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From: <mro...@cs...> - 2006-10-20 13:16:12
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Hello GUS group, I need some help. I have been trying to use the ISF plugin in GUS, and to make a long story short, it appeared that we had a bad GUS 3.5 installed, so we re-installed, the SVN version of GUS 3.5. I am using postgres and the data that was there was erased. Now that I need to start new, I run the following: ga +meta --commit and got: Database version does not match required version for Plugin. Database Version: Plugin Version: 3.5 I have looked all over the place in gus...@li... for an answer but no luck. Your help will be very much appreciated Michael |
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From: Steve F. <sfi...@pc...> - 2006-10-20 13:55:42
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michael- the 3.5 ga looks in the new table Core.DatabaseVersion in the version column to find out what version of the schema you have. i don't know how that value is supposed to be set, but, you can set it manually to 3.5 steve mro...@cs... wrote: >Hello GUS group, > >I need some help. > >I have been trying to use the ISF plugin in GUS, and to make a long story >short, it appeared that we had a bad GUS 3.5 installed, so we >re-installed, the SVN version of GUS 3.5. > >I am using postgres and the data that was there was erased. Now that I >need to start new, I run the following: > > ga +meta --commit > >and got: > > Database version does not match required version for Plugin. > Database Version: Plugin Version: 3.5 > > >I have looked all over the place in gus...@li... >for an answer but no luck. > > >Your help will be very much appreciated > > >Michael > > > >------------------------------------------------------------------------- >Using Tomcat but need to do more? Need to support web services, security? >Get stuff done quickly with pre-integrated technology to make your job easier >Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo >http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 >_______________________________________________ >Gusdev-gusdev mailing list >Gus...@li... >https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > |
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From: <mro...@cs...> - 2006-10-20 17:44:13
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Steve, Thanks, it worked, but I got new problems, this is what I did: found at:http://genomics.upenn.edu/~dillo/research/theileria/gus-on-postgres-ho= wto.html At postgres: insert into core.databaseversion ( database_version_id, version, modification_date, user_read, user_write, group_read, group_write, other_read, other_write, row_user_id, row_group_id, row_project_id, row_alg_invocation_id ) values ( nextval('core.databaseversion_sq'), 3.5, now(), 1, 0, 1, 0, 1, 0, 1, 1, 1, 1 ); I checked the values in the core.databaseversion table and they are OK then: ga +meta --commit, and got NO ERRORS <Core::Algorithm> <description>GUS application framework for plugins</description> <name>GA-Plugin</name> <Core::AlgorithmImplementation> <executable_md5>f9522ed43f9da502107387a274948971</executable_md5> <executable>GUS::PluginMgr::GusApplication</executable> <cvs_revision>2974</cvs_revision> <Core::AlgorithmInvocation> <result>meta</result> <end_time>now()</end_time> <start_time>now()</start_time> <cpus_used>1</cpus_used> </Core::AlgorithmInvocation> </Core::AlgorithmImplementation> </Core::Algorithm> <Core::Algorithm> <description>GUS application framework for plugins</description> <name>GA-Plugin</name> <modification_date>now()</modification_date> <row_alg_invocation_id>1</row_alg_invocation_id> <row_project_id>1</row_project_id> <row_group_id>1</row_group_id> <row_user_id>1</row_user_id> <other_write>0</other_write> <other_read>1</other_read> <group_write>1</group_write> <group_read>1</group_read> <user_write>1</user_write> <Core::AlgorithmImplementation> <executable_md5>f9522ed43f9da502107387a274948971</executable_md5> <executable>GUS::PluginMgr::GusApplication</executable> <cvs_revision>2974</cvs_revision> <modification_date>now()</modification_date> <row_alg_invocation_id>1</row_alg_invocation_id> <row_project_id>1</row_project_id> <row_group_id>1</row_group_id> <row_user_id>1</row_user_id> <other_write>0</other_write> <other_read>1</other_read> <group_write>1</group_write> <group_read>1</group_read> <user_write>1</user_write> <Core::AlgorithmInvocation> <result>meta</result> <modification_date>now()</modification_date> <end_time>now()</end_time> <start_time>now()</start_time> <row_alg_invocation_id>1</row_alg_invocation_id> <row_project_id>1</row_project_id> <row_group_id>1</row_group_id> <row_user_id>1</row_user_id> <other_write>0</other_write> <other_read>1</other_read> <group_write>1</group_write> <group_read>1</group_read> <user_write>1</user_write> <user_read>1</user_read> <cpus_used>1</cpus_used> <algorithm_implementation_id>2</algorithm_implementation_id> <algorithm_invocation_id>2</algorithm_invocation_id> </Core::AlgorithmInvocation> <user_read>1</user_read> <algorithm_id>2</algorithm_id> <algorithm_implementation_id>2</algorithm_implementation_id> </Core::AlgorithmImplementation> <user_read>1</user_read> <algorithm_id>2</algorithm_id> </Core::Algorithm> I started registering the plugins UNFORTUNATELY I got only 2 correct and the next 5 with errors so I stopped to send this email, because maybe I need to follow some strict sequence??? ga +create GUS::Supported::Plugin::LoadTaxon --commit Fri Oct 20 13:06:59 2006 INFO Plugin GUS::Supported::Plugin::LoadTaxon registered with cvs revision '2943' ga +create GUS::Supported::Plugin::InsertExternalDatabase --commit Fri Oct 20 13:13:59 2006 INFO Plugin GUS::Supported::Plugin::InsertExternalDatabase registered with cvs revision '2942' ERRORS: =3D=3D=3D=3D=3D=3D=3D=3D ga +create GUS::Supported::Plugin::InsertSequenceFeatures.pm --commit Warning: Use of "require" without parens is ambiguous at (eval 8) line = 1. Bareword "pm" not allowed while "strict subs" in use at (eval 8) line 1= . Bareword "GUS::Supported::Plugin::InsertSequenceFeatures" not allowed while "strict subs" in use at (eval 8) line 1. =3D=3D=3D=3D=3D=3D=3D ga +create GUS::Supported::Plugin::LoadRow.pm --commit Warning: Use of "require" without parens is ambiguous at (eval 8) line = 1. Bareword "pm" not allowed while "strict subs" in use at (eval 8) line 1= . Bareword "GUS::Supported::Plugin::LoadRow" not allowed while "strict subs" in use at (eval 8) line 1. =3D=3D=3D=3D=3D=3D=3D In the meantime I will continue registering the other plugins Thanks Michael > michael- > > the 3.5 ga looks in the new table Core.DatabaseVersion in the version > column to find out what version of the schema you have. > > i don't know how that value is supposed to be set, but, you can set it > manually to 3.5 > > steve > > mro...@cs... wrote: > >>Hello GUS group, >> >>I need some help. >> >>I have been trying to use the ISF plugin in GUS, and to make a long sto= ry >>short, it appeared that we had a bad GUS 3.5 installed, so we >>re-installed, the SVN version of GUS 3.5. >> >>I am using postgres and the data that was there was erased. Now that I >>need to start new, I run the following: >> >> ga +meta --commit >> >>and got: >> >> Database version does not match required version for Plugin. >> Database Version: Plugin Version: 3.5 >> >> >>I have looked all over the place in gus...@li... >>for an answer but no luck. >> >> >>Your help will be very much appreciated >> >> >>Michael >> >> >> >>-----------------------------------------------------------------------= -- >>Using Tomcat but need to do more? Need to support web services, securit= y? >>Get stuff done quickly with pre-integrated technology to make your job >> easier >>Download IBM WebSphere Application Server v.1.0.1 based on Apache >> Geronimo >>http://sel.as-us.falkag.net/sel?cmd=3Dlnk&kid=3D120709&bid=3D263057&dat= =3D121642 >>_______________________________________________ >>Gusdev-gusdev mailing list >>Gus...@li... >>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >> >> > |
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From: Steve F. <sfi...@pc...> - 2006-10-20 18:16:47
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michael- in the ones that had problems, you made a small error. remove the '.pm' from your command line: no: ga +create GUS::Supported::Plugin::LoadRow.pm --commit yes: ga +create GUS::Supported::Plugin::LoadRow --commit by the way, i'm not sure you need to do this pre-registration step anymore in 3.5. i think the plugin auto-registers the first time you use it. steve mro...@cs... wrote: >Steve, > >Thanks, it worked, but I got new problems, this is what I did: > >found >at:http://genomics.upenn.edu/~dillo/research/theileria/gus-on-postgres-howto.html > >At postgres: > >insert into core.databaseversion ( > database_version_id, > version, > modification_date, > user_read, > user_write, > group_read, > group_write, > other_read, > other_write, > row_user_id, > row_group_id, > row_project_id, > row_alg_invocation_id > ) values ( > nextval('core.databaseversion_sq'), > 3.5, > now(), > 1, 0, 1, 0, 1, 0, > 1, 1, 1, 1 > ); > >I checked the values in the core.databaseversion table and they are OK > >then: ga +meta --commit, and got NO ERRORS > > <Core::Algorithm> > <description>GUS application framework for plugins</description> > <name>GA-Plugin</name> > <Core::AlgorithmImplementation> > <executable_md5>f9522ed43f9da502107387a274948971</executable_md5> > <executable>GUS::PluginMgr::GusApplication</executable> > <cvs_revision>2974</cvs_revision> > <Core::AlgorithmInvocation> > <result>meta</result> > <end_time>now()</end_time> > <start_time>now()</start_time> > <cpus_used>1</cpus_used> > </Core::AlgorithmInvocation> > </Core::AlgorithmImplementation> > </Core::Algorithm> > <Core::Algorithm> > <description>GUS application framework for plugins</description> > <name>GA-Plugin</name> > <modification_date>now()</modification_date> > <row_alg_invocation_id>1</row_alg_invocation_id> > <row_project_id>1</row_project_id> > <row_group_id>1</row_group_id> > <row_user_id>1</row_user_id> > <other_write>0</other_write> > <other_read>1</other_read> > <group_write>1</group_write> > <group_read>1</group_read> > <user_write>1</user_write> > <Core::AlgorithmImplementation> > <executable_md5>f9522ed43f9da502107387a274948971</executable_md5> > <executable>GUS::PluginMgr::GusApplication</executable> > <cvs_revision>2974</cvs_revision> > <modification_date>now()</modification_date> > <row_alg_invocation_id>1</row_alg_invocation_id> > <row_project_id>1</row_project_id> > <row_group_id>1</row_group_id> > <row_user_id>1</row_user_id> > <other_write>0</other_write> > <other_read>1</other_read> > <group_write>1</group_write> > <group_read>1</group_read> > <user_write>1</user_write> > <Core::AlgorithmInvocation> > <result>meta</result> > <modification_date>now()</modification_date> > <end_time>now()</end_time> > <start_time>now()</start_time> > <row_alg_invocation_id>1</row_alg_invocation_id> > <row_project_id>1</row_project_id> > <row_group_id>1</row_group_id> > <row_user_id>1</row_user_id> > <other_write>0</other_write> > <other_read>1</other_read> > <group_write>1</group_write> > <group_read>1</group_read> > <user_write>1</user_write> > <user_read>1</user_read> > <cpus_used>1</cpus_used> > <algorithm_implementation_id>2</algorithm_implementation_id> > <algorithm_invocation_id>2</algorithm_invocation_id> > </Core::AlgorithmInvocation> > <user_read>1</user_read> > <algorithm_id>2</algorithm_id> > <algorithm_implementation_id>2</algorithm_implementation_id> > </Core::AlgorithmImplementation> > <user_read>1</user_read> > <algorithm_id>2</algorithm_id> > </Core::Algorithm> > > >I started registering the plugins UNFORTUNATELY I got only 2 correct >and the next 5 with errors so I stopped to send this email, because maybe >I need to follow some strict sequence??? > > ga +create GUS::Supported::Plugin::LoadTaxon --commit > Fri Oct 20 13:06:59 2006 INFO Plugin > GUS::Supported::Plugin::LoadTaxon registered with cvs revision '2943' > > ga +create GUS::Supported::Plugin::InsertExternalDatabase --commit > Fri Oct 20 13:13:59 2006 INFO Plugin > GUS::Supported::Plugin::InsertExternalDatabase registered with cvs > revision '2942' > >ERRORS: > ======== > ga +create GUS::Supported::Plugin::InsertSequenceFeatures.pm --commit > Warning: Use of "require" without parens is ambiguous at (eval 8) line 1. > > Bareword "pm" not allowed while "strict subs" in use at (eval 8) line 1. > Bareword "GUS::Supported::Plugin::InsertSequenceFeatures" not allowed > while "strict subs" in use at (eval 8) line 1. > ======= > > ga +create GUS::Supported::Plugin::LoadRow.pm --commit > Warning: Use of "require" without parens is ambiguous at (eval 8) line 1. > > Bareword "pm" not allowed while "strict subs" in use at (eval 8) line 1. > Bareword "GUS::Supported::Plugin::LoadRow" not allowed while "strict > subs" in use at (eval 8) line 1. > ======= > >In the meantime I will continue registering the other plugins > >Thanks > >Michael > > > > >>michael- >> >>the 3.5 ga looks in the new table Core.DatabaseVersion in the version >>column to find out what version of the schema you have. >> >>i don't know how that value is supposed to be set, but, you can set it >>manually to 3.5 >> >>steve >> >>mro...@cs... wrote: >> >> >> >>>Hello GUS group, >>> >>>I need some help. >>> >>>I have been trying to use the ISF plugin in GUS, and to make a long story >>>short, it appeared that we had a bad GUS 3.5 installed, so we >>>re-installed, the SVN version of GUS 3.5. >>> >>>I am using postgres and the data that was there was erased. Now that I >>>need to start new, I run the following: >>> >>> ga +meta --commit >>> >>>and got: >>> >>> Database version does not match required version for Plugin. >>> Database Version: Plugin Version: 3.5 >>> >>> >>>I have looked all over the place in gus...@li... >>>for an answer but no luck. >>> >>> >>>Your help will be very much appreciated >>> >>> >>>Michael >>> >>> >>> >>>------------------------------------------------------------------------- >>>Using Tomcat but need to do more? Need to support web services, security? >>>Get stuff done quickly with pre-integrated technology to make your job >>>easier >>>Download IBM WebSphere Application Server v.1.0.1 based on Apache >>>Geronimo >>>http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 >>>_______________________________________________ >>>Gusdev-gusdev mailing list >>>Gus...@li... >>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>> >>> >>> >>> > > > >------------------------------------------------------------------------- >Using Tomcat but need to do more? Need to support web services, security? >Get stuff done quickly with pre-integrated technology to make your job easier >Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo >http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 >_______________________________________________ >Gusdev-gusdev mailing list >Gus...@li... >https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > |
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