scripts/run_segment_example.sh

#!/usr/bin/env bash
set -euo pipefail

if [[ $# -lt 2 ]]; then
  echo "Usage: $0 <input_ct.nii.gz> <output_mask.nii.gz> [cuda_device]" >&2
  exit 2
fi

INPUT_NII="$1"
OUTPUT_NII="$2"
DEVICE="${3:-cuda:0}"

/data/wxh/miniconda3/envs/flowmatching/bin/python \
  /data/wxh/Medical/samihs_ich_segmentation_package/segment_ich.py \
  --input "$INPUT_NII" \
  --output "$OUTPUT_NII" \
  --device "$DEVICE" \
  --batch-size 8 \
  --threshold 0.5