Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/86/d3f2ba928beab4f875cf9bd7d52c2c/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/a7c729743fe8a95ba569a0e0b959db/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/a7c729743fe8a95ba569a0e0b959db/.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-wn9u5_x_ 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 05:36:04,783 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:36:05,591 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:36:05,780 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:36:52,572 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:36:52,820 - cnv_pipe.batch.run_model - INFO - Processing cluster 693 with 200 probes
2026-06-03 05:36:53,206 - cnv_pipe.batch.run_model.cluster693 - INFO - Child process started for cluster 693 with 200 probes
2026-06-03 05:42:55,281 - cnv_pipe.batch.run_model.cluster693 - INFO - Child process finished cluster 693. Wrote cluster_693_samples.csv and cluster_693_params.csv
2026-06-03 05:42:55,284 - cnv_pipe.batch.run_model - INFO - Cluster 693 finished in 362.46 seconds. Status: SUCCESS