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/07/106db049223bc416f40938edf88ee8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/106db049223bc416f40938edf88ee8/.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-e90sbb0z 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 18:34:19,089 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:34:20,714 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:34:21,097 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:34:52,826 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:34:53,236 - cnv_pipe.batch.run_model - INFO - Processing cluster 10 with 198 probes
2026-06-02 18:34:54,116 - cnv_pipe.batch.run_model.cluster10 - INFO - Child process started for cluster 10 with 198 probes
2026-06-02 18:40:30,532 - cnv_pipe.batch.run_model.cluster10 - INFO - Child process finished cluster 10. Wrote cluster_10_samples.csv and cluster_10_params.csv
2026-06-02 18:40:30,537 - cnv_pipe.batch.run_model - INFO - Cluster 10 finished in 337.30 seconds. Status: SUCCESS