Merge pull request #107 from BioInf-Wuerzburg/hotfix/ccseq-phred-offset

ccseq: assume phred-offset 33 for read if guessing fails. Thanks to David Mathog
BioInf-Wuerzburg · Sep 19, 2017 · 21fecc0 · 21fecc0
2 parents 4c17c5e + da6cf11
commit 21fecc0
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Showing 2 changed files with 5 additions and 1 deletion.
diff --git a/bin/ccseq b/bin/ccseq
@@ -198,6 +198,10 @@ $L->info("Reading STDIN") unless $opt{reads};
 my $rpr = Fastq::Parser->new($opt{reads} ? (file => $opt{reads}) : ())->check_format;
 if ($rpr) {
     my $po = $rpr->guess_phred_offset();
+    if(!defined($po)){
+        $po=33;
+        $L->info("Couldn't guess phred offset, but assuming 33 for PacBio");
+    }
     $L->logdie("Expected phred offset 33") if $po && $po != 33;
     $rpr->phred_offset($po); # should be 33 for PacBio
 } else {

diff --git a/bin/proovread b/bin/proovread
@@ -41,7 +41,7 @@ use Time::HiRes qw(usleep);
 use Data::Dumper;
 $Data::Dumper::Sortkeys = 1;
 
-use version 0.77; our $VERSION = qv("2.14.0");
+use version 0.77; our $VERSION = qv("2.14.1");
 
 my $RealLib = "$RealBin/../lib/";
 my $RealPerl = "perl -I${RealLib} $RealBin";