Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/8bd0c230e524b7e1388b18e755b8fa/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/e6f1a768e527abe2e25469999f02eb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/e6f1a768e527abe2e25469999f02eb/.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-2_bxc_9c 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.
2026-06-04 17:05:30,649 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:05:31,709 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:05:31,914 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:05:33,120 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:05:33,207 - cnv_pipe.batch.run_model - INFO - Processing cluster 59 with 111 probes
2026-06-04 17:05:33,804 - cnv_pipe.batch.run_model.cluster59 - INFO - Child process started for cluster 59 with 111 probes
2026-06-04 17:06:19,195 - cnv_pipe.batch.run_model.cluster59 - INFO - Child process finished cluster 59. Wrote cluster_59_samples.csv and cluster_59_params.csv
2026-06-04 17:06:19,196 - cnv_pipe.batch.run_model - INFO - Cluster 59 finished in 45.99 seconds. Status: SUCCESS