Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0abbc905604638cc0f1c9bc2c6f05f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2e/99efa7b9db9270371123685e2dc2e8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2e/99efa7b9db9270371123685e2dc2e8/.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-ox6lox6h 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 05:04:53,286 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:04:54,249 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:04:54,434 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:05:11,821 - cnv_pipe.batch.run_model - INFO - Loaded data with 66 samples
2026-06-03 05:05:12,093 - cnv_pipe.batch.run_model - INFO - Processing cluster 983 with 148 probes
2026-06-03 05:05:12,566 - cnv_pipe.batch.run_model.cluster983 - INFO - Child process started for cluster 983 with 148 probes
2026-06-03 05:08:00,432 - cnv_pipe.batch.run_model.cluster983 - INFO - Child process finished cluster 983. Wrote cluster_983_samples.csv and cluster_983_params.csv
2026-06-03 05:08:00,434 - cnv_pipe.batch.run_model - INFO - Cluster 983 finished in 168.34 seconds. Status: SUCCESS