disabled quality score conversion in FASTQ and Solexa

[biopieces.git] / bp_bin / bowtie_seq

diff --git a/bp_bin/bowtie_seq b/bp_bin/bowtie_seq
index cffcd32b10124500dc53482e44ef6110cf80daf2..2b9254d882c8ac728f6c59b2ec2c2dc9c9bc49c5 100755 (executable)
--- a/bp_bin/bowtie_seq
+++ b/bp_bin/bowtie_seq
@@ -123,7 +123,6 @@ while ( $line = <$fh_in> )
     chomp $line;
 
     @fields = split /\t/, $line;
-
     $record = bowtie2biopiece( \@fields );
 
     Maasha::Biopieces::put_record( $record, $out );
@@ -161,7 +160,6 @@ sub bowtie2biopiece
     $record->{ 'SCORES' }     = $entry->[ 5 ];
     $record->{ 'SCORE' }      = $entry->[ 6 ] + 1;
     $record->{ 'DESCRIPTOR' } = $entry->[ 7 ];
-
     $record->{ 'SEQ_LEN' }    = length $entry->[ 4 ];
     $record->{ 'S_END' }      = $record->{ 'S_BEG' } + $record->{ 'SEQ_LEN' } - 1;
     $record->{ 'SCORES' }     =~ s/(.)/ord( $1 ) - 33 . ";"/ge; # http://maq.sourceforge.net/fastq.shtml