Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/c6f1a4c7809881b67eefc20778f6dd/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7f/1c089739624e64318fde5659e84d9c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7f/1c089739624e64318fde5659e84d9c/.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-c40jv574 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.
2026-06-03 21:01:56,903 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:01:57,696 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:01:57,866 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:01:58,834 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:01:58,912 - cnv_pipe.batch.run_model - INFO - Processing cluster 619 with 183 probes
2026-06-03 21:01:59,288 - cnv_pipe.batch.run_model.cluster619 - INFO - Child process started for cluster 619 with 183 probes
2026-06-03 21:02:52,830 - cnv_pipe.batch.run_model.cluster619 - INFO - Child process finished cluster 619. Wrote cluster_619_samples.csv and cluster_619_params.csv
2026-06-03 21:02:52,831 - cnv_pipe.batch.run_model - INFO - Cluster 619 finished in 53.92 seconds. Status: SUCCESS