Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/75aeaf41b6380bc4dbc477aee55d52/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e2/9fc3d7737faf7238d53b4243fb40df/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e2/9fc3d7737faf7238d53b4243fb40df/.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-t1tm1kqp 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.
2026-06-02 19:08:29,053 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 19:08:29,846 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 19:08:30,018 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 19:08:51,759 - cnv_pipe.batch.run_model - INFO - Loaded data with 93 samples
2026-06-02 19:08:51,961 - cnv_pipe.batch.run_model - INFO - Processing cluster 860 with 129 probes
2026-06-02 19:08:52,334 - cnv_pipe.batch.run_model.cluster860 - INFO - Child process started for cluster 860 with 129 probes
2026-06-02 19:11:24,055 - cnv_pipe.batch.run_model.cluster860 - INFO - Child process finished cluster 860. Wrote cluster_860_samples.csv and cluster_860_params.csv
2026-06-02 19:11:24,057 - cnv_pipe.batch.run_model - INFO - Cluster 860 finished in 152.10 seconds. Status: SUCCESS