ma-agents 3.4.9 → 3.5.1

package/.opencode/skills/ml-experiment/SKILL.md

@@ -1,74 +0,0 @@
----
-name: ml-experiment
-description: ML Experiment - Execute training, hyperparameter optimization, and log all runs to the tracking tool
----
-
-# ML Stage 6 - Experiment Execution
-
-Execute the training pipeline as specified in the locked TechSpec. Log everything. Touch nothing outside the HPO space.
-
-## Instructions
-
-### 1. Load Context
-- Read `_bmad-output/planning-artifacts/ml-techspec.md` — MUST be LOCKED. If not, STOP.
-- Read `_bmad-output/planning-artifacts/ml-architecture.md`
-- Note the fixed random seed, feature set, and validation strategy — do not deviate
-
-### 2. Write Training Script
-If `scripts/train.py` does not exist, generate it following the TechSpec exactly:
-- Load data from TechSpec data contract paths
-- Apply preprocessing pipeline (from ml-architecture)
-- Create train/val split using TechSpec validation strategy and fixed seed
-- Instantiate tracking run (wandb.init / mlflow.start_run / local log)
-- Log all TechSpec fixed params as run config
-- Run baseline model first — log its metrics
-- Run candidate model with fixed hyperparameters — log metrics
-- If HPO is specified: run HPO trials, log each trial
-- Select best model; log final metrics against ALL TechSpec acceptance criteria
-- Save model artifact to `_bmad-output/implementation-artifacts/models/`
-- Log pass/fail for each acceptance criterion explicitly
-
-Use `assets/` templates if they exist (e.g. `assets/train_template.py`).
-
-### 3. Execute Baseline
-Run baseline first — always:
-
-    uv run python scripts/train.py --mode baseline
-
-Log baseline metrics. The candidate model must beat this.
-
-### 4. Execute Candidate Model
-
-    uv run python scripts/train.py --mode candidate
-
-### 5. Execute HPO (if specified in TechSpec)
-Run hyperparameter optimization within the HPO space defined in TechSpec:
-
-    uv run python scripts/train.py --mode hpo
-
-Log all trials. Select best params by primary metric on validation set only.
-
-### 6. Write Experiment Log
-Write `_bmad-output/implementation-artifacts/experiment-log.md` with:
-- **Run IDs**: Tracking tool run IDs or local log paths
-- **Baseline Results**: metrics for each acceptance criterion
-- **Best Model Results**: metrics for each acceptance criterion
-- **Best Hyperparameters**: final selected values
-- **Acceptance Criteria Status**: PASS / FAIL for each criterion from TechSpec
-- **Training Time**: wall-clock time
-- **Model Artifact Path**: path to saved model
-
-### 7. Surface Dilemmas & Commit Gate
-
-Before presenting and **before any git commit**:
-
-- Identify every execution decision where two or more options existed (early stopping patience, batch size, resampling applied or not, model variant selected, etc.)
-- Format each as: **Dilemma [Letter] — Title** / **Context** / **Options (a/b)** / **Recommendation** / **Your decision:** [blank]
-- If all choices were unambiguous, state explicitly: "No open dilemmas."
-- **Do NOT commit the experiment log or model artifacts until the user has reviewed and approved.**
-
-### 8. Confirm and Advance
-- Present experiment log summary
-- State clearly: "Primary criterion ([metric] >= [threshold]): PASS / FAIL"
-- On approval: commit artifacts, then say "Proceed to **Stage 7 — /ml-analysis** to evaluate results against the TechSpec contract."
-- STOP and WAIT for user confirmation

package/.opencode/skills/ml-experiment/assets/advanced_trainer_configs.py

@@ -1,430 +0,0 @@
-"""
-advanced_trainer_configs.py — BMAD DL Lifecycle
-(Adapted from K-Dense claude-scientific-skills/pytorch-lightning/quick_trainer_setup.py)
-
-10 ready-to-use Lightning Trainer configurations for different training scenarios.
-Each function is self-contained — copy the one you need into your training script.
-
-Configurations:
-  1.  basic_trainer()              — Quick prototyping, CPU/auto hardware
-  2.  debug_trainer()              — Fast dev run, anomaly detection
-  3.  single_gpu_trainer()         — Production single GPU with checkpointing + logging
-  4.  multi_gpu_ddp_trainer()      — Multi-GPU with DDP (models < 500M params)
-  5.  large_model_fsdp_trainer()   — FSDP for large models (500M+ params)
-  6.  deepspeed_trainer()          — DeepSpeed for very large models (10B+)
-  7.  hparam_search_trainer()      — Lightweight for hyperparameter sweeps
-  8.  overfit_test_trainer()       — Overfit on N batches to verify model capacity
-  9.  cluster_time_limited_trainer()— SLURM/cluster jobs with wall-clock limit
-  10. reproducible_trainer()       — Deterministic, full-precision for publications
-
-Usage in your training script:
-    from assets.advanced_trainer_configs import single_gpu_trainer
-    trainer = single_gpu_trainer(max_epochs=50, experiment_name="run_001")
-    trainer.fit(model, datamodule)
-    trainer.test(model, datamodule)
-"""
-
-from __future__ import annotations
-
-from pathlib import Path
-
-try:
-    import lightning as L
-    from lightning.pytorch.callbacks import (
-        ModelCheckpoint, EarlyStopping, LearningRateMonitor,
-        DeviceStatsMonitor, RichProgressBar,
-    )
-    from lightning.pytorch import loggers as pl_loggers
-    from lightning.pytorch.strategies import DDPStrategy, FSDPStrategy
-    LIGHTNING_PKG = "lightning"
-except ImportError:
-    try:
-        import pytorch_lightning as L
-        from pytorch_lightning.callbacks import (
-            ModelCheckpoint, EarlyStopping, LearningRateMonitor,
-        )
-        from pytorch_lightning import loggers as pl_loggers
-        from pytorch_lightning.strategies import DDPStrategy, FSDPStrategy
-        RichProgressBar = DeviceStatsMonitor = None
-        LIGHTNING_PKG = "pytorch_lightning"
-    except ImportError:
-        raise ImportError("Install: pip install lightning")
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 1. BASIC TRAINER — Quick prototyping
-# ══════════════════════════════════════════════════════════════════════════════
-
-def basic_trainer(max_epochs: int = 10) -> "L.Trainer":
-    """
-    Minimal trainer for quick prototyping.
-    Auto-selects GPU/CPU, minimal logging.
-    """
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="auto",
-        devices="auto",
-        enable_progress_bar=True,
-        logger=True,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 2. DEBUG TRAINER — Fast dev run + anomaly detection
-# ══════════════════════════════════════════════════════════════════════════════
-
-def debug_trainer() -> "L.Trainer":
-    """
-    Debug trainer: runs 1 batch through train/val/test to find bugs fast.
-    Enables gradient anomaly detection (NaN/Inf catching).
-    """
-    return L.Trainer(
-        fast_dev_run=True,
-        accelerator="cpu",
-        detect_anomaly=True,
-        log_every_n_steps=1,
-        enable_progress_bar=True,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 3. SINGLE GPU TRAINER — Production single GPU
-# ══════════════════════════════════════════════════════════════════════════════
-
-def single_gpu_trainer(
-    max_epochs: int = 100,
-    experiment_name: str = "experiment",
-    version: str | None = None,
-    log_dir: str | Path = "logs/",
-    monitor: str = "val/loss",
-    monitor_mode: str = "min",
-    patience: int = 10,
-) -> "L.Trainer":
-    """
-    Production-ready single GPU trainer.
-    Features: mixed precision, checkpointing (top-3 + last), early stopping,
-              LR monitor, CSV + TensorBoard loggers.
-    """
-    log_dir = Path(log_dir)
-    ckpt_dir = log_dir / "checkpoints" / experiment_name
-
-    callbacks = [
-        ModelCheckpoint(
-            dirpath=ckpt_dir,
-            filename=f"{experiment_name}-{{epoch:02d}}-{{{monitor}:.4f}}",
-            monitor=monitor, mode=monitor_mode,
-            save_top_k=3, save_last=True, verbose=True,
-        ),
-        EarlyStopping(monitor=monitor, mode=monitor_mode, patience=patience, verbose=True),
-        LearningRateMonitor(logging_interval="epoch"),
-    ]
-    if RichProgressBar is not None:
-        callbacks.append(RichProgressBar())
-
-    # TensorBoard required — version= prevents fold/run log collision
-    loggers = [
-        pl_loggers.TensorBoardLogger(save_dir=str(log_dir), name=experiment_name, version=version),
-        pl_loggers.CSVLogger(save_dir=str(log_dir), name=experiment_name, version=version),
-    ]
-    log_path = Path(log_dir) / experiment_name / (version or "version_0")
-    print(f"GPU: {__import__('torch').cuda.get_device_name(0) if __import__('torch').cuda.is_available() else 'WARNING: No GPU detected'}")
-    print(f"Logs → {log_path}/   run: tensorboard --logdir={log_dir}")
-
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="gpu", devices=1,
-        precision="16-mixed",
-        gradient_clip_val=1.0,
-        callbacks=callbacks, logger=loggers,
-        log_every_n_steps=10,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 4. MULTI-GPU DDP TRAINER — Distributed Data Parallel
-# ══════════════════════════════════════════════════════════════════════════════
-
-def multi_gpu_ddp_trainer(
-    max_epochs: int = 100,
-    num_gpus: int = 4,
-    experiment_name: str = "experiment",
-    log_dir: str | Path = "logs/",
-    monitor: str = "val/loss",
-    monitor_mode: str = "min",
-) -> "L.Trainer":
-    """
-    Multi-GPU training with DDP strategy.
-    Best for: standard DL models < 500M parameters.
-    Syncs batch norm across GPUs automatically.
-    """
-    log_dir = Path(log_dir)
-    ckpt_dir = log_dir / "checkpoints" / experiment_name
-
-    callbacks = [
-        ModelCheckpoint(
-            dirpath=ckpt_dir,
-            filename=f"{experiment_name}-{{epoch:02d}}-{{{monitor}:.4f}}",
-            monitor=monitor, mode=monitor_mode,
-            save_top_k=3, save_last=True,
-        ),
-        EarlyStopping(monitor=monitor, mode=monitor_mode, patience=10),
-        LearningRateMonitor(logging_interval="step"),
-    ]
-
-    loggers = [pl_loggers.CSVLogger(save_dir=str(log_dir), name=experiment_name)]
-
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="gpu", devices=num_gpus,
-        strategy=DDPStrategy(
-            find_unused_parameters=False,
-            gradient_as_bucket_view=True,
-        ),
-        precision="16-mixed",
-        gradient_clip_val=1.0,
-        sync_batchnorm=True,
-        callbacks=callbacks, logger=loggers,
-        log_every_n_steps=50,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 5. LARGE MODEL FSDP TRAINER — Fully Sharded Data Parallel
-# ══════════════════════════════════════════════════════════════════════════════
-
-def large_model_fsdp_trainer(
-    max_epochs: int = 100,
-    num_gpus: int = 8,
-    experiment_name: str = "large_model",
-    log_dir: str | Path = "logs/",
-    cpu_offload: bool = False,
-) -> "L.Trainer":
-    """
-    FSDP trainer for large models (500M+ parameters).
-    Shards model weights across GPUs — each GPU holds a fraction of params.
-    Set cpu_offload=True if you run out of GPU memory even with FSDP.
-    Requires BF16 capable hardware (A100/H100).
-    """
-    import torch.nn as nn
-    log_dir = Path(log_dir)
-    ckpt_dir = log_dir / "checkpoints" / experiment_name
-
-    callbacks = [
-        ModelCheckpoint(
-            dirpath=ckpt_dir,
-            filename=f"{experiment_name}-{{epoch:02d}}-{{val_loss:.4f}}",
-            monitor="val/loss", mode="min",
-            save_top_k=3, save_last=True,
-        ),
-        LearningRateMonitor(logging_interval="step"),
-    ]
-
-    loggers = [pl_loggers.CSVLogger(save_dir=str(log_dir), name=experiment_name)]
-
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="gpu", devices=num_gpus,
-        strategy=FSDPStrategy(
-            sharding_strategy="FULL_SHARD",
-            activation_checkpointing_policy={
-                nn.TransformerEncoderLayer,
-                nn.TransformerDecoderLayer,
-            },
-            cpu_offload=cpu_offload,
-        ),
-        precision="bf16-mixed",
-        gradient_clip_val=1.0,
-        accumulate_grad_batches=4,
-        callbacks=callbacks, logger=loggers,
-        log_every_n_steps=10,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 6. DEEPSPEED TRAINER — Very large models (10B+)
-# ══════════════════════════════════════════════════════════════════════════════
-
-def deepspeed_trainer(
-    max_epochs: int = 100,
-    num_gpus: int = 8,
-    stage: int = 3,
-    experiment_name: str = "xlarge_model",
-    log_dir: str | Path = "logs/",
-) -> "L.Trainer":
-    """
-    DeepSpeed trainer for very large models (>10B parameters).
-    Stage 3 shards optimizer states, gradients, AND parameters across GPUs.
-    Requires: pip install deepspeed
-    """
-    log_dir = Path(log_dir)
-    ckpt_dir = log_dir / "checkpoints" / experiment_name
-
-    callbacks = [
-        ModelCheckpoint(
-            dirpath=ckpt_dir, save_top_k=3, save_last=True,
-            every_n_train_steps=1000,
-        ),
-        LearningRateMonitor(logging_interval="step"),
-    ]
-    loggers = [pl_loggers.CSVLogger(save_dir=str(log_dir), name=experiment_name)]
-
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="gpu", devices=num_gpus,
-        strategy=f"deepspeed_stage_{stage}",
-        precision="16-mixed",
-        gradient_clip_val=1.0,
-        accumulate_grad_batches=4,
-        callbacks=callbacks, logger=loggers,
-        log_every_n_steps=10,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 7. HYPERPARAMETER SEARCH TRAINER — Lightweight sweep runner
-# ══════════════════════════════════════════════════════════════════════════════
-
-def hparam_search_trainer(max_epochs: int = 20) -> "L.Trainer":
-    """
-    Lightweight trainer for hyperparameter sweeps (Optuna, Ray Tune, W&B Sweeps).
-    No checkpointing, no heavy logging, uses 50% of batches for speed.
-    """
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="auto", devices=1,
-        enable_checkpointing=False,
-        logger=False,
-        enable_progress_bar=False,
-        limit_train_batches=0.5,
-        limit_val_batches=0.5,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 8. OVERFIT TEST TRAINER — Verify model capacity
-# ══════════════════════════════════════════════════════════════════════════════
-
-def overfit_test_trainer(num_batches: int = 10, max_epochs: int = 100) -> "L.Trainer":
-    """
-    Overfit on a tiny subset to verify the model CAN learn.
-    If it can't overfit on 10 batches, there's a model/optimizer bug.
-    """
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="auto", devices=1,
-        overfit_batches=num_batches,
-        log_every_n_steps=1,
-        enable_progress_bar=True,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 9. CLUSTER TIME-LIMITED TRAINER — SLURM/HPC wall-clock aware
-# ══════════════════════════════════════════════════════════════════════════════
-
-def cluster_time_limited_trainer(
-    max_time_hours: float = 23.5,
-    max_epochs: int = 1000,
-    checkpoint_dir: str | Path = "checkpoints/",
-) -> "L.Trainer":
-    """
-    Time-aware trainer for SLURM/HPC jobs.
-    Saves last checkpoint automatically when time limit approaches.
-    Resume from last.ckpt on re-submission.
-
-    Usage:
-        trainer = cluster_time_limited_trainer(max_time_hours=23.5)
-        trainer.fit(model, dm, ckpt_path="checkpoints/last.ckpt")  # resumes if exists
-    """
-    from datetime import timedelta
-    checkpoint_dir = Path(checkpoint_dir)
-
-    callbacks = [
-        ModelCheckpoint(
-            dirpath=checkpoint_dir,
-            save_top_k=3, save_last=True,
-            every_n_epochs=5, verbose=False,
-        ),
-    ]
-    if RichProgressBar is not None:
-        callbacks.append(RichProgressBar())
-
-    return L.Trainer(
-        max_epochs=max_epochs,
-        max_time=timedelta(hours=max_time_hours),
-        accelerator="gpu", devices="auto",
-        callbacks=callbacks,
-        log_every_n_steps=50,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# 10. REPRODUCIBLE TRAINER — Deterministic results for publications
-# ══════════════════════════════════════════════════════════════════════════════
-
-def reproducible_trainer(
-    seed: int = 42,
-    max_epochs: int = 100,
-    experiment_name: str = "reproducible",
-    log_dir: str | Path = "logs/",
-) -> "L.Trainer":
-    """
-    Fully deterministic trainer for reproducible research.
-    Uses full FP32 precision, deterministic CUDA ops.
-    NOTE: Slower than mixed precision — only use for final publication runs.
-    """
-    L.seed_everything(seed, workers=True)
-    log_dir = Path(log_dir)
-
-    callbacks = [
-        ModelCheckpoint(
-            dirpath=log_dir / "checkpoints" / experiment_name,
-            filename=f"{experiment_name}-{{epoch:02d}}-{{val_loss:.4f}}",
-            monitor="val/loss", mode="min",
-            save_top_k=3, save_last=True,
-        ),
-        LearningRateMonitor(logging_interval="epoch"),
-    ]
-    loggers = [
-        pl_loggers.CSVLogger(save_dir=str(log_dir), name=experiment_name),
-    ]
-
-    return L.Trainer(
-        max_epochs=max_epochs,
-        accelerator="gpu", devices=1,
-        precision="32-true",
-        deterministic=True,
-        benchmark=False,
-        callbacks=callbacks, logger=loggers,
-        log_every_n_steps=50,
-    )
-
-
-# ══════════════════════════════════════════════════════════════════════════════
-# Quick selection guide
-# ══════════════════════════════════════════════════════════════════════════════
-
-if __name__ == "__main__":
-    print("""
-Advanced Trainer Configurations — BMAD DL Lifecycle
-(Adapted from K-Dense AI claude-scientific-skills)
-
-╔══════════════════════╦═════════════════════════════════════════════════╗
-║ Scenario             ║ Use                                             ║
-╠══════════════════════╬═════════════════════════════════════════════════╣
-║ Quick test           ║ basic_trainer()                                 ║
-║ Find bugs            ║ debug_trainer()                                 ║
-║ Verify model learns  ║ overfit_test_trainer()                          ║
-║ Hparam sweep         ║ hparam_search_trainer()                         ║
-║ Production 1 GPU     ║ single_gpu_trainer()                            ║
-║ Production N GPUs    ║ multi_gpu_ddp_trainer(num_gpus=4)               ║
-║ Large model (500M+)  ║ large_model_fsdp_trainer(num_gpus=8)            ║
-║ Very large (10B+)    ║ deepspeed_trainer(num_gpus=8, stage=3)          ║
-║ SLURM cluster        ║ cluster_time_limited_trainer(max_time_hours=23) ║
-║ Publication result   ║ reproducible_trainer(seed=42)                   ║
-╚══════════════════════╩═════════════════════════════════════════════════╝
-
-After training, analyze with:
-    python3 scripts/parse_training_logs.py logs/<exp>/version_0/metrics.csv docs/prd/01_PRD.md
-    python3 scripts/plot_training_curves.py logs/<exp>/version_0/metrics.csv
-""")