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/2a/b184aa779b87d283c032ef2c94c263/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/b184aa779b87d283c032ef2c94c263/.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-_frb4wa1 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 18:38:54,121 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:38:54,917 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:38:55,092 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:39:10,610 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:39:10,824 - cnv_pipe.batch.run_model - INFO - Processing cluster 83 with 161 probes
2026-06-02 18:39:11,207 - cnv_pipe.batch.run_model.cluster83 - INFO - Child process started for cluster 83 with 161 probes
2026-06-02 18:42:12,680 - cnv_pipe.batch.run_model.cluster83 - INFO - Child process finished cluster 83. Wrote cluster_83_samples.csv and cluster_83_params.csv
2026-06-02 18:42:12,684 - cnv_pipe.batch.run_model - INFO - Cluster 83 finished in 181.86 seconds. Status: SUCCESS