Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/41e5c371c3a62eb95974375831623f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/0bae359d964ce523d3845dc22a23ad/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/0bae359d964ce523d3845dc22a23ad/.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-cl6ffxje 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 04:53:38,396 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:53:39,996 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:53:40,313 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:54:08,818 - cnv_pipe.batch.run_model - INFO - Loaded data with 65 samples
2026-06-03 04:54:09,182 - cnv_pipe.batch.run_model - INFO - Processing cluster 1119 with 194 probes
2026-06-03 04:54:09,993 - cnv_pipe.batch.run_model.cluster1119 - INFO - Child process started for cluster 1119 with 194 probes
2026-06-03 04:59:20,415 - cnv_pipe.batch.run_model.cluster1119 - INFO - Child process finished cluster 1119. Wrote cluster_1119_samples.csv and cluster_1119_params.csv
2026-06-03 04:59:20,418 - cnv_pipe.batch.run_model - INFO - Cluster 1119 finished in 311.24 seconds. Status: SUCCESS