Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/c6f1a4c7809881b67eefc20778f6dd/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/05/ad9a8f485610b7994415e464342543/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/05/ad9a8f485610b7994415e464342543/.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-rf7c3589 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 21:00:21,933 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:00:22,946 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:00:23,146 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:00:24,432 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:00:24,516 - cnv_pipe.batch.run_model - INFO - Processing cluster 97 with 167 probes
2026-06-03 21:00:24,995 - cnv_pipe.batch.run_model.cluster97 - INFO - Child process started for cluster 97 with 167 probes
2026-06-03 21:01:30,720 - cnv_pipe.batch.run_model.cluster97 - INFO - Child process finished cluster 97. Wrote cluster_97_samples.csv and cluster_97_params.csv
2026-06-03 21:01:30,721 - cnv_pipe.batch.run_model - INFO - Cluster 97 finished in 66.21 seconds. Status: SUCCESS