Open RichardCorbett opened 3 years ago
I get the same warnings/errors and result when using SAM output (-S).
Running without -B
or -S
seems to work without error:
/opt/GenomeWorks-2021.02.2/bin/cudamapper PAG33026_pass_concat.fastq.gz ../hg19a.fa -d 8
Hi folks, I'm trying cudamapper with this command:
/opt/GenomeWorks-2021.02.2/bin/cudamapper PAG33026_pass_concat.fastq.gz ../hg19a.fa -B > cudamapper_2021_02_02_GM24385.bam
which outputs quite a lot of output to stdout/stderr, from which I have reported the unique lines below:
In practise I think I get the "Duplicate entry "N" " error for each read that is processed.