mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-w11165nb 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 08:32:41,251 - cnv_pipe.cnv_pipe.batch.agg - INFO - Aggregating data for sample NA12878_c_0002_gDNA_0004_A23TNVNLT4_1
2026-06-03 08:32:41,259 - cnv_pipe.cnv_pipe.batch.agg - INFO - Found 2659 clusters in clusters/
2026-06-03 08:34:28,435 - cnv_pipe.cnv_pipe.batch.agg - INFO - Read model data: 462994 probe-sample rows from 2659 clusters
2026-06-03 08:34:44,481 - cnv_pipe.cnv_pipe.batch.agg - INFO - Read counts: 462994 rows for sample NA12878_c_0002_gDNA_0004_A23TNVNLT4_1
2026-06-03 08:34:44,995 - cnv_pipe.cnv_pipe.batch.agg - INFO - Ploidy (sex=ProcessBatch, auto=posteriors): {'chrX': 2, 'chrY': 0, 'chr1': 2, 'chr10': 2, 'chr11': 2, 'chr12': 2, 'chr13': 2, 'chr14': 2, 'chr15': 2, 'chr16': 2, 'chr17': 2, 'chr18': 2, 'chr19': 2, 'chr2': 2, 'chr20': 2, 'chr21': 2, 'chr22': 2, 'chr3': 2, 'chr4': 2, 'chr5': 2, 'chr6': 2, 'chr7': 2, 'chr8': 2, 'chr9': 2}
2026-06-03 08:34:45,716 - cnv_pipe.cnv_pipe.batch.agg - INFO - Wrote 462994 rows to NA12878_c_0002_gDNA_0004_A23TNVNLT4_1_probe_sample.parquet