Dear monks , I have written a script which selects the data till the line matches ======== then take that data in an array and execute a system command. The command has a default ouputfile in which the analysis is done and written. But my script overwrites the earlier data. Means the code is correct only thing is that I am overwriting the data in the ouput file which is being generated by the software which I am using by system command . How I can avoid that .

#!/usr/bin/perl -w
use strict;
my @aln;
open(FILE,"vik.fna");
while (my $line = <FILE>) {
    
    if ($line !~ /^==========/) {
    push (@aln, $line);
         }
       else {
       open (SEQFILE, ">vik.tmp");
        print SEQFILE join("",@aln);
        close SEQFILE;
         @aln = ();
             system("java -jar BMGE.jar -i vik.tmp -t AA -o tmsa.out")
+;
             
        
          
        }
}

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In reply to using the system command by viktor

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