Soumyadeep nandi wrote:
> Hi Everybody,
>
> As a naive cgi programmer, I want to get rid of a
> problem, for that, I am keen, awaiting your
> suggestions. I doubt, I could not present my case in
> front of you properly. Anyway, my problem spins around the following.
>
> I am running a CGI script in which I am running a
> system command. The scripts is as follows:
> #!/usr/bin/perl -w
> use strict;
> use CGI;
> open(FH_seq1,">/var/www/cgi-bin/emboss/water1.seq");
> open(FH_seq2,">/var/www/cgi-bin/emboss/water2.seq");
> print "Content-type:text/html\n\n";
> my $query = new CGI;
> my $seq1 = $query->param("seq1");
> my $seq2 = $query->param("seq2");
> print FH_seq1 "$seq1\n";
> print FH_seq2 "$seq2\n";
>
> `/var/www/cgi-bin/emboss/water
> /var/www/cgi-bin/emboss/water1.seq
> /var/www/cgi-bin/emboss/water2.seq -gapopen 10
> -gapextend 5 -outfile
> /var/www/cgi-bin/emboss/water.out`;
In addition to what zentara said, I would suggest you close the FH_seq1 and
FH_seq2 handles before calling the external script. This will make sure any
buffered data is written to disk.
>
> Above I am using the system command to run the program
> "water" which should write the output into file
> "water.out", which is not writing anything to this
> file.
> I've given all permission to these files as:
>
> -rwxr-xr-x 1 soumya soumya 2978221 Jun 15 10:26
> blastall
> -rwxr-xr-x 1 soumya soumya 4912 Jun 13 08:25 water
> -rwxrwxrwx 1 apache apache 36 Jun 16 05:18
> water1.seq
> -rwxrwxrwx 1 apache apache 36 Jun 16 05:03
> water2.seq
> -rwxrwxrwx 1 soumya soumya 48 Jun 16 05:18
> water.out
>
> But if I use the first file in the directory i.e.
> blastall in the script as
> my $out = `./blastall`;
> print $out;
> I get the proper output.
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