Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/70f25995e6b00be0442e8c41ed3aae/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/72f74c2c8853d6bd226da72a63297f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/72f74c2c8853d6bd226da72a63297f/.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-ukc3zw8g 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 05:02:29,537 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:02:30,434 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:02:30,614 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:02:47,716 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:02:47,961 - cnv_pipe.batch.run_model - INFO - Processing cluster 73 with 135 probes
2026-06-03 05:02:48,405 - cnv_pipe.batch.run_model.cluster73 - INFO - Child process started for cluster 73 with 135 probes
2026-06-03 05:05:26,357 - cnv_pipe.batch.run_model.cluster73 - INFO - Child process finished cluster 73. Wrote cluster_73_samples.csv and cluster_73_params.csv
2026-06-03 05:05:26,358 - cnv_pipe.batch.run_model - INFO - Cluster 73 finished in 158.40 seconds. Status: SUCCESS