Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0abbc905604638cc0f1c9bc2c6f05f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/00/88fdd727398fbe297b0ff536dc4e2e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/00/88fdd727398fbe297b0ff536dc4e2e/.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-03wbl8ju 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 05:04:41,384 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:04:42,181 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:04:42,372 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:04:59,259 - cnv_pipe.batch.run_model - INFO - Loaded data with 66 samples
2026-06-03 05:04:59,501 - cnv_pipe.batch.run_model - INFO - Processing cluster 1041 with 153 probes
2026-06-03 05:04:59,881 - cnv_pipe.batch.run_model.cluster1041 - INFO - Child process started for cluster 1041 with 153 probes
2026-06-03 05:07:47,379 - cnv_pipe.batch.run_model.cluster1041 - INFO - Child process finished cluster 1041. Wrote cluster_1041_samples.csv and cluster_1041_params.csv
2026-06-03 05:07:47,382 - cnv_pipe.batch.run_model - INFO - Cluster 1041 finished in 167.88 seconds. Status: SUCCESS