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/3e/21f86b886d5a257dcaeb15c048d173/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/21f86b886d5a257dcaeb15c048d173/.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-qzsiijtq 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 21:46:57,703 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:46:58,493 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:46:58,665 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:46:59,612 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:46:59,786 - cnv_pipe.batch.run_model - INFO - Processing cluster 75 with 200 probes
2026-06-03 21:47:00,162 - cnv_pipe.batch.run_model.cluster75 - INFO - Child process started for cluster 75 with 200 probes
2026-06-03 21:47:58,355 - cnv_pipe.batch.run_model.cluster75 - INFO - Child process finished cluster 75. Wrote cluster_75_samples.csv and cluster_75_params.csv
2026-06-03 21:47:58,356 - cnv_pipe.batch.run_model - INFO - Cluster 75 finished in 58.57 seconds. Status: SUCCESS