Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/0beda2781c070bcd33e32f334984f5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/25ba2b56ef5e42095870346acf7ad0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/25ba2b56ef5e42095870346acf7ad0/.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-_826doyn 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 05:27:11,476 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:27:12,297 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:27:12,467 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:28:06,989 - cnv_pipe.batch.run_model - INFO - Loaded data with 236 samples
2026-06-03 05:28:07,290 - cnv_pipe.batch.run_model - INFO - Processing cluster 877 with 192 probes
2026-06-03 05:28:07,690 - cnv_pipe.batch.run_model.cluster877 - INFO - Child process started for cluster 877 with 192 probes
2026-06-03 05:33:50,506 - cnv_pipe.batch.run_model.cluster877 - INFO - Child process finished cluster 877. Wrote cluster_877_samples.csv and cluster_877_params.csv
2026-06-03 05:33:50,509 - cnv_pipe.batch.run_model - INFO - Cluster 877 finished in 343.22 seconds. Status: SUCCESS