Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/85b140281e9b2950cd842c897b7042/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5c/adc1c0cd53aa86fa9f44663a25bef7/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5c/adc1c0cd53aa86fa9f44663a25bef7/.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-w3mhi68k 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 18:37:24,429 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:25,241 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:25,412 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:37:40,654 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:37:40,890 - cnv_pipe.batch.run_model - INFO - Processing cluster 928 with 184 probes
2026-06-02 18:37:41,268 - cnv_pipe.batch.run_model.cluster928 - INFO - Child process started for cluster 928 with 184 probes
2026-06-02 18:40:57,520 - cnv_pipe.batch.run_model.cluster928 - INFO - Child process finished cluster 928. Wrote cluster_928_samples.csv and cluster_928_params.csv
2026-06-02 18:40:57,523 - cnv_pipe.batch.run_model - INFO - Cluster 928 finished in 196.63 seconds. Status: SUCCESS