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/71/16ca93b053ab3628b5d418852df010/counts_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/4e/91773389dcd63d802b7249fc5cf30d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/91773389dcd63d802b7249fc5cf30d/.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-fa82_0o_ 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 18:37:26,858 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:27,666 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:27,844 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:37:43,074 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:37:43,300 - cnv_pipe.batch.run_model - INFO - Processing cluster 88 with 157 probes
2026-06-02 18:37:43,679 - cnv_pipe.batch.run_model.cluster88 - INFO - Child process started for cluster 88 with 157 probes
2026-06-02 18:40:40,141 - cnv_pipe.batch.run_model.cluster88 - INFO - Child process finished cluster 88. Wrote cluster_88_samples.csv and cluster_88_params.csv
2026-06-02 18:40:40,144 - cnv_pipe.batch.run_model - INFO - Cluster 88 finished in 176.84 seconds. Status: SUCCESS