Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/327f035bf8fc6fbcf2fa0d952a6c14/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/82/bbc8bc8c1f058ef82bca9be1cc2abd/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/82/bbc8bc8c1f058ef82bca9be1cc2abd/.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-9_7c_y52 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 05:39:13,082 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:39:14,157 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:39:14,373 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:40:06,167 - cnv_pipe.batch.run_model - INFO - Loaded data with 182 samples
2026-06-03 05:40:06,506 - cnv_pipe.batch.run_model - INFO - Processing cluster 1039 with 97 probes
2026-06-03 05:40:07,013 - cnv_pipe.batch.run_model.cluster1039 - INFO - Child process started for cluster 1039 with 97 probes
2026-06-03 05:43:22,826 - cnv_pipe.batch.run_model.cluster1039 - INFO - Child process finished cluster 1039. Wrote cluster_1039_samples.csv and cluster_1039_params.csv
2026-06-03 05:43:22,828 - cnv_pipe.batch.run_model - INFO - Cluster 1039 finished in 196.32 seconds. Status: SUCCESS