Hello, could you post the general section of your config file please? Thanks.
Cyril Keith Anthony Boroevich a écrit : > Hi All, > > I did a non root local install of gbrowse in order to have multiple > separate instances of gbrowse. The yeast_chr1 works fine (except for > the concatenation of an initialized value warnings), but I cannot seem > to get my chado database to work. I already have a root installed > version of gbrowse on the machine that works fine, but I want to have > separate versions to allow for development and production separation. > The installation was done with Lincoln Steins modified makefile.pl (to > get around the non-root access to /usr/bin) and with the following > parameters: > > CONF /home/asalbase/dev/conf > HTDOCS /home/asalbase/dev/htdocs > HTDOCS_REL / > CGIBIN /home/asalbase/dev/cgi-bin > LIB /home/asalbase/dev/perl-lib > BIN /home/asalbase/dev/bin > DO_XS 1 > NONROOT 1 > SELINUX 1 > > Any help would be greatly appreciated. The error I am getting is the > following: > > ---------- ERROR ------------ > [...] DBD::Pg::st execute failed: ERROR: missing FROM-clause entry for > table "sub_f", referer: http://dev.asalbase.org/sal-bin/index > [...] , referer: http://dev.asalbase.org/sal-bin/index > [...] ------------- EXCEPTION: Bio::Root::Exception -------------, > referer: http://dev.asalbase.org/sal-bin/index > [...] MSG: feature query failed, referer: > http://dev.asalbase.org/sal-bin/index > [...] STACK: Error::throw, referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: Bio::Root::Root::throw > /usr/lib/perl5/site_perl/5.8.8/Bio/Root/Root.pm:359, referer: > http://dev.asalbase.org/sal-bin/index > [...] STACK: Bio::DB::Das::Chado::Segment::_features2level > /home/asalbase/dev/perl-lib/x86_64-linux-thread-multi/Bio/DB/Das/Chado/Segment.pm:1213, > > referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: Bio::DB::Das::Chado::Segment::features > /home/asalbase/dev/perl-lib/x86_64-linux-thread-multi/Bio/DB/Das/Chado/Segment.pm:737, > > referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: Bio::DB::Das::Chado::Segment::new > /home/asalbase/dev/perl-lib/x86_64-linux-thread-multi/Bio/DB/Das/Chado/Segment.pm:327, > > referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: Bio::DB::Das::Chado::segment > /home/asalbase/dev/perl-lib/x86_64-linux-thread-multi/Bio/DB/Das/Chado.pm:546, > > referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: Bio::Graphics::Browser::_feature_get > /home/asalbase/dev/perl-lib/x86_64-linux-thread-multi/Bio/Graphics/Browser.pm:2092, > > referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: Bio::Graphics::Browser::name2segments > /home/asalbase/dev/perl-lib/x86_64-linux-thread-multi/Bio/Graphics/Browser.pm:2032, > > referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: main::lookup_features_from_db > /home/asalbase/dev/cgi-bin/gbrowse:2004, referer: > http://dev.asalbase.org/sal-bin/index > [...] STACK: main::get_features /home/asalbase/dev/cgi-bin/gbrowse:1898, > referer: http://dev.asalbase.org/sal-bin/index > [...] STACK: /home/asalbase/dev/cgi-bin/gbrowse:218, referer: > http://dev.asalbase.org/sal-bin/index > [...] -----------------------------------------------------------, > referer: http://dev.asalbase.org/sal-bin/index > [...] Premature end of script headers: gbrowse, referer: > http://dev.asalbase.org/sal-bin/index > ----------- END ERROR ------------------ > > keith > > ------------------------------------------------------------------------- > This SF.net email is sponsored by: Microsoft > Defy all challenges. Microsoft(R) Visual Studio 2008. > http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/ > _______________________________________________ > Gmod-gbrowse mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse > -- _____________________________ Cyril Pommier Bioinformatic Engineer INRA - URGI 523 place des terrasses 91034 Evry cedex Tel.: 01-60-87-37-42 06-64-30-81-85 Fax.: 01-60-87-37-00 _____________________________ ------------------------------------------------------------------------- This SF.net email is sponsored by: Microsoft Defy all challenges. Microsoft(R) Visual Studio 2008. http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/ _______________________________________________ Gmod-gbrowse mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
