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/3e/eab2be6922f956911dea230cd125c5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/eab2be6922f956911dea230cd125c5/.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-0woftq18 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 05:04:46,102 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:04:47,214 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:04:47,431 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:05:06,431 - cnv_pipe.batch.run_model - INFO - Loaded data with 66 samples
2026-06-03 05:05:06,545 - cnv_pipe.batch.run_model - INFO - Processing cluster 988 with 172 probes
2026-06-03 05:05:07,182 - cnv_pipe.batch.run_model.cluster988 - INFO - Child process started for cluster 988 with 172 probes
2026-06-03 05:08:11,096 - cnv_pipe.batch.run_model.cluster988 - INFO - Child process finished cluster 988. Wrote cluster_988_samples.csv and cluster_988_params.csv
2026-06-03 05:08:11,099 - cnv_pipe.batch.run_model - INFO - Cluster 988 finished in 184.55 seconds. Status: SUCCESS