Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/fac372430477ba1f6c897ba5fc7630/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/31a2452b6f2b0f64dbd9014d7d769c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/31a2452b6f2b0f64dbd9014d7d769c/.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-_1kbpcqi 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 05:40:40,300 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:40:42,774 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:40:43,192 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:42:28,187 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:42:29,007 - cnv_pipe.batch.run_model - INFO - Processing cluster 104 with 197 probes
2026-06-03 05:42:30,146 - cnv_pipe.batch.run_model.cluster104 - INFO - Child process started for cluster 104 with 197 probes
2026-06-03 05:50:35,761 - cnv_pipe.batch.run_model.cluster104 - INFO - Child process finished cluster 104. Wrote cluster_104_samples.csv and cluster_104_params.csv
2026-06-03 05:50:35,764 - cnv_pipe.batch.run_model - INFO - Cluster 104 finished in 486.76 seconds. Status: SUCCESS