Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/9711be98d2e5098018361c12afea05/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/ed76a0da6557e3c48435277e5c8292/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/ed76a0da6557e3c48435277e5c8292/.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-673w8r5b 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.
2026-06-01 21:56:46,228 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-01 21:56:47,065 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-01 21:56:47,241 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-01 21:56:48,184 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-01 21:56:48,260 - cnv_pipe.batch.run_model - INFO - Processing cluster 749 with 135 probes
2026-06-01 21:56:48,743 - cnv_pipe.batch.run_model.cluster749 - INFO - Child process started for cluster 749 with 135 probes
2026-06-01 21:57:30,913 - cnv_pipe.batch.run_model.cluster749 - INFO - Child process finished cluster 749. Wrote cluster_749_samples.csv and cluster_749_params.csv
2026-06-01 21:57:30,914 - cnv_pipe.batch.run_model - INFO - Cluster 749 finished in 42.65 seconds. Status: SUCCESS