Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/1f8d437761990ed890e1456d2296f8/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fd/ae1d06c32502368a832f5fd8d49d67/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fd/ae1d06c32502368a832f5fd8d49d67/.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-_s9yopzm 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 17:40:51,579 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 17:40:52,488 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 17:40:52,666 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 17:40:53,673 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 17:40:53,747 - cnv_pipe.batch.run_model - INFO - Processing cluster 963 with 173 probes
2026-06-08 17:40:54,222 - cnv_pipe.batch.run_model.cluster963 - INFO - Child process started for cluster 963 with 173 probes
2026-06-08 17:41:48,067 - cnv_pipe.batch.run_model.cluster963 - INFO - Child process finished cluster 963. Wrote cluster_963_samples.csv and cluster_963_params.csv
2026-06-08 17:41:48,068 - cnv_pipe.batch.run_model - INFO - Cluster 963 finished in 54.32 seconds. Status: SUCCESS