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/cc/0ba41fc8e630b744992c9fa8be90ea/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/0ba41fc8e630b744992c9fa8be90ea/.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-38gfe8dx 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 18:38:06,164 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:38:06,953 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:38:07,125 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:38:21,830 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:38:22,047 - cnv_pipe.batch.run_model - INFO - Processing cluster 1067 with 189 probes
2026-06-02 18:38:22,419 - cnv_pipe.batch.run_model.cluster1067 - INFO - Child process started for cluster 1067 with 189 probes
2026-06-02 18:41:46,285 - cnv_pipe.batch.run_model.cluster1067 - INFO - Child process finished cluster 1067. Wrote cluster_1067_samples.csv and cluster_1067_params.csv
2026-06-02 18:41:46,289 - cnv_pipe.batch.run_model - INFO - Cluster 1067 finished in 204.24 seconds. Status: SUCCESS