Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/8ee81d6b6b4fcd312c228fa48d406e/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/6a5dee6039574e85bc4f2bd4d49acb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/6a5dee6039574e85bc4f2bd4d49acb/.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-n9pmepjs 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.
2026-06-04 17:00:10,991 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:00:11,839 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:00:12,029 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:00:13,165 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:00:13,387 - cnv_pipe.batch.run_model - INFO - Processing cluster 1061 with 128 probes
2026-06-04 17:00:13,777 - cnv_pipe.batch.run_model.cluster1061 - INFO - Child process started for cluster 1061 with 128 probes
2026-06-04 17:00:57,484 - cnv_pipe.batch.run_model.cluster1061 - INFO - Child process finished cluster 1061. Wrote cluster_1061_samples.csv and cluster_1061_params.csv
2026-06-04 17:00:57,485 - cnv_pipe.batch.run_model - INFO - Cluster 1061 finished in 44.10 seconds. Status: SUCCESS