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/d4/b485068217861e6c4583b3afe32120/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d4/b485068217861e6c4583b3afe32120/.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-wo78n5c9 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 18:40:34,490 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:40:35,384 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:40:35,568 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:40:51,365 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:40:51,626 - cnv_pipe.batch.run_model - INFO - Processing cluster 888 with 180 probes
2026-06-02 18:40:52,064 - cnv_pipe.batch.run_model.cluster888 - INFO - Child process started for cluster 888 with 180 probes
2026-06-02 18:44:16,657 - cnv_pipe.batch.run_model.cluster888 - INFO - Child process finished cluster 888. Wrote cluster_888_samples.csv and cluster_888_params.csv
2026-06-02 18:44:16,659 - cnv_pipe.batch.run_model - INFO - Cluster 888 finished in 205.03 seconds. Status: SUCCESS