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/11/2de72e9a166d18a27cd426a81171e4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/11/2de72e9a166d18a27cd426a81171e4/.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-ll5pw49c 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 18:37:34,075 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:34,903 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:35,075 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:37:50,016 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:37:50,242 - cnv_pipe.batch.run_model - INFO - Processing cluster 679 with 172 probes
2026-06-02 18:37:50,681 - cnv_pipe.batch.run_model.cluster679 - INFO - Child process started for cluster 679 with 172 probes
2026-06-02 18:41:04,023 - cnv_pipe.batch.run_model.cluster679 - INFO - Child process finished cluster 679. Wrote cluster_679_samples.csv and cluster_679_params.csv
2026-06-02 18:41:04,027 - cnv_pipe.batch.run_model - INFO - Cluster 679 finished in 193.79 seconds. Status: SUCCESS