Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/77a3c816928cf056a2a709ea29f531/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/c1995482480f66569b81d7013ddca9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/c1995482480f66569b81d7013ddca9/.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-9qtgp6x7 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.
2026-06-05 03:30:46,204 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 03:30:47,064 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 03:30:47,235 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 03:30:48,330 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 03:30:48,402 - cnv_pipe.batch.run_model - INFO - Processing cluster 89 with 82 probes
2026-06-05 03:30:48,787 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process started for cluster 89 with 82 probes
2026-06-05 03:31:17,869 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process finished cluster 89. Wrote cluster_89_samples.csv and cluster_89_params.csv
2026-06-05 03:31:17,870 - cnv_pipe.batch.run_model - INFO - Cluster 89 finished in 29.47 seconds. Status: SUCCESS