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morispi / LEVIATHAN

Linked-reads based structural variant caller with barcode indexing
GNU Affero General Public License v3.0
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overflow error #3

Closed dipopp closed 2 years ago

dipopp commented 3 years ago

During bench marking with the Genome in a Bottle datasets, the program crashed immediately after creating the candidates.bedpe. I ran: LEVIATHAN -b LongRanger/GIAB/outs/possorted_bam.bam -i barcodeIndex.bci -g GRCh37_longranger/refdata-hg19-2.1.0/fasta/genome.fa -o GIAB_Leviathan.vcf -t 12

The error is: terminate called after throwing an instance of 'std::overflow_error' what(): robin_hood::map overflow

flegeai commented 2 years ago

Hi dipopp, Thanks for reporting this issue. We were able to reproduce it, and then correct it (a hash table was not purged and kept to much memory). I hope this new version will work on your data. Best regards,