I have aligned my data using Bowtie2 for a number of samples over the last couple of days but I am suddenly getting this error:
Error while flushing and closing output
libc++abi.dylib: terminating with uncaught exception of type int
(ERR): bowtie2-align died with signal 6 (ABRT)
The command seems to run but then comes up with the above error at the end.
I am using the below command to aligned my paired-end data:
bowtie2 -x Reference/GCA_000001405.15_GRCh38_no_alt_analysis_set.fna.bowtie_index -1 1.fastq -2 2.fastq -S file.sam
Thanks a lot in advance!