Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/70f25995e6b00be0442e8c41ed3aae/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/0c4fe3cb1968b9bd821fb3bba844ea/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/0c4fe3cb1968b9bd821fb3bba844ea/.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-yqtq7w99 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 05:02:34,913 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:02:35,784 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:02:35,957 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:02:52,717 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:02:52,986 - cnv_pipe.batch.run_model - INFO - Processing cluster 99 with 200 probes
2026-06-03 05:02:53,448 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process started for cluster 99 with 200 probes
2026-06-03 05:06:27,910 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process finished cluster 99. Wrote cluster_99_samples.csv and cluster_99_params.csv
2026-06-03 05:06:27,913 - cnv_pipe.batch.run_model - INFO - Cluster 99 finished in 214.93 seconds. Status: SUCCESS