Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/86/d3f2ba928beab4f875cf9bd7d52c2c/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/4f7228ff177a39684052c171439711/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/4f7228ff177a39684052c171439711/.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-1jg4wpyx 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 05:34:58,531 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:34:59,363 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:34:59,538 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:35:44,815 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:35:45,070 - cnv_pipe.batch.run_model - INFO - Processing cluster 893 with 200 probes
2026-06-03 05:35:45,475 - cnv_pipe.batch.run_model.cluster893 - INFO - Child process started for cluster 893 with 200 probes
2026-06-03 05:41:56,125 - cnv_pipe.batch.run_model.cluster893 - INFO - Child process finished cluster 893. Wrote cluster_893_samples.csv and cluster_893_params.csv
2026-06-03 05:41:56,128 - cnv_pipe.batch.run_model - INFO - Cluster 893 finished in 371.06 seconds. Status: SUCCESS