Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f0b3dcb3638939686c3bfe5522d719/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f0b3dcb3638939686c3bfe5522d719/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/11663a86573f63438a8e925e4816d0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f0b3dcb3638939686c3bfe5522d719/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/bd77aa927253d0ff0287c78c05fe54/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/bd77aa927253d0ff0287c78c05fe54/.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-rdw5hon7 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.
2026-05-28 05:41:33,332 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-28 05:41:34,158 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-28 05:41:34,329 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-28 05:41:35,392 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-28 05:41:35,596 - cnv_pipe.batch.run_model - INFO - Processing cluster 996 with 176 probes
2026-05-28 05:41:36,011 - cnv_pipe.batch.run_model.cluster996 - INFO - Child process started for cluster 996 with 176 probes
2026-05-28 05:42:29,359 - cnv_pipe.batch.run_model.cluster996 - INFO - Child process finished cluster 996. Wrote cluster_996_samples.csv and cluster_996_params.csv
2026-05-28 05:42:29,360 - cnv_pipe.batch.run_model - INFO - Cluster 996 finished in 53.76 seconds. Status: SUCCESS