Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/8bd0c230e524b7e1388b18e755b8fa/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/8ef20280d764ee8241e78eff6d4894/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/8ef20280d764ee8241e78eff6d4894/.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-f3tonu5v 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.
2026-06-04 17:09:22,797 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:09:23,650 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:09:23,821 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:09:24,786 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:09:24,946 - cnv_pipe.batch.run_model - INFO - Processing cluster 1296 with 196 probes
2026-06-04 17:09:25,327 - cnv_pipe.batch.run_model.cluster1296 - INFO - Child process started for cluster 1296 with 196 probes
2026-06-04 17:10:22,524 - cnv_pipe.batch.run_model.cluster1296 - INFO - Child process finished cluster 1296. Wrote cluster_1296_samples.csv and cluster_1296_params.csv
2026-06-04 17:10:22,526 - cnv_pipe.batch.run_model - INFO - Cluster 1296 finished in 57.58 seconds. Status: SUCCESS