Menu
▾
▴
Re: [Gusdev-gusdev] "RE-GENERATE THE GUS OBJECTS"
|
From: Steve F. <st...@pc...> - 2004-06-10 21:34:41
|
Michael-
i think i have fixed the ga problem.
do this:
- get the latest from cvs.
- rm $GUS_HOME/lib/perl/GUS/ObjRelP/*.pm
- rm $GUS_HOME/lib/perl/GUS/Model/GusRow.pm
- build GUS install -append
steve
Michael Luchtan wrote:
>Dave-
>That seemed to do it. I had to create the core.workflonode view, and
>core.workflownodeimp, then insert them into tableinfo.
>So I have successfully done a
>build GUS install -append
>without any crashes.
>Still can't run the ga though. Steve said he was working on it. I
>don't think that there is anything that happens with the following
>command that alters the database, so I don't see how it would have reset
>the SEQ.
>
>Thanks,
>Michael Luchtan
>
>
>
>On Thu, 2004-06-10 at 15:22, Dave Barkan wrote:
>
>
>>I may have seen something similar to this a few months ago. Make sure
>>that the table "Core.WorkflowNode" is in your schema and in your
>>TableInfo (and Core.WorkflowNodeImp for that matter).
>>
>>Dave
>>
>>On Thu, 10 Jun 2004, Michael Luchtan wrote:
>>
>>
>>
>>>Steve-
>>>Not all of them, just three:
>>>[root@mkiwi install]# cd ../GUS/Model/src/java/org/gusdb/model/Core/
>>>[root@mkiwi Core]# ls WorkflowN*
>>>WorkflowNoOpNode.java WorkflowNoOpNode_Row.java
>>>WorkflowNoOpNode_Table.java
>>>
>>>Why is this? I guess that is why it is complaining about not finding
>>>the workflownode object. But these objects should be dynamically
>>>created, no? Am I missing something in my core.tableinfo or something?
>>>
>>>Thanks for the quick reply. I appreciate it.
>>>Michael Luchtan
>>>
>>>
>>>
>>>
>>>
>>>On Thu, 2004-06-10 at 15:09, Steve Fischer wrote:
>>>
>>>
>>>>about WorkflowNode: is the file in the following dir?
>>>>
>>>>[sfischer@pythia Core]$cd
>>>>$PROJECT_HOME/GUS/Model/src/java/org/gusdb/model/Core/
>>>>[sfischer@pythia Core]$ ls WorkflowN*
>>>>WorkflowNode.java WorkflowNode_Table.java WorkflowNoOpNode_Row.java
>>>>WorkflowNode_Row.java WorkflowNoOpNode.java WorkflowNoOpNode_Table.java
>>>>
>>>>about ga, i have reproduced the problem here, and will let you know as
>>>>soon as i have fixed it. it is probably a result of the new postgres
>>>>compatibility code.
>>>>
>>>>steve
>>>>
>>>>Michael Luchtan wrote:
>>>>
>>>>
>>>>
>>>>>So here is the current situation. I have the newest GUS, install, and
>>>>>CBIL available. When I attempt to build GUS by executing the following
>>>>>command:
>>>>>build GUS install -append
>>>>>Everything seems to go fine until we get the following error message:
>>>>> [exec] generating java object for DoTS::TranslatedAASequence
>>>>> [exec] generating java object for RAD3::SpotFamily
>>>>> [mkdir] Created dir:
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/hand_edited/App
>>>>> [copy] Copying 2 files to
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/DoTS
>>>>> [copy] Copying 1 file to
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/SRes
>>>>> [echo] Starting target: JavaModel
>>>>> [echo] .
>>>>> [echo] Installing GUS/Model
>>>>> [copy] Copying 1291 files to /var/local/gus_home/lib/perl/GUS/Model
>>>>> [mkdir] Created dir: /var/local/checkout/GUS/Model/classes
>>>>> [javac] Compiling 1086 source files to
>>>>>/var/local/checkout/GUS/Model/classes
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/WorkflowEdge_Row.java:119: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>setToWorkflowNode(org.gusdb.model.Core.WorkflowNode
>>>>>to_workflow_node_id){
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/WorkflowEdge_Row.java:123: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public org.gusdb.model.Core.WorkflowNode
>>>>>getToWorkflowNode(boolean retrieveFromDb)
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/WorkflowEdge_Row.java:129: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>setFromWorkflowNode(org.gusdb.model.Core.WorkflowNode
>>>>>from_workflow_node_id){
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/WorkflowEdge_Row.java:133: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public org.gusdb.model.Core.WorkflowNode
>>>>>getFromWorkflowNode(boolean retrieveFromDb)
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/Workflow_Row.java:175: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>addWorkflowNode(org.gusdb.model.Core.WorkflowNode workflownode){
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/GroupInfo_Row.java:3136: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>addWorkflowNode(org.gusdb.model.Core.WorkflowNode workflownode){
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/ProjectInfo_Row.java:2740: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>addWorkflowNode(org.gusdb.model.Core.WorkflowNode workflownode){
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/AlgorithmInvocation_Row.java:2306: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>addWorkflowNode_IAmA_algorithminvocation(org.gusdb.model.Core.WorkflowNode workflownode_iama_algorithminvocation){
>>>>>
>>>>>[javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/AlgorithmInvocation_Row.java:2702: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>addWorkflowNode_IAmA_rowalginvocation(org.gusdb.model.Core.WorkflowNode
>>>>>workflownode_iama_rowalginvocation){
>>>>>
>>>>>[javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/UserInfo_Row.java:1847: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] public void
>>>>>addWorkflowNode(org.gusdb.model.Core.WorkflowNode workflownode){
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/WorkflowEdge_Row.java:126: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] return
>>>>>(org.gusdb.model.Core.WorkflowNode)getParent("to_workflow_node_id",
>>>>>retrieveFromDb);
>>>>> [javac] ^
>>>>> [javac]
>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/Core/WorkflowEdge_Row.java:136: cannot resolve symbol
>>>>> [javac] symbol : class WorkflowNode
>>>>> [javac] location: package Core
>>>>> [javac] return
>>>>>(org.gusdb.model.Core.WorkflowNode)getParent("from_workflow_node_id",
>>>>>retrieveFromDb);
>>>>> [javac] ^
>>>>> [javac] 12 errors
>>>>>
>>>>>BUILD FAILED
>>>>>file:/var/local/checkout/install/build.xml:235: Compile failed; see the
>>>>>compiler error output for details.
>>>>>
>>>>>Total time: 14 minutes 11 seconds
>>>>>
>>>>>
>>>>>
>>>>>Who knows why this isn't working, but I think I know why ga and such is
>>>>>no longer working. When I attempt to run anything with ga, I get PK
>>>>>violations. I am under the impressions that ga (or perhaps somewhere
>>>>>else) has an internal counter to deal with things like primary keys like
>>>>>algorithm_implementation_id or algorithm_invocation_id when inserting
>>>>>new entries.
>>>>>Here is the error I get when trying to update ga for the new SubmitRow
>>>>>plugin:
>>>>>
>>>>>[root@mkiwi install]# ga +update GUS::Common::Plugin::SubmitRow
>>>>>DBD::Oracle::st execute failed: ORA-00001: unique constraint
>>>>>(CORE.PK_ALGORITHMIMPLEMENTATION) violated (DBD ERROR: OCIStmtExecute)
>>>>>at /var/local/gus_home/lib/perl/GUS/ObjRelP/DbiDbHandle.pm line 145.
>>>>>
>>>>>SQL ERROR!! involving
>>>>>
>>>>> INSERT INTO Core.AlgorithmImplementation ( description,
>>>>>row_user_id, user_write, group_write, executable_md5,
>>>>>algorithm_implementation_id, row_project_id, cvs_revision, group_read,
>>>>>row_group_id, cvs_tag, executable, other_read, modification_date,
>>>>>user_read, algorithm_id, row_alg_invocation_id, other_write )
>>>>> VALUES ( ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, SYSDATE, ?, ?, ?,
>>>>>? )
>>>>>Values: make consistent with GUS 3.0, 4, 1, 1,
>>>>>2e3da77408e21e4e9d7b57ec9b8d412d, 24, 2, 1.8, 1, 2, ,
>>>>>GUS::Common::Plugin::SubmitRow, 1, 1, 3, 1, 0 at
>>>>>/var/local/gus_home/lib/perl/GUS/ObjRelP/DbiDbHandle.pm line 185
>>>>>
>>>>>GUS::ObjRelP::DbiDbHandle::death('GUS::ObjRelP::DbiDbHandle=HASH(0x85f2b00)', '^J SQL ERROR!! involving^J ^J INSERT INTO Core.AlgorithmImplemen...') called at /var/local/gus_home/lib/perl/GUS/ObjRelP/DbiDbHandle.pm line 148
>>>>>
>>>>>GUS::ObjRelP::DbiDbHandle::sqlExec('GUS::ObjRelP::DbiDbHandle=HASH(0x85f2b00)', 'GUS::ObjRelP::DbiDbHandle::st=HASH(0x8773514)', 'ARRAY(0x877355c)', '^J INSERT INTO Core.AlgorithmImplementation ( description, ro...') called at /var/local/gus_home/lib/perl/GUS/ObjRelP/DbiRow.pm line 681
>>>>>
>>>>>GUS::ObjRelP::DbiRow::quote_and_insert('GUS::Model::Core::AlgorithmImplementation=HASH(0x8713d68)', 'HASH(0x81ef630)') called at /var/local/gus_home/lib/perl/GUS/ObjRelP/DbiRow.pm line 628
>>>>>
>>>>>GUS::ObjRelP::DbiRow::insert('GUS::Model::Core::AlgorithmImplementation=HASH(0x8713d68)') called at /var/local/gus_home/lib/perl/GUS/Model/GusRow.pm line 1677
>>>>>
>>>>>GUS::Model::GusRow::submit('GUS::Model::Core::AlgorithmImplementation=HASH(0x8713d68)', undef, 1) called at /var/local/gus_home/lib/perl/GUS/Model/GusRow.pm line 1764
>>>>>
>>>>>GUS::Model::GusRow::submitChildrenInClass('GUS::Model::Core::Algorithm=HASH(0x86f83e8)', 'GUS::Model::Core::AlgorithmImplementation') called at /var/local/gus_home/lib/perl/GUS/Model/GusRow.pm line 1745
>>>>>
>>>>>GUS::Model::GusRow::submitAllChildren('GUS::Model::Core::Algorithm=HASH(0x86f83e8)') called at /var/local/gus_home/lib/perl/GUS/Model/GusRow.pm line 1684
>>>>>
>>>>>GUS::Model::GusRow::submit('GUS::Model::Core::Algorithm=HASH(0x86f83e8)') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 812
>>>>>
>>>>>GUS::PluginMgr::GusApplication::create_or_update_implementation('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 1, 'GUS::Common::Plugin::SubmitRow') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 466
>>>>>
>>>>>GUS::PluginMgr::GusApplication::doMajorMode_Update('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 'GUS::Common::Plugin::SubmitRow') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 283
>>>>>
>>>>>GUS::PluginMgr::GusApplication::doMajorMode('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 'GUS::Common::Plugin::SubmitRow') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 192
>>>>>
>>>>>GUS::PluginMgr::GusApplication::parseAndRun('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 'ARRAY(0x8102dbc)') called at /var/local/gus_home/bin/ga line 11
>>>>>[root@mkiwi install]#
>>>>>
>>>>>
>>>>>How can I get these counters reset? Or is this the wrong direction for
>>>>>finding a solution to the problem?
>>>>>
>>>>>Thanks,
>>>>>Michael Luchtan
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>On Wed, 2004-06-09 at 17:00, Steve Fischer wrote:
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>>michael-
>>>>>>
>>>>>>it looks like you added a row to TableInfo for the
>>>>>>SResVer::MassSpecSummary. if so, delete it and build again.
>>>>>>
>>>>>>steve
>>>>>>
>>>>>>Michael Luchtan wrote:
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>>It has been a long time since a build took place here, and I was not
>>>>>>>really present for the installation of GUS. But in the checkouts
>>>>>>>directory I checked out GUS from Sanger. I executed the
>>>>>>>build GUS install -append
>>>>>>>and got the following errors:
>>>>>>> [exec] generating java object for SResVer::MassSpecSummary
>>>>>>> [exec] Error: Package Table Name '' is not in the form of
>>>>>>>org.gusdb.model.SCHEMA.NAME at /var/lo\
>>>>>>>cal/gus_home/lib/perl/GUS/ObjRelP/Generator/RowGenerator.pm line 91
>>>>>>> [exec]
>>>>>>>GUS::ObjRelP::Generator::RowGenerator::_cutPackageTableName('GUS::ObjRelP::Generator::\
>>>>>>>JavaRowGenerator=HASH(0x83955d0)', undef) called at
>>>>>>>/var/local/gus_home/lib/perl/GUS/ObjRelP/Generator\
>>>>>>>/JavaRowGenerator.pm line 410
>>>>>>> [exec]
>>>>>>>GUS::ObjRelP::Generator::JavaRowGenerator::_createParentAccessors('GUS::ObjRelP::Gener\
>>>>>>>ator::JavaRowGenerator=HASH(0x83955d0)', 'HASH(0x85d48ec)') called at
>>>>>>>/var/local/gus_home/lib/perl/GUS\
>>>>>>>/ObjRelP/Generator/JavaRowGenerator.pm line 127
>>>>>>> [exec]
>>>>>>>GUS::ObjRelP::Generator::JavaRowGenerator::_genAccessors('GUS::ObjRelP::Generator::Jav\
>>>>>>>aRowGenerator=HASH(0x83955d0)') called at
>>>>>>>/var/local/gus_home/lib/perl/GUS/ObjRelP/Generator/JavaRowGe\
>>>>>>>nerator.pm line 32
>>>>>>> [exec]
>>>>>>>GUS::ObjRelP::Generator::JavaRowGenerator::generate('GUS::ObjRelP::Generator::JavaRowG\
>>>>>>>enerator=HASH(0x83955d0)', undef) called at
>>>>>>>/var/local/gus_home/lib/perl/GUS/ObjRelP/Generator/Generat\
>>>>>>>or.pm line 109
>>>>>>> [exec]
>>>>>>>GUS::ObjRelP::Generator::Generator::generate('GUS::ObjRelP::Generator::Generator=HASH(\
>>>>>>>0x81073d4)', undef) called at /var/local/gus_home/bin/generateGusObjects
>>>>>>>line 67
>>>>>>>
>>>>>>>BUILD FAILED
>>>>>>>file:/var/local/checkout/GUS/build.xml:114: exec returned: -1
>>>>>>>
>>>>>>>
>>>>>>>According to the VBI install docs, it is necessary to edit the build.xml
>>>>>>>and take out the generateGusObjects executable statement first. But
>>>>>>>after this I get the following errors:
>>>>>>> [echo] Installing GUS/Model
>>>>>>> [javac] Compiling 5 source files to
>>>>>>>/var/local/checkout/GUS/Model/classes
>>>>>>> [javac]
>>>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/SResVer/MassSpecSummary_Table.java:\
>>>>>>>17: illegal start of expression
>>>>>>> [javac] tableAtts.put("", new GUSTableAttribute("", "",
>>>>>>>"java.lang.notdefyet", -1, , -1, f\
>>>>>>>alse, false) );
>>>>>>>
>>>>>>>[javac] ^
>>>>>>> [javac]
>>>>>>>/var/local/checkout/GUS/Model/src/java/org/gusdb/model/SResVer/MassSpecSummary_Table.java:\
>>>>>>>17: ')' expected
>>>>>>> [javac] tableAtts.put("", new GUSTableAttribute("", "",
>>>>>>>"java.lang.notdefyet", -1, , -1, f\
>>>>>>>alse, false) );
>>>>>>>
>>>>>>>[javac] \
>>>>>>> ^
>>>>>>> [javac] 2 errors
>>>>>>>
>>>>>>>BUILD FAILED
>>>>>>>file:/var/local/checkout/install/build.xml:227: Compile failed; see the
>>>>>>>compiler error output for deta\
>>>>>>>ils.
>>>>>>>
>>>>>>>
>>>>>>>Any help is appreciated....
>>>>>>>Michael Luchtan
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>On Wed, 2004-06-09 at 16:10, Steve Fischer wrote:
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>>michael-
>>>>>>>>
>>>>>>>>we have seen this. i think if you get the latest from cvs and then
>>>>>>>>rebuild the objects you will get around this problem.
>>>>>>>>
>>>>>>>>then, use submitrow to add rows to tableinfo for the mass spec tables
>>>>>>>>and rebuild all over again.
>>>>>>>>
>>>>>>>>steve
>>>>>>>>
>>>>>>>>Michael Luchtan wrote:
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>>Hello--
>>>>>>>>>Can you give me a heads up on why I cannot use the submitrow plugin any
>>>>>>>>>more, now that I have rebuild the perl object layer? Hope I didn't just
>>>>>>>>>screw myself...
>>>>>>>>>
>>>>>>>>>Here is the command/arguement:
>>>>>>>>>
>>>>>>>>>luchtan]# ga GUS::Common::Plugin::SubmitRow --tablename Core::UserInfo
>>>>>>>>>--attrlist
>>>>>>>>>"login,password,first_name,last_name,e_mail,modification_date"
>>>>>>>>>--valuelist
>>>>>>>>>"pablo^^^pablo123^^^pablo^^^mendes^^^pa...@pa...^^^SYSDATE"
>>>>>>>>>Reading properties from /var/local/gus_home/config/GUS-PluginMgr.prop
>>>>>>>>>Reading properties from /home/luchtan/.gus.properties
>>>>>>>>>DBD::Oracle::st execute failed: ORA-00001: unique constraint
>>>>>>>>>(CORE.PK_ALGORITHMINVOCATION) violated (DBD ERROR: OCIStmtExecute) at
>>>>>>>>>/var/local/gus_home/lib/perl/GUS/ObjRelP/DbiDbHandle.pm line 145.
>>>>>>>>>
>>>>>>>>>SQL ERROR!! involving
>>>>>>>>>
>>>>>>>>> INSERT INTO Core.AlgorithmInvocation ( end_time, row_user_id,
>>>>>>>>>user_write, group_write, cpu_time, algorithm_implementation_id,
>>>>>>>>>row_project_id, algorithm_invocation_id, comment_string, group_read,
>>>>>>>>>row_group_id, result, other_read, cpus_used, start_time,
>>>>>>>>>modification_date, user_read, row_alg_invocation_id, other_write,
>>>>>>>>>machine_id )
>>>>>>>>> VALUES ( SYSDATE, ?, ?, ?, ?, ?, ?, ?, '', ?, ?, ?, ?, ?,
>>>>>>>>>SYSDATE, SYSDATE, ?, ?, ?, ? )
>>>>>>>>>Values: 4, 1, 1, 0, 3, 2, 25, 1, 2, pending, 1, 1, 1, 1, 0, 0 at
>>>>>>>>>/var/local/gus_home/lib/perl/GUS/ObjRelP/DbiDbHandle.pm line 185
>>>>>>>>>
>>>>>>>>>GUS::ObjRelP::DbiDbHandle::death('GUS::ObjRelP::DbiDbHandle=HASH(0x855e940)', '^J SQL ERROR!! involving^J ^J INSERT INTO Core.AlgorithmInvocati...') called at /var/local/gus_home/lib/perl/GUS/ObjRelP/DbiDbHandle.pm line 148
>>>>>>>>>
>>>>>>>>>GUS::ObjRelP::DbiDbHandle::sqlExec('GUS::ObjRelP::DbiDbHandle=HASH(0x855e940)', 'GUS::ObjRelP::DbiDbHandle::st=HASH(0x873690c)', 'ARRAY(0x87377c4)', '^J INSERT INTO Core.AlgorithmInvocation ( end_time, row_user_...') called at /var/local/gus_home/lib/perl/GUS/ObjRelP/DbiRow.pm line 674
>>>>>>>>>
>>>>>>>>>GUS::ObjRelP::DbiRow::quote_and_insert('GUS::Model::Core::AlgorithmInvocation=HASH(0x86ae1ac)', 'HASH(0x86a9574)') called at /var/local/gus_home/lib/perl/GUS/ObjRelP/DbiRow.pm line 621
>>>>>>>>>
>>>>>>>>>GUS::ObjRelP::DbiRow::insert('GUS::Model::Core::AlgorithmInvocation=HASH(0x86ae1ac)') called at /var/local/gus_home/lib/perl/GUS/Model/GusRow.pm line 1677
>>>>>>>>>
>>>>>>>>>GUS::Model::GusRow::submit('GUS::Model::Core::AlgorithmInvocation=HASH(0x86ae1ac)') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 939
>>>>>>>>>
>>>>>>>>>GUS::PluginMgr::GusApplication::openInvocation('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 'GUS::Common::Plugin::SubmitRow=HASH(0x850872c)') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 425
>>>>>>>>>
>>>>>>>>>GUS::PluginMgr::GusApplication::doMajorMode_Run('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 'GUS::Common::Plugin::SubmitRow') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 283
>>>>>>>>>
>>>>>>>>>GUS::PluginMgr::GusApplication::doMajorMode('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 'GUS::Common::Plugin::SubmitRow') called at /var/local/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm line 192
>>>>>>>>>
>>>>>>>>>GUS::PluginMgr::GusApplication::parseAndRun('GUS::PluginMgr::GusApplication=HASH(0x80fbb4c)', 'ARRAY(0x8102dbc)') called at /var/local/gus_home/bin/ga line 11
>>>>>>>>>Issuing rollback() for database handle being DESTROY'd without explicit
>>>>>>>>>disconnect().
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>On Wed, 2004-06-09 at 14:52, Steve Fischer wrote:
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>>I have added instructions for this to the wiki. see if you can find it.
>>>>>>>>>>
>>>>>>>>>>steve
>>>>>>>>>>
>>>>>>>>>>Michael Luchtan wrote:
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>>Hello-
>>>>>>>>>>>We are attempting to load some mass spec data into gus. Well, the
>>>>>>>>>>>version of gus that we have did not contain two of the relevant tables:
>>>>>>>>>>>DoTS.MassSpecFeature and DoTS.MassSpecSummary
>>>>>>>>>>>I created the MassSpecFeature view on DoTS.aafeatureimp and the table
>>>>>>>>>>>dots.massspecsummary.
>>>>>>>>>>>Now we need to generate the GUS objects for the tables for use in
>>>>>>>>>>>plug-ins. All of the oerl modules in GUS/Model/* are generated
>>>>>>>>>>>automagically. It looks like I could just copy some files and change
>>>>>>>>>>>the names. But they all say something like this:
>>>>>>>>>>>
>>>>>>>>>>># THIS CLASS HAS BEEN AUTOMATICALLY GENERATED BY THE
>>>>>>>>>>>GUS::ObjRelP::Generator
>>>>>>>>>>># PACKAGE.
>>>>>>>>>>>#
>>>>>>>>>>># DO NOT EDIT!!
>>>>>>>>>>>
>>>>>>>>>>># TO ADD FUNCTIONALITY MANUALLY, COPY THIS FILE TO
>>>>>>>>>>>InteractionType.pm.man
>>>>>>>>>>># (or edit that file if it already exists) AND ADD THE FUNCTIONALITY
>>>>>>>>>>>THERE.
>>>>>>>>>>># THEN RE-GENERATE THE GUS OBJECTS.
>>>>>>>>>>>
>>>>>>>>>>>Any word on how to use the Generator? Any help is appreciated. It
>>>>>>>>>>>might go well in the Wiki-wiki!
>>>>>>>>>>>
>>>>>>>>>>>Michael Luchtan
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>-------------------------------------------------------
>>>>>>>>>>>This SF.Net email is sponsored by: GNOME Foundation
>>>>>>>>>>>Hackers Unite! GUADEC: The world's #1 Open Source Desktop Event.
>>>>>>>>>>>GNOME Users and Developers European Conference, 28-30th June in Norway
>>>>>>>>>>>http://2004/guadec.org
>>>>>>>>>>>_______________________________________________
>>>>>>>>>>>Gusdev-gusdev mailing list
>>>>>>>>>>>Gus...@li...
>>>>>>>>>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>-------------------------------------------------------
>>>>>>>>>>This SF.Net email is sponsored by: GNOME Foundation
>>>>>>>>>>Hackers Unite! GUADEC: The world's #1 Open Source Desktop Event.
>>>>>>>>>>GNOME Users and Developers European Conference, 28-30th June in Norway
>>>>>>>>>>http://2004/guadec.org
>>>>>>>>>>_______________________________________________
>>>>>>>>>>Gusdev-gusdev mailing list
>>>>>>>>>>Gus...@li...
>>>>>>>>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>-------------------------------------------------------
>>>>>>>>>This SF.Net email is sponsored by: GNOME Foundation
>>>>>>>>>Hackers Unite! GUADEC: The world's #1 Open Source Desktop Event.
>>>>>>>>>GNOME Users and Developers European Conference, 28-30th June in Norway
>>>>>>>>>http://2004/guadec.org
>>>>>>>>>_______________________________________________
>>>>>>>>>Gusdev-gusdev mailing list
>>>>>>>>>Gus...@li...
>>>>>>>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>
>>>>-------------------------------------------------------
>>>>This SF.Net email is sponsored by the new InstallShield X.
>>>>From Windows to Linux, servers to mobile, InstallShield X is the
>>>>one installation-authoring solution that does it all. Learn more and
>>>>evaluate today! http://www.installshield.com/Dev2Dev/0504
>>>>_______________________________________________
>>>>Gusdev-gusdev mailing list
>>>>Gus...@li...
>>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>>
>>>>
>>>
>>>-------------------------------------------------------
>>>This SF.Net email is sponsored by the new InstallShield X.
>>>>From Windows to Linux, servers to mobile, InstallShield X is the
>>>one installation-authoring solution that does it all. Learn more and
>>>evaluate today! http://www.installshield.com/Dev2Dev/0504
>>>_______________________________________________
>>>Gusdev-gusdev mailing list
>>>Gus...@li...
>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>
>>>
>>>
>>
>>-------------------------------------------------------
>>This SF.Net email is sponsored by the new InstallShield X.
>>From Windows to Linux, servers to mobile, InstallShield X is the
>>one installation-authoring solution that does it all. Learn more and
>>evaluate today! http://www.installshield.com/Dev2Dev/0504
>>_______________________________________________
>>Gusdev-gusdev mailing list
>>Gus...@li...
>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>
>>
>
>
>
>-------------------------------------------------------
>This SF.Net email is sponsored by the new InstallShield X.
>>From Windows to Linux, servers to mobile, InstallShield X is the
>one installation-authoring solution that does it all. Learn more and
>evaluate today! http://www.installshield.com/Dev2Dev/0504
>_______________________________________________
>Gusdev-gusdev mailing list
>Gus...@li...
>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>
>
|
