Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0f20df2ba7cacf28a35a20039d1aae/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0f20df2ba7cacf28a35a20039d1aae/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/1a1656640c36caafc45df505cb7858/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0f20df2ba7cacf28a35a20039d1aae/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/aaee6fa5c87421059a39097f01035a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/aaee6fa5c87421059a39097f01035a/.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-ooljz5vr 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.
2026-05-27 18:00:31,598 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 18:00:32,397 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 18:00:32,568 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 18:00:33,603 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 18:00:33,675 - cnv_pipe.batch.run_model - INFO - Processing cluster 943 with 195 probes
2026-05-27 18:00:34,046 - cnv_pipe.batch.run_model.cluster943 - INFO - Child process started for cluster 943 with 195 probes
2026-05-27 18:01:31,018 - cnv_pipe.batch.run_model.cluster943 - INFO - Child process finished cluster 943. Wrote cluster_943_samples.csv and cluster_943_params.csv
2026-05-27 18:01:31,019 - cnv_pipe.batch.run_model - INFO - Cluster 943 finished in 57.34 seconds. Status: SUCCESS