[DAS] Ensembl + LDAS incompatibility?

jfreeman jfreeman@variagenics.com
Fri, 01 Mar 2002 18:45:55 -0500


To whom it may concern,

I have an LDAS server running some test annotations outside my firewall
and I was having a difficult time my test annotations it shown using:

http://www.ensembl.org/perl/contigview?clone=Z96810

I assumed that all the errors are on my side and have been debugging,
but given bug's persistence I added the following code to my LDAS server
cgi-bin/das script to check on some things:

my ($junk,$dsn,$operation) = split '/',path_info();
my %tmp_param;
my @tmp_params;
$DSN = $dsn;
$CFG = $CONFIG->{$dsn};
open(TMP,">"."/tmp/$$.das.$$");
print TMP "$$\n";
%tmp_param = CGI::Vars();
@tmp_params = param();
print TMP "$$\tparams:@tmp_params\n";
@tmp_params=path_info();
print TMP "$$\tpath_info:@tmp_params\n";
foreach $junk (keys %tmp_param) {
    print TMP "$$\t$junk\t$tmp_param{$junk}\n";
} # foreach
close(TMP);

This is the output 
(using: 
http://www.ensembl.org/perl/contigview?clone=Z96810
as the input)
31067   params:segment
31067   path_info:/testing2/features
31067   segment
X:108565935,108665935AL034411Z96810AL034411.6.1.99271Z96810.1.1.99682

Is that a well formed argument to the features command?

This would appear on a GET script to be:

http://www.not-real-server.com/cgi-bin/das/testing2/features?segment=X:108565935,108665935AL034411Z96810AL034411.6.1.99271Z96810.1.1.99682

And do I have to store my segment information in LDAS with keys like
X:108565935,108665935AL034411Z96810AL034411.6.1.99271Z96810.1.1.99682
for it to show up in Ensembl's contigview?

Thanks for your time and advice,

Jim Freeman