= Documentation of GRITS toolbox =

== General Instructions ==
* [wiki:PluginOverview Overview of GRITS plugins]
* [wiki:GritsLogging Logging in GRITS]
* [wiki:PreferenceUpdateForUI Updating UI after Preference changes]
* [wiki:ProjectLoadBehavior Behavior while loading projects in workspace]
* [wiki:Grits_IconsDocumentation Grits Icons]


== E4 Migration ==
=== Fixes for running 3.x plugins ===
* [wiki:Grits_Ids_3_x_to_E4 Change in Ids from 3.x plugin to e4 plugin]
* [wiki:Grits_Classes_3_x_to_E4 Change in available classes and methods from core plugin]

=== Plugins migrating to e4 ===
* [wiki:Grits_InjectedObjects#ServicesProvidedbyGrits Services Provided by GRITS]
* [wiki:Grits_InjectedObjects#InjectedObjectsandRuntimeConstantsfromGrits Injected Objects and Runtime Constants from GRITS]
* [wiki:Grits_PartDescriptorForEntry Part Descriptors for Entry]
* [wiki:Grits_EventBusTopics List of UI Event Topics In Grits]
* [wiki:Grits_PreferenceInE4 Grits Preference Handling In E4]
 * [wiki:Grits_ProjectPreferenceStore Preference Store for Project]
* [wiki:Migration_of_ExperimentDesigner Experiment Designer plugin migration experience]
* [wiki:Migration_of_MSPlugins Mass Spec plugins migration experience]

== Migration to use latest Nebula NatTable (v.1.4.0) ==
=== Fixes for existing plugins ===
* [wiki:NatTable0_9_to_1_4 Changes in existing classes and methods]

== Plugins ==
==== __GRITS core plugin__ ====
* [wiki:GritsEntryProperty Entry and property object model]
* [wiki:VersioningGritsEntryProperty Versioning the Property object and XML element]
* [wiki:VersioningGritsPreference Versioning the Preference in GRITS]
* [wiki:ProjectFileHandler Handling Project in Workspace- API provided by ProjectFileHandler class]

===== ProjectEntryEditor =====
* [wiki:ProjectEditorPreference Project Editor Preference]
* [wiki:AddingCDateTimeWidget Adding nebula's CDateTime widget for date picker] (~~[wiki:CalendarComboPlugin CalendarCombo widget]~~)

==== __Sample Plugin__ ====

* [wiki:GritsTutorial_OntologyGritsSampleEditor Ontologies for Sample Editor]
* [wiki:GritsTutorial_ObjectModelGritsSampleEditor Object Model in Sample Plugin]
* [wiki:GritsTutorial_UpdateNamespaces Updating Namespace Files]

==== __Experiment Designer Plugin__ ====
* [wiki:ExperimentDesignerDataStorage Data Storage for Experiment Designer]
* [wiki:ExperimentDesignerProtocolVariants Predeployment of Protocol Variants in Experiment Designer]
* [wiki:MSIsomericRatios Input of ratios for isomeric structures]

==== __qRT-PCR Data Plugin__ ====
* [wiki:qrtPCRDataPlugin qRT-PCR Data Plugin]

==== __Glycan Tree Plugin__ ====
* [wiki:glycanCentricView GlycanCentric View Plugin]
* [wiki:GlycanTreeRequirement Glycan Tree Plugin]

==== ~~__Glycovault Manager__~~ ====
* [wiki:GritsGlycovaultManager Glycovault Manager]

==== Glycan Array Plugin ====
* [wiki:GlycanArrayPlugin Glycan Array Plugin]

==== __Service Lab Plugin__ ====
* [wiki:Service_Lab_Plugin Service Lab Documentation]
* [wiki:Service_Lab_Ontology_generation Service Lab : Ontology File  ]

==== __Mass Spec Plugin__ ====
* [wiki:Mass_Spec_Plugin MS Plugin]

==== __MS Glycan Annotation Plugin__ ====
* [wiki:MS_Glycan_Plugin MS Glycan Annotation Plugin]

==== __MS Glycan Annotation Report Plugin__ ====
* [wiki:MS_Glycan_Report_Plugin MS Glycan Annotation Report Plugin]