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/84/8b9e13566d0a40372b57d4654fec25/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/8b9e13566d0a40372b57d4654fec25/.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-59ios9e_ 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 04:43:13,755 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:43:14,838 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:43:15,040 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:43:34,448 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-03 04:43:34,565 - cnv_pipe.batch.run_model - INFO - Processing cluster 1002 with 188 probes
2026-06-03 04:43:35,064 - cnv_pipe.batch.run_model.cluster1002 - INFO - Child process started for cluster 1002 with 188 probes
2026-06-03 04:47:02,869 - cnv_pipe.batch.run_model.cluster1002 - INFO - Child process finished cluster 1002. Wrote cluster_1002_samples.csv and cluster_1002_params.csv
2026-06-03 04:47:02,872 - cnv_pipe.batch.run_model - INFO - Cluster 1002 finished in 208.31 seconds. Status: SUCCESS