Hi Patricia, please try installing the following perl module:
Template-Plugin-Number-Format and see if that helps. Best Syed On 03/06/2010 16:51, Lavigne, Patricia wrote:
Hi, I have 1 question about the installation of BioMart. I follow the instructions http://www.biomart.org/install-overview.html (not for the chapter "Apache and ModPerl quick setup"). When I'm starting MartView, I have the following page. But I don't understand the problem. #################################### in the browser (Firefox) ERROR: caught BioMart::Exception::Template: Error in processing template main.tt: plugin error - Number.Format: plugin not found If you repeatedly get directed to this error page, there may be a problem with your current session parameters. To clear your session and start with a clean slate, please click the New button below. Stacktrace: Exception::Class::Base::throw /home/plavigne/src/BioMart/biomart-perl/lib/BioMart/Web.pm:267 BioMart::Web::process_template /home/plavigne/src/BioMart/biomart-perl/lib/BioMart/Web.pm:2577 BioMart::Web::handle_request /home/plavigne/src/BioMart/biomart-perl/cgi-bin/martview:102 (eval) /home/plavigne/src/BioMart/biomart-perl/cgi-bin/martview:101 ModPerl::ROOT::ModPerl::Registry::home_plavigne_src_BioMart_biomart_2dperl_cgi_2dbin_martview::handler /usr/lib/perl5/ModPerl/RegistryCooker.pm:204 (eval) /usr/lib/perl5/ModPerl/RegistryCooker.pm:204 ModPerl::RegistryCooker::run /usr/lib/perl5/ModPerl/RegistryCooker.pm:170 ModPerl::RegistryCooker::default_handler /usr/lib/perl5/ModPerl/Registry.pm:31 ModPerl::Registry::handler -e:0 (eval) -e:0 #################################### I have : - Ubuntu 9.10 (with VMware Player on Windows XP) - Apache/2.2.12 (Ubuntu) - Perl 5, version 12, subversion 1 (v5.12.1) built for i686-linux - ModPerl 2.0.4 (installed with Synaptic, files mod_perl.so and mod_deflate.so are in /usr/lib/apache2/modules/) - Number::Format is up to date (1.73). Below, there is the message on the console for the command (with the response "n") : perl bin/configure.pl -r conf/registryURLPointer.xml #################################### in the console Do you want to install in API only mode [y/n] [n]: Checking prerequisites ...[Looks good] APACHE: /usr/sbin/apache2 HOST: localhost PORT: 9002 PROXY: LOCATION: biomart APXS/2: /usr/bin/apxs2 You can change the above configuration by editing "biomart-perl/conf/settings.conf" Got usable Apache in /usr/sbin/apache2, probing for version& ModPerl configuration Have Apache DSO-support and ModPerl library file present, configuring ModPerl in httpd.conf. Have auxiliary Perl libdirs in $PERL5LIB, adding to @INC Libdir /home/plavigne/src/BioMart/biomart-perl/lib is not in @INC, adding to @INC Cached Registry Unavailable... Running Complete Clean... Connection parameters of [MSD PROTOTYPE (EBI UK)] [ OK ] mkdir /home/plavigne/src/BioMart/biomart-perl/conf/Cached mkdir /home/plavigne/src/BioMart/biomart-perl/conf/Cached/default mkdir /home/plavigne/src/BioMart/biomart-perl/conf/Cached/default/confTrees mkdir /home/plavigne/src/BioMart/biomart-perl/conf/Cached/default/_portables mkdir /home/plavigne/src/BioMart/biomart-perl/conf/Cached/default/XML [NEW CONFIGURATION] .... WITH MEMORY [default] default ... MSD PROTOTYPE (EBI UK) ... 001/001 ... msd ....................................... (WEB) www.biomart.org:80 ............ -> upgrading to 0.6/0.7 ... Use of uninitialized value in lc at /home/plavigne/src/BioMart/biomart-perl/bin/../lib/BioMart/Configurator.pm line 460. Use of uninitialized value in lc at /home/plavigne/src/BioMart/biomart-perl/bin/../lib/BioMart/Configurator.pm line 460. OK Setting possible links between datasets ....(scanning) 100% ....(linking) 100% ....(sorting) 100% ....(clustering) 1/1 - 0 remain ....(resolving) 100% Building templates for visible datasets .... 100% Compiling templates for visible datasets [1/1] Attribute Panel of Dataset.. :msd [1/1] Filter Panel of Dataset..... :msd #################################### Thank you for your help. Have a good day. Patricia. ........................................................................................ Patricia LAVIGNE Biologiste bioinformaticienne / Biologist bioinformatician Ressources naturelles Canada, Service canadien des forêts, Centre de foresterie des Laurentides / Natural Resources Canada, Canadian Forest Service, Laurentian Forestry Centre 1055 rue du P.E.P.S., C.P. 10380 succ. Sainte-Foy, Québec (Québec), Canada G1V 4C7 Téléphone : (418) 648-4947 Télécopieur : (418) 648-5849 ........................................................................................
