Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0abbc905604638cc0f1c9bc2c6f05f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/2bb4cf414c1c6f8be3ad78c24a9c06/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/2bb4cf414c1c6f8be3ad78c24a9c06/.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-nfjnzrqd 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 05:00:50,152 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:00:51,141 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:00:51,333 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:01:08,161 - cnv_pipe.batch.run_model - INFO - Loaded data with 66 samples
2026-06-03 05:01:08,400 - cnv_pipe.batch.run_model - INFO - Processing cluster 87 with 186 probes
2026-06-03 05:01:08,845 - cnv_pipe.batch.run_model.cluster87 - INFO - Child process started for cluster 87 with 186 probes
2026-06-03 05:04:16,798 - cnv_pipe.batch.run_model.cluster87 - INFO - Child process finished cluster 87. Wrote cluster_87_samples.csv and cluster_87_params.csv
2026-06-03 05:04:16,801 - cnv_pipe.batch.run_model - INFO - Cluster 87 finished in 188.40 seconds. Status: SUCCESS