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/10/5603a988a0d88e069302fce983ab25/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/5603a988a0d88e069302fce983ab25/.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-t2bbnxwv 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 05:43:35,275 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:43:36,249 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:43:36,431 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:44:26,408 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:44:26,510 - cnv_pipe.batch.run_model - INFO - Processing cluster 688 with 177 probes
2026-06-03 05:44:27,187 - cnv_pipe.batch.run_model.cluster688 - INFO - Child process started for cluster 688 with 177 probes
2026-06-03 05:49:26,560 - cnv_pipe.batch.run_model.cluster688 - INFO - Child process finished cluster 688. Wrote cluster_688_samples.csv and cluster_688_params.csv
2026-06-03 05:49:26,562 - cnv_pipe.batch.run_model - INFO - Cluster 688 finished in 300.05 seconds. Status: SUCCESS