Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/d03b578e25999b1cf8c227a4071696/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/3b4b300a450ae0b5dc99d860ef0dd9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/3b4b300a450ae0b5dc99d860ef0dd9/.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-3fwldc1c 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 04:51:00,433 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:51:01,252 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:51:01,428 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:51:23,423 - cnv_pipe.batch.run_model - INFO - Loaded data with 87 samples
2026-06-03 04:51:23,626 - cnv_pipe.batch.run_model - INFO - Processing cluster 995 with 89 probes
2026-06-03 04:51:24,008 - cnv_pipe.batch.run_model.cluster995 - INFO - Child process started for cluster 995 with 89 probes
2026-06-03 04:53:21,087 - cnv_pipe.batch.run_model.cluster995 - INFO - Child process finished cluster 995. Wrote cluster_995_samples.csv and cluster_995_params.csv
2026-06-03 04:53:21,089 - cnv_pipe.batch.run_model - INFO - Cluster 995 finished in 117.46 seconds. Status: SUCCESS