Summary Period: 2004-09-29 to 2006-10-25
[root]/Agmial2/ca_manager/src/cam/lifecycle
Total Lines Of Code:
133 (2006-12-21 16:51)
Author | Changes | Lines of Code | Lines per Change |
---|---|---|---|
Totals | 14 (100.0%) | 187 (100.0%) | 13.3 |
rbossy | 1 (7.1%) | 120 (64.2%) | 120.0 |
vloux | 13 (92.9%) | 67 (35.8%) | 5.1 |
Merge CedricSoubrie branch and HEAD
2 lines of code changed in:
ConnectionPool :
- clean destroy
ActionsQueues/Motivations :
- sleepTime passed in constructor
ProteinDB/DAOs :
- statements not released properly causing locks
7 lines of code changed in:
BugFix
CAM :
contigDB
Gestion DataSource
Prepa release 20060317
4 lines of code changed in:
BugFixes
Removed generated web.xml from repository
14 lines of code changed in:
PAM Summer cleaning
DBPooling with apache dbpc and jni.
PAM refactoring :
moving all select/update/insert statement into proteindb package :
reader/HomologyAlignPanel.java OK(1)(2)
reader/HomologyImagePanel.java OK(1)(2)
reader/HomologyPanel.java OK(1)(2)
reader/ProteinPanel.java OK (1),(2)
reader/QueryDataSets.java OK(1)
reader/QueryProteins.java OK(1)
reader/QueryProteinSources.java OK(1)
reader/SearchDataSets.java OK
reader/SearchProteinSources.javaOK
reader/SearchResults.java TODO (Need to reorganize the search ->
will be done at that moment)
admin/MonitorProteinRefTasks.java OK(1),(3)
admin/MonitorProteinTasks.java OK(1)
admin/MonitorTasks.java OK(1)
admin/RetireProteins.java OK(1)
admin/ShowAddProteins.java OK
admin/ShowRetireProteins.java OK
control/AfterActionMotivation.java OK
control/DetermineFunctionAction.java OK(1)
control/HomologyResultsMotivation.java OK(1)
control/NotifyFunctionMotivation.java OK
control/ParalogResultsMotivation.java DELETED
control/ProteinActionMotivation.java OK
control/ProteinActionQueue.java OK
control/ProteinRefActionQueue.java OK
control/SwissAnnotAction.java OK
(1)new methods in ProteinDB
(2) new DTO classes
(3) new classes in proteinDB
2 lines of code changed in:
CAM Summer Cleaning !
+ Database Pooling with apache dbcp (Database Connection Pools <http://jakarta.apache.org/commons/dbcp/>) served via jni to the servlet. Added a context.xmlfile with all the parameters for the connection.
+ Users and Roles are no longer stored in an xml file. Management via a dedicated database, served via jni to the servlets.
CAM refactoring :
moving all select/update/insert statement into contigdb package :
admin/ContigStoreAdminImpl.java OK (2)
admin/MonitorBatchTasks.java OK (1)(2)
admin/MonitorContigTasks.java OK (2)
admin/MonitorFeatureTasks.java OK (2)
admin/MonitorProjectTasks.java OK (2)
admin/MonitorTasks.java OK (2)
admin/ShowAddBatch.java OK (2)
admin/ShowAdminBatches.java OK (2)
admin/ShowUpdateContig.java OK (2)
admin/ShowUpdateProfile.java OK (2)
control/BatchActionMotivation.java OK(2)
control/BatchActionQueue.java OK(2)
control/BatchCalcAction.java OK(2)
control/ContigActionMotivation.java OK(2)
control/ContigActionQueue.java OK(2)
control/FeatureActionQueue.java OK(2)(3)
control/ProjectActionQueue.java OK(2)
control/ProjectMotivation.java OK(2)
control/QueryFeatureMotivation.java OK(2)
reader/ContigStoreQueryImpl.java OK
reader/EditFeature.java OK(2)
reader/MugenPanel.java TODO
reader/ProfileStoreQueryImpl.java OK(2)
(1) CAMActionList creation
(2) new methods in ContigDB
(3) CAMFeature creation
New policy for database accession :
All db accession is made via classes from the contigdb package.
For each object , two classes : CAMObject is the POJO
object.CAMOjectSchema is the Data Transfer Object and make the link
between the database and the POJO.
The CAMObjectSchema has at least two methods : add(CAMObjectSchema)
and update CAMObjectSchema();
ContigDB provide methods to interact with the object, mainly
getters/setters that call the corresponding methods in CAMObjectSchema.
--> reader/MugenPanel.java TODO
2 lines of code changed in:
Nettoyage du code : imports, methodes deprecated ...
6 lines of code changed in:
Modifs sur en tete GPL
Correction du build.xml
Bugfix contextlistener.java
Ajout lien vers MuGenPanel dans ProteinPanel
1 lines of code changed in:
Preambule GPL
19 lines of code changed in:
Static endpoint
4 lines of code changed in:
Cassage de pipe (4)
Build.xml OK pour ca_manger et pa_manager.
Propage l'info conteue dans project_properties.
Fin (?) ajustements jwsdp1.5
Plus de startup_agmial/shutdown_agmial car nous deployons la webapp. A la place deploy-agmial/undeploy_agmial. La webapp est deployee -> il suffit de demarrer tomcat pour qu'elle soit dispo ...
2 lines of code changed in:
Export sequin
1 lines of code changed in:
Improvements of the way contig region are retrieved (No mor java.lang.OutOfMemeory Errors).
3 lines of code changed in:
Initial revision
120 lines of code changed in:
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