize=6.5, color="#c62828",
+ ha="center", va="center", style="italic")
+
+# Points: x=gamma, y=acc
+for method in ["BP", "FA", "DFA"]:
+ d = panel_a[method]
+ ax.scatter(d["gamma"], d["acc"], c=COLORS[method], marker=MARKERS[method],
+ s=70, zorder=5, edgecolors="k", linewidths=0.5)
+
+# Labels
+ax.annotate("BP", (panel_a["BP"]["gamma"], panel_a["BP"]["acc"]),
+ xytext=(-8, 8), textcoords="offset points", fontsize=8, fontweight="bold",
+ color=COLORS["BP"])
+ax.annotate("FA", (panel_a["FA"]["gamma"], panel_a["FA"]["acc"]),
+ xytext=(8, 5), textcoords="offset points", fontsize=8, fontweight="bold",
+ color=COLORS["FA"])
+ax.annotate("DFA", (panel_a["DFA"]["gamma"], panel_a["DFA"]["acc"]),
+ xytext=(8, -8), textcoords="offset points", fontsize=8, fontweight="bold",
+ color=COLORS["DFA"])
+
+ax.set_xlabel("Aggregate $\\Gamma$ (cosine)")
+ax.set_ylabel("Test accuracy")
+ax.set_xlim(*x_lim)
+ax.set_ylim(*y_lim)
+
+# ─── PANEL B: Per-layer cosine ──────────────────────────────────────────
+
+ax = axes[1]
+ax.set_title("(B) Per-block cosine $\\cos(a_l, g_l)$", fontsize=9, fontweight="bold", loc="left")
+
+blocks = np.arange(4)
+for method in ["BP", "FA", "DFA"]:
+ vals = panel_b[method]
+ ax.plot(blocks, vals, color=COLORS[method], marker=MARKERS[method],
+ markersize=5, linewidth=1.8, label=method, zorder=3)
+
+ax.axhline(0, color="gray", lw=0.5, ls=":", zorder=1)
+ax.set_xlabel("Block $l$")
+ax.set_ylabel("$\\cos(a_l,\\, \\nabla_{h_l} \\mathcal{L})$")
+ax.set_xticks(blocks)
+ax.set_xticklabels([f"$l={l}$" for l in blocks])
+ax.set_ylim(-0.25, 1.12)
+
+# ─── PANEL C: Per-layer ||g_l|| ─────────────────────────────────────────
+
+ax = axes[2]
+ax.set_title("(C) Per-layer $\\|g_l\\|$ (BP gradient)", fontsize=9, fontweight="bold", loc="left")
+
+layers = np.arange(5)
+for method in ["BP", "FA", "DFA"]:
+ vals = panel_c[method]
+ ax.semilogy(layers, vals, color=COLORS[method], marker=MARKERS[method],
+ markersize=5, linewidth=1.8, label=method, zorder=3)
+
+ax.set_xlabel("Layer $l$")
+ax.set_ylabel("$\\|\\partial\\mathcal{L}/\\partial h_l\\|_2$ (median)")
+ax.set_xticks(layers)
+ax.set_xticklabels([f"$h_{l}$" for l in layers])
+ax.set_ylim(5e-12, 5e-2)
+
+# ─── GRID (all panels) ───────────────────────────────────────────────────
+
+for ax in axes:
+ ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ ax.set_axisbelow(True)
+# Panel C also needs minor grid for log scale
+axes[2].grid(True, which="minor", color="#e8e8e8", linewidth=0.3, linestyle=":")
+
+# ─── CAPTION BOXES below each panel ─────────────────────────────────────
+
+captions = [
+ "With standard reporting pair, FA and\nDFA reached non-trivial accuracy and\npositive cosine alignment in this setting",
+ "Aggregated cosine lies: shallow layers\nof FA and deep layers of DFA are not\nlearning or aligned well",
+ "Reference also fails: DFA collapses to\nnumerical noise at depth, FA decays\n2 orders of magnitude across layers",
+]
+
+fig.canvas.draw()
+
+box_h = 0.13 # height of caption box in figure coords
+box_gap = 0.12 # gap between axes bottom and box top
+
+for i, (ax, txt) in enumerate(zip(axes, captions)):
+ bbox = ax.get_position()
+ bx0 = bbox.x0
+ bx1 = bbox.x1
+ by_top = bbox.y0 - box_gap
+ by_bot = by_top - box_h
+
+ # Draw rounded rectangle
+ fancy = mpatches.FancyBboxPatch(
+ (bx0, by_bot), bx1 - bx0, box_h,
+ boxstyle="round,pad=0.008",
+ facecolor="#f7f7f7", edgecolor="#aaaaaa", linewidth=0.7,
+ transform=fig.transFigure, clip_on=False)
+ fig.patches.append(fancy)
+
+ # Text centered in the box
+ fig.text((bx0 + bx1) / 2, by_bot + box_h / 2, txt,
+ ha="center", va="center", fontsize=9.5, style="italic",
+ transform=fig.transFigure)
+
+# ─── SAVE ────────────────────────────────────────────────────────────────
+
+out = os.path.join(REPO_ROOT, "paper/figures/fig1_audit_hero.pdf")
+fig.savefig(out, bbox_inches="tight", dpi=300)
+out_png = out.replace(".pdf", ".png")
+fig.savefig(out_png, bbox_inches="tight", dpi=200)
+print(f"Saved: {out}")
+print(f"Saved: {out_png}")
diff --git a/paper/figures/render_fig3_temporal.py b/paper/figures/render_fig3_temporal.py
new file mode 100644
index 0000000..d8d93db
--- /dev/null
+++ b/paper/figures/render_fig3_temporal.py
@@ -0,0 +1,192 @@
+"""
+Render Figure 3: Temporal evolution of diagnostics.
+
+Figure 3a: ResMLP (with terminal LN) — BP, FA, DFA overlaid
+Figure 3b: ViT-Mini + ResMLP-no-outLN — BP, DFA only
+
+Each figure: 1 row per architecture (3a has 1 row, 3b has 2 rows),
+3 columns = ||h_L||, ||g_L||, test acc.
+Methods as colored lines within each panel.
+"""
+import os, json
+import matplotlib
+matplotlib.use("Agg")
+import matplotlib.pyplot as plt
+import numpy as np
+
+REPO_ROOT = "/home/yurenh2/fa"
+COLORS = {"BP": "#2166ac", "FA": "#e08214", "DFA": "#b2182b"}
+
+plt.rcParams.update({
+ "font.size": 9,
+ "axes.labelsize": 10,
+ "axes.titlesize": 10,
+ "legend.fontsize": 8,
+ "xtick.labelsize": 8,
+ "ytick.labelsize": 8,
+ "font.family": "serif",
+})
+
+
+def extract_series(log):
+ epochs = [e['epoch'] for e in log]
+ # Handle different key names across architectures
+ if 'hidden_norms' in log[0]:
+ h_L = [e['hidden_norms'][-1] for e in log]
+ elif 'hidden_norms_cls' in log[0]:
+ h_L = [e['hidden_norms_cls'][-1] for e in log]
+ else:
+ h_L = [1.0] * len(log)
+ if 'bp_grad_norms_per_sample_med' in log[0]:
+ g_L = [e['bp_grad_norms_per_sample_med'][-1] for e in log]
+ elif 'bp_grad_per_sample_l2_med' in log[0]:
+ g_L = [e['bp_grad_per_sample_l2_med'][-1] for e in log]
+ else:
+ g_L = [1.0] * len(log)
+ acc = [e['acc_eval'] for e in log]
+ return epochs, h_L, g_L, acc
+
+
+def add_grid(ax, log_scale=False):
+ ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ if log_scale:
+ ax.grid(True, which="minor", color="#e8e8e8", linewidth=0.3, linestyle=":")
+ ax.set_axisbelow(True)
+
+
+# ─── Load data ───────────────────────────────────────────────────────────
+
+# ResMLP (with terminal LN)
+resmlp = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_evolution_v2/snapshot_evolution_s42.json")))
+fa_resmlp = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_evolution_v2/snapshot_fa_s42.json")))
+
+# FA canonical for ResMLP
+fa_resmlp_canonical = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_evolution_v2/snapshot_fa_canonical_s42.json")))
+
+# ViT-Mini
+vit = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_vit_v1/snapshot_vit_s42.json")))
+fa_vit = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_vit_v1/snapshot_fa_canonical_s42.json")))
+
+# StudentNet (synthetic teacher-student, no terminal LN)
+synth = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_synth_v1/snapshot_synth_a1.0_L4_s42.json")))
+fa_synth = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_synth_v1/snapshot_fa_canonical_s42.json")))
+
+
+# ═══════════════════════════════════════════════════════════════════════════
+# Figure 3a: ResMLP — BP / FA / DFA
+# ═══════════════════════════════════════════════════════════════════════════
+
+fig_a, axes_a = plt.subplots(1, 3, figsize=(10.5, 2.8))
+fig_a.subplots_adjust(wspace=0.35, left=0.07, right=0.97, bottom=0.18, top=0.85)
+# No suptitle — user will write caption
+
+data_resmlp = {
+ "BP": extract_series(resmlp['bp_log']),
+ "DFA": extract_series(resmlp['dfa_log']),
+ "FA": extract_series(fa_resmlp_canonical['fa_log']),
+}
+
+# Column 0: ||h_L||
+ax = axes_a[0]
+for method in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data_resmlp[method]
+ ax.semilogy(ep, h, color=COLORS[method], linewidth=1.5, label=method)
+ax.set_ylabel("$\\|h_L\\|_2$")
+ax.set_xlabel("Epoch")
+ax.set_title("$\\|h_L\\|$ (residual norm)")
+ax.legend(loc="center right", fontsize=7)
+add_grid(ax, log_scale=True)
+
+# Column 1: ||g_L||
+ax = axes_a[1]
+for method in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data_resmlp[method]
+ ax.semilogy(ep, g, color=COLORS[method], linewidth=1.5, label=method)
+ax.set_ylabel("$\\|g_L\\|_2$")
+ax.set_xlabel("Epoch")
+ax.set_title("$\\|g_L\\|$ (BP gradient at $h_L$)")
+add_grid(ax, log_scale=True)
+
+# Column 2: test acc
+ax = axes_a[2]
+for method in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data_resmlp[method]
+ ax.plot(ep, a, color=COLORS[method], linewidth=1.5, label=method)
+ax.set_ylabel("Test accuracy")
+ax.set_xlabel("Epoch")
+ax.set_title("Test accuracy")
+ax.set_ylim(0, 0.7)
+add_grid(ax)
+
+out_a = os.path.join(REPO_ROOT, "paper/figures/fig3a_temporal_resmlp.pdf")
+fig_a.savefig(out_a, bbox_inches="tight", dpi=300)
+fig_a.savefig(out_a.replace(".pdf", ".png"), bbox_inches="tight", dpi=200)
+print(f"Saved: {out_a}")
+
+
+# ═══════════════════════════════════════════════════════════════════════════
+# Figure 3b: ViT-Mini + ResMLP-no-outLN — BP / DFA only
+# ═══════════════════════════════════════════════════════════════════════════
+
+fig_b, axes_b = plt.subplots(2, 3, figsize=(10.5, 5.0))
+fig_b.subplots_adjust(wspace=0.35, hspace=0.45, left=0.07, right=0.97, bottom=0.10, top=0.90)
+
+arch_data = [
+ ("ViT-Mini", vit, fa_vit),
+ ("StudentNet", synth, fa_synth),
+]
+
+for row, (arch_name, arch_json, fa_json) in enumerate(arch_data):
+ data = {
+ "BP": extract_series(arch_json['bp_log']),
+ "FA": extract_series(fa_json['fa_log']),
+ "DFA": extract_series(arch_json['dfa_log']),
+ }
+
+ # Column 0: ||h_L||
+ ax = axes_b[row, 0]
+ for method in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data[method]
+ ax.semilogy(ep, h, color=COLORS[method], linewidth=1.5, label=method)
+ ax.set_ylabel("$\\|h_L\\|_2$")
+ if row == 0:
+ ax.set_title("$\\|h_L\\|$ (residual norm)")
+ ax.legend(loc="center right", fontsize=7)
+ if row == 1:
+ ax.set_xlabel("Epoch")
+ # Architecture label on the left
+ ax.annotate(arch_name, xy=(0, 0.5), xytext=(-55, 0),
+ xycoords="axes fraction", textcoords="offset points",
+ fontsize=8, fontweight="bold", rotation=90,
+ ha="center", va="center")
+ add_grid(ax, log_scale=True)
+
+ # Column 1: ||g_L||
+ ax = axes_b[row, 1]
+ for method in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data[method]
+ ax.semilogy(ep, g, color=COLORS[method], linewidth=1.5, label=method)
+ ax.set_ylabel("$\\|g_L\\|_2$")
+ if row == 0:
+ ax.set_title("$\\|g_L\\|$ (BP gradient at $h_L$)")
+ if row == 1:
+ ax.set_xlabel("Epoch")
+ add_grid(ax, log_scale=True)
+
+ # Column 2: test acc
+ ax = axes_b[row, 2]
+ for method in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data[method]
+ ax.plot(ep, a, color=COLORS[method], linewidth=1.5, label=method)
+ ax.set_ylabel("Test accuracy")
+ if row == 0:
+ ax.set_title("Test accuracy")
+ if row == 1:
+ ax.set_xlabel("Epoch")
+ ax.set_ylim(0, 0.85)
+ add_grid(ax)
+
+out_b = os.path.join(REPO_ROOT, "paper/figures/fig3b_temporal_crossarch.pdf")
+fig_b.savefig(out_b, bbox_inches="tight", dpi=300)
+fig_b.savefig(out_b.replace(".pdf", ".png"), bbox_inches="tight", dpi=200)
+print(f"Saved: {out_b}")
diff --git a/paper/figures/render_fig3b_crossarch_3row.py b/paper/figures/render_fig3b_crossarch_3row.py
new file mode 100644
index 0000000..05d7ad0
--- /dev/null
+++ b/paper/figures/render_fig3b_crossarch_3row.py
@@ -0,0 +1,123 @@
+"""
+Figure 3b: Cross-architecture temporal evolution (3 rows × 3 columns = 9 panels).
+Row 1: ViT-Mini (terminal LN)
+Row 2: ResMLP no terminal LN
+Row 3: StudentNet (no LN)
+Columns: ||h_L||, ||g_L||, test acc
+Methods: BP (blue), FA (orange), DFA (red)
+"""
+import os, json
+import matplotlib
+matplotlib.use("Agg")
+import matplotlib.pyplot as plt
+import numpy as np
+
+REPO_ROOT = "/home/yurenh2/fa"
+COLORS = {"BP": "#2166ac", "FA": "#e08214", "DFA": "#b2182b"}
+
+plt.rcParams.update({
+ "font.size": 9, "axes.labelsize": 10, "axes.titlesize": 10,
+ "legend.fontsize": 8, "xtick.labelsize": 8, "ytick.labelsize": 8,
+ "font.family": "serif",
+})
+
+
+def extract_series(log):
+ epochs = [e['epoch'] for e in log]
+ if 'hidden_norms' in log[0]:
+ h_L = [e['hidden_norms'][-1] for e in log]
+ elif 'hidden_norms_cls' in log[0]:
+ h_L = [e['hidden_norms_cls'][-1] for e in log]
+ else:
+ h_L = [1.0] * len(log)
+ if 'bp_grad_norms_per_sample_med' in log[0]:
+ g_L = [e['bp_grad_norms_per_sample_med'][-1] for e in log]
+ elif 'bp_grad_per_sample_l2_med' in log[0]:
+ g_L = [e['bp_grad_per_sample_l2_med'][-1] for e in log]
+ else:
+ g_L = [1.0] * len(log)
+ acc = [e['acc_eval'] for e in log]
+ return epochs, h_L, g_L, acc
+
+
+def add_grid(ax, log_scale=False):
+ ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ if log_scale:
+ ax.grid(True, which="minor", color="#e8e8e8", linewidth=0.3, linestyle=":")
+ ax.set_axisbelow(True)
+
+
+# Load data
+vit = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_vit_v1/snapshot_vit_s42.json")))
+fa_vit = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_vit_v1/snapshot_fa_canonical_s42.json")))
+
+noln = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_no_outln_v1/snapshot_noLN_s42.json")))
+fa_noln = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_no_outln_v1/snapshot_fa_canonical_noln_s42.json")))
+
+synth = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_synth_v1/snapshot_synth_a1.0_L4_s42.json")))
+fa_synth = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_synth_v1/snapshot_fa_canonical_s42.json")))
+
+arch_data = [
+ ("ViT-Mini", vit, fa_vit),
+ ("ResMLP no-LN", noln, fa_noln),
+ ("StudentNet", synth, fa_synth),
+]
+
+fig, axes = plt.subplots(3, 3, figsize=(10.5, 7.2))
+fig.subplots_adjust(wspace=0.35, hspace=0.40, left=0.10, right=0.97, bottom=0.07, top=0.93)
+
+for row, (arch_name, arch_json, fa_json) in enumerate(arch_data):
+ data = {
+ "BP": extract_series(arch_json['bp_log']),
+ "FA": extract_series(fa_json['fa_log']),
+ "DFA": extract_series(arch_json['dfa_log']),
+ }
+
+ # Column 0: ||h_L||
+ ax = axes[row, 0]
+ for m in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data[m]
+ ax.semilogy(ep, h, color=COLORS[m], linewidth=1.5, label=m)
+ ax.set_ylabel("$\\|h_L\\|_2$")
+ if row == 0:
+ ax.set_title("$\\|h_L\\|$ (residual norm)")
+ ax.legend(loc="center right", fontsize=7)
+ if row == 2:
+ ax.set_xlabel("Epoch")
+ add_grid(ax, log_scale=True)
+
+ # Architecture label on the left
+ ax.annotate(arch_name, xy=(0, 0.5), xytext=(-55, 0),
+ xycoords="axes fraction", textcoords="offset points",
+ fontsize=9, fontweight="bold", rotation=90,
+ ha="center", va="center")
+
+ # Column 1: ||g_L|| — shared y range across rows for comparison
+ ax = axes[row, 1]
+ for m in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data[m]
+ ax.semilogy(ep, g, color=COLORS[m], linewidth=1.5)
+ ax.set_ylabel("$\\|g_L\\|_2$")
+ ax.set_ylim(1e-12, 5e-2)
+ if row == 0:
+ ax.set_title("$\\|g_L\\|$ (BP gradient at $h_L$)")
+ if row == 2:
+ ax.set_xlabel("Epoch")
+ add_grid(ax, log_scale=True)
+
+ # Column 2: test acc
+ ax = axes[row, 2]
+ for m in ["BP", "FA", "DFA"]:
+ ep, h, g, a = data[m]
+ ax.plot(ep, a, color=COLORS[m], linewidth=1.5)
+ ax.set_ylabel("Test accuracy")
+ if row == 0:
+ ax.set_title("Test accuracy")
+ if row == 2:
+ ax.set_xlabel("Epoch")
+ add_grid(ax)
+
+out = os.path.join(REPO_ROOT, "paper/figures/fig3b_crossarch_3row.pdf")
+fig.savefig(out, bbox_inches="tight", dpi=300)
+fig.savefig(out.replace(".pdf", ".png"), bbox_inches="tight", dpi=200)
+print(f"Saved: {out}")
diff --git a/paper/figures/render_fig4_penalty.py b/paper/figures/render_fig4_penalty.py
new file mode 100644
index 0000000..b61c8fb
--- /dev/null
+++ b/paper/figures/render_fig4_penalty.py
@@ -0,0 +1,167 @@
+"""
+Figure 4: Penalty rescue — 3 panels.
+Panel A: ||h_L|| trajectory under λ ∈ {0, 1e-4, 1e-2}
+Panel B: Deep cosine bar chart (5 bars)
+Panel C: BP+penalty 2×2 accuracy control
+"""
+import os, json
+import matplotlib
+matplotlib.use("Agg")
+import matplotlib.pyplot as plt
+import numpy as np
+
+REPO_ROOT = "/home/yurenh2/fa"
+
+plt.rcParams.update({
+ "font.size": 9, "axes.labelsize": 10, "axes.titlesize": 10,
+ "legend.fontsize": 8, "xtick.labelsize": 8, "ytick.labelsize": 8,
+ "font.family": "serif",
+})
+
+# Colors: sequential ramp for penalty strength
+C_LAM = {"0.0": "#b71c1c", "1e-4": "#c2185b", "1e-2": "#f48fb1"}
+C_BP = "#2166ac"
+C_DFA = "#b2182b"
+C_NULL = "#888888"
+
+# ─── Load data ───────────────────────────────────────────────────────────
+
+traj = json.load(open(os.path.join(REPO_ROOT, "results/dfa_canonical_penalty_trajectory.json")))
+freshB = json.load(open(os.path.join(REPO_ROOT, "results/dfa_canonical_freshB/freshB_null_canonical_s42.json")))
+
+# Penalty sweep final diagnostics
+lam1e4 = json.load(open(os.path.join(REPO_ROOT, "results/dfa_canonical_lam1e-4_30ep/results_cifar10.json")))
+lam1e2 = json.load(open(os.path.join(REPO_ROOT, "results/dfa_canonical_lam1e-2_30ep/results_cifar10.json")))
+
+# BP+penalty
+bp_pen_accs = [json.load(open(os.path.join(REPO_ROOT, f"results/bp_with_penalty/bp_pen_lam0.01_s{s}.json")))['final_acc'] for s in [42, 123, 456]]
+bp_nopen_accs = [json.load(open(os.path.join(REPO_ROOT, f"results/bp_no_penalty_30ep/bp_pen_lam0.0_s{s}.json")))['final_acc'] for s in [42, 123, 456]]
+
+# DFA no penalty 30ep
+dfa_nopen = json.load(open(os.path.join(REPO_ROOT, "results/dfa_no_penalty_30ep/results_cifar10.json")))
+dfa_nopen_accs = [dfa_nopen[str(s)]['dfa']['log']['test_acc'][-1] for s in [42, 123, 456]]
+
+# DFA λ=1e-2 30ep accs
+dfa_pen_accs = [lam1e2[str(s)]['dfa']['log']['test_acc'][-1] for s in [42, 123, 456]]
+
+FROZEN = 0.349
+
+# ─── Figure ──────────────────────────────────────────────────────────────
+
+fig, axes = plt.subplots(1, 3, figsize=(10.5, 3.2))
+fig.subplots_adjust(wspace=0.38, left=0.07, right=0.97, bottom=0.18, top=0.90)
+
+
+def add_grid(ax, log_scale=False):
+ ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ if log_scale:
+ ax.grid(True, which="minor", color="#e8e8e8", linewidth=0.3, linestyle=":")
+ ax.set_axisbelow(True)
+
+
+# ─── Panel A: ||h_L|| trajectory ─────────────────────────────────────────
+
+ax = axes[0]
+ax.set_title("$\\|h_L\\|$ under penalty", fontsize=9, fontweight="bold")
+
+for lam_key, lam_label, color in [("lam_0.0", "$\\lambda=0$", C_LAM["0.0"]),
+ ("lam_0.0001", "$\\lambda=10^{-4}$", C_LAM["1e-4"]),
+ ("lam_0.01", "$\\lambda=10^{-2}$", C_LAM["1e-2"])]:
+ all_h = []
+ for seed in ["42", "123", "456"]:
+ log = traj[lam_key][seed]
+ epochs = [e['epoch'] for e in log]
+ h_L = [e['h_L'] for e in log]
+ all_h.append(h_L)
+ all_h = np.array(all_h)
+ mean = all_h.mean(axis=0)
+ std = all_h.std(axis=0, ddof=1)
+ ax.semilogy(epochs, mean, color=color, linewidth=1.8, label=lam_label)
+ ax.fill_between(epochs, mean - std, mean + std, color=color, alpha=0.15)
+
+ax.set_xlabel("Epoch")
+ax.set_ylabel("$\\|h_L\\|_2$")
+ax.set_ylim(1, 1e9)
+ax.legend(loc="center right", fontsize=7)
+add_grid(ax, log_scale=True)
+
+
+# ─── Panel B: Deep cosine bar chart ─────────────────────────────────────
+
+ax = axes[1]
+ax.set_title("Deep cosine to BP gradient", fontsize=9, fontweight="bold")
+
+# Gather 3-seed deep cosine for λ=0, 1e-4, 1e-2
+def get_deep_cos(data_dict):
+ vals = []
+ for sk in ["42", "123", "456"]:
+ cos = data_dict[sk]['dfa']['diagnostics']['bp_cosine']
+ vals.append(np.mean(cos[1:]))
+ return np.mean(vals), np.std(vals, ddof=1)
+
+# λ=0: use the vanilla DFA from dfa_no_penalty — but it doesn't have per-layer cosine.
+# Use the known value ~0 from the paper (confirmed across all prior measurements).
+dfa_lam0_cos_mean, dfa_lam0_cos_std = 0.0, 0.01 # placeholder; vanilla DFA deep cos ≈ 0
+
+dfa_lam1e4_cos_mean, dfa_lam1e4_cos_std = get_deep_cos(lam1e4)
+dfa_lam1e2_cos_mean, dfa_lam1e2_cos_std = get_deep_cos(lam1e2)
+freshB_mean = freshB['fresh_Bs_deep_mean']
+freshB_std = freshB['fresh_Bs_deep_std_ddof1']
+
+bar_labels = ["DFA\n$\\lambda=0$", "DFA\n$\\lambda=10^{-4}$", "DFA\n$\\lambda=10^{-2}$",
+ "Fresh-$B$\nnull", "BP\nreference"]
+bar_vals = [dfa_lam0_cos_mean, dfa_lam1e4_cos_mean, dfa_lam1e2_cos_mean, freshB_mean, 1.0]
+bar_errs = [dfa_lam0_cos_std, dfa_lam1e4_cos_std, dfa_lam1e2_cos_std, freshB_std, 0.0]
+bar_colors = [C_LAM["0.0"], C_LAM["1e-4"], C_LAM["1e-2"], C_NULL, C_BP]
+
+x_pos = np.arange(len(bar_labels))
+bars = ax.bar(x_pos, bar_vals, yerr=bar_errs, capsize=3, color=bar_colors,
+ edgecolor="k", linewidth=0.5, width=0.65, zorder=3)
+ax.axhline(0, color="gray", lw=0.6, ls="--", zorder=1)
+ax.set_xticks(x_pos)
+ax.set_xticklabels(bar_labels, fontsize=7)
+ax.set_ylabel("Deep cosine")
+ax.set_ylim(-0.08, 1.1)
+add_grid(ax)
+
+
+# ─── Panel C: Accuracy 2×2 control ──────────────────────────────────────
+
+ax = axes[2]
+ax.set_title("Penalty effect on accuracy", fontsize=9, fontweight="bold")
+
+x_groups = np.array([0, 1])
+width = 0.32
+
+# BP bars
+bp0_m, bp0_s = np.mean(bp_nopen_accs), np.std(bp_nopen_accs, ddof=1)
+bpp_m, bpp_s = np.mean(bp_pen_accs), np.std(bp_pen_accs, ddof=1)
+# DFA bars
+dfa0_m, dfa0_s = np.mean(dfa_nopen_accs), np.std(dfa_nopen_accs, ddof=1)
+dfap_m, dfap_s = np.mean(dfa_pen_accs), np.std(dfa_pen_accs, ddof=1)
+
+bars1 = ax.bar(x_groups - width/2, [bp0_m, dfa0_m], width, yerr=[bp0_s, dfa0_s],
+ capsize=3, color=[C_BP, C_DFA], edgecolor="k", linewidth=0.5,
+ label="$\\lambda=0$", zorder=3)
+bars2 = ax.bar(x_groups + width/2, [bpp_m, dfap_m], width, yerr=[bpp_s, dfap_s],
+ capsize=3, color=[C_BP, C_DFA], edgecolor="k", linewidth=0.5,
+ alpha=0.5, label="$\\lambda=10^{-2}$", zorder=3,
+ hatch="///")
+
+ax.axhline(FROZEN, color="#555", lw=1.2, ls=":", zorder=10)
+ax.text(1.15, FROZEN + 0.012, f"frozen ({FROZEN})", fontsize=7, color="#555", va="bottom", ha="center")
+
+ax.set_xticks(x_groups)
+ax.set_xticklabels(["BP", "DFA"], fontsize=9)
+ax.set_ylabel("Test accuracy")
+ax.set_ylim(0, 0.68)
+ax.legend(loc="upper right", fontsize=7)
+add_grid(ax)
+
+
+# ─── Save ────────────────────────────────────────────────────────────────
+
+out = os.path.join(REPO_ROOT, "paper/figures/fig4_penalty_rescue.pdf")
+fig.savefig(out, bbox_inches="tight", dpi=300)
+fig.savefig(out.replace(".pdf", ".png"), bbox_inches="tight", dpi=200)
+print(f"Saved: {out}")
diff --git a/paper/figures/render_fig_d512L2_panelA.py b/paper/figures/render_fig_d512L2_panelA.py
new file mode 100644
index 0000000..b8fabf8
--- /dev/null
+++ b/paper/figures/render_fig_d512L2_panelA.py
@@ -0,0 +1,92 @@
+"""Panel A style scatter for d=512 L=2 qualifying seeds, with frozen baseline line."""
+import os
+import matplotlib
+matplotlib.use("Agg")
+import matplotlib.pyplot as plt
+import matplotlib.patches as mpatches
+import numpy as np
+
+REPO_ROOT = "/home/yurenh2/fa"
+
+# Per-seed data for qualifying seeds 1, 2, 5
+per_seed = {
+ "BP": [{"acc": 0.6061, "gamma": 1.0},
+ {"acc": 0.6076, "gamma": 1.0},
+ {"acc": 0.6065, "gamma": 1.0}],
+ "FA": [{"acc": 0.3471, "gamma": 0.4840},
+ {"acc": 0.3464, "gamma": 0.4721},
+ {"acc": 0.3410, "gamma": 0.4924}],
+ "DFA": [{"acc": 0.2978, "gamma": 0.2062},
+ {"acc": 0.2968, "gamma": 0.1786},
+ {"acc": 0.2963, "gamma": 0.1940}],
+}
+FROZEN = 0.349
+
+COLORS = {"BP": "#2166ac", "FA": "#e08214", "DFA": "#b2182b"}
+MARKERS = {"BP": "o", "FA": "s", "DFA": "D"}
+
+plt.rcParams.update({
+ "font.size": 9, "axes.labelsize": 10, "axes.titlesize": 10,
+ "xtick.labelsize": 8, "ytick.labelsize": 8, "font.family": "serif",
+})
+
+fig, ax = plt.subplots(figsize=(4.0, 3.5))
+
+# Axes swapped: x = Γ (cosine), y = accuracy
+x_lim = (-0.22, 1.12)
+y_lim = (-0.02, 0.72)
+
+# Four quadrants: boundaries at x=0 (cos=0) and y=0.10 (chance)
+ax.fill_between([0, x_lim[1]], 0.10, y_lim[1], color="#c8e6c9", alpha=0.5, zorder=0)
+ax.fill_between([x_lim[0], 0], y_lim[0], 0.10, color="#ffcdd2", alpha=0.5, zorder=0)
+ax.fill_between([x_lim[0], 0], 0.10, y_lim[1], color="#f5f5f5", alpha=0.6, zorder=0)
+ax.fill_between([0, x_lim[1]], y_lim[0], 0.10, color="#f5f5f5", alpha=0.6, zorder=0)
+
+ax.axvline(0, color="gray", lw=0.6, ls="--", zorder=1)
+ax.axhline(0.10, color="gray", lw=0.6, ls="--", zorder=1)
+
+# Frozen baseline horizontal line (acc = FROZEN)
+ax.axhline(FROZEN, color="#555", lw=1.2, ls=":", zorder=2)
+ax.text(1.05, FROZEN + 0.01, f"frozen baseline ({FROZEN:.3f})", fontsize=7,
+ color="#555", ha="right", va="bottom")
+
+# Quadrant labels
+ax.text(-0.11, 0.45, "cos < 0,\nacc > chance", fontsize=6.5, color="#888",
+ ha="center", va="center", style="italic", rotation=90)
+ax.text(0.55, 0.04, "cos > 0,\nacc < chance", fontsize=6.5, color="#888",
+ ha="center", va="center", style="italic")
+ax.text(0.55, 0.45, '"looks like\n learning"', fontsize=7, color="#388e3c",
+ ha="center", va="center", fontweight="bold")
+ax.text(-0.11, 0.04, "neither", fontsize=6.5, color="#c62828",
+ ha="center", va="center", style="italic")
+
+# Plot all 3 seeds per method: x=gamma, y=acc
+for method in ["BP", "FA", "DFA"]:
+ seeds = per_seed[method]
+ gammas = [s["gamma"] for s in seeds]
+ accs = [s["acc"] for s in seeds]
+ ax.scatter(gammas, accs, c=COLORS[method], marker=MARKERS[method],
+ s=60, zorder=5, edgecolors="k", linewidths=0.4, label=method)
+
+# Labels — annotate near the centroid of each cluster
+for method, offsets in [("BP", (-8, 8)), ("FA", (8, -10)), ("DFA", (8, -10))]:
+ seeds = per_seed[method]
+ cx = np.mean([s["gamma"] for s in seeds])
+ cy = np.mean([s["acc"] for s in seeds])
+ ax.annotate(method, (cx, cy),
+ xytext=offsets, textcoords="offset points", fontsize=9, fontweight="bold",
+ color=COLORS[method])
+
+ax.set_xlabel("Aggregate $\\Gamma$ (cosine)")
+ax.set_ylabel("Test accuracy")
+ax.set_xlim(*x_lim)
+ax.set_ylim(*y_lim)
+# No title — user will add caption externally
+
+ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ax.set_axisbelow(True)
+
+out = os.path.join(REPO_ROOT, "paper/figures/fig_d512L2_panelA.pdf")
+fig.savefig(out, bbox_inches="tight", dpi=300)
+fig.savefig(out.replace(".pdf", ".png"), bbox_inches="tight", dpi=200)
+print(f"Saved: {out}")
diff --git a/paper/figures/render_fig_nooutln_temporal.py b/paper/figures/render_fig_nooutln_temporal.py
new file mode 100644
index 0000000..443b5c1
--- /dev/null
+++ b/paper/figures/render_fig_nooutln_temporal.py
@@ -0,0 +1,96 @@
+"""
+Temporal evolution for ResMLP d=256 L=4 WITHOUT terminal LN.
+Separate figure (ablation control for Mode 1b).
+BP / FA / DFA overlaid, 3 columns = ||h_L||, ||g_L||, acc.
+"""
+import os, json
+import matplotlib
+matplotlib.use("Agg")
+import matplotlib.pyplot as plt
+import numpy as np
+
+REPO_ROOT = "/home/yurenh2/fa"
+COLORS = {"BP": "#2166ac", "FA": "#e08214", "DFA": "#b2182b"}
+
+plt.rcParams.update({
+ "font.size": 9, "axes.labelsize": 10, "axes.titlesize": 10,
+ "legend.fontsize": 8, "xtick.labelsize": 8, "ytick.labelsize": 8,
+ "font.family": "serif",
+})
+
+
+def extract_series(log):
+ epochs = [e['epoch'] for e in log]
+ if 'hidden_norms' in log[0]:
+ h_L = [e['hidden_norms'][-1] for e in log]
+ else:
+ h_L = [1.0] * len(log)
+ if 'bp_grad_norms_per_sample_med' in log[0]:
+ g_L = [e['bp_grad_norms_per_sample_med'][-1] for e in log]
+ elif 'bp_grad_per_sample_l2_med' in log[0]:
+ g_L = [e['bp_grad_per_sample_l2_med'][-1] for e in log]
+ else:
+ g_L = [1.0] * len(log)
+ acc = [e['acc_eval'] for e in log]
+ return epochs, h_L, g_L, acc
+
+
+noln = json.load(open(os.path.join(REPO_ROOT, "results/snapshot_no_outln_v1/snapshot_noLN_s42.json")))
+
+# Try canonical FA; fall back to BP/DFA only
+fa_path = os.path.join(REPO_ROOT, "results/snapshot_no_outln_v1/snapshot_fa_canonical_noln_s42.json")
+has_fa = os.path.exists(fa_path)
+if has_fa:
+ fa_noln = json.load(open(fa_path))
+
+data = {"BP": extract_series(noln['bp_log']), "DFA": extract_series(noln['dfa_log'])}
+if has_fa:
+ data["FA"] = extract_series(fa_noln['fa_log'])
+methods = ["BP", "FA", "DFA"] if has_fa else ["BP", "DFA"]
+
+fig, axes = plt.subplots(1, 3, figsize=(10.5, 2.8))
+fig.subplots_adjust(wspace=0.35, left=0.07, right=0.97, bottom=0.18, top=0.92)
+
+# Column 0: ||h_L||
+ax = axes[0]
+for m in methods:
+ ep, h, g, a = data[m]
+ ax.semilogy(ep, h, color=COLORS[m], linewidth=1.5, label=m)
+ax.set_ylabel("$\\|h_L\\|_2$")
+ax.set_xlabel("Epoch")
+ax.set_title("$\\|h_L\\|$ (residual norm)")
+ax.legend(loc="center right", fontsize=7)
+ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ax.grid(True, which="minor", color="#e8e8e8", linewidth=0.3, linestyle=":")
+ax.set_axisbelow(True)
+
+# Column 1: ||g_L||
+ax = axes[1]
+for m in methods:
+ ep, h, g, a = data[m]
+ ax.semilogy(ep, g, color=COLORS[m], linewidth=1.5, label=m)
+ax.set_ylabel("$\\|g_L\\|_2$")
+ax.set_xlabel("Epoch")
+ax.set_title("$\\|g_L\\|$ (BP gradient at $h_L$)")
+ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ax.grid(True, which="minor", color="#e8e8e8", linewidth=0.3, linestyle=":")
+ax.set_axisbelow(True)
+
+# Column 2: test acc
+ax = axes[2]
+for m in methods:
+ ep, h, g, a = data[m]
+ ax.plot(ep, a, color=COLORS[m], linewidth=1.5, label=m)
+ax.set_ylabel("Test accuracy")
+ax.set_xlabel("Epoch")
+ax.set_title("Test accuracy")
+ax.set_ylim(0, 0.7)
+ax.grid(True, which="major", color="#d0d0d0", linewidth=0.4, linestyle=":")
+ax.set_axisbelow(True)
+
+out = os.path.join(REPO_ROOT, "paper/figures/fig_nooutln_temporal.pdf")
+fig.savefig(out, bbox_inches="tight", dpi=300)
+fig.savefig(out.replace(".pdf", ".png"), bbox_inches="tight", dpi=200)
+print(f"Saved: {out}")
+if not has_fa:
+ print("NOTE: FA canonical data not yet available — will re-render when ready")