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Revision 1.4 - (download) (annotate)
Mon Dec 5 19:12:12 2005 UTC (13 years, 11 months ago) by olson
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2014_0912, rast_rel_2008_06_18, myrast_rel40, rast_rel_2008_06_16, mgrast_dev_05262011, rast_rel_2008_12_18, mgrast_dev_04082011, rast_rel_2008_07_21, rast_rel_2010_0928, rast_2008_0924, mgrast_version_3_2, mgrast_dev_12152011, rast_rel_2008_04_23, mgrast_dev_06072011, rast_rel_2008_09_30, rast_rel_2009_0925, rast_rel_2010_0526, rast_rel_2014_0729, mgrast_dev_02212011, rast_rel_2010_1206, caBIG-05Apr06-00, mgrast_release_3_0, mgrast_dev_03252011, rast_rel_2010_0118, mgrast_rel_2008_0924, mgrast_rel_2008_1110_v2, rast_rel_2009_02_05, rast_rel_2011_0119, mgrast_rel_2008_0625, mgrast_release_3_0_4, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_1, mgrast_dev_03312011, mgrast_release_3_1_2, mgrast_release_3_1_1, mgrast_release_3_1_0, mgrast_dev_04132011, rast_rel_2008_10_09, mgrast_dev_04012011, rast_release_2008_09_29, mgrast_rel_2008_0806, mgrast_rel_2008_0923, mgrast_rel_2008_0919, rast_rel_2009_07_09, rast_rel_2010_0827, mgrast_rel_2008_1110, myrast_33, rast_rel_2011_0928, rast_rel_2008_09_29, mgrast_rel_2008_0917, rast_rel_2008_10_29, mgrast_dev_04052011, mgrast_dev_02222011, caBIG-13Feb06-00, rast_rel_2009_03_26, mgrast_dev_10262011, rast_rel_2008_11_24, rast_rel_2008_08_07, HEAD
Changes since 1.3: +17 -0 lines
add license words

#
# Copyright (c) 2003-2006 University of Chicago and Fellowship
# for Interpretations of Genomes. All Rights Reserved.
#
# This file is part of the SEED Toolkit.
# 
# The SEED Toolkit is free software. You can redistribute
# it and/or modify it under the terms of the SEED Toolkit
# Public License. 
#
# You should have received a copy of the SEED Toolkit Public License
# along with this program; if not write to the University of Chicago
# at info@ci.uchicago.edu or the Fellowship for Interpretation of
# Genomes at veronika@thefig.info or download a copy from
# http://www.theseed.org/LICENSE.TXT.
#

use FIG;
use CGI;
use Net::SMTP;
use File::Temp;
my $cgi = new CGI;

$ENV{PGPORT} = "10000";
$ENV{BLASTMAT} ="/disks/space0/fig/FIGdisk.Nov20/BLASTMAT";
$ENV{PATH}="/disks/space0/fig/FIGdisk.Nov20/env/linux-postgres/bin:/disks/space0/fig/FIGdisk.Nov20/FIG/bin:/disks/space0/fig/FIGdisk.Nov20/bin:/bin:/usr/bin:/usr/local/bin:/opt/bin:/usr/i386-pc-linux-gnu/gcc-bin/3.3.5:/opt/Acrobat5:/usr/X11R6/bin:/opt/blackdown-jdk-1.4.2.01/bin:/opt/blackdown-jdk-1.4.2.01/jre/bin:/usr/qt/3/bin:/usr/kde/3.3/bin:/usr/kde/3.2/bin:/home.old/yqi/prog/ncbi/build:/home.old/yqi/prj_scopmap/bin:/home.old/yqi/prj_scopmap/db/fasta:/home.old/yqi/prj_scopmap/prog/ncbi/data:/disks/space0/fig/FIGdisk.Nov20/BLASTMAT:$ENV{PATH}";

print "Content-type: text/html\r\n\r\n";
print "<HTML>\n";
print "<HEAD><TITLE>Structural Classification Tool!</TITLE></HEAD>\n";
print "<BODY>\n";
my @params = $cgi-> param();
if($cgi->param('seq') && $cgi->param('email')){
    my $seq = $cgi->param('seq');
    my $email = $cgi->param('email');
    my $subject = $cgi->param('subject');
    ($fh, $filename) = mkstemp("/disks/space0/fig/Tmp/tmpfileXXXXX");
    `chmod 777 $filename`;		

    #my $seq = "MKITVLGCGALGQLWLTALCKQGHEVQGWLRVPQPYCSVNLVETDGSIFNESLTANDPDFLATSDLLLVTLKAWQVSDAVKSLASTLPVTTPILLIHNGMGTIEELQNIQQPLLMGTTTHAARRDGNVIIHVANGITHIGPARQQDGDYSYLADILQTVLPDVAWHNNIRAELWRKLAVNCVINPLTAIWNCPNGELRHHPQEIMQICEEVAAVIEREGHHTSAEDLRDYVMQVIDATAENISSMLQDIRALRHTEIDYINGFLLRRARAHGIAVPENTRLFEMVKRKESEYERIGTGLPRPW";
    
    if (-e "1234_A.fa"){ system "rm 1234_A.fa";}
   
    $seq =~ s/\n//g;
    $seq =~ s/\s//g;	
   
    system "python /disks/space0/fig/Tmp/seq2pdb.py $seq $filename";
    system "perl /disks/space0/fig/Tmp/launcher.pl $filename $email $subject";
    print "The results will be sent to $email\n"; 	 
    

} else {
	print "<H2>SCOPmap Service</H2>\n";
        print "<H5><a href='http://www.biomedcentral.com/1471-2105/5/197'>research article on SCOPmap</a></H5>\n";
        print "<H5>special thanks to Yuan Qi, Sara Cheek and Nick Grishin for the SCOPmap program and their support</H5>\n";

	print "<FORM method='POST' action='scopmap_service.cgi'>
		    <h3>Enter email address:</h3>
		    <p><INPUT type='text' name='email'></p>
		    <h3>Enter sequence identifier (protein name, id, etc ...):</h3>	
		    <p><INPUT type='text' name='subject'></p>	
		    <h3>Enter protein sequence:</h3>
		    <p><TEXTAREA rows='20' cols='100' name='seq'> </TEXTAREA></p>
		    <p><INPUT type='submit' value='Launch SCOPmap'></p>
		    <h3>Reset this Form</h3>
		    <p><INPUT type='reset' value='Clear all my input now'></p>
		</FORM>\n";
}

print "</BODY>\n";
print "</HTML>\n";


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