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/11/08b9f5af35fa7db0c78da87817a84f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/11/08b9f5af35fa7db0c78da87817a84f/.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-jldyv0dz 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 05:43:58,722 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:43:59,714 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:43:59,901 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:44:55,052 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:44:55,375 - cnv_pipe.batch.run_model - INFO - Processing cluster 753 with 179 probes
2026-06-03 05:44:55,897 - cnv_pipe.batch.run_model.cluster753 - INFO - Child process started for cluster 753 with 179 probes
2026-06-03 05:49:54,690 - cnv_pipe.batch.run_model.cluster753 - INFO - Child process finished cluster 753. Wrote cluster_753_samples.csv and cluster_753_params.csv
2026-06-03 05:49:54,692 - cnv_pipe.batch.run_model - INFO - Cluster 753 finished in 299.32 seconds. Status: SUCCESS