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/e7/1bfa098c8bbc3f658fd5382ab12eeb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e7/1bfa098c8bbc3f658fd5382ab12eeb/.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-xco6kowf 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 16:59:56,234 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 16:59:57,022 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 16:59:57,190 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 16:59:58,211 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 16:59:58,381 - cnv_pipe.batch.run_model - INFO - Processing cluster 977 with 181 probes
2026-06-04 16:59:58,752 - cnv_pipe.batch.run_model.cluster977 - INFO - Child process started for cluster 977 with 181 probes
2026-06-04 17:01:00,681 - cnv_pipe.batch.run_model.cluster977 - INFO - Child process finished cluster 977. Wrote cluster_977_samples.csv and cluster_977_params.csv
2026-06-04 17:01:00,682 - cnv_pipe.batch.run_model - INFO - Cluster 977 finished in 62.30 seconds. Status: SUCCESS