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/1c/3537e5ece095979aa0f454ddc2aeb5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/3537e5ece095979aa0f454ddc2aeb5/.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-nvosasd1 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 05:28:20,872 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:28:21,760 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:28:21,947 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:29:06,043 - cnv_pipe.batch.run_model - INFO - Loaded data with 185 samples
2026-06-03 05:29:06,244 - cnv_pipe.batch.run_model - INFO - Processing cluster 676 with 171 probes
2026-06-03 05:29:06,628 - cnv_pipe.batch.run_model.cluster676 - INFO - Child process started for cluster 676 with 171 probes
2026-06-03 05:34:02,665 - cnv_pipe.batch.run_model.cluster676 - INFO - Child process finished cluster 676. Wrote cluster_676_samples.csv and cluster_676_params.csv
2026-06-03 05:34:02,668 - cnv_pipe.batch.run_model - INFO - Cluster 676 finished in 296.42 seconds. Status: SUCCESS