Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/d418a9ee96101ea3196d311c3a7ba0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6b/bcce3aa831f97105b0bb29226df8cc/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6b/bcce3aa831f97105b0bb29226df8cc/.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-e6301kdk 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.
2026-06-08 22:23:40,722 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:41,517 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:41,683 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:42,624 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:42,784 - cnv_pipe.batch.run_model - INFO - Processing cluster 875 with 194 probes
2026-06-08 22:23:43,166 - cnv_pipe.batch.run_model.cluster875 - INFO - Child process started for cluster 875 with 194 probes
2026-06-08 22:24:39,786 - cnv_pipe.batch.run_model.cluster875 - INFO - Child process finished cluster 875. Wrote cluster_875_samples.csv and cluster_875_params.csv
2026-06-08 22:24:39,788 - cnv_pipe.batch.run_model - INFO - Cluster 875 finished in 57.00 seconds. Status: SUCCESS