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/c3/9fc6ca625c2a81e04d8b64b9b29936/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/9fc6ca625c2a81e04d8b64b9b29936/.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-309f31wy 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 05:58:00,745 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:58:01,548 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:58:01,719 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:58:41,397 - cnv_pipe.batch.run_model - INFO - Loaded data with 178 samples
2026-06-03 05:58:41,604 - cnv_pipe.batch.run_model - INFO - Processing cluster 89 with 82 probes
2026-06-03 05:58:41,973 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process started for cluster 89 with 82 probes
2026-06-03 06:01:02,120 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process finished cluster 89. Wrote cluster_89_samples.csv and cluster_89_params.csv
2026-06-03 06:01:02,121 - cnv_pipe.batch.run_model - INFO - Cluster 89 finished in 140.52 seconds. Status: SUCCESS