#!/usr/local/bin/perl -w
use LWP::UserAgent;
use HTTP::Request::Common qw(POST);


print "Hello Everybody!\n";

open (PSTRINGS, "pstrings.txt") || die "Protein string file missing!"; 
@proteins=<PSTRINGS>;
close (PSTRINGS);


my $url = 'http://pbil.ibcp.fr/cgi-bin/secpred_consensus.pl';
my $ua = LWP::UserAgent->new();
my $req = HTTP::Request->new(POST => $url);

open (OUTPUT, ">output.htm");

foreach $protein (@proteins)
{
chomp($protein);
print "$protein\n";


$req->content_type('application/x-www-form-urlencoded');
$req->content("secpredmeth=SOPM&secpredmeth=HNN&secpredmeth=DPM&secpredmeth=DSC&secpredmeth=GOR4&secpredmeth=PHD&secpredmeth=PREDA&secpredmeth=SIMPA96&title=PerlScript+Protein&notice=$protein&ali_width=70&gor1const=1&gor1dch=40&gor1dce=35&gor1dct=0&gor1dcc=0&sopmstates=4&sopmthreshold=8&sopmwidth=17&sopmastates=4&sopmathreshold=8&sopmawidth=17");


my $res = $ua->request($req);
print OUTPUT $res->as_string ;
print "Secondary Structure Prediction Recorded\n"

}
#secpredmeth=MLRC&secpredmeth=DPM+CHECKED&secpredmeth=DSC+CHECKED&secpredmeth=GOR1&secpredmeth=GO#R3&secpredmeth=GOR4+CHECKED&secpredmeth=PHD+CHECKED&secpredmeth=PREDA+CHECKED&secpredmeth=SIMPA9#6+CHECKED