diff --git a/phyloFlash.pl b/phyloFlash.pl index 642dc00..89400a3 100755 --- a/phyloFlash.pl +++ b/phyloFlash.pl @@ -1582,7 +1582,7 @@ sub spades_run { my $cpus_spades = $cpus > 24 ? 24 : $cpus; my $return = run_prog_nodie("spades", - "-o $libraryNAME.spades -t $cpus_spades -m 20 -k $kmer " + "-o $libraryNAME.spades -t $cpus_spades -m 20 -k $kmer --phred-offset 33 " . $args, $outfiles{"spades_log"}{"filename"},"&1" );