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#!/usr/bin/perl -w
if(@ARGV !=2){
print "format:remove_breakline.pl input.txt output.txt k\n";
print "Please specify the names of the input file and the output file\n";
exit 1;
}
$infile1=shift; #idio me $infile=$ARGV[0]
#idio me $outfile= $ARGV[1]
$outfile=shift;
$k=0;
open(IN, "$infile1") || die "Cannot open: $!\n";
open(OUT, ">$outfile") || die "Cannot open: $!\n";
$first=1;
while($line=<IN>){
if ($line=~m/^>(.*)/){
if($first==1){
$first=0;
}
else{
print OUT "\n";
}
print OUT $line;
}
else{
chomp( $line);
$k++;
#$line=~ s/\n//s;
print OUT $line;
next $line if($line=~m/^>(.*)/);
#print OUT " \n" ;
}
}
close(OUT);
close(IN);
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