Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/9711be98d2e5098018361c12afea05/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/6a0b3fde4f6ac624f673e2238e9d92/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/6a0b3fde4f6ac624f673e2238e9d92/.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-p1k6g7nr 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.
2026-06-01 21:54:16,522 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-01 21:54:17,545 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-01 21:54:17,745 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-01 21:54:18,969 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-01 21:54:19,185 - cnv_pipe.batch.run_model - INFO - Processing cluster 90 with 181 probes
2026-06-01 21:54:19,671 - cnv_pipe.batch.run_model.cluster90 - INFO - Child process started for cluster 90 with 181 probes
2026-06-01 21:55:32,477 - cnv_pipe.batch.run_model.cluster90 - INFO - Child process finished cluster 90. Wrote cluster_90_samples.csv and cluster_90_params.csv
2026-06-01 21:55:32,478 - cnv_pipe.batch.run_model - INFO - Cluster 90 finished in 73.29 seconds. Status: SUCCESS