Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/70f25995e6b00be0442e8c41ed3aae/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/b90c522843ecb8d4268523753f5af4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/e1b69785a601b5c5a6d7112a232681/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/e1b69785a601b5c5a6d7112a232681/.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-wdp5tqat 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 05:06:03,089 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:06:03,866 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:06:04,029 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:06:19,851 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:06:20,090 - cnv_pipe.batch.run_model - INFO - Processing cluster 1062 with 184 probes
2026-06-03 05:06:20,492 - cnv_pipe.batch.run_model.cluster1062 - INFO - Child process started for cluster 1062 with 184 probes
2026-06-03 05:09:47,670 - cnv_pipe.batch.run_model.cluster1062 - INFO - Child process finished cluster 1062. Wrote cluster_1062_samples.csv and cluster_1062_params.csv
2026-06-03 05:09:47,672 - cnv_pipe.batch.run_model - INFO - Cluster 1062 finished in 207.58 seconds. Status: SUCCESS