Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/2bc6a550b9b7a6a7c04a8c46d11f24/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/89f36ada0dda0de24e0a742d52cc6a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/89f36ada0dda0de24e0a742d52cc6a/.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-6me32m_d 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 17:13:01,046 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:13:01,878 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:13:02,047 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:13:02,953 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:13:03,105 - cnv_pipe.batch.run_model - INFO - Processing cluster 712 with 199 probes
2026-06-04 17:13:03,488 - cnv_pipe.batch.run_model.cluster712 - INFO - Child process started for cluster 712 with 199 probes
2026-06-04 17:14:02,594 - cnv_pipe.batch.run_model.cluster712 - INFO - Child process finished cluster 712. Wrote cluster_712_samples.csv and cluster_712_params.csv
2026-06-04 17:14:02,596 - cnv_pipe.batch.run_model - INFO - Cluster 712 finished in 59.49 seconds. Status: SUCCESS