Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/53d08abbe7f3c300c6e5e14d79dc78/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5c/bcd623287541443f2ef1e432549ad0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5c/bcd623287541443f2ef1e432549ad0/.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-ci8r8lfu 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 05:56:13,899 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:56:14,695 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:56:14,860 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:56:56,618 - cnv_pipe.batch.run_model - INFO - Loaded data with 180 samples
2026-06-03 05:56:56,808 - cnv_pipe.batch.run_model - INFO - Processing cluster 781 with 192 probes
2026-06-03 05:56:57,177 - cnv_pipe.batch.run_model.cluster781 - INFO - Child process started for cluster 781 with 192 probes
2026-06-03 06:01:07,944 - cnv_pipe.batch.run_model.cluster781 - INFO - Child process finished cluster 781. Wrote cluster_781_samples.csv and cluster_781_params.csv
2026-06-03 06:01:07,946 - cnv_pipe.batch.run_model - INFO - Cluster 781 finished in 251.14 seconds. Status: SUCCESS