Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/cd25ceab0480418b3bcf50cf1021e1/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/d076fdff7e3425713b2280caf39792/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/d076fdff7e3425713b2280caf39792/.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-xv2dzopd 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 19:48:09,522 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 19:48:10,626 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 19:48:10,820 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 19:48:12,460 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 19:48:12,564 - cnv_pipe.batch.run_model - INFO - Processing cluster 993 with 163 probes
2026-06-04 19:48:13,123 - cnv_pipe.batch.run_model.cluster993 - INFO - Child process started for cluster 993 with 163 probes
2026-06-04 19:49:21,175 - cnv_pipe.batch.run_model.cluster993 - INFO - Child process finished cluster 993. Wrote cluster_993_samples.csv and cluster_993_params.csv
2026-06-04 19:49:21,177 - cnv_pipe.batch.run_model - INFO - Cluster 993 finished in 68.61 seconds. Status: SUCCESS