Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/d03b578e25999b1cf8c227a4071696/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/543fa694f9986227affb9a040f1125/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/543fa694f9986227affb9a040f1125/.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-aojdx02s 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 04:50:58,137 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:50:58,992 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:50:59,161 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:51:21,837 - cnv_pipe.batch.run_model - INFO - Loaded data with 87 samples
2026-06-03 04:51:22,046 - cnv_pipe.batch.run_model - INFO - Processing cluster 980 with 195 probes
2026-06-03 04:51:22,444 - cnv_pipe.batch.run_model.cluster980 - INFO - Child process started for cluster 980 with 195 probes
2026-06-03 04:55:01,218 - cnv_pipe.batch.run_model.cluster980 - INFO - Child process finished cluster 980. Wrote cluster_980_samples.csv and cluster_980_params.csv
2026-06-03 04:55:01,221 - cnv_pipe.batch.run_model - INFO - Cluster 980 finished in 219.17 seconds. Status: SUCCESS