Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/88572080cac8faab76fdfbecb1c1e0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/68/06a6f5b1184def6c32cc054b90900d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/68/06a6f5b1184def6c32cc054b90900d/.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-k_swg3a0 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.
2026-06-05 20:57:30,000 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 20:57:30,865 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 20:57:31,038 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 20:57:32,008 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 20:57:32,087 - cnv_pipe.batch.run_model - INFO - Processing cluster 1091 with 188 probes
2026-06-05 20:57:32,570 - cnv_pipe.batch.run_model.cluster1091 - INFO - Child process started for cluster 1091 with 188 probes
2026-06-05 20:58:28,663 - cnv_pipe.batch.run_model.cluster1091 - INFO - Child process finished cluster 1091. Wrote cluster_1091_samples.csv and cluster_1091_params.csv
2026-06-05 20:58:28,664 - cnv_pipe.batch.run_model - INFO - Cluster 1091 finished in 56.58 seconds. Status: SUCCESS