Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/9f196e9fa7009d1c77da248079a78c/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/77016debb324c2328c09cf48253e60/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/77016debb324c2328c09cf48253e60/.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-c11yx2dj 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 05:29:36,343 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:29:37,896 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:29:38,229 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:30:51,040 - cnv_pipe.batch.run_model - INFO - Loaded data with 185 samples
2026-06-03 05:30:51,435 - cnv_pipe.batch.run_model - INFO - Processing cluster 982 with 177 probes
2026-06-03 05:30:52,163 - cnv_pipe.batch.run_model.cluster982 - INFO - Child process started for cluster 982 with 177 probes
2026-06-03 05:38:56,979 - cnv_pipe.batch.run_model.cluster982 - INFO - Child process finished cluster 982. Wrote cluster_982_samples.csv and cluster_982_params.csv
2026-06-03 05:38:56,983 - cnv_pipe.batch.run_model - INFO - Cluster 982 finished in 485.55 seconds. Status: SUCCESS