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/5f/dd23be1b10505c13b885d4cfc5be1d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/dd23be1b10505c13b885d4cfc5be1d/.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-9hllq_z4 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 22:26:28,435 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:26:29,295 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:26:29,465 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:26:30,440 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:26:30,522 - cnv_pipe.batch.run_model - INFO - Processing cluster 2643 with 193 probes
2026-06-08 22:26:31,000 - cnv_pipe.batch.run_model.cluster2643 - INFO - Child process started for cluster 2643 with 193 probes
2026-06-08 22:27:27,239 - cnv_pipe.batch.run_model.cluster2643 - INFO - Child process finished cluster 2643. Wrote cluster_2643_samples.csv and cluster_2643_params.csv
2026-06-08 22:27:27,241 - cnv_pipe.batch.run_model - INFO - Cluster 2643 finished in 56.72 seconds. Status: SUCCESS