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/b1/7b4cdbeb40c76899831c12908ded58/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/7b4cdbeb40c76899831c12908ded58/.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-dbra42qp 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 04:40:17,452 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:40:18,346 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:40:18,523 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:40:33,005 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-03 04:40:33,208 - cnv_pipe.batch.run_model - INFO - Processing cluster 97 with 167 probes
2026-06-03 04:40:33,615 - cnv_pipe.batch.run_model.cluster97 - INFO - Child process started for cluster 97 with 167 probes
2026-06-03 04:43:20,045 - cnv_pipe.batch.run_model.cluster97 - INFO - Child process finished cluster 97. Wrote cluster_97_samples.csv and cluster_97_params.csv
2026-06-03 04:43:20,047 - cnv_pipe.batch.run_model - INFO - Cluster 97 finished in 166.84 seconds. Status: SUCCESS