# # ChangeLog for trunk/src # # Generated by Trac 1.0.2 # Jan 17, 2021, 10:58:45 PM Fri, 08 Oct 2010 12:47:23 GMT j.saito@… [934] * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Assay.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Sample.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Study.groovy (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Adjusted CommunicationManager to match closer with ... Tue, 24 Aug 2010 15:26:25 GMT keesvb [835] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/views/study/show.gsp (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) added metabolomics assay examples, cleaned up RestController, changed ... Mon, 23 Aug 2010 14:21:16 GMT keesvb [831] * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/services/dbnp/user (added) * trunk/grails-app/services/dbnp/user/AuthService.groovy (added) * trunk/src/groovy/nl/metabolomicscentre/dsp/http/BasicAuthentication.groovy (added) * trunk/test/unit/dbnp/user/AuthServiceTests.groovy (added) first implementation of user-based REST services, only checks whether ... Mon, 23 Aug 2010 07:29:03 GMT keesvb [829] * trunk/grails-app/conf/NimbleBootStrap.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/src/groovy/nl (added) * trunk/src/groovy/nl/metabolomicscentre (added) * trunk/src/groovy/nl/metabolomicscentre/dsp (added) * trunk/src/groovy/nl/metabolomicscentre/dsp/http (added) started authentication implementation Wed, 04 Aug 2010 12:59:30 GMT jahn [773] * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Added rest method for querying measurement values. Mon, 02 Aug 2010 09:30:43 GMT vinlud [755] * trunk/grails-app/controllers/dbnp/query/SimpleQueryController.groovy (modified) * trunk/grails-app/views/simpleQuery/common/_query.gsp (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Sam module changes including rest interface, merging results, ... Fri, 16 Jul 2010 11:47:33 GMT jahn [657] * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) The getSample rest resource now fetches Samples instead of Assays ... Tue, 13 Jul 2010 15:49:15 GMT jahn [649] * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Added five controller actions (RestController) and corresponding Rest ... Tue, 13 Jul 2010 11:32:05 GMT jahn [648] * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Corrected error in example of documentation for Rest resource ... Mon, 12 Jul 2010 10:41:54 GMT jahn [646] * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Fixed rest url. Fri, 09 Jul 2010 11:38:18 GMT jahn [645] * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Minor changes. Fri, 09 Jul 2010 09:34:14 GMT jahn [644] * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Added enhanced REST wrapper method for querying SAM. Fri, 02 Jul 2010 07:39:48 GMT vinlud [641] * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Added dummy search function Thu, 01 Jul 2010 14:19:46 GMT jahn [636] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) * trunk/src/groovy/dbnp/rest/gscf (deleted) Updated CommunicationManager to support URL generation for SAM views. ... Tue, 29 Jun 2010 13:36:04 GMT jahn [631] * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/src/groovy/dbnp/rest/CommunicationManager.groovy (deleted) * trunk/src/groovy/dbnp/rest/common (added) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (added) * trunk/src/groovy/dbnp/rest/gscf (added) * trunk/src/groovy/dbnp/rest/gscf/SAMtoGSCFRestWrapper.groovy (added) Cleaned up CommunicationManager and put it in uniform use and package ... Fri, 25 Jun 2010 12:03:22 GMT jahn [621] * trunk/src/groovy/dbnp/rest/CommunicationManager.groovy (modified) Added java.net.URLEncoder.encode() to protect URL parameters. Fri, 25 Jun 2010 09:55:00 GMT jahn [615] * trunk/src/groovy/dbnp/rest/CommunicationManager.groovy (modified) Made generating of SAM URLs more readable. Fri, 25 Jun 2010 08:39:24 GMT jahn [609] * trunk/src/groovy/dbnp/rest/CommunicationManager.groovy (modified) Adjusted communication for SAM on NBX5. Fri, 25 Jun 2010 08:27:01 GMT jahn [608] * trunk/src/groovy/dbnp/rest/CommunicationManager.groovy (modified) Added methods supplying SAM urls. Thu, 10 Jun 2010 09:21:43 GMT jahn [553] * trunk/grails-app/controllers/dbnp/query/QueryController.groovy (modified) * trunk/src/groovy/dbnp/rest/CCMCommunicationManager.groovy (deleted) * trunk/src/groovy/dbnp/rest/CommunicationManager.groovy (added) Changed name of CCMCommunicationManager to CommunicationManager. Mon, 07 Jun 2010 09:13:51 GMT jahn [537] * trunk/src/groovy/dbnp/rest/CCMCommunicationManager.groovy (modified) Added empty method for providing query results of a query on Simple ... Thu, 03 Jun 2010 07:48:33 GMT jahn [515] * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/src/groovy/dbnp/rest/CCMCommunicationManager.groovy (modified) REST resources for communicating with the Simple Assay Module. Fri, 28 May 2010 08:36:00 GMT jahn [491] * trunk/src/groovy/dbnp/rest/CCMCommunicationManager.groovy (modified) Removed obvious error that led to compile-time error. Fri, 28 May 2010 08:24:12 GMT jahn [490] * trunk/src/groovy/dbnp/rest/CCMCommunicationManager.groovy (modified) Added connection to test server nbx5. Wed, 26 May 2010 15:40:41 GMT jahn [480] * trunk/grails-app/controllers/RestController.groovy (added) * trunk/grails-app/controllers/dbnp/query/QueryController.groovy (modified) * trunk/src/groovy/dbnp (added) * trunk/src/groovy/dbnp/rest (added) * trunk/src/groovy/dbnp/rest/CCMCommunicationManager.groovy (added) * trunk/src/java/dbnp/data/CleanDataLayer.java (modified) Providing some methods for showing that REST/JSON actually works for ... Thu, 15 Apr 2010 15:06:19 GMT duh [344] * trunk/grails-app/controllers/dbnp/studycapturing/TemplateEditorController.groovy (added) * trunk/grails-app/views/layouts/dialog.gsp (added) * trunk/grails-app/views/templateEditor (added) * trunk/grails-app/views/templateEditor/pages (added) * trunk/grails-app/views/templateEditor/templates.gsp (added) * trunk/src/templates/war/web.xml (modified) * trunk/test/unit/dbnp/studycapturing/TemplateEditorControllerTests.groovy (added) - initial template editor (for use in dialogs) Tue, 23 Mar 2010 10:06:40 GMT duh [304] * trunk/src/templates/artifacts/Controller.groovy (modified) * trunk/src/templates/artifacts/DomainClass.groovy (modified) * trunk/src/templates/artifacts/Filters.groovy (modified) * trunk/src/templates/artifacts/Service.groovy (modified) * trunk/src/templates/artifacts/TagLib.groovy (modified) * trunk/src/templates/artifacts/Tests.groovy (modified) * trunk/src/templates/artifacts/WebTest.groovy (modified) - added default comments to grails base templates Thu, 18 Mar 2010 15:43:16 GMT keesvb [286] * trunk/src/templates/artifacts/Controller.groovy (added) * trunk/src/templates/artifacts/DomainClass.groovy (added) * trunk/src/templates/artifacts/Filters.groovy (added) * trunk/src/templates/artifacts/Script.groovy (added) * trunk/src/templates/artifacts/Service.groovy (added) * trunk/src/templates/artifacts/TagLib.groovy (added) * trunk/src/templates/artifacts/Tests.groovy (added) * trunk/src/templates/artifacts/WebTest.groovy (added) * trunk/src/templates/scaffolding/Controller.groovy (added) * trunk/src/templates/scaffolding/create.gsp (added) * trunk/src/templates/scaffolding/edit.gsp (added) * trunk/src/templates/scaffolding/list.gsp (added) * trunk/src/templates/scaffolding/renderEditor.template (added) * trunk/src/templates/scaffolding/show.gsp (added) * trunk/src/templates/war/web.xml (added) re-added template files, needed for WAR building Wed, 10 Feb 2010 15:09:52 GMT keesvb [187] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/controllers/SandboxController.groovy (modified) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalMeasurement.groovy (modified) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalMeasurementType.groovy (deleted) * trunk/grails-app/domain/dbnp/data/FeatureBase.groovy (modified) * trunk/grails-app/domain/dbnp/data/FeatureType.groovy (copied) * trunk/grails-app/services/dbnp/clinicaldata/ClinicalDataLayerService.groovy (modified) * trunk/src/java/dbnp/data/CleanDataLayer.java (modified) changed definition of clean data layer, implemented it for the ... Fri, 22 Jan 2010 12:02:40 GMT keesvb [106] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/controllers/LoadController.groovy (modified) * trunk/grails-app/controllers/OntologyController.groovy (modified) * trunk/grails-app/controllers/TermController.groovy (modified) * trunk/grails-app/controllers/dbnp/clinicaldata (added) * trunk/grails-app/controllers/dbnp/clinicaldata/ClinicalAssayController.groovy (added) * trunk/grails-app/controllers/dbnp/clinicaldata/ClinicalMeasurementController.groovy (added) * trunk/grails-app/domain/dbnp/clinicaldata (added) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalAssay.groovy (added) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalAssayInstance.groovy (added) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalFloatData.groovy (added) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalMeasurement.groovy (added) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalMeasurementType.groovy (added) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalStringData.groovy (added) * trunk/grails-app/domain/dbnp/data (added) * trunk/grails-app/domain/dbnp/data/FeatureBase.groovy (added) * trunk/grails-app/domain/dbnp/data/Ontology.groovy (moved) * trunk/grails-app/domain/dbnp/data/Term.groovy (moved) * trunk/grails-app/domain/dbnp/studycapturing/EventDescription.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Protocol.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/ProtocolParameter.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Sample.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Study.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Subject.groovy (modified) * trunk/grails-app/services/dbnp (added) * trunk/grails-app/services/dbnp/clinicaldata (added) * trunk/grails-app/services/dbnp/clinicaldata/ClinicalDataLayerService.groovy (added) * trunk/grails-app/views/clinicalAssay (added) * trunk/grails-app/views/clinicalData (added) * trunk/src/java/dbnp (added) * trunk/src/java/dbnp/data (added) * trunk/src/java/dbnp/data/CleanDataLayer.java (added) * trunk/test/unit/dbnp/clinicaldata (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalAssayControllerTests.groovy (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalAssayInstanceTests.groovy (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalAssayTests.groovy (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalDataLayerServiceTests.groovy (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalFloatDataTests.groovy (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalMeasurementControllerTests.groovy (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalMeasurementTests.groovy (added) * trunk/test/unit/dbnp/clinicaldata/ClinicalStringDataTests.groovy (added) * trunk/test/unit/dbnp/data (added) * trunk/test/unit/dbnp/data/FeatureBaseTests.groovy (added) added first version of clean data layer specification and clinical ... Wed, 13 Jan 2010 14:25:28 GMT ademcan [85] * trunk/grails-app/controllers/dbnp (added) * trunk/grails-app/controllers/dbnp/studycapturing (added) * trunk/grails-app/domain/dbnp/studycapturing/Study.groovy (modified) * trunk/grails-app/views/language (added) * trunk/grails-app/views/language/create.gsp (added) * trunk/grails-app/views/language/edit.gsp (added) * trunk/grails-app/views/language/list.gsp (added) * trunk/grails-app/views/language/show.gsp (added) * trunk/grails-app/views/study (added) * trunk/grails-app/views/study/create.gsp (added) * trunk/grails-app/views/study/edit.gsp (added) * trunk/grails-app/views/study/list.gsp (added) * trunk/grails-app/views/study/list_backup.gsp (added) * trunk/grails-app/views/study/show.gsp (added) * trunk/src/templates (added) * trunk/src/templates/artifacts (added) * trunk/src/templates/scaffolding (added) * trunk/src/templates/war (added) the templates for the Study class, I have modified the scaffolding view. Thu, 29 Oct 2009 13:01:32 GMT duh [37] * trunk/application.properties (modified) * trunk/grails-app/conf/NimbleBootStrap.groovy (added) * trunk/grails-app/conf/NimbleConfig.groovy (added) * trunk/grails-app/conf/NimbleSecurityFilters.groovy (added) * trunk/grails-app/conf/NimbleUrlMappings.groovy (added) * trunk/grails-app/controllers/BaseController.groovy (modified) * trunk/grails-app/domain/gscf (added) * trunk/grails-app/domain/gscf/Profile.groovy (added) * trunk/grails-app/domain/gscf/User.groovy (added) * trunk/grails-app/i18n/shiro.properties (added) * trunk/grails-app/realms (added) * trunk/grails-app/views/common/_login_panel.gsp (modified) * trunk/grails-app/views/common/_topnav.gsp (modified) * trunk/grails-app/views/index.gsp (modified) * trunk/grails-app/views/layouts/main.gsp (modified) * trunk/grails-app/views/templates (added) * trunk/grails-app/views/templates/nimble (added) * trunk/grails-app/views/templates/nimble/help (added) * trunk/grails-app/views/templates/nimble/help/_accountcreationpolicy.gsp (added) * trunk/grails-app/views/templates/nimble/help/_passwordpolicy.gsp (added) * trunk/grails-app/views/templates/nimble/help/_usernamepolicy.gsp (added) * trunk/grails-app/views/templates/nimble/login (added) * trunk/grails-app/views/templates/nimble/login/_login.gsp (added) * trunk/grails-app/views/templates/nimble/mail (added) * trunk/grails-app/views/templates/nimble/mail/_accountregistration_email.gsp (added) * trunk/grails-app/views/templates/nimble/mail/_emailchange_email.gsp (added) * trunk/grails-app/views/templates/nimble/mail/_forgottenpassword_email.gsp (added) * trunk/grails-app/views/templates/nimble/mail/_forgottenpassword_external_email.gsp (added) * trunk/grails-app/views/templates/nimble/navigation (added) * trunk/grails-app/views/templates/nimble/navigation/_topnavigation.gsp (added) * trunk/grails-app/views/templates/nimble/profile (added) * trunk/grails-app/views/templates/nimble/profile/_banner.gsp (added) * trunk/grails-app/views/templates/nimble/profile/_currentstatus.gsp (added) * trunk/grails-app/views/templates/nimble/profile/_emailupdated.gsp (added) * trunk/grails-app/views/templates/nimble/profile/_left.gsp (added) * trunk/grails-app/views/templates/nimble/profile/_miniprofile.gsp (added) * trunk/grails-app/views/templates/nimble/profile/_socialmedia.gsp (added) * trunk/src/sass (added) * trunk/src/sass/_rounded.sass (added) * trunk/src/sass/_uielements.sass (added) - installed and implemented nimble plugin - setup basic nimble ... Wed, 14 Oct 2009 10:06:53 GMT duh [4] * trunk/application.properties (added) * trunk/build.xml (added) * trunk/grails-app (added) * trunk/grails-app/conf (added) * trunk/grails-app/conf/BootStrap.groovy (added) * trunk/grails-app/conf/Config.groovy (added) * trunk/grails-app/conf/DataSource.groovy (added) * trunk/grails-app/conf/UrlMappings.groovy (added) * trunk/grails-app/conf/hibernate (added) * trunk/grails-app/conf/spring (added) * trunk/grails-app/conf/spring/resources.groovy (added) * trunk/grails-app/controllers (added) * trunk/grails-app/domain (added) * trunk/grails-app/i18n (added) * trunk/grails-app/i18n/messages.properties (added) * trunk/grails-app/i18n/messages_de.properties (added) * trunk/grails-app/i18n/messages_es.properties (added) * trunk/grails-app/i18n/messages_fr.properties (added) * trunk/grails-app/i18n/messages_it.properties (added) * trunk/grails-app/i18n/messages_ja.properties (added) * trunk/grails-app/i18n/messages_nl.properties (added) * trunk/grails-app/i18n/messages_pt_BR.properties (added) * trunk/grails-app/i18n/messages_ru.properties (added) * trunk/grails-app/i18n/messages_th.properties (added) * trunk/grails-app/i18n/messages_zh_CN.properties (added) * trunk/grails-app/services (added) * trunk/grails-app/taglib (added) * trunk/grails-app/utils (added) * trunk/grails-app/views (added) * trunk/grails-app/views/error.gsp (added) * trunk/grails-app/views/index.gsp (added) * trunk/grails-app/views/layouts (added) * trunk/grails-app/views/layouts/main.gsp (added) * trunk/gscf-test.launch (added) * trunk/gscf.launch (added) * trunk/gscf.tmproj (added) * trunk/ivy.xml (added) * trunk/ivysettings.xml (added) * trunk/lib (added) * trunk/scripts (added) * trunk/src (added) * trunk/src/groovy (added) * trunk/src/java (added) * trunk/stacktrace.log (added) * trunk/test (added) * trunk/test/integration (added) * trunk/test/unit (added) * trunk/web-app (added) * trunk/web-app/META-INF (added) * trunk/web-app/WEB-INF (added) * trunk/web-app/WEB-INF/applicationContext.xml (added) * trunk/web-app/WEB-INF/sitemesh.xml (added) * trunk/web-app/WEB-INF/tld (added) * trunk/web-app/WEB-INF/tld/c.tld (added) * trunk/web-app/WEB-INF/tld/fmt.tld (added) * trunk/web-app/WEB-INF/tld/grails.tld (added) * trunk/web-app/WEB-INF/tld/spring.tld (added) * trunk/web-app/css (added) * trunk/web-app/css/main.css (added) * trunk/web-app/images (added) * trunk/web-app/images/favicon.ico (added) * trunk/web-app/images/grails_logo.jpg (added) * trunk/web-app/images/skin (added) * trunk/web-app/images/skin/database_add.png (added) * trunk/web-app/images/skin/database_delete.png (added) * trunk/web-app/images/skin/database_edit.png (added) * trunk/web-app/images/skin/database_save.png (added) * trunk/web-app/images/skin/database_table.png (added) * trunk/web-app/images/skin/exclamation.png (added) * trunk/web-app/images/skin/house.png (added) * trunk/web-app/images/skin/information.png (added) * trunk/web-app/images/skin/shadow.jpg (added) * trunk/web-app/images/skin/sorted_asc.gif (added) * trunk/web-app/images/skin/sorted_desc.gif (added) * trunk/web-app/images/spinner.gif (added) * trunk/web-app/js (added) * trunk/web-app/js/application.js (added) * trunk/web-app/js/prototype (added) * trunk/web-app/js/prototype/animation.js (added) * trunk/web-app/js/prototype/builder.js (added) * trunk/web-app/js/prototype/controls.js (added) * trunk/web-app/js/prototype/dragdrop.js (added) * trunk/web-app/js/prototype/effects.js (added) * trunk/web-app/js/prototype/prototype.js (added) * trunk/web-app/js/prototype/rico.js (added) * trunk/web-app/js/prototype/scriptaculous.js (added) * trunk/web-app/js/prototype/slider.js (added) * trunk/web-app/js/prototype/sound.js (added) * trunk/web-app/js/prototype/unittest.js (added) Initial check-in of a fresh grails application