Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/a494e8e980c0e7d8e3b4d352c11387/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/3e8a75f0bbeeb56fa3b75a99db6114/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/3e8a75f0bbeeb56fa3b75a99db6114/.command.run
==> STAGING COMPLETE (6 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-w1avq6q6 because there was an issue with the default path (/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.
2026-06-02 18:39:29,517 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:39:30,426 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:39:30,677 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:39:46,320 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:39:46,527 - cnv_pipe.batch.run_model - INFO - Processing cluster 1268 with 194 probes
2026-06-02 18:39:46,902 - cnv_pipe.batch.run_model.cluster1268 - INFO - Child process started for cluster 1268 with 194 probes
2026-06-02 18:43:35,584 - cnv_pipe.batch.run_model.cluster1268 - INFO - Child process finished cluster 1268. Wrote cluster_1268_samples.csv and cluster_1268_params.csv
2026-06-02 18:43:35,587 - cnv_pipe.batch.run_model - INFO - Cluster 1268 finished in 229.06 seconds. Status: SUCCESS