Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/4054179d8c2faede8275f03a3b1080/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8f/8cfaf3c61e7f1f8ec8216014df7a99/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8f/8cfaf3c61e7f1f8ec8216014df7a99/.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-atejjd5c 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 21:50:03,964 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:50:04,742 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:50:04,909 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:50:05,792 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:50:05,957 - cnv_pipe.batch.run_model - INFO - Processing cluster 1101 with 190 probes
2026-06-03 21:50:06,326 - cnv_pipe.batch.run_model.cluster1101 - INFO - Child process started for cluster 1101 with 190 probes
2026-06-03 21:51:00,804 - cnv_pipe.batch.run_model.cluster1101 - INFO - Child process finished cluster 1101. Wrote cluster_1101_samples.csv and cluster_1101_params.csv
2026-06-03 21:51:00,805 - cnv_pipe.batch.run_model - INFO - Cluster 1101 finished in 54.85 seconds. Status: SUCCESS