File size: 1,950 Bytes
31e2456 | 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 | #!/usr/bin/env bash
# Definitive full-scale run. Args: <model A|B|F> <run_name> [extra train.py args...]
set -euo pipefail
MODEL="${1:?model letter}"; RUN_NAME="${2:?run_name}"; shift 2; EXTRA=("$@")
echo "[bootstrap] definitive run: model=$MODEL run=$RUN_NAME extra=${EXTRA[*]}"
cd /workspace
REPO_DIR=""; for d in PhysioJEPA physiojepa; do [ -d "$d" ] && REPO_DIR="$d" && break; done
[ -n "$REPO_DIR" ] || { echo "no repo dir"; exit 1; }
cd "$REPO_DIR"
PY=/usr/bin/python3
$PY -m pip install --quiet --upgrade pip
$PY -m pip install --quiet \
'datasets>=4.8.4' 'einops>=0.8.2' 'matplotlib>=3.10.0' \
'neurokit2>=0.2.13' 'python-dotenv>=1.0' 'pyyaml>=6.0' \
'scikit-learn>=1.5' 'scipy>=1.13' 'tqdm>=4.66' \
'wandb>=0.18' 'wfdb>=4.3.1' 'huggingface_hub>=0.25' 'requests'
[ -f /workspace/.env ] && cp /workspace/.env .env
# Step 1: download MIMIC shards + build index (idempotent)
if [ ! -f /workspace/cache/mimic_index.json ]; then
echo "[bootstrap] downloading MIMIC + building index"
PYTHONPATH=src $PY scripts/prepare_data.py \
--root /workspace/cache/mimic --index /workspace/cache/mimic_index.json
fi
# Step 2: precompute mmap windows (idempotent — checks inside)
if [ ! -f /workspace/cache/windows_meta.json ]; then
echo "[bootstrap] precomputing windows → mmap"
PYTHONPATH=src $PY -u scripts/precompute_windows.py \
--index /workspace/cache/mimic_index.json \
--out_dir /workspace/cache
fi
# Step 3: train
mkdir -p /workspace/runs
echo "[bootstrap] launching training: model=$MODEL"
PYTHONPATH=src PYTHONUNBUFFERED=1 $PY -u scripts/train.py \
--config configs/base.yaml \
--model "$MODEL" \
--run_name "$RUN_NAME" \
--epochs 100 \
--batch_size 64 \
--fast_cache_dir /workspace/cache \
--output_dir /workspace/runs \
--num_workers 12 \
--log_every 100 \
--mask_ratio 0.75 \
--seed 42 \
"${EXTRA[@]}" \
2>&1 | tee "/workspace/runs/${RUN_NAME}.log"
echo "[bootstrap] done"
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