SwAligner::alignGatherEE16 trying to alloc 32TB in expandCopyExact

[tuxsoft]

I have absolutely no knowledge in this field, but I tired to help someone who is getting a crash when trying to sequence some data. (Linux X86_64) I could tell alloc() failed, so I added a swapfile of 32GB thinking it would solve the issue to no avail. After building from src and debugging I discover the cause is a crazy 32TB alloc() request.

The data is: https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/014/183/145/GCA_014183145.1_ASM1418314v1/GCA_014183145.1_ASM1418314v1_genomic.fna.gz

The index files seem to create okay and have no problems. I tried both the query input FASTA from ncbi.nlm.nih.gov and one I created from the Index files with the same result.

[ch4rr0]

I am not sure how that happened. I went ahead and built the same index and my peak memory footprint was 1.3GB. This was with the optimised binary. I would expect the debug build to use slightly more than that since it performs sanity checks, but not to the extent of consuming 32TBs worth.