Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4d/86887286c60e0ec78f76ef509ef74d/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/78bd11c506d71befc091b8d56afd85/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/78bd11c506d71befc091b8d56afd85/.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-ldd1927g 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 05:09:49,429 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:09:50,241 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:09:50,416 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:10:06,420 - cnv_pipe.batch.run_model - INFO - Loaded data with 68 samples
2026-06-03 05:10:06,636 - cnv_pipe.batch.run_model - INFO - Processing cluster 1046 with 194 probes
2026-06-03 05:10:07,026 - cnv_pipe.batch.run_model.cluster1046 - INFO - Child process started for cluster 1046 with 194 probes
2026-06-03 05:13:29,796 - cnv_pipe.batch.run_model.cluster1046 - INFO - Child process finished cluster 1046. Wrote cluster_1046_samples.csv and cluster_1046_params.csv
2026-06-03 05:13:29,799 - cnv_pipe.batch.run_model - INFO - Cluster 1046 finished in 203.16 seconds. Status: SUCCESS