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/dd/ac39aae7af05df4aa61fc8d0939147/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dd/ac39aae7af05df4aa61fc8d0939147/.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-5g_wzeja 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 05:35:24,684 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:35:25,494 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:35:25,668 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:36:12,710 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:36:12,972 - cnv_pipe.batch.run_model - INFO - Processing cluster 698 with 195 probes
2026-06-03 05:36:13,380 - cnv_pipe.batch.run_model.cluster698 - INFO - Child process started for cluster 698 with 195 probes
2026-06-03 05:42:17,627 - cnv_pipe.batch.run_model.cluster698 - INFO - Child process finished cluster 698. Wrote cluster_698_samples.csv and cluster_698_params.csv
2026-06-03 05:42:17,631 - cnv_pipe.batch.run_model - INFO - Cluster 698 finished in 364.66 seconds. Status: SUCCESS