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/e9/813c07f37717df663b57c46aff9f33/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e9/813c07f37717df663b57c46aff9f33/.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-mz9ezdyb 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 21:46:54,563 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:46:55,358 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:46:55,533 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:46:56,396 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:46:56,569 - cnv_pipe.batch.run_model - INFO - Processing cluster 59 with 111 probes
2026-06-03 21:46:56,939 - cnv_pipe.batch.run_model.cluster59 - INFO - Child process started for cluster 59 with 111 probes
2026-06-03 21:47:31,299 - cnv_pipe.batch.run_model.cluster59 - INFO - Child process finished cluster 59. Wrote cluster_59_samples.csv and cluster_59_params.csv
2026-06-03 21:47:31,299 - cnv_pipe.batch.run_model - INFO - Cluster 59 finished in 34.73 seconds. Status: SUCCESS