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/07/83ed7ae4625e67dc1381da7326cf73/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/83ed7ae4625e67dc1381da7326cf73/.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-rcd0gsci 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 21:48:58,116 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:48:59,077 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:48:59,275 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:49:00,348 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:49:00,505 - cnv_pipe.batch.run_model - INFO - Processing cluster 739 with 193 probes
2026-06-03 21:49:00,963 - cnv_pipe.batch.run_model.cluster739 - INFO - Child process started for cluster 739 with 193 probes
2026-06-03 21:50:07,696 - cnv_pipe.batch.run_model.cluster739 - INFO - Child process finished cluster 739. Wrote cluster_739_samples.csv and cluster_739_params.csv
2026-06-03 21:50:07,697 - cnv_pipe.batch.run_model - INFO - Cluster 739 finished in 67.19 seconds. Status: SUCCESS