Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/d1e96bfdd243f35cecbdbd35c5ccc5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/74/a9af21c5f700ee0e4929db00e98aa7/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/74/a9af21c5f700ee0e4929db00e98aa7/.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-azxytd85 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.
2026-06-08 22:22:42,741 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:22:43,531 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:22:43,706 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:22:44,677 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:22:44,871 - cnv_pipe.batch.run_model - INFO - Processing cluster 980 with 195 probes
2026-06-08 22:22:45,241 - cnv_pipe.batch.run_model.cluster980 - INFO - Child process started for cluster 980 with 195 probes
2026-06-08 22:23:43,682 - cnv_pipe.batch.run_model.cluster980 - INFO - Child process finished cluster 980. Wrote cluster_980_samples.csv and cluster_980_params.csv
2026-06-08 22:23:43,683 - cnv_pipe.batch.run_model - INFO - Cluster 980 finished in 58.81 seconds. Status: SUCCESS