File size: 38,695 Bytes
8a82d34 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499 500 501 502 503 504 505 506 507 508 509 510 511 512 513 514 515 516 517 518 519 520 521 522 523 524 525 526 527 528 529 530 531 532 533 534 535 536 537 538 539 540 541 542 543 544 545 546 547 548 549 550 551 552 553 554 555 556 557 558 559 560 561 562 563 564 565 566 567 568 569 570 571 572 573 574 575 576 577 578 579 580 581 582 583 584 585 586 587 588 589 590 591 592 593 594 595 596 597 598 599 600 601 602 603 604 605 606 607 608 609 610 611 612 613 614 615 616 617 618 619 620 621 622 623 624 625 626 627 628 629 630 631 632 633 634 635 636 637 638 639 640 641 642 643 644 645 646 647 648 649 650 651 652 653 654 655 656 657 658 659 660 661 662 663 664 665 666 667 668 669 670 671 672 673 674 675 676 677 678 679 680 681 682 683 684 685 686 687 688 689 690 691 692 693 694 695 696 697 698 699 700 701 702 703 704 705 706 707 708 709 710 711 712 713 714 715 716 717 718 719 720 721 722 723 724 725 726 727 728 729 730 731 732 733 734 735 736 737 738 739 740 741 742 743 744 745 746 747 748 749 750 751 752 753 754 755 756 757 758 759 760 761 762 763 764 765 766 767 768 769 770 771 772 773 774 775 776 777 778 779 780 781 782 783 784 785 786 787 788 789 790 791 792 793 794 795 796 797 798 799 800 801 802 803 804 805 806 807 808 809 810 811 812 813 814 815 816 817 818 819 820 821 822 823 824 825 826 827 828 829 830 831 832 833 834 835 836 837 838 839 840 | """
+=============================================================+
| TRIADS V6 — Graph Attention TRM + Gate-Based Halting |
| |
| Single model: Gate-halt (4-16 adaptive cycles) |
| d=56, 4 heads, gated residuals, deep supervision |
| SWA last 50 ep | 200 epochs |
| |
| Loads: phonons_v6_dataset.pt |
+=============================================================+
DEPENDENCIES (dataset already pre-computed, no matminer needed):
pip install torch numpy scikit-learn tqdm
(all pre-installed on Kaggle)
USAGE:
python phonons_v6.py
"""
import os, copy, json, time, math, warnings, threading
from collections import defaultdict
warnings.filterwarnings('ignore')
import numpy as np
import torch
import torch.nn as nn
import torch.nn.functional as F
from torch.optim.swa_utils import AveragedModel, SWALR
from sklearn.preprocessing import StandardScaler
# Notebook dashboard (IPython is always available on Kaggle)
try:
from IPython.display import display, HTML, clear_output
IN_NOTEBOOK = True
except ImportError:
IN_NOTEBOOK = False
# ═══════════════════════════════════════════════════════════════
# CONFIG
# ═══════════════════════════════════════════════════════════════
D = 56
N_HEADS = 4
N_WARMUP = 1 # 1 unshared warm-up (param budget)
N_ANGLE_RBF = 8
DROPOUT = 0.1
BATCH_SIZE = 64
EPOCHS = 200
SWA_START = 150
LR = 5e-4
WD = 1e-4
SEEDS = [42]
# Gate-halt model
MIN_CYCLES = 4
MAX_CYCLES = 16
GATE_HALT_THR = 0.05 # halt when max gate < this
GATE_SPARSITY = 0.001 # encourage gates to close
BASELINES = {
'MEGNet': 28.76, 'ALIGNN': 29.34, 'MODNet': 45.39,
'CrabNet': 47.09, 'TRIADS V4': 56.33, 'TRIADS V3.1': 63.00,
'TRIADS V1': 71.82, 'Dummy': 323.76,
}
# ═══════════════════════════════════════════════════════════════
# SCATTER
# ═══════════════════════════════════════════════════════════════
def scatter_sum(src, idx, dim_size):
out = torch.zeros(dim_size, src.shape[-1], dtype=src.dtype, device=src.device)
out.scatter_add_(0, idx.unsqueeze(-1).expand_as(src), src)
return out
# ═══════════════════════════════════════════════════════════════
# COLLATION + DATALOADER
# ═══════════════════════════════════════════════════════════════
def collate(graphs, comp, glob_phys, targets, indices, device):
az, af = [], []
ei, rb, vc, ph = [], [], [], []
tr, an = [], []
ba, na_list = [], []
a_off, e_off = 0, 0
for k, i in enumerate(indices):
g = graphs[i]
na, ne = g['n_atoms'], g['n_edges']
az.append(g['atom_z'])
af.append(g['atom_features'])
ei.append(g['edge_index'] + a_off)
rb.append(g['edge_rbf']); vc.append(g['edge_vec']); ph.append(g['edge_physics'])
tr.append(g['triplet_index'] + e_off)
an.append(g['angle_rbf'])
ba.append(torch.full((na,), k, dtype=torch.long))
na_list.append(na)
a_off += na; e_off += ne
return (
comp[indices].to(device),
glob_phys[indices].to(device),
{
'atom_z': torch.cat(az).to(device),
'atom_feat': torch.cat(af).to(device),
'ei': torch.cat(ei, 1).to(device),
'rbf': torch.cat(rb).to(device),
'vec': torch.cat(vc).to(device),
'phys': torch.cat(ph).to(device),
'triplets': torch.cat(tr, 1).to(device),
'angle_feat': torch.cat(an).to(device),
'batch': torch.cat(ba).to(device),
'n_crystals': len(indices),
'n_atoms': na_list,
},
targets[indices].to(device),
)
class Loader:
def __init__(self, graphs, comp, gp, tgt, idx, bs, dev, shuf=False):
self.g, self.c, self.gp, self.t = graphs, comp, gp, tgt
self.idx, self.bs, self.dev, self.shuf = np.array(idx), bs, dev, shuf
def __iter__(self):
i = self.idx.copy()
if self.shuf: np.random.shuffle(i)
self._b = [i[j:j+self.bs] for j in range(0, len(i), self.bs)]
self._p = 0; return self
def __next__(self):
if self._p >= len(self._b): raise StopIteration
b = self._b[self._p]; self._p += 1
return collate(self.g, self.c, self.gp, self.t, b, self.dev)
def __len__(self): return (len(self.idx) + self.bs - 1) // self.bs
# ═══════════════════════════════════════════════════════════════
# GRAPH MESSAGE PASSING LAYER (Line Graph style)
# ═══════════════════════════════════════════════════════════════
class GraphMPLayer(nn.Module):
"""Bond update (line graph) + Atom update (edge-gated)."""
def __init__(self, d, n_angle=N_ANGLE_RBF, dropout=DROPOUT):
super().__init__()
# Phase 1: Bond update from angular neighbors
self.bond_msg = nn.Sequential(nn.Linear(d*2 + n_angle, d), nn.SiLU())
self.bond_gate = nn.Sequential(nn.Linear(d*2 + n_angle, d), nn.Sigmoid())
self.bond_up = nn.Sequential(nn.Linear(d*2, d), nn.LayerNorm(d), nn.SiLU(), nn.Dropout(dropout))
# Phase 2: Atom update from bonds
self.atom_msg = nn.Sequential(nn.Linear(d*3, d), nn.SiLU())
self.atom_gate = nn.Sequential(nn.Linear(d*3, d), nn.Sigmoid())
self.atom_up = nn.Sequential(nn.Linear(d*2, d), nn.LayerNorm(d), nn.SiLU(), nn.Dropout(dropout))
def forward(self, atoms, bonds, ei, triplets, angle_feat):
# Phase 1: bonds learn from angular neighbors
if triplets.shape[1] > 0:
b_ij, b_kj = bonds[triplets[0]], bonds[triplets[1]]
inp = torch.cat([b_ij, b_kj, angle_feat], -1)
msg = self.bond_msg(inp) * self.bond_gate(inp)
agg = torch.zeros(bonds.size(0), bonds.size(1), dtype=torch.float32, device=msg.device)
agg.scatter_add_(0, triplets[0].unsqueeze(-1).expand_as(msg), msg)
bonds = bonds + self.bond_up(torch.cat([bonds, agg], -1))
# Phase 2: atoms aggregate from bonds
inp = torch.cat([atoms[ei[0]], atoms[ei[1]], bonds], -1)
msg = self.atom_msg(inp) * self.atom_gate(inp)
agg = scatter_sum(msg, ei[1], atoms.size(0))
atoms = atoms + self.atom_up(torch.cat([atoms, agg], -1))
return atoms, bonds
# ═══════════════════════════════════════════════════════════════
# PHONON V6 MODEL
# ═══════════════════════════════════════════════════════════════
class PhononV6(nn.Module):
"""
Graph Attention TRM for phonon prediction.
mode='fixed': Fixed n_cycles TRM cycles (Model 1)
mode='gate_halt': Gate-based implicit halting (Model 2)
"""
def __init__(self, comp_dim, global_phys_dim=15, d=D,
mode='gate_halt', n_cycles=MAX_CYCLES,
min_cycles=MIN_CYCLES, max_cycles=MAX_CYCLES,
n_warmup=N_WARMUP, n_heads=N_HEADS, dropout=DROPOUT):
super().__init__()
self.d = d
self.mode = mode
self.total_cycles = n_cycles if mode == 'fixed' else max_cycles
self.min_cycles = min_cycles if mode == 'gate_halt' else self.total_cycles
# Feature layout (from V6 dataset: 132 magpie + extras + 11 struct + 200 m2v)
self.n_magpie = 132
self.n_extra = comp_dim - 132 - 11 - 200
self.n_comp_tokens = 22 + 1 + 1 # 22 magpie + 1 extra + 1 m2v = 24
# ── Input Encoding ────────────────────────────────────
self.atom_embed = nn.Embedding(103, d)
self.atom_feat_proj = nn.Linear(18, d)
self.rbf_enc = nn.Linear(40, d)
self.vec_enc = nn.Linear(3, d)
self.phys_enc = nn.Linear(8, d)
# ── Composition Token Projections ─────────────────────
self.magpie_proj = nn.Linear(6, d)
self.extra_proj = nn.Linear(max(self.n_extra, 1), d)
self.m2v_proj = nn.Linear(200, d)
# ── Context (structural + global physics) ─────────────
self.ctx_proj = nn.Linear(11 + global_phys_dim, d)
# ── Token Type Embeddings ─────────────────────────────
self.type_embed = nn.Embedding(2, d)
# ── Warm-up Layers (unshared) ─────────────────────────
self.warmup = nn.ModuleList([GraphMPLayer(d, N_ANGLE_RBF, dropout) for _ in range(n_warmup)])
self.warmup_out = nn.Sequential(nn.Linear(d, d), nn.LayerNorm(d), nn.SiLU())
# ── Shared TRM Block ──────────────────────────────────
# Graph MP (shared)
self.trm_gnn = GraphMPLayer(d, N_ANGLE_RBF, dropout)
# Self-Attention
self.sa = nn.MultiheadAttention(d, n_heads, dropout=dropout, batch_first=True)
self.sa_n = nn.LayerNorm(d)
self.sa_ff = nn.Sequential(nn.Linear(d, d), nn.GELU(), nn.Dropout(dropout), nn.Linear(d, d))
self.sa_fn = nn.LayerNorm(d)
# Cross-Attention
self.ca = nn.MultiheadAttention(d, n_heads, dropout=dropout, batch_first=True)
self.ca_n = nn.LayerNorm(d)
# ── State Update (Gated Residuals) ───────────────────
self.z_proj = nn.Linear(d*3, d)
self.z_up = nn.Sequential(nn.Linear(d*2, d), nn.SiLU(), nn.Linear(d, d))
self.z_gate = nn.Sequential(nn.Linear(d*2, d), nn.Sigmoid())
self.y_up = nn.Sequential(nn.Linear(d*2, d), nn.SiLU(), nn.Linear(d, d))
self.y_gate = nn.Sequential(nn.Linear(d*2, d), nn.Sigmoid())
# ── Output Head ───────────────────────────────────────
self.head = nn.Sequential(nn.Linear(d, d//2), nn.SiLU(), nn.Linear(d//2, 1))
self._init_weights()
def _init_weights(self):
for m in self.modules():
if isinstance(m, nn.Linear):
nn.init.xavier_uniform_(m.weight)
if m.bias is not None: nn.init.zeros_(m.bias)
def forward(self, comp, glob_phys, g, deep_supervision=False):
B = g['n_crystals']
ei = g['ei']
dev = comp.device
# ══════════════════════════════════════════════════════
# INPUT ENCODING
# ══════════════════════════════════════════════════════
# Atom features
atoms = self.atom_embed(g['atom_z'].clamp(0, 102)) + self.atom_feat_proj(g['atom_feat'])
# Bond features: distance (direction-gated) + physics
bonds = self.rbf_enc(g['rbf']) * torch.tanh(self.vec_enc(g['vec'])) + self.phys_enc(g['phys'])
triplets = g['triplets']
angle_feat = g['angle_feat']
# ══════════════════════════════════════════════════════
# WARM-UP (2 unshared graph layers)
# ══════════════════════════════════════════════════════
for layer in self.warmup:
atoms, bonds = layer(atoms, bonds, ei, triplets, angle_feat)
atoms = self.warmup_out(atoms)
# ══════════════════════════════════════════════════════
# COMPOSITION TOKENS (24 total)
# ══════════════════════════════════════════════════════
magpie = comp[:, :132].view(B, 22, 6)
extras = comp[:, 132:132+self.n_extra]
s_meta = comp[:, 132+self.n_extra:132+self.n_extra+11]
m2v = comp[:, -200:]
mag_tok = self.magpie_proj(magpie) # [B, 22, d]
ext_tok = self.extra_proj(extras).unsqueeze(1) # [B, 1, d]
m2v_tok = self.m2v_proj(m2v).unsqueeze(1) # [B, 1, d]
comp_tok = torch.cat([mag_tok, ext_tok, m2v_tok], 1) # [B, 24, d]
comp_tok = comp_tok + self.type_embed.weight[0]
# Context vector (structural + global physics)
ctx = self.ctx_proj(torch.cat([s_meta, glob_phys], -1)) # [B, d]
# ══════════════════════════════════════════════════════
# TRM REASONING LOOP
# ══════════════════════════════════════════════════════
z = torch.zeros(B, self.d, device=dev)
y = torch.zeros(B, self.d, device=dev)
preds = []
n_atoms = g['n_atoms']
self._gate_sparsity = 0. # track gate magnitudes for regularizer
for cyc in range(self.total_cycles):
# ── Phase 1+2: Graph MP (shared weights) ──────────
atoms, bonds = self.trm_gnn(atoms, bonds, ei, triplets, angle_feat)
# ── Pad atoms for attention ───────────────────────
ma = max(n_atoms)
atom_tok = atoms.new_zeros(B, ma, self.d)
atom_mask = torch.ones(B, ma, dtype=torch.bool, device=dev)
off = 0
for i, na in enumerate(n_atoms):
atom_tok[i, :na] = atoms[off:off+na]
atom_mask[i, :na] = False
off += na
atom_tok = atom_tok + self.type_embed.weight[1]
# ── Phase 3: Joint Self-Attention ─────────────────
all_tok = torch.cat([comp_tok, atom_tok], 1)
full_mask = torch.cat([
torch.zeros(B, self.n_comp_tokens, dtype=torch.bool, device=dev),
atom_mask
], 1)
sa_out = self.sa(all_tok, all_tok, all_tok, key_padding_mask=full_mask)[0]
all_tok = self.sa_n(all_tok + sa_out)
all_tok = self.sa_fn(all_tok + self.sa_ff(all_tok))
comp_tok = all_tok[:, :self.n_comp_tokens]
atom_tok = all_tok[:, self.n_comp_tokens:]
# ── Phase 4: Cross-Attention (comp queries atoms) ─
ca_out = self.ca(comp_tok, atom_tok, atom_tok, key_padding_mask=atom_mask)[0]
comp_tok = self.ca_n(comp_tok + ca_out)
# ── Unpad atoms back to flat ──────────────────────
parts = [atom_tok[i, :n_atoms[i]] for i in range(B)]
atoms = torch.cat(parts, 0)
# ── Phase 5: State Update (Gated Residuals) ───────
xp = comp_tok.mean(dim=1) # [B, d]
z_inp = self.z_proj(torch.cat([xp, ctx, y], -1))
z_cand = self.z_up(torch.cat([z_inp, z], -1))
z_g = self.z_gate(torch.cat([z_inp, z], -1))
z = z + z_g * z_cand
y_cand = self.y_up(torch.cat([y, z], -1))
y_g = self.y_gate(torch.cat([y, z], -1))
y = y + y_g * y_cand
# Track gate sparsity (mean of all gate activations)
self._gate_sparsity = self._gate_sparsity + (z_g.mean() + y_g.mean()) / 2
preds.append(self.head(y).squeeze(-1))
# ── Phase 6: Gate-Based Halting ────────────────────
if self.mode == 'gate_halt' and cyc >= self.min_cycles - 1:
if y_g.max().item() < GATE_HALT_THR:
break
# Normalize gate sparsity by number of cycles actually run
n_run = len(preds)
self._gate_sparsity = self._gate_sparsity / max(n_run, 1)
return preds if deep_supervision else preds[-1]
def count_parameters(self):
return sum(p.numel() for p in self.parameters() if p.requires_grad)
# ═══════════════════════════════════════════════════════════════
# LOSS FUNCTIONS
# ═══════════════════════════════════════════════════════════════
def deep_sup_loss(preds_list, targets):
"""Linearly-weighted deep supervision: later cycles get more weight."""
p = torch.stack(preds_list)
w = torch.arange(1, p.shape[0]+1, device=p.device, dtype=p.dtype)
w = w / w.sum()
return (w * (p - targets.unsqueeze(0)).abs().mean(1)).sum()
def gate_halt_loss(preds_list, targets, gate_sparsity):
"""Deep supervision + gate sparsity to encourage early halting."""
return deep_sup_loss(preds_list, targets) + GATE_SPARSITY * gate_sparsity
# ═══════════════════════════════════════════════════════════════
# STRATIFIED SPLIT (within train fold → train/val)
# ═══════════════════════════════════════════════════════════════
def strat_split(t, vf=0.15, seed=42):
bins = np.digitize(t, np.percentile(t, [25, 50, 75]))
tr, vl = [], []
rng = np.random.RandomState(seed)
for b in range(4):
m = np.where(bins == b)[0]
if len(m) == 0: continue
n = max(1, int(len(m) * vf))
c = rng.choice(m, n, replace=False)
vl.extend(c.tolist())
tr.extend(np.setdiff1d(m, c).tolist())
return np.array(tr), np.array(vl)
# ═══════════════════════════════════════════════════════════════
# LIVE DASHBOARD (IPython HTML — works in Kaggle/Jupyter)
# ═══════════════════════════════════════════════════════════════
_print_lock = threading.Lock()
# Shared state updated by training threads, read by dashboard
_dash_state = {
'GH': {'fold': 0, 'ep': 0, 'tr': float('inf'), 'val': float('inf'),
'best': float('inf'), 'best_ep': 0, 'lr': 0., 'eta_m': 0,
'ep_s': 0., 'swa': False, 'done': False, 'test_mae': None},
}
_dash_log = [] # Accumulates milestone messages
def _log(msg):
with _print_lock:
_dash_log.append(msg)
if not IN_NOTEBOOK:
print(msg, flush=True)
def _render_html():
"""Build an HTML table from _dash_state + recent log lines."""
css = (
'<style>'
'.tv6{font-family:monospace;font-size:13px;border-collapse:collapse;width:100%}'
'.tv6 th{background:#1a1a2e;color:#e94560;padding:6px 10px;text-align:right;border-bottom:2px solid #e94560}'
'.tv6 td{padding:5px 10px;text-align:right;border-bottom:1px solid #333}'
'.tv6 tr:nth-child(odd){background:#16213e}'
'.tv6 tr:nth-child(even){background:#0f3460}'
'.tv6 td:first-child,.tv6 th:first-child{text-align:left;font-weight:bold;color:#e9c46a}'
'.tv6 .best{color:#2ecc71;font-weight:bold}'
'.tv6 .done{color:#2ecc71}'
'.tv6 .swa{color:#9b59b6}'
'.tv6 .training{color:#f39c12}'
'.tv6 .waiting{color:#636e72}'
'.logbox{font-family:monospace;font-size:12px;color:#dfe6e9;background:#0a0a0a;'
'padding:8px 12px;margin-top:8px;border-radius:6px;max-height:200px;overflow-y:auto}'
'</style>'
)
rows = ''
for name, s in _dash_state.items():
if s['done'] and s['test_mae']:
status = f'<span class="done">✅ {s["test_mae"]:.1f}</span>'
elif s['swa']:
status = '<span class="swa">SWA</span>'
elif s['ep'] == 0:
status = '<span class="waiting">Waiting</span>'
else:
status = '<span class="training">▶ Training</span>'
ep_str = f"{s['ep']}/{EPOCHS}" if s['ep'] else '-'
tr_str = f"{s['tr']:.1f}" if s['tr'] < 1e6 else '-'
val_str = f"{s['val']:.1f}" if s['val'] < 1e6 else '-'
best_str = f'<span class="best">{s["best"]:.1f}@{s["best_ep"]}</span>' if s['best'] < 1e6 else '-'
lr_str = f"{s['lr']:.0e}" if s['lr'] > 0 else '-'
eps_str = f"{s['ep_s']:.1f}" if s['ep_s'] > 0 else '-'
eta_str = f"{s['eta_m']:.0f}m" if s['eta_m'] > 0 else '-'
fold_str = str(s['fold']) if s['fold'] else '-'
rows += (f'<tr><td>{name}</td><td>{fold_str}</td><td>{ep_str}</td>'
f'<td>{tr_str}</td><td>{val_str}</td><td>{best_str}</td>'
f'<td>{lr_str}</td><td>{eps_str}</td><td>{eta_str}</td>'
f'<td>{status}</td></tr>')
table = (
f'{css}<h3 style="color:#e94560;font-family:monospace;margin:4px 0">⚡ TRIADS V6 — Live Dashboard</h3>'
f'<table class="tv6"><tr><th>Model</th><th>Fold</th><th>Epoch</th>'
f'<th>Train MAE</th><th>Val MAE</th><th>Best MAE</th>'
f'<th>LR</th><th>s/ep</th><th>ETA</th><th>Status</th></tr>{rows}</table>'
)
# Show last 8 log messages
if _dash_log:
log_html = '<br>'.join(_dash_log[-8:])
table += f'<div class="logbox">{log_html}</div>'
return table
class Dashboard:
"""Background thread that re-renders an HTML table every 5s in-place."""
def __init__(self):
self._stop = threading.Event()
self._thread = None
def start(self):
if not IN_NOTEBOOK:
return
self._stop.clear()
self._thread = threading.Thread(target=self._run, daemon=True)
self._thread.start()
def stop(self):
if not IN_NOTEBOOK or self._thread is None:
return
self._stop.set()
self._thread.join(timeout=10)
# Final render
clear_output(wait=True)
display(HTML(_render_html()))
def _run(self):
while not self._stop.is_set():
try:
clear_output(wait=True)
display(HTML(_render_html()))
except Exception:
pass
self._stop.wait(5)
_dashboard = Dashboard()
def train_fold_core(model, tr_loader, vl_loader, device, fold, seed,
model_name, tgt_mean=0., tgt_std=1., log_every=10):
"""
Train one model on one device. Uses AMP + structured line logging.
Returns (best_val_mae, model_with_best_weights).
"""
opt = torch.optim.AdamW(model.parameters(), lr=LR, weight_decay=WD)
# Cosine scheduler with 10-epoch linear warmup
WARMUP_EP = 10
def lr_lambda(ep):
if ep < WARMUP_EP: return (ep + 1) / WARMUP_EP
progress = (ep - WARMUP_EP) / max(1, EPOCHS - WARMUP_EP)
return 0.5 * (1 + math.cos(math.pi * progress)) * (1 - 1e-5/LR) + 1e-5/LR
sch = torch.optim.lr_scheduler.LambdaLR(opt, lr_lambda)
swa_model = AveragedModel(model)
swa_sch = SWALR(opt, swa_lr=1e-4)
bv, bw, best_ep = float('inf'), None, 0
fold_start = time.time()
for ep in range(EPOCHS):
ep_start = time.time()
use_swa = ep >= SWA_START
# ── TRAIN ─────────────────────────────────────────────
model.train()
te, tn = 0., 0
for cb, gb, g_batch, tb in tr_loader:
sp = model(cb, gb, g_batch, True)
if model.mode == 'gate_halt':
loss = gate_halt_loss(sp, tb, model._gate_sparsity)
else:
loss = deep_sup_loss(sp, tb)
opt.zero_grad(set_to_none=True)
loss.backward()
torch.nn.utils.clip_grad_norm_(model.parameters(), 0.5)
opt.step()
with torch.no_grad():
te += ((sp[-1] * tgt_std + tgt_mean) - (tb * tgt_std + tgt_mean)).abs().sum().item()
tn += len(tb)
if use_swa:
swa_model.update_parameters(model)
swa_sch.step()
else:
sch.step()
# ── VALIDATE ──────────────────────────────────────────
eval_m = swa_model if use_swa and ep == EPOCHS - 1 else model
eval_m.eval()
ve, vn = 0., 0
with torch.inference_mode():
for cb, gb, g_batch, tb in vl_loader:
pred = eval_m(cb, gb, g_batch)
ve += ((pred * tgt_std + tgt_mean) - (tb * tgt_std + tgt_mean)).abs().sum().item()
vn += len(tb)
train_mae = te / max(tn, 1)
val_mae = ve / max(vn, 1)
ep_time = time.time() - ep_start
if val_mae < bv:
bv = val_mae
bw = copy.deepcopy(model.state_dict())
best_ep = ep + 1
# ── UPDATE DASHBOARD STATE (every epoch) ────────────
lr_now = opt.param_groups[0]['lr']
eta_m = (EPOCHS - ep - 1) * ep_time / 60
_dash_state[model_name].update({
'fold': fold, 'ep': ep + 1,
'tr': train_mae, 'val': val_mae,
'best': bv, 'best_ep': best_ep,
'lr': lr_now, 'ep_s': ep_time,
'eta_m': eta_m, 'swa': use_swa,
})
# ── PLAIN LOG (fallback / milestone prints) ───────────
if not IN_NOTEBOOK and ((ep + 1) % log_every == 0 or ep == 0 or ep == EPOCHS - 1):
swa_tag = ' SWA' if use_swa else ''
_log(f" [{model_name}|F{fold}] ep {ep+1:>3}/{EPOCHS}"
f" │ Tr={train_mae:>6.1f} Val={val_mae:>6.1f}"
f" Best={bv:>6.1f}@{best_ep:<3}"
f" │ lr={lr_now:.0e}{swa_tag}"
f" │ {ep_time:.1f}s/ep ETA {eta_m:.0f}m")
model.load_state_dict(bw)
total_time = time.time() - fold_start
_log(f" [{model_name}|F{fold}] ✅ Done in {total_time/60:.1f}m │ Best Val MAE = {bv:.2f} @ epoch {best_ep}")
return bv, model
def evaluate_model(model, test_loader, device, tgt_mean=0., tgt_std=1.):
"""Evaluate model MAE on test set (returns MAE in original scale)."""
model.eval()
ee, en_ = 0., 0
with torch.inference_mode():
for cb, gb, g_batch, tb in test_loader:
pred = model(cb, gb, g_batch) * tgt_std + tgt_mean
real = tb * tgt_std + tgt_mean
ee += (pred - real).abs().sum().item()
en_ += len(tb)
return ee / max(en_, 1)
# ═══════════════════════════════════════════════════════════════
# DUAL-GPU PARALLEL TRAINING
# ═══════════════════════════════════════════════════════════════
def _train_worker(model, tr_loader, vl_loader, te_loader, device,
fold, seed, model_name, result_dict, key,
tgt_mean=0., tgt_std=1.):
"""Thread worker: train + evaluate one model on one GPU."""
try:
_, best_model = train_fold_core(
model, tr_loader, vl_loader, device, fold, seed, model_name,
tgt_mean=tgt_mean, tgt_std=tgt_std
)
mae = evaluate_model(best_model, te_loader, device, tgt_mean, tgt_std)
result_dict[key] = mae
_dash_state[model_name]['test_mae'] = mae
_dash_state[model_name]['done'] = True
_log(f" [{model_name}|F{fold}] 🏆 Test MAE = {mae:.2f} cm⁻¹")
del best_model
except Exception as e:
import traceback
_log(f" [{model_name}|F{fold}] ❌ ERROR: {e}\n{traceback.format_exc()}")
result_dict[key] = float('inf')
_dash_state[model_name]['done'] = True
finally:
if device.type == 'cuda':
torch.cuda.empty_cache()
# ═══════════════════════════════════════════════════════════════
# MAIN
# ═══════════════════════════════════════════════════════════════
def main():
t0 = time.time()
n_gpus = torch.cuda.device_count() if torch.cuda.is_available() else 0
print(f"""
╔══════════════════════════════════════════════════════════╗
║ TRIADS V6 — Graph-TRM + Gate-Based Halting ║
║ ║
║ Gate-halt: {MIN_CYCLES}-{MAX_CYCLES} adaptive cycles, d={D} ║
║ Deep supervision │ SWA (last {EPOCHS-SWA_START} ep) │ {EPOCHS} ep ║
╚══════════════════════════════════════════════════════════╝
""")
device = torch.device('cuda:0' if n_gpus > 0 else 'cpu')
if n_gpus > 0:
name = torch.cuda.get_device_name(0)
mem = torch.cuda.get_device_properties(0).total_memory / 1e9
print(f" GPU: {name} ({mem:.1f} GB)")
torch.backends.cuda.matmul.allow_tf32 = True
torch.backends.cudnn.benchmark = True
else:
print(" ⚠ No GPU — training will be slow")
# ── LOAD DATASET ──────────────────────────────────────────
kaggle_path = "/kaggle/input/datasets/rudratiwari0099x/phonons-training-dataset/phonons_v6_dataset.pt"
local_path = "phonons_v6_dataset.pt"
ds_path = kaggle_path if os.path.exists(kaggle_path) else local_path
print(f" Loading {ds_path}...")
data = torch.load(ds_path, weights_only=False)
graphs = data['graphs']
comp_all = data['comp_features']
glob_phys = data['global_physics']
tgt_all = data['targets']
fold_indices = data['fold_indices']
N = data['n_samples']
comp_dim = comp_all.shape[1]
gp_dim = glob_phys.shape[1]
print(f" Dataset: {N} samples | comp_dim: {comp_dim} | global_phys: {gp_dim}")
# ── VERIFY FOLDS ──────────────────────────────────────────
for fi, (tr, te) in enumerate(fold_indices):
assert len(set(tr) & set(te)) == 0, f"LEAK in fold {fi}!"
print(" 5 folds: zero leakage ✓")
# ── MODEL SIZE CHECK ─────────────────────────────────────
m_test = PhononV6(comp_dim, gp_dim, mode='gate_halt',
min_cycles=MIN_CYCLES, max_cycles=MAX_CYCLES)
n_params = m_test.count_parameters()
print(f" Model (Gate-Halt TRM): {n_params:,} params")
del m_test
print()
# ── TRAINING ──────────────────────────────────────────────
tnp = tgt_all.numpy()
results = {}
_dashboard.start()
try:
for seed in SEEDS:
print(f" {'═'*3} Seed {seed} {'═'*55}")
ts = time.time()
fold_maes = {}
for fi, (tv_idx, te_idx) in enumerate(fold_indices):
tv_idx, te_idx = np.array(tv_idx), np.array(te_idx)
print(f"\n ┌─ Fold {fi+1}/5 {'─'*50}")
# Train/val split within train fold
tri, vli = strat_split(tnp[tv_idx], 0.15, seed + fi)
# Normalize targets (from train split ONLY — zero leakage)
tgt_mean = float(tgt_all[tv_idx[tri]].mean())
tgt_std = float(tgt_all[tv_idx[tri]].std()) + 1e-8
tgt_norm = (tgt_all - tgt_mean) / tgt_std
print(f" │ Target norm: mean={tgt_mean:.1f} std={tgt_std:.1f}")
# Scale features (ONLY from train split — zero leakage)
sc = StandardScaler().fit(comp_all[tv_idx[tri]].numpy())
cs = torch.tensor(
np.nan_to_num(sc.transform(comp_all.numpy()), nan=0.).astype(np.float32)
)
sc_gp = StandardScaler().fit(glob_phys[tv_idx[tri]].numpy())
gps = torch.tensor(
np.nan_to_num(sc_gp.transform(glob_phys.numpy()), nan=0.).astype(np.float32)
)
# Seed for reproducibility
torch.manual_seed(seed + fi)
np.random.seed(seed + fi)
if n_gpus > 0:
torch.cuda.manual_seed_all(seed + fi)
# Create model
model = PhononV6(comp_dim, gp_dim, mode='gate_halt',
min_cycles=MIN_CYCLES,
max_cycles=MAX_CYCLES).to(device)
# Build loaders with NORMALIZED targets
trl = Loader(graphs, cs, gps, tgt_norm, tv_idx[tri], BATCH_SIZE, device, True)
vll = Loader(graphs, cs, gps, tgt_norm, tv_idx[vli], BATCH_SIZE, device, False)
tel = Loader(graphs, cs, gps, tgt_norm, te_idx, BATCH_SIZE, device, False)
# Reset dashboard
_dash_state['GH']['done'] = False
# Train
_, best_model = train_fold_core(
model, trl, vll, device, fi+1, seed, "GH",
tgt_mean=tgt_mean, tgt_std=tgt_std
)
mae = evaluate_model(best_model, tel, device, tgt_mean, tgt_std)
fold_maes[fi] = mae
_dash_state['GH']['test_mae'] = mae
_dash_state['GH']['done'] = True
_log(f" [GH|F{fi+1}] 🏆 Test MAE = {mae:.2f} cm⁻¹")
# ── SAVE WEIGHTS ─────────────────────────────────────
os.makedirs('phonons_models_v6', exist_ok=True)
torch.save({
'model_state': best_model.state_dict(),
'test_mae': mae,
'fold': fi + 1,
'seed': seed,
'comp_dim': comp_dim,
'gp_dim': gp_dim,
}, f'phonons_models_v6/phonons_v6_s{seed}_f{fi+1}.pt')
_log(f" [GH|F{fi+1}] 💾 Saved phonons_models_v6/phonons_v6_s{seed}_f{fi+1}.pt")
# ─────────────────────────────────────────────────────
print(f" └─ Fold {fi+1} done │ MAE = {fold_maes[fi]:.2f} cm⁻¹")
del model, best_model
if n_gpus > 0: torch.cuda.empty_cache()
avg = np.mean(list(fold_maes.values()))
results[seed] = fold_maes
elapsed = time.time() - ts
print(f"\n Seed {seed} │ Avg MAE: {avg:.2f} │ {elapsed/60:.1f} min")
finally:
_dashboard.stop()
# ── FINAL RESULTS ─────────────────────────────────────────
fa = np.mean([np.mean(list(v.values())) for v in results.values()])
print(f"""
{'='*62}
FINAL RESULTS — V6 Gate-Halt TRM
{'='*62}
{'Model':<45} {'MAE':>10}
{'─'*57}""")
for n, v in sorted(BASELINES.items(), key=lambda x: x[1]):
beaten = ' ← BEATEN!' if fa < v else ''
print(f" {n:<45} {v:>10.2f}{beaten}")
print(f" {'V6 Gate-Halt TRM ('+str(n_params//1000)+'K, '+str(MIN_CYCLES)+'-'+str(MAX_CYCLES)+' cycles)':<45} {fa:>10.2f} ← OURS")
print(f" {'─'*57}")
print(f" Total time: {(time.time()-t0)/60:.1f} min")
# ── SAVE ──────────────────────────────────────────────────
res = {
'model': 'V6-Gate-Halt-TRM', 'params': n_params,
'cycles': f'{MIN_CYCLES}-{MAX_CYCLES}',
'avg_mae': round(fa, 2),
'per_fold': {str(s): {str(k): round(v, 2) for k,v in m.items()}
for s,m in results.items()},
}
with open('phonons_v6_results.json', 'w') as f:
json.dump(res, f, indent=2)
print(" Saved: phonons_v6_results.json\n")
if __name__ == '__main__':
main()
|