Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cd/d629d8d7abef120578395d9f1603cb/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cd/d629d8d7abef120578395d9f1603cb/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a9/9cbdf3ea6d68537f56089c24e3b534/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cd/d629d8d7abef120578395d9f1603cb/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/cd29783c78584ad92a0d39b3b6fb93/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/cd29783c78584ad92a0d39b3b6fb93/.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-xocjsap6 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 05:36:58,791 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:36:59,603 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:36:59,776 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:37:44,276 - cnv_pipe.batch.run_model - INFO - Loaded data with 186 samples
2026-06-03 05:37:44,520 - cnv_pipe.batch.run_model - INFO - Processing cluster 990 with 200 probes
2026-06-03 05:37:44,930 - cnv_pipe.batch.run_model.cluster990 - INFO - Child process started for cluster 990 with 200 probes
2026-06-03 05:43:42,072 - cnv_pipe.batch.run_model.cluster990 - INFO - Child process finished cluster 990. Wrote cluster_990_samples.csv and cluster_990_params.csv
2026-06-03 05:43:42,075 - cnv_pipe.batch.run_model - INFO - Cluster 990 finished in 357.55 seconds. Status: SUCCESS