Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/85b140281e9b2950cd842c897b7042/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/4bdcd7bbfbb366cb3087263f80884f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/4bdcd7bbfbb366cb3087263f80884f/.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-fvx2k4wp 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 18:37:09,767 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:10,571 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:10,740 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:37:25,923 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:37:26,143 - cnv_pipe.batch.run_model - INFO - Processing cluster 941 with 188 probes
2026-06-02 18:37:26,528 - cnv_pipe.batch.run_model.cluster941 - INFO - Child process started for cluster 941 with 188 probes
2026-06-02 18:40:44,623 - cnv_pipe.batch.run_model.cluster941 - INFO - Child process finished cluster 941. Wrote cluster_941_samples.csv and cluster_941_params.csv
2026-06-02 18:40:44,627 - cnv_pipe.batch.run_model - INFO - Cluster 941 finished in 198.48 seconds. Status: SUCCESS