Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/fac372430477ba1f6c897ba5fc7630/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/82/d6afab1f8b5351950e129414597242/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/82/d6afab1f8b5351950e129414597242/.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-rahwrmiu 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 05:43:34,809 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:43:35,849 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:43:36,053 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:44:27,835 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:44:28,155 - cnv_pipe.batch.run_model - INFO - Processing cluster 696 with 170 probes
2026-06-03 05:44:28,632 - cnv_pipe.batch.run_model.cluster696 - INFO - Child process started for cluster 696 with 170 probes
2026-06-03 05:49:23,552 - cnv_pipe.batch.run_model.cluster696 - INFO - Child process finished cluster 696. Wrote cluster_696_samples.csv and cluster_696_params.csv
2026-06-03 05:49:23,554 - cnv_pipe.batch.run_model - INFO - Cluster 696 finished in 295.40 seconds. Status: SUCCESS