Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/0736553abd3f1ae6189c25cf0a2077/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/4f1274ee047a9d365a4d38e11a99c3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/4f1274ee047a9d365a4d38e11a99c3/.command.sh
==> 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-n01iqif4 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 05:01:34,726 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:01:35,610 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:01:35,785 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:01:51,843 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:01:52,054 - cnv_pipe.batch.run_model - INFO - Processing cluster 83 with 161 probes
2026-06-03 05:01:52,471 - cnv_pipe.batch.run_model.cluster83 - INFO - Child process started for cluster 83 with 161 probes
2026-06-03 05:04:34,525 - cnv_pipe.batch.run_model.cluster83 - INFO - Child process finished cluster 83. Wrote cluster_83_samples.csv and cluster_83_params.csv
2026-06-03 05:04:34,527 - cnv_pipe.batch.run_model - INFO - Cluster 83 finished in 162.47 seconds. Status: SUCCESS