This seems to break the fasta parser and crashes the program:
./build/columba -e 4 -ss pigeon UMN_data/all_noheader UMN_data/test2.fasta
Using 32-bits
Welcome to Columba!
Reading UMN_data/all_noheader.sa.bv.1...done
Reading UMN_data/all_noheader.sa.1..done
Reading UMN_data/all_noheader.txt...done (size: 3040359461)
Reading UMN_data/all_noheader.cct...done
Reading UMN_data/all_noheader.bwt...done (size: 3040359461)
Reading UMN_data/all_noheader.brt...done
Reading UMN_data/all_noheader.rev.brt...done
Populating FM-range table with 10-mers...done.
Reading in reads from UMN_data/test2.fasta
Benchmarking with PIGEON HOLE strategy for max distance 4 with DYNAMIC partitioning and using (OPTIMIZED) EDIT distance
Switching to in text verification at 5
Progress: 0/0
Results for PIGEON HOLE
Total duration: 0.00s
Average no. nodes: -nan
Total no. Nodes: 0
Average no. unique matches: -nan
Total no. unique matches: 0
Average no. reported matches -nan
Total no. reported matches: 0
Mapped reads: 0
Segmentation fault (core dumped)
I have the following query file:
This seems to break the fasta parser and crashes the program: