Dear Biomart,
I have successfully installed Biomart on my local machine and created
Marts which I am very happy with. However, when I try and port my work
to a different server, I can't get Biomart to work at all.
I have copied across my registry file and ensured that my httpd.conf
file is good after running the configure/pl script, but all I am able to
view is the Biomart starting page. Clicking on "Start MartView Session"
creates a 500 Internal Server error message. I include as an attachment
the relevant error message from the apache error log. Can anybody tell
me what I am doing wrong? (Naturally, I will supply any other resources
to help solve this problem)
Many thanks
Mike Wicks
ERROR: caught BioMart::Exception::Template: Error in processing template
main.tt: file error - cache failed to write main.ttc: Error in tempfile() using
/export/system0/biomart-perl/conf/templates/default/XXXXXXXXXX: Parent
directory (/export/system0/biomart-perl/conf/templates/default/) is not writable
at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/Template/Document.pm
line 295
Stacktrace:
Exception::Class::Base::throw
/export/system0/biomart-perl/lib/BioMart/Web.pm:257
BioMart::Web::process_template
/export/system0/biomart-perl/lib/BioMart/Web.pm:2302
BioMart::Web::handle_request /export/system0/biomart-perl/cgi-bin/martview:73
(eval) /export/system0/biomart-perl/cgi-bin/martview:72
ModPerl::ROOT::ModPerl::Registry::export_system0_biomart_2dperl_cgi_2dbin_martview::handler
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm:203
(eval)
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm:203
ModPerl::RegistryCooker::run
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm:169
ModPerl::RegistryCooker::default_handler
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/Registry.pm:30
ModPerl::Registry::handler -e:0
(eval) -e:0
Use of uninitialized value in concatenation (.) or string at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/Template/Provider.pm
line 565.
compiled template : Can't locate
//export/system0/biomart-perl/conf/templates/default/error.ttc in @INC (@INC
contains: /export/system0/biomart-perl/lib
/usr/lib/perl5/5.8.8/x86_64-linux-thread-multi /usr/lib/perl5/5.8.8
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi
/usr/lib/perl5/site_perl/5.8.8 /usr/lib/perl5/site_perl
/usr/lib/perl5/vendor_perl/5.8.8/x86_64-linux-thread-multi
/usr/lib/perl5/vendor_perl/5.8.8 /usr/lib/perl5/vendor_perl . /opt/apache) at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/Template/Provider.pm
line 564.
[Thu Dec 13 13:43:23 2007] [error] Error in processing template error.tt: file
error - cache failed to write error.ttc: Error in tempfile() using
/export/system0/biomart-perl/conf/templates/default/XXXXXXXXXX: Parent
directory (/export/system0/biomart-perl/conf/templates/default/) is not
writable\n at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/Template/Document.pm
line 295\n\n\nTrace begun at /export/system0/biomart-perl/lib/BioMart/Web.pm
line 257\nBioMart::Web::process_template('BioMart::Web=HASH(0x2ddb170)',
'error.tt', 'HASH(0x35e9a70)') called at
/export/system0/biomart-perl/cgi-bin/martview line
99\nModPerl::ROOT::ModPerl::Registry::export_system0_biomart_2dperl_cgi_2dbin_martview::handler('Apache2::RequestRec=SCALAR(0x35c1410)')
called at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm
line 203\neval {...} at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm
line 203\nModPerl::RegistryCooker::run('ModPerl::Registry=HASH(0x35c1500)')
called at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm
line
169\nModPerl::RegistryCooker::default_handler('ModPerl::Registry=HASH(0x35c1500)')
called at
/usr/lib/perl5/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/Registry.pm
line 30\nModPerl::Registry::handler('ModPerl::Registry',
'Apache2::RequestRec=SCALAR(0x35c1410)') called at -e line 0\neval {...} at -e
line 0\n
