Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/91/2b42d195b4fa19ad7dcc524e0de76f/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/91/2b42d195b4fa19ad7dcc524e0de76f/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/3613d56a7b5d45cd3a77e902cf7b59/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/91/2b42d195b4fa19ad7dcc524e0de76f/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/e1e8ef83adb2073833e2b089614715/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/e1e8ef83adb2073833e2b089614715/.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-o0g0lkns 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 06:01:42,045 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:01:42,929 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:01:43,120 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:02:26,216 - cnv_pipe.batch.run_model - INFO - Loaded data with 178 samples
2026-06-03 06:02:26,436 - cnv_pipe.batch.run_model - INFO - Processing cluster 782 with 117 probes
2026-06-03 06:02:26,813 - cnv_pipe.batch.run_model.cluster782 - INFO - Child process started for cluster 782 with 117 probes
2026-06-03 06:05:45,227 - cnv_pipe.batch.run_model.cluster782 - INFO - Child process finished cluster 782. Wrote cluster_782_samples.csv and cluster_782_params.csv
2026-06-03 06:05:45,229 - cnv_pipe.batch.run_model - INFO - Cluster 782 finished in 198.79 seconds. Status: SUCCESS