Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/5144ad9e68402ab9f76dba7152c49a/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/e6186422669af312098c350eb30115/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/e6186422669af312098c350eb30115/.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-dmzwknw7 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 04:44:04,612 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:44:05,418 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:44:05,590 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:44:20,840 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-03 04:44:20,930 - cnv_pipe.batch.run_model - INFO - Processing cluster 1041 with 153 probes
2026-06-03 04:44:21,446 - cnv_pipe.batch.run_model.cluster1041 - INFO - Child process started for cluster 1041 with 153 probes
2026-06-03 04:47:18,593 - cnv_pipe.batch.run_model.cluster1041 - INFO - Child process finished cluster 1041. Wrote cluster_1041_samples.csv and cluster_1041_params.csv
2026-06-03 04:47:18,596 - cnv_pipe.batch.run_model - INFO - Cluster 1041 finished in 177.67 seconds. Status: SUCCESS