# # ChangeLog for trunk/grails-app/conf # # Generated by Trac 1.0.2 # Jan 18, 2021, 10:29:53 PM Fri, 07 Jan 2011 12:46:37 GMT work@… [1347] * trunk/grails-app/conf/Config.groovy (modified) - disabled loglevel info Fri, 07 Jan 2011 08:22:56 GMT m.s.vanvliet@… [1346] * trunk/grails-app/conf/BaseFilters.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) Added a timer to the Filters to monitor the load of controller/view Thu, 06 Jan 2011 16:33:32 GMT business@… [1341] * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) fix for development environment to circumvent BioPortal problems Wed, 05 Jan 2011 12:31:21 GMT work@… [1333] * trunk/application.properties (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/views/studyWizard/common/_please_wait.gsp (modified) * trunk/web-app/css/ajaxflow.css (modified) * trunk/web-app/images/ajaxflow/ajax-loader.gif (added) * trunk/web-app/images/ajaxflow/spinner-large.gif (deleted) - updating to ajaxflow 0.1.12 - changed 'please wait' behaviour ... Wed, 05 Jan 2011 09:34:01 GMT work@… [1330] * trunk/grails-app/conf/Config.groovy (modified) - temporary fix for jquery 1.4.4 Tue, 04 Jan 2011 10:13:45 GMT robert@… [1328] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) Added metagenomics module and improved rest controller to give 404 ... Thu, 23 Dec 2010 12:07:38 GMT t.w.abma@… [1323] * trunk/grails-app/conf/Config.groovy (modified) - tomcat trigger Wed, 22 Dec 2010 16:53:49 GMT work@… [1319] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) * trunk/grails-app/views/studyWizard/common/_ajaxflow.gsp (modified) * trunk/grails-app/views/studyWizard/common/_please_wait.gsp (added) * trunk/web-app/css/ajaxflow.css (modified) * trunk/web-app/images/ajaxflow/spinner-large.gif (added) * trunk/web-app/images/spinner-large.gif (deleted) - updated ajaxflow to 0.1.10 - added spinner / please wait support ... Tue, 21 Dec 2010 13:35:45 GMT work@… [1306] * trunk/grails-app/conf/Config.groovy (modified) - crypto shared secret is now randomly generated on application startup Tue, 21 Dec 2010 13:08:27 GMT work@… [1301] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) - upgraded grom to 0.2.1 - enabled debug loglevel for debugging ci issues Tue, 21 Dec 2010 11:32:49 GMT work@… [1298] * trunk/grails-app/conf/Config.groovy (modified) - disabled debug and info loglevels for debugging ci instance Tue, 21 Dec 2010 11:25:19 GMT work@… [1297] * trunk/grails-app/conf/Config.groovy (modified) - enabled debug and info loglevels for debugging ci instance Mon, 13 Dec 2010 10:50:28 GMT s.h.sikkema@… [1261] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/AssayController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/StudyController.groovy (modified) * trunk/grails-app/views/exporter/selectAssay.gsp (added) * trunk/grails-app/views/study/show_assays.gsp (modified) * trunk/test/unit/dbnp/studycapturing/AssayControllerTests.groovy (modified) * trunk/test/unit/dbnp/studycapturing/StudyControllerTests.groovy (modified) Changed jumbar layout to simple iframe for modules Thu, 09 Dec 2010 16:49:30 GMT work@… [1255] * trunk/grails-app/conf/DatabaseUpgrade.groovy (modified) - fixed an issue with the automated database upgrade where the idx's ... Thu, 09 Dec 2010 15:23:39 GMT work@… [1251] * trunk/grails-app/conf/DatabaseUpgrade.groovy (modified) - template_template_field references needed to be removed as well Thu, 09 Dec 2010 15:18:44 GMT work@… [1250] * trunk/grails-app/conf/DatabaseUpgrade.groovy (modified) - set keyword expansion Thu, 09 Dec 2010 15:17:40 GMT work@… [1249] * trunk/grails-app/conf/DatabaseUpgrade.groovy (modified) - finalizing database upgrade script with delete statements Thu, 09 Dec 2010 15:12:03 GMT work@… [1248] * trunk/grails-app/conf/DatabaseUpgrade.groovy (modified) - testing database upgrade on ci Thu, 09 Dec 2010 14:47:47 GMT work@… [1247] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/DatabaseUpgrade.groovy (added) - adding initial version of automatic database upgrade script Thu, 09 Dec 2010 13:51:51 GMT work@… [1245] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/StudyController.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Study.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateEntity.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateFieldType.groovy (modified) * trunk/grails-app/views/study/show.gsp (modified) - moved 'description' from study template fields into domain ... Thu, 02 Dec 2010 14:55:25 GMT work@… [1232] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) - ajax-flow to 0.1.2 Wed, 01 Dec 2010 10:46:03 GMT work@… [1229] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/web-app/css/default_style.css (modified) - enabeling bootstrap for dbnpdemo - extended build info width by 50 ... Fri, 26 Nov 2010 17:36:36 GMT work@… [1208] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) * trunk/grails-app/controllers/SandboxController.groovy (modified) - obsolete import in sanbox controller broke gscf - added ajax-flow ... Thu, 25 Nov 2010 09:56:40 GMT j.saito@… [1199] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Further streamlined CommunicationManager. It now builds fetches its ... Wed, 24 Nov 2010 10:47:41 GMT j.saito@… [1196] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/controllers/dbnp/query/SimpleQueryController.groovy (modified) * trunk/src/groovy/dbnp/rest/common/CommunicationManager.groovy (modified) Streamlined CommunicationManager and adjusted it to suit ... Tue, 23 Nov 2010 13:07:41 GMT j.saito@… [1195] * trunk/grails-app/conf/BootStrap.groovy (modified) Fixed bug. Someone called the wrong CommunicationManager method. Fri, 19 Nov 2010 12:34:22 GMT work@… [1179] * trunk/grails-app/conf/BootStrap.groovy (modified) - set other url's in the communication manager as well, not sure if ... Fri, 19 Nov 2010 12:19:00 GMT work@… [1178] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) - this change is part of #185 - moved object instantes out of ... Thu, 18 Nov 2010 14:20:10 GMT t.w.abma@… [1171] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/dbnp/importer/ImporterController.groovy (modified) * trunk/grails-app/services/dbnp/importer/ImporterService.groovy (modified) * trunk/grails-app/views/importer/common/_properties_horizontal.gsp (modified) * trunk/grails-app/views/importer/index_simple.gsp (modified) - added add / modify to date template chooser - added some JS to ... Thu, 18 Nov 2010 08:35:37 GMT m.s.vanvliet@… [1163] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) Wrong port + URL for metabolomics module was set in Bootstrap. ... Wed, 17 Nov 2010 13:12:48 GMT work@… [1155] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/WizardController.groovy (modified) * trunk/grails-app/taglib/dbnp/studycapturing/WizardTagLib.groovy (modified) * trunk/grails-app/views/wizard/pages/_samples.gsp (modified) - resolving issue #195, sample generation madness. This was partly ... Wed, 17 Nov 2010 10:34:09 GMT robert@… [1153] * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateEntity.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateFieldType.groovy (modified) * trunk/grails-app/views/templateEditor/template.gsp (modified) Removed template field types INTEGER and FLOAT (since LONG and DOUBLE ... Fri, 12 Nov 2010 14:51:22 GMT work@… [1133] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/conf/DataSource.groovy (modified) - it looks like an environment may not contain dashes? Fri, 12 Nov 2010 14:10:07 GMT work@… [1130] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/conf/DataSource.groovy (modified) - changed nbx test and demo configurations to reflect dbnp.org domain ... Fri, 12 Nov 2010 13:59:29 GMT work@… [1129] * trunk/grails-app/conf/Config.groovy (modified) - changed nbx test and demo configurations to reflect dbnp.org domain ... Fri, 12 Nov 2010 11:11:35 GMT work@… [1127] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/conf/DataSource.groovy (modified) - added demo configuration Thu, 11 Nov 2010 12:58:57 GMT work@… [1120] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapAuthentication.groovy (modified) - fixing springSecurityService issue in static methods Thu, 11 Nov 2010 11:18:20 GMT work@… [1118] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapAuthentication.groovy (added) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/SetupController.groovy (added) * trunk/grails-app/domain/dbnp/data/Ontology.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Subject.groovy (modified) * trunk/grails-app/views/common/_new_installation.gsp (added) * trunk/grails-app/views/setup (added) * trunk/grails-app/views/setup/common (added) - cleaned up the Bootstrap Wed, 10 Nov 2010 11:30:46 GMT work@… [1114] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/conf/DataSource.groovy (modified) - added nbx14 config, we need a better solution to support multiple ... Tue, 09 Nov 2010 17:53:25 GMT work@… [1110] * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) - bootstrapping tried to insert duplicate ontologies... Tue, 09 Nov 2010 17:12:29 GMT work@… [1107] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) - changed SAM url configuration - guys, bootstrap is a terrible ... Tue, 09 Nov 2010 13:55:29 GMT work@… [1106] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/conf/DataSource.groovy (modified) * trunk/grails-app/conf/Searchable.groovy (modified) - added environments used by build scripts (e.g. ci, test and www) Wed, 03 Nov 2010 23:02:16 GMT j.a.m.wesbeek@… [1072] * trunk/grails-app/conf/Config.groovy (modified) - disabled plugin debugging, seems like the grom issues have been ... Wed, 03 Nov 2010 22:54:05 GMT j.a.m.wesbeek@… [1071] * trunk/application.properties (modified) * trunk/grails-app/conf/Config.groovy (modified) - updated grom plugin to 0.1.15, this should now work properly on ... Wed, 03 Nov 2010 19:28:43 GMT work@… [1069] * trunk/application.properties (modified) * trunk/grails-app/conf/Config.groovy (modified) - improved grom windows support - updated grom version to 0.1.14 - ... Wed, 03 Nov 2010 10:45:38 GMT j.a.m.wesbeek@… [1055] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) - reverted last dev commit... Wed, 03 Nov 2010 10:43:06 GMT work@… [1054] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) - fixed linux support - updated to 0.1.12 Tue, 02 Nov 2010 12:24:45 GMT j.a.m.wesbeek@… [1048] * trunk/application.properties (modified) * trunk/grails-app/conf/BootStrap.groovy (modified) - upgraded the grom plugin to 0.1.11, should fix the issues on tomcat Tue, 02 Nov 2010 09:25:06 GMT m.s.vanvliet@… [1046] * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) * trunk/grails-app/controllers/nmc/PilotController.groovy (modified) * trunk/grails-app/views/pilot/create.gsp (deleted) * trunk/grails-app/views/pilot/index.gsp (modified) * trunk/grails-app/views/pilot/show.gsp (modified) Update NMC Pilot pages Mon, 01 Nov 2010 11:42:49 GMT robert@… [1027] * trunk/application.properties (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/TemplateEditorController.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/AssayModule.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Template.groovy (modified) * trunk/grails-app/views/study/show.gsp (modified) * trunk/grails-app/views/templateEditor/compare.gsp (added) * trunk/grails-app/views/templateEditor/elements/_liTemplate.gsp (modified) * trunk/grails-app/views/templateEditor/elements/_liTemplateEditable.gsp (modified) * trunk/grails-app/views/templateEditor/elements/_liTemplateNonEditable.gsp (modified) * trunk/grails-app/views/templateEditor/index.gsp (modified) * trunk/grails-app/views/templateEditor/template.gsp (modified) * trunk/web-app/css/templateEditor.css (modified) * trunk/web-app/js/jquery.dataTables.min.js (added) Implemented compare templates feature and fixed show studies overview ... Mon, 01 Nov 2010 10:40:06 GMT j.a.m.wesbeek@… [1025] * trunk/grails-app/conf/BootStrap.groovy (modified) - forgot to remove one .grom() call... Mon, 01 Nov 2010 10:30:07 GMT j.a.m.wesbeek@… [1024] * trunk/grails-app/conf/BootStrap.groovy (modified) - removed the String.grom() calls as grom is not stable on tomcat: ... Fri, 29 Oct 2010 15:34:27 GMT j.a.m.wesbeek@… [1018] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) - upgraded grom plugin 0.1.5 as 0.1.4 breaks application on tomcat - ... Fri, 29 Oct 2010 09:15:22 GMT j.saito@… [1014] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/AssayModule.groovy (modified) Refactored AssayModule.url to AssayModule.consumer in all parts effected. Thu, 28 Oct 2010 17:45:34 GMT j.a.m.wesbeek@… [1012] * trunk/application.properties (modified) * trunk/grails-app/conf/BootStrap.groovy (modified) - upgrading grom plugin to 1.1.3 - using String.grom() in bootstrap ... Tue, 26 Oct 2010 14:33:21 GMT j.a.m.wesbeek@… [997] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/TermEditorController.groovy (modified) - resolved issue #127 ( https://trac.nbic.nl/gscf/ticket/127 ): new ... Mon, 25 Oct 2010 13:28:44 GMT robert@… [985] * trunk/application.properties (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/dbnp/authentication/RegisterController.groovy (modified) * trunk/grails-app/controllers/dbnp/authentication/UserController.groovy (added) * trunk/grails-app/domain/dbnp/authentication/RegistrationCode.groovy (added) * trunk/grails-app/i18n/messages.spring-security-ui.properties (added) * trunk/grails-app/views/common/_login_panel.gsp (modified) * trunk/grails-app/views/common/_topnav.gsp (modified) * trunk/grails-app/views/email/_passwordReset.gsp (added) * trunk/grails-app/views/register/resetPassword.gsp (modified) * trunk/grails-app/views/user/create.gsp (modified) * trunk/grails-app/views/user/edit.gsp (modified) * trunk/grails-app/views/user/search.gsp (modified) Removed spring-security-ui plugin to decrease dependencies. The ... Fri, 22 Oct 2010 14:18:34 GMT robert@… [983] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/controllers/dbnp/authentication/LoginController.groovy (modified) * trunk/grails-app/domain/dbnp/authentication/SessionAuthenticatedUser.groovy (added) * trunk/grails-app/domain/dbnp/authentication/User.groovy (deleted) * trunk/grails-app/services/dbnp/authentication/AuthenticationService.groovy (modified) * trunk/grails-app/views/login/auth.gsp (modified) * trunk/test/integration/RestControllerTests.groovy (added) * trunk/test/unit/RestControllerTests.groovy (added) * trunk/test/unit/dbnp/authentication/GSCFUserDetailsServiceTests.groovy (added) * trunk/test/unit/dbnp/authentication/GSCFUserDetailsTests.groovy (added) * trunk/test/unit/dbnp/authentication/SessionAuthenticatedUserTests.groovy (added) New type of authentication and authorization added to the rest ... Thu, 21 Oct 2010 15:28:04 GMT robert@… [976] * trunk/application.properties (modified) * trunk/grails-app/conf/BaseFilters.groovy (modified) * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/controllers/dbnp/authentication (added) * trunk/grails-app/controllers/dbnp/authentication/LoginController.groovy (added) * trunk/grails-app/controllers/dbnp/authentication/LogoutController.groovy (added) * trunk/grails-app/controllers/dbnp/authentication/RegisterController.groovy (added) * trunk/grails-app/controllers/dbnp/authentication/UserRegistrationController.groovy (added) * trunk/grails-app/controllers/dbnp/importer/ImporterController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/StudyController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/WizardController.groovy (modified) * trunk/grails-app/domain/dbnp/authentication (added) * trunk/grails-app/domain/dbnp/authentication/SecRole.groovy (added) * trunk/grails-app/domain/dbnp/authentication/SecUser.groovy (added) * trunk/grails-app/domain/dbnp/authentication/SecUserSecRole.groovy (added) * trunk/grails-app/domain/dbnp/authentication/User.groovy (added) * trunk/grails-app/domain/dbnp/studycapturing/Study.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Template.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateEntity.groovy (modified) * trunk/grails-app/services/dbnp/authentication (added) * trunk/grails-app/services/dbnp/authentication/AuthenticationService.groovy (added) * trunk/grails-app/taglib/dbnp/authentication (added) * trunk/grails-app/taglib/dbnp/studycapturing/WizardTagLib.groovy (modified) * trunk/grails-app/views/common/_login_panel.gsp (modified) * trunk/grails-app/views/common/_topnav.gsp (modified) * trunk/grails-app/views/email (added) * trunk/grails-app/views/email/_registrationConfirmationAdmin.gsp (added) * trunk/grails-app/views/email/_registrationConfirmationUser.gsp (added) * trunk/grails-app/views/login (added) * trunk/grails-app/views/login/auth.gsp (added) * trunk/grails-app/views/login/denied.gsp (added) * trunk/grails-app/views/register (added) * trunk/grails-app/views/register/forgotPassword.gsp (added) * trunk/grails-app/views/register/index.gsp (added) * trunk/grails-app/views/register/resetPassword.gsp (added) * trunk/grails-app/views/study/list.gsp (modified) * trunk/grails-app/views/study/show.gsp (modified) * trunk/grails-app/views/user (added) * trunk/grails-app/views/user/create.gsp (added) * trunk/grails-app/views/user/edit.gsp (added) * trunk/grails-app/views/user/search.gsp (added) * trunk/grails-app/views/userRegistration (added) * trunk/grails-app/views/userRegistration/add.gsp (added) * trunk/grails-app/views/userRegistration/confirmAdmin.gsp (added) * trunk/grails-app/views/userRegistration/confirmUser.gsp (added) * trunk/grails-app/views/userRegistration/index.gsp (added) * trunk/grails-app/views/wizard/pages/_study.gsp (modified) * trunk/hs_err_pid4236.log (added) * trunk/test/unit/dbnp/authentication (added) * trunk/test/unit/dbnp/authentication/AuthenticateControllerTests.groovy (added) * trunk/test/unit/dbnp/authentication/AuthenticationServiceTests.groovy (added) * trunk/test/unit/dbnp/authentication/AuthenticationTagLibTests.groovy (added) * trunk/test/unit/dbnp/authentication/RegisterControllerTests.groovy (added) * trunk/test/unit/dbnp/authentication/UserTests.groovy (added) * trunk/web-app/css/wizard.css (modified) * trunk/web-app/js/wizard.js (modified) Authentication and authorization for studies is added, according to ... Wed, 20 Oct 2010 19:13:14 GMT j.a.m.wesbeek@… [959] * trunk/grails-app/conf/GrailsMelodyConfig.groovy (modified) * trunk/grails-app/controllers/FeedbackController.groovy (modified) * trunk/grails-app/controllers/HomeController.groovy (modified) * trunk/grails-app/controllers/LoadController.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/controllers/SandboxController.groovy (modified) * trunk/grails-app/controllers/SearchableController.groovy (modified) * trunk/grails-app/controllers/dbnp/clinicaldata/ClinicalAssayController.groovy (modified) * trunk/grails-app/controllers/dbnp/clinicaldata/ClinicalMeasurementController.groovy (modified) * trunk/grails-app/controllers/dbnp/data/OntologyController.groovy (modified) * trunk/grails-app/controllers/dbnp/data/TermController.groovy (modified) * trunk/grails-app/controllers/dbnp/importer/ImporterController.groovy (modified) * trunk/grails-app/controllers/dbnp/query/QueryController.groovy (modified) * trunk/grails-app/controllers/dbnp/query/SimpleQueryController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/AssayController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/AssayModuleController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/EventController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/FileController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/PersonAffiliationController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/PersonController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/PersonRoleController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/PublicationController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/StudyController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/SubjectController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/TemplateController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/TemplateEditorController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/TermEditorController.groovy (modified) * trunk/grails-app/controllers/dbnp/studycapturing/WizardController.groovy (modified) * trunk/grails-app/controllers/nmc/PilotController.groovy (modified) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalAssay.groovy (modified) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalAssayInstance.groovy (modified) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalFloatData.groovy (modified) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalMeasurement.groovy (modified) * trunk/grails-app/domain/dbnp/clinicaldata/ClinicalStringData.groovy (modified) * trunk/grails-app/domain/dbnp/data/FeatureBase.groovy (modified) * trunk/grails-app/domain/dbnp/data/FeatureType.groovy (modified) * trunk/grails-app/domain/dbnp/data/Ontology.groovy (modified) * trunk/grails-app/domain/dbnp/data/Term.groovy (modified) * trunk/grails-app/domain/dbnp/importer/ImportMapping.groovy (modified) * trunk/grails-app/domain/dbnp/importer/MappingColumn.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Assay.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/AssayModule.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Event.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/EventGroup.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Identity.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Person.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/PersonAffiliation.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/PersonRole.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Publication.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/RelTime.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Sample.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/SamplingEvent.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Study.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/StudyPerson.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Subject.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Template.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateEntity.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateField.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateFieldListItem.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateFieldType.groovy (modified) * trunk/grails-app/taglib/dbnp/importer/ImporterTagLib.groovy (modified) * trunk/grails-app/taglib/dbnp/studycapturing/WizardTagLib.groovy (modified) * trunk/grails-app/views/assay/create.gsp (modified) * 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trunk/web-app/js/timeline-simile/timeline_ajax/images/message-bottom-left.png (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/images/message-bottom-right.png (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/images/message-left.png (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/images/message-right.png (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/images/message-top-left.png (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/images/message-top-right.png (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/scripts/signal.js (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/simile-ajax-api.js (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/simile-ajax-bundle.js (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/styles/graphics-ie6.css (modified) * trunk/web-app/js/timeline-simile/timeline_ajax/styles/graphics.css (modified) * trunk/web-app/js/timeline.js (modified) * trunk/web-app/js/timepicker-0.2.1.js (modified) * trunk/web-app/js/timepicker-0.2.1.min.js (modified) * trunk/web-app/js/topnav.js (modified) * trunk/web-app/js/wizard.js (modified) * trunk/web-app/js/wizard.min.js (modified) - set keyword expansion Wed, 20 Oct 2010 10:20:22 GMT j.a.m.wesbeek@… [949] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) - removed nadd-neutralizer - added grom-1.1.2 Tue, 19 Oct 2010 12:19:43 GMT business@… [948] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) corrected errors introduced in #944, metabolomics module in ... Thu, 14 Oct 2010 15:44:21 GMT j.saito@… [944] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) Slightly modified Bootstrap for TEST_ENV. Tue, 12 Oct 2010 10:19:00 GMT t.w.abma@… [939] * trunk/grails-app/conf/BootStrap.groovy (modified) - added SpringSecurity 'admin' and 'test' user to the bootstrap Tue, 12 Oct 2010 10:11:31 GMT t.w.abma@… [938] * trunk/application.properties (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) * trunk/grails-app/views/common/_login_panel.gsp (modified) - GSCF working with AAAA-plugin, removed Melody-plugin which gave ... Mon, 11 Oct 2010 20:23:13 GMT t.w.abma@… [936] * trunk/application.properties (modified) * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/BuildConfig.groovy (modified) * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/conf/NimbleBootStrap.groovy (deleted) * trunk/grails-app/conf/NimbleConfig.groovy (deleted) * trunk/grails-app/conf/NimbleSecurityFilters.groovy (deleted) * trunk/grails-app/conf/NimbleUrlMappings.groovy (deleted) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/domain/dbnp/importer/MappingColumn.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Identity.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Study.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Subject.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Template.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateEntity.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateField.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/TemplateFieldListItem.groovy (modified) * trunk/grails-app/domain/dbnp/user (deleted) * trunk/grails-app/domain/nimble (deleted) * trunk/grails-app/services/dbnp/user (deleted) * trunk/grails-app/views/common/_login_panel.gsp (modified) * trunk/grails-app/views/study/show.gsp (modified) - Nimble removed, AAAA-plugin installed (based on Spring Security), ... Wed, 06 Oct 2010 08:52:32 GMT t.w.abma@… [931] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy update to trigger rebuild Wed, 06 Oct 2010 08:43:55 GMT t.w.abma@… [930] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy update to trigger rebuild Wed, 06 Oct 2010 08:30:57 GMT t.w.abma@… [929] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy update to trigger rebuild Wed, 06 Oct 2010 08:22:29 GMT t.w.abma@… [928] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy update to trigger rebuild Wed, 06 Oct 2010 08:03:11 GMT t.w.abma@… [927] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy update to trigger rebuild Tue, 05 Oct 2010 08:25:37 GMT tabma [922] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy submit Tue, 05 Oct 2010 08:21:54 GMT tabma [921] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy submit Tue, 05 Oct 2010 07:52:53 GMT tabma [920] * trunk/grails-app/conf/Config.groovy (modified) - Configuration dummy submit Mon, 04 Oct 2010 13:55:16 GMT tabma [915] * trunk/grails-app/conf/Config.groovy (modified) - added production server URL (used by the OAuth-plugin for Grails) ... Mon, 04 Oct 2010 09:20:46 GMT tabma [907] * trunk/grails-app/conf/Config.groovy (modified) * trunk/grails-app/controllers/HomeController.groovy (modified) * trunk/grails-app/views/home/index.gsp (modified) - added OAuth-link to index page of GSCF Mon, 04 Oct 2010 09:05:49 GMT tabma [905] * trunk/application.properties (modified) * trunk/grails-app/conf/Config.groovy (modified) - added OAauth plugin and Configuration variables (keys should be ... Wed, 08 Sep 2010 15:32:19 GMT duh [882] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) - boostrap studies does some strange things when parsing the date?!?! ... Wed, 08 Sep 2010 12:54:13 GMT keesvb [879] * trunk/application.properties (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) adjusted save order in BootStrap of some sampling events Thu, 02 Sep 2010 11:06:54 GMT duh [870] * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) - forced flushing to the database in Template boostrapping for ... Mon, 30 Aug 2010 13:13:30 GMT keesvb [860] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/test/integration/gscf/SampleTests.groovy (modified) added test for Sample name uniqueness at the validate() stage Mon, 30 Aug 2010 10:31:34 GMT keesvb [858] * trunk/grails-app/conf/BootStrap.groovy (modified) always run bootstrap study creation for now Mon, 30 Aug 2010 10:06:59 GMT keesvb [856] * trunk/grails-app/conf/BootStrap.groovy (modified) commit to trigger new database fill on NMCDSP via CI Fri, 27 Aug 2010 15:26:19 GMT keesvb [855] * trunk/grails-app/conf/BootStrap.groovy (modified) reverted CI adjustment in BootStrap, studies will now be added again ... Fri, 27 Aug 2010 15:02:09 GMT keesvb [854] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) deleted flush:true from saves in bootstrap (slows down enormously) Fri, 27 Aug 2010 14:27:01 GMT keesvb [853] * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) fixed save()() in BootStrap Fri, 27 Aug 2010 13:33:24 GMT duh [851] * trunk/grails-app/conf/BootStrap.groovy (modified) - removed the "if (true ||" parts from the bootstrap Fri, 27 Aug 2010 13:17:46 GMT duh [850] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) - flushing seems to work, modified all bootstrapping to implement ... Fri, 27 Aug 2010 13:11:04 GMT duh [849] * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) - tried flushing Fri, 27 Aug 2010 12:43:21 GMT keesvb [848] * trunk/grails-app/conf/BootStrap.groovy (modified) force CI to add Ontologies manually instead of via ontocat Fri, 27 Aug 2010 12:24:57 GMT keesvb [846] * trunk/grails-app/conf/BootStrap.groovy (modified) force CI to execute BootStrap Fri, 27 Aug 2010 10:35:27 GMT keesvb [845] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) commit aimed at getting BootStrap studies in gscf.nmcdsp.org via CI Thu, 26 Aug 2010 11:26:42 GMT duh [844] * trunk/grails-app/conf/GrailsMelodyConfig.groovy (added) adding melody configuration Wed, 25 Aug 2010 07:44:58 GMT keesvb [836] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/BootStrapTemplates.groovy (modified) * trunk/grails-app/views/wizard/pages/_assay_groups.gsp (modified) * trunk/grails-app/views/wizard/pages/_assays.gsp (modified) added some example assay templates, started with implementation of ... 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 20:10:16 GMT keesvb [834] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/controllers/RestController.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/Assay.groovy (modified) changed externalAssayId to string Mon, 23 Aug 2010 13:40:32 GMT keesvb [830] * trunk/grails-app/conf/BootStrap.groovy (modified) * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/conf/NimbleBootStrap.groovy (modified) * trunk/grails-app/domain/dbnp/user/Profile.groovy (modified) * trunk/grails-app/domain/dbnp/user/User.groovy (modified) * trunk/grails-app/views/study/show.gsp (modified) moved Nimble BootStrap to BootStrap (there seems to be no way to hack ... 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, 18 Aug 2010 07:23:38 GMT keesvb [826] * trunk/grails-app/conf/NimbleBootStrap.groovy (modified) added nimble bootstrap debug messages Tue, 17 Aug 2010 14:20:08 GMT keesvb [821] * trunk/grails-app/conf/BootStrapStudies.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/AssayModule.groovy (modified) * trunk/grails-app/domain/dbnp/studycapturing/AssayType.groovy (deleted) deleted AssayType domain class