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The PomBase community curation tool
https://curation.pombase.org
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curation session giving dodgy error #743

Closed pombase-admin closed 9 years ago

pombase-admin commented 10 years ago

http://curation.pombase.org/pombe/view/object/pub/10403?model=track

Original comment by: ValWood

pombase-admin commented 10 years ago

I see this when I go to the session

DBIx::Class::Storage::DBI::dbh(): DBI Connection failed: DBI connect('dbname=pombase-chado-v43-2014-06-06;host=oliver0','kmr44',...) failed: could not connect to server: Connection refused Is the server running on host "oliver0" and accepting TCP/IP connections on port 5432? at /usr/share/perl5/DBIx/Class/Storage/DBI.pm line 1176 Stack: [/usr/share/perl/5.10/Carp.pm:44] [/usr/local/lib/perl/5.10.1/DBI.pm:672] [/usr/local/lib/perl/5.10.1/DBI.pm:728] [/usr/share/perl5/DBIx/Class/Storage/DBI.pm:1176] [/usr/share/perl5/DBIx/Class/Storage/DBI.pm:981] [/usr/share/perl5/DBIx/Class/Storage/DBI.pm:934] [lib/Canto/DB.pm:129] [lib/Canto/DB.pm:82] [lib/Canto/Chado/ChadoLookup.pm:58] [reader Canto::Chado::GeneLookup::schema (defined at lib/Canto/Chado/ChadoLookup.pm line 48):7] [lib/Canto/Role/ChadoLikeGeneLookup.pm:198] [lib/Canto/Role/GeneLookupCache.pm:73] [/usr/local/lib/perl/5.10.1/Class/MOP/Method/Wrapped.pm:162] [/usr/local/lib/perl/5.10.1/Class/MOP/Method/Wrapped.pm:91] [lib/Canto/Curs/GeneProxy.pm:90] [reader Canto::Curs::GeneProxy::gene_data (defined at lib/Canto/Curs/GeneProxy.pm line 61):7] [lib/Canto/Curs/GeneProxy.pm:117] [reader Canto::Curs::GeneProxy::primary_name (defined at lib/Canto/Curs/GeneProxy.pm line 54):7] [/var/pomcur/apps/pombe/root/curs/gene_list.mhtml:88] [/var/pomcur/apps/pombe/root/curs/front.mhtml:15] [/var/pomcur/apps/pombe/root/curs/autohandler:20] [/var/pomcur/apps/pombe/root/curs/page_template.mhtml:35] Stack: [/usr/share/perl5/Carp/Clan.pm:225] [/usr/share/perl5/DBIx/Class/Exception.pm:59] [/usr/local/share/perl/5.10.1/Try/Tiny.pm:76] [/usr/share/perl5/DBIx/Class/Exception.pm:58] [/usr/share/perl5/DBIx/Class/Schema.pm:1037] [/usr/share/perl5/DBIx/Class/Storage.pm:125] [/usr/share/perl5/DBIx/Class/Storage/DBI.pm:1207] [/usr/share/perl5/DBIx/Class/Storage/DBI.pm:981] [/usr/share/perl5/DBIx/Class/Storage/DBI.pm:934] [lib/Canto/DB.pm:129] [lib/Canto/DB.pm:82] [lib/Canto/Chado/ChadoLookup.pm:58] [reader Canto::Chado::GeneLookup::schema (defined at lib/Canto/Chado/ChadoLookup.pm line 48):7] [lib/Canto/Role/ChadoLikeGeneLookup.pm:198] [lib/Canto/Role/GeneLookupCache.pm:73] [/usr/local/lib/perl/5.10.1/Class/MOP/Method/Wrapped.pm:162] [/usr/local/lib/perl/5.10.1/Class/MOP/Method/Wrapped.pm:91] [lib/Canto/Curs/GeneProxy.pm:90] [reader Canto::Curs::GeneProxy::gene_data (defined at lib/Canto/Curs/GeneProxy.pm line 61):7] [lib/Canto/Curs/GeneProxy.pm:117] [reader Canto::Curs::GeneProxy::primary_name (defined at lib/Canto/Curs/GeneProxy.pm line 54):7] [/var/pomcur/apps/pombe/root/curs/gene_list.mhtml:88] [/var/pomcur/apps/pombe/root/curs/front.mhtml:15] [/var/pomcur/apps/pombe/root/curs/autohandler:20] [/var/pomcur/apps/pombe/root/curs/page_template.mhtml:35]

Original comment by: ValWood

pombase-admin commented 10 years ago

Original comment by: kimrutherford

pombase-admin commented 10 years ago

Sorry! It's fixed now. I thought it would be good to update the operating system with the latest fixes. It went slightly wrong and the Chado database was briefly offline.

Original comment by: kimrutherford