my $search =$ARGV[0];
summary_o();
#summary_no();
my @count;
my @matches;
my $ofound ="";
#my $nfound;

sub summary_o {
    open INPUT,"/home/perlcourse/derek/final/oncogenic_E1.txt" or die $!;
    my $count =-1;		#I have added a last ">" symbol into my text file to make this code run.
    my $seq =();
    my $hits;
    my $header;
    my $pos;
    my %o;
    my $contains =0;
    my $searchline;
    my @poz;
    while (my $line =<INPUT>) {
      if ($line =~m/^>/) {
	if ($seq) {
	  $o{$header} = "$seq";
	}
	$count++;
	print "\n\n";
	print "$line";
	$header = "$line";
	$seq=();
      } else {
	chomp $line;
	print $line;
	$seq .= "$line";
      }
#Q: How many times is the $search found inside all the hash values??
    }
    while (my ($key,$value) = each(%o)) {
      $hits++ while $value =~ /$search/gi;
    }
  
#Q: How many hash values contain at least one “$search” inside of them?
    ####################
    #FOREACH LOOP START#
    ####################
    foreach my $key (keys %o) {
      $searchline = $o{$key};
      if ($searchline =~ /$search/gi) {
    	$contains ++;
      }
    }
    ###################
    # FOREACH LOOP END#
    ###################
	

    print "\n\t\t*****Summary of input*****\n";

    if ($hits) {
      print "\nThere are " . $hits. " matches of " .$search ." in " . $count ."  sequences.";
    } else {
      print "\n\nThere are 0 matches in " . $count . " sequences.";
    }
    
    print "\n$contains" . " sequences out of ".$count." contain the query sequence at least once." if ($contains);
    print "\n\n";


    if ($count) {
      my $ofound = ($hits)/($count);
    } elsif ($count ==0) {
    }


    close (INPUT);
    #print $ofound;
    print "\n";
  
  return $ofound;
}