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/74/d6dc5257b91b473c92618664067c85/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/74/d6dc5257b91b473c92618664067c85/.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-tle4zpto 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 05:26:38,069 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:26:38,883 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:26:39,045 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:27:29,924 - cnv_pipe.batch.run_model - INFO - Loaded data with 236 samples
2026-06-03 05:27:30,179 - cnv_pipe.batch.run_model - INFO - Processing cluster 773 with 154 probes
2026-06-03 05:27:30,560 - cnv_pipe.batch.run_model.cluster773 - INFO - Child process started for cluster 773 with 154 probes
2026-06-03 05:32:13,015 - cnv_pipe.batch.run_model.cluster773 - INFO - Child process finished cluster 773. Wrote cluster_773_samples.csv and cluster_773_params.csv
2026-06-03 05:32:13,018 - cnv_pipe.batch.run_model - INFO - Cluster 773 finished in 282.84 seconds. Status: SUCCESS