Index |BIIGLE Server Documentation

A

Annotation — Class in namespaceBiigle: An annotation is a region of an image that can be labeled by the users.
AnnotationLabel — Class in namespaceBiigle: Pivot object for the connection between Annotations and Labels.
AnnotationLabel::annotation() — Method in classAnnotationLabel: The annotation, this annotation label belongs to.
AnnotationSession — Class in namespaceBiigle: An annotation session groups multiple annotations of a volume based on their creation date.
$AnnotationSession#appends — Property in classAnnotationSession: The accessors to append to the model's array form.
AnnotationSession::annotations() — Method in classAnnotationSession: Get a query for all annotations that belong to this session.
AnnotationSession::allowsAccess() — Method in classAnnotationSession: Check if the given user is allowed to access the annotation if this annotation session is active.
ApiToken — Class in namespaceBiigle
Apidoc — Class in namespaceBiigle\Console\Commands
Annotation — Class in namespaceBiigle\Contracts: An annotation model.
AnnotationController — Class in namespaceBiigle\Http\Controllers\Api
AnnotationLabelController — Class in namespaceBiigle\Http\Controllers\Api
AnnotationSessionController — Class in namespaceBiigle\Http\Controllers\Api
ApiTokenController — Class in namespaceBiigle\Http\Controllers\Api
ProjectLabelTreeController::available() — Method in classProjectLabelTreeController: Display all label trees that can be used by the specified project.
ProjectUserController::attach() — Method in classProjectUserController: Adds a new user to the specified project.
ProjectVolumeController::attach() — Method in classProjectVolumeController: Attaches the existing specified volume to the existing specified project.
UserRegistrationController::accept() — Method in classUserRegistrationController: Approves a user sign up.
LoginController::attemptLogin() — Method in classLoginController: Attempt to log the user into the application.
SettingsController::account() — Method in classSettingsController: Shows the account settings.
Authenticate — Class in namespaceBiigle\Http\Middleware
$VerifyCsrfToken#addHttpCookie — Property in classVerifyCsrfToken: Indicates whether the XSRF-TOKEN cookie should be set on the response.
AttachProjectUser — Class in namespaceBiigle\Http\Requests
AttachProjectUser::authorize() — Method in classAttachProjectUser: Determine if the user is authorized to make this request.
DestroyAnnotationSession::authorize() — Method in classDestroyAnnotationSession: Determine if the user is authorized to make this request.
DestroyLabel::authorize() — Method in classDestroyLabel: Determine if the user is authorized to make this request.
DestroyLabelTree::authorize() — Method in classDestroyLabelTree: Determine if the user is authorized to make this request.
DestroyLabelTreeUser::authorize() — Method in classDestroyLabelTreeUser: Determine if the user is authorized to make this request.
DestroyLabelTreeVersion::authorize() — Method in classDestroyLabelTreeVersion: Determine if the user is authorized to make this request.
DestroyOwnUser::authorize() — Method in classDestroyOwnUser: Determine if the user is authorized to make this request.
DestroyPinnedProject::authorize() — Method in classDestroyPinnedProject: Determine if the user is authorized to make this request.
DestroyProjectUser::authorize() — Method in classDestroyProjectUser: Determine if the user is authorized to make this request.
DestroyUser::authorize() — Method in classDestroyUser: Determine if the user is authorized to make this request.
StoreAnnotation::authorize() — Method in classStoreAnnotation: Determine if the user is authorized to make this request.
$StoreAnnotationLabel#annotation — Property in classStoreAnnotationLabel: The annotation to which the label should be attached.
StoreAnnotationLabel::authorize() — Method in classStoreAnnotationLabel: Determine if the user is authorized to make this request.
StoreAnnotationSession::authorize() — Method in classStoreAnnotationSession: Determine if the user is authorized to make this request.
StoreAnnotations::authorize() — Method in classStoreAnnotations: Determine if the user is authorized to make this request.
StoreImageLabel::authorize() — Method in classStoreImageLabel: Determine if the user is authorized to make this request.
StoreLabel::authorize() — Method in classStoreLabel: Determine if the user is authorized to make this request.
StoreLabelTree::authorize() — Method in classStoreLabelTree: Determine if the user is authorized to make this request.
StoreLabelTreeAuthorizedProject::authorize() — Method in classStoreLabelTreeAuthorizedProject: Determine if the user is authorized to make this request.
StoreLabelTreeUser::authorize() — Method in classStoreLabelTreeUser: Determine if the user is authorized to make this request.
StoreLabelTreeVersion::authorize() — Method in classStoreLabelTreeVersion: Determine if the user is authorized to make this request.
StorePinnedProject::authorize() — Method in classStorePinnedProject: Determine if the user is authorized to make this request.
StoreProject::authorize() — Method in classStoreProject: Determine if the user is authorized to make this request.
StoreProjectLabelTree::authorize() — Method in classStoreProjectLabelTree: Determine if the user is authorized to make this request.
StoreSystemMessage::authorize() — Method in classStoreSystemMessage: Determine if the user is authorized to make this request.
StoreUser::authorize() — Method in classStoreUser: Determine if the user is authorized to make this request.
StoreVolume::authorize() — Method in classStoreVolume: Determine if the user is authorized to make this request.
StoreVolumeImage::authorize() — Method in classStoreVolumeImage: Determine if the user is authorized to make this request.
UpdateAnnotationSession::authorize() — Method in classUpdateAnnotationSession: Determine if the user is authorized to make this request.
UpdateLabel::authorize() — Method in classUpdateLabel: Determine if the user is authorized to make this request.
UpdateLabelTree::authorize() — Method in classUpdateLabelTree: Determine if the user is authorized to make this request.
UpdateLabelTreeUser::authorize() — Method in classUpdateLabelTreeUser: Determine if the user is authorized to make this request.
UpdateLabelTreeVersion::authorize() — Method in classUpdateLabelTreeVersion: Determine if the user is authorized to make this request.
UpdateOwnUser::authorize() — Method in classUpdateOwnUser: Determine if the user is authorized to make this request.
UpdateProject::authorize() — Method in classUpdateProject: Determine if the user is authorized to make this request.
UpdateProjectUser::authorize() — Method in classUpdateProjectUser: Determine if the user is authorized to make this request.
UpdateSystemMessage::authorize() — Method in classUpdateSystemMessage: Determine if the user is authorized to make this request.
UpdateUser::authorize() — Method in classUpdateUser: Determine if the user is authorized to make this request.
UpdateVolume::authorize() — Method in classUpdateVolume: Determine if the user is authorized to make this request.
Image::annotations() — Method in classImage: The annotations on this image.
LabelTree::addMember() — Method in classLabelTree: Add a new member with a certain role.
LabelTree::authorizedProjects() — Method in classLabelTree: The projects that are authorized to use this private label tree.
AnanasServiceProvider — Class in namespaceBiigle\Modules\Ananas
AnnotationAssistanceRequest — Class in namespaceBiigle\Modules\Ananas: With an annotation assistance request a BIIGLE user can consult some externa person for the label of a specific annotation.
AnnotationAssistanceRequest::annotation() — Method in classAnnotationAssistanceRequest: The annotation to which the assistance request belongs.
AnnotationAssistanceRequestController — Class in namespaceBiigle\Modules\Ananas\Http\Controllers\Api
AnnotationAssistanceRequestController — Class in namespaceBiigle\Modules\Ananas\Http\Controllers\Views
$StoreAnnotationAssistanceRequest#annotation — Property in classStoreAnnotationAssistanceRequest: The annotation to create the request for.
StoreAnnotationAssistanceRequest::authorize() — Method in classStoreAnnotationAssistanceRequest: Determine if the user is authorized to make this request.
$UpdateAnnotationAssistanceRequest#ananas — Property in classUpdateAnnotationAssistanceRequest: The request to update.
UpdateAnnotationAssistanceRequest::authorize() — Method in classUpdateAnnotationAssistanceRequest: Determine if the user is authorized to make this request.
AnnotationAssistanceRequest — Class in namespaceBiigle\Modules\Ananas\Notifications
AnnotationAssistanceResponse — Class in namespaceBiigle\Modules\Ananas\Notifications
AnnotationAssistanceRequestObserver — Class in namespaceBiigle\Modules\Ananas\Observers
AnnotationAssistanceRequestPolicy — Class in namespaceBiigle\Modules\Ananas\Policies
AnnotationAssistanceRequestPolicy::access() — Method in classAnnotationAssistanceRequestPolicy: Determine if the given assistance request can be accessed by the user.
AnnotationsServiceProvider — Class in namespaceBiigle\Modules\Annotations
DashboardControllerMixin::activityItems() — Method in classDashboardControllerMixin: Get the most recently annotated images of a user.
AnnotationController — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Views
AnnotationToolController — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Views
StoreColorSortSequence::authorize() — Method in classStoreColorSortSequence: Determine if the user is authorized to make this request.
LabelTreesController::admin() — Method in classLabelTreesController: Show the label tree admin page.
StoreMerge::authorize() — Method in classStoreMerge: Determine if the user is authorized to make this request.
AnnotationsController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Api\Labels
LargoController::anotationsBelongToVolumes() — Method in classLargoController: Check if all given annotations belong to the given volumes.
LargoController::applySave() — Method in classLargoController: Apply the changes of an Largo session.
LargoController::applyDismissedLabels() — Method in classLargoController: Detach annotation labels that were dismissed in a Largo session.
LargoController::applyChangedLabels() — Method in classLargoController: Attach annotation labels that were chosen in a Largo session.
AnnotationExamplesController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Api\Volumes
AnnotationCatalogController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Views\LabelTrees
$GenerateAnnotationPatch#annotationClass — Property in classGenerateAnnotationPatch: The class of the annotation model.
$GenerateAnnotationPatch#annotationId — Property in classGenerateAnnotationPatch: The ID of the annotation model.
$GenerateAnnotationPatch#annotation — Property in classGenerateAnnotationPatch: The the annotation to generate a patch for.
$RemoveAnnotationPatches#annotationIds — Property in classRemoveAnnotationPatches: Map of the annotation ID to the image ID of the annotation whose patch should be removed.
AnnotationObserver — Class in namespaceBiigle\Modules\Largo\Observers
ComputeImage::authorize() — Method in classComputeImage: Determine if the user is authorized to make this request.
ComputeVolume::authorize() — Method in classComputeVolume: Determine if the user is authorized to make this request.
Image::accessLaserpointsArray() — Method in classImage: Get an attribute from the laser points array.
AttachableVolumesController — Class in namespaceBiigle\Modules\Projects\Http\Controllers\Api
ReportPolicy::access() — Method in classReportPolicy: Determine if the given report can be accessed by the user.
AbundanceReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\Annotations
AnnotationReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\Annotations
AreaReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\Annotations
AbundanceReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\Annotations
AbundanceReportGenerator::aggregateChildLabels() — Method in classAbundanceReportGenerator: Aggregate the number of child labels to the number of the highest parent label and remove the child labels from the list.
AnnotationReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\Annotations
$AnnotationReportGenerator#annotationSession — Property in classAnnotationReportGenerator: Cache for the annotation session the report may be restricted to.
AreaReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\Annotations
ShowPublicLabelTreeExport::authorize() — Method in classShowPublicLabelTreeExport: Determine if the user is authorized to make this request.
AnnotationExport — Class in namespaceBiigle\Modules\Sync\Support\Export
AnnotationLabelExport — Class in namespaceBiigle\Modules\Sync\Support\Export
Export::addIds() — Method in classExport: Add more model IDs to this export.
Export::addToZip() — Method in classExport: Add the file of this report to a zip.
ArchiveManager — Class in namespaceBiigle\Modules\Sync\Support\Import
LabelTreeImport::attachLabelTreeMembers() — Method in classLabelTreeImport: Attach members to imported label trees.
DashboardControllerMixin::activityItems() — Method in classDashboardControllerMixin: Get the most recently annotated and/or created videos of a user.
DestroyVideo::authorize() — Method in classDestroyVideo: Determine if the user is authorized to make this request.
$DestroyVideoAnnotationLabel#annotationLabel — Property in classDestroyVideoAnnotationLabel: The annotation label that should be deleted
DestroyVideoAnnotationLabel::authorize() — Method in classDestroyVideoAnnotationLabel: Determine if the user is authorized to make this request.
LinkVideoAnnotation::authorize() — Method in classLinkVideoAnnotation: Determine if the user is authorized to make this request.
$SplitVideoAnnotation#annotation — Property in classSplitVideoAnnotation: The annotation that should be split.
SplitVideoAnnotation::authorize() — Method in classSplitVideoAnnotation: Determine if the user is authorized to make this request.
StoreVideo::authorize() — Method in classStoreVideo: Determine if the user is authorized to make this request.
StoreVideoAnnotation::authorize() — Method in classStoreVideoAnnotation: Determine if the user is authorized to make this request.
$StoreVideoAnnotationLabel#annotation — Property in classStoreVideoAnnotationLabel: The annotation to which the label should be attached.
StoreVideoAnnotationLabel::authorize() — Method in classStoreVideoAnnotationLabel: Determine if the user is authorized to make this request.
UpdateVideo::authorize() — Method in classUpdateVideo: Determine if the user is authorized to make this request.
$UpdateVideoAnnotation#annotation — Property in classUpdateVideoAnnotation: The annotation that should be updated
UpdateVideoAnnotation::authorize() — Method in classUpdateVideoAnnotation: Determine if the user is authorized to make this request.
$TrackObject#annotation — Property in classTrackObject: The annotation that defines the initial object to track.
VideoAnnotationPolicy::access() — Method in classVideoAnnotationPolicy: Determine if the user may access the given annotation.
VideoAnnotationPolicy::attachLabel() — Method in classVideoAnnotationPolicy: Determine if the user can attach the given label to the given annotation.
VideoPolicy::access() — Method in classVideoPolicy: Determine if the given video can be accessed by the user.
$VideoUrl#allowedMimes — Property in classVideoUrl: Allowed video MIME types
$VideoUrl#allowedCodecs — Property in classVideoUrl: Allowed video codecs
$Video#appends — Property in classVideo: The accessors to append to the model's array form.
Video::annotations() — Method in classVideo: The annotations that belong to this video.
VideoAnnotationLabel::annotation() — Method in classVideoAnnotationLabel: The video annotation, this annotation label belongs to.
AdminController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers
AnyImageLabelController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api\VolumeFilters
$VolumeImageMetadataController#allowedAttributes — Property in classVolumeImageMetadataController: Allowed columns for the CSV file to change image attributes.
$VolumeImageMetadataController#allowedMetadata — Property in classVolumeImageMetadataController: Allowed columns for the CSV file to change image metadata.
DashboardControllerMixin::activityItems() — Method in classDashboardControllerMixin: Get the most recently created volume a user.
$InAppNotification#action — Property in classInAppNotification: Label of the action link.
$InAppNotification#actionLink — Property in classInAppNotification: Action link (URL).
AnnotationLabelPolicy — Class in namespaceBiigle\Policies
AnnotationPolicy — Class in namespaceBiigle\Policies
AnnotationPolicy::access() — Method in classAnnotationPolicy: Determine if the user may access the given annotation.
AnnotationPolicy::attachLabel() — Method in classAnnotationPolicy: Determine if the user can attach the given label to the given annotation.
ApiTokenPolicy — Class in namespaceBiigle\Policies
ImagePolicy::access() — Method in classImagePolicy: Determine if the user can access the given image.
ImagePolicy::addAnnotation() — Method in classImagePolicy: Determine if the user can add an annotation to given image.
ImagePolicy::attachLabel() — Method in classImagePolicy: Determine if the user can attach the given label to the given image.
LabelTreePolicy::access() — Method in classLabelTreePolicy: Determine if the given label tree can be accessed by the user.
LabelTreePolicy::addMember() — Method in classLabelTreePolicy: Determine if the user can add members to the given label tree.
LabelTreeVersionPolicy::access() — Method in classLabelTreeVersionPolicy: Determine if the given label tree version can be accessed by the user.
ProjectPolicy::access() — Method in classProjectPolicy: Determine if the given project can be accessed by the user.
VolumePolicy::access() — Method in classVolumePolicy: Determine if the given volume can be accessed by the user.
Project::admins() — Method in classProject: All members of this project with the admin role.
Project::addUserId() — Method in classProject: Adds the user with the given role to this project.
Project::addVolumeId() — Method in classProject: Adds a volume to this project if it wasn't already.
Project::authorizedLabelTrees() — Method in classProject: The private label trees that authorized this project to use them.
AppServiceProvider — Class in namespaceBiigle\Providers
AuthServiceProvider — Class in namespaceBiigle\Providers
ApiGuard — Class in namespaceBiigle\Services\Auth
$Modules#apidocPaths — Property in classModules: Additional source paths to generate the API documentation from.
Modules::addMixin() — Method in classModules
User::apiTokens() — Method in classUser: Api tokens of this user.
$Volume#appends — Property in classVolume: The accessors to append to the model's array form.
Volume::annotationSessions() — Method in classVolume: The annotation sessions of this volume.
Volume::activeAnnotationSession() — Method in classVolume: The active annotation sessions of this volume (if any).

B

FileCache::batch() — Method in classFileCache: Perform a callback with the paths of many cached files. Use this to prevent pruning of the files while they are processed.
FileCache::batchOnce() — Method in classFileCache: Like batch but deletes the cached files afterwards (if they are not used somewhere else).
FileCache::batch() — Method in classFileCache: Perform a callback with the paths of many cached files. Use this to prevent pruning of the files while they are processed.
FileCache::batchOnce() — Method in classFileCache: Like batch but deletes the cached files afterwards (if they are not used somewhere else).
FileCacheServiceProvider::boot() — Method in classFileCacheServiceProvider: Bootstrap the application events.
FileCacheFake::batch() — Method in classFileCacheFake: Perform a callback with the paths of many cached files. Use this to prevent pruning of the files while they are processed.
FileCacheFake::batchOnce() — Method in classFileCacheFake: Like batch but deletes the cached files afterwards (if they are not used somewhere else).
AnanasServiceProvider::boot() — Method in classAnanasServiceProvider: Bootstrap the application events.
AnnotationAssistanceRequestPolicy::before() — Method in classAnnotationAssistanceRequestPolicy: Intercept all checks.
AnnotationsServiceProvider::boot() — Method in classAnnotationsServiceProvider: Bootstrap the application events.
ColorSortServiceProvider::boot() — Method in classColorSortServiceProvider: Bootstrap the application events.
GeoOverlay::boot() — Method in classGeoOverlay: The "booting" method of the model.
GeoServiceProvider::boot() — Method in classGeoServiceProvider: Bootstrap the application events.
LabelTreesServiceProvider::boot() — Method in classLabelTreesServiceProvider: Bootstrap the application events.
LargoServiceProvider::boot() — Method in classLargoServiceProvider: Bootstrap the application events.
LaserpointsServiceProvider::boot() — Method in classLaserpointsServiceProvider: Bootstrap the application events.
ProjectsServiceProvider::boot() — Method in classProjectsServiceProvider: Bootstrap the application events.
ReportPolicy::before() — Method in classReportPolicy: Intercept all checks.
ReportsServiceProvider::boot() — Method in classReportsServiceProvider: Bootstrap the application events.
BasicReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\Annotations
BasicReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\ImageLabels
BasicReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\Annotations
BasicReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\ImageLabels
SyncServiceProvider::boot() — Method in classSyncServiceProvider: Bootstrap the application events.
VideoAnnotationLabelPolicy::before() — Method in classVideoAnnotationLabelPolicy: Intercept all checks.
VideoAnnotationPolicy::before() — Method in classVideoAnnotationPolicy: Intercept all checks.
VideoPolicy::before() — Method in classVideoPolicy: Intercept all checks.
VideosServiceProvider::boot() — Method in classVideosServiceProvider: Bootstrap the application events.
BrowserController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api
VolumesServiceProvider::boot() — Method in classVolumesServiceProvider: Bootstrap the application events.
AnnotationLabelPolicy::before() — Method in classAnnotationLabelPolicy: Intercept all checks.
AnnotationPolicy::before() — Method in classAnnotationPolicy: Intercept all checks.
ImageLabelPolicy::before() — Method in classImageLabelPolicy: Intercept all checks.
ImagePolicy::before() — Method in classImagePolicy: Intercept all checks.
LabelTreePolicy::before() — Method in classLabelTreePolicy: Intercept all checks.
LabelTreeVersionPolicy::before() — Method in classLabelTreeVersionPolicy: Intercept all checks.
ProjectPolicy::before() — Method in classProjectPolicy: Intercept all checks.
VolumePolicy::before() — Method in classVolumePolicy: Intercept all checks.
AppServiceProvider::boot() — Method in classAppServiceProvider: Bootstrap any application services.
AuthServiceProvider::boot() — Method in classAuthServiceProvider: Register any authentication / authorization services.
BroadcastServiceProvider — Class in namespaceBiigle\Providers
BroadcastServiceProvider::boot() — Method in classBroadcastServiceProvider: Bootstrap any application services.
EventServiceProvider::boot() — Method in classEventServiceProvider: Register any events for your application.
RouteServiceProvider::boot() — Method in classRouteServiceProvider: Define your route model bindings, pattern filters, etc.

C

$Annotation#casts — Property in classAnnotation: The attributes that should be casted to native types.
$AnnotationLabel#casts — Property in classAnnotationLabel: The attributes that should be casted to native types.
$AnnotationSession#casts — Property in classAnnotationSession: The attributes that should be casted to native types.
$Kernel#commands — Property in classKernel: The Artisan commands provided by your application.
Kernel::commands() — Method in classKernel: Register the Closure based commands for the application.
LabelSourceAdapterContract::create() — Method in classLabelSourceAdapterContract: Create the label (or labels) from the label source based on an API request.
FileCache::clear() — Method in classFileCache: Delete all unused cached files.
$FileCache#config — Property in classFileCache: File cache configuration.
FileCache::clear() — Method in classFileCache: Delete all unused cached files.
FileCache::cacheFromResource() — Method in classFileCache: Store the file from the given resource to a cached file.
ClearFileCache — Class in namespaceBiigle\FileCache\Listeners
FileCacheFake::clear() — Method in classFileCacheFake: Delete all unused cached files.
Controller — Class in namespaceBiigle\Http\Controllers\Api
LoginController::credentials() — Method in classLoginController: Get the needed authorization credentials from the request.
RegisterController::create() — Method in classRegisterController: Create a new user instance after a valid registration.
ResetPasswordController::credentials() — Method in classResetPasswordController: Get the password reset credentials from the request.
Controller — Class in namespaceBiigle\Http\Controllers
SystemMessagesController::create() — Method in classSystemMessagesController: Shows the admin new system message page.
Controller — Class in namespaceBiigle\Http\Controllers\Views
CheckForMaintenanceMode — Class in namespaceBiigle\Http\Middleware
$Image#casts — Property in classImage: The attributes that should be casted to native types.
CreateNewImages — Class in namespaceBiigle\Jobs
CreateNewImages::createImages() — Method in classCreateNewImages: Create an array to be inserted as new image models.
ProcessNewImageChunk::collectMetadata() — Method in classProcessNewImageChunk: Collect image metadata.
$Label#casts — Property in classLabel: The attributes that should be casted to native types.
Label::children() — Method in classLabel: The child labels of this label if they are ordered in a tree-like structue.
Label::canBeDeleted() — Method in classLabel: Determines if the label can be deleted.
$LabelTree#casts — Property in classLabelTree: The attributes that should be casted to native types.
LabelTree::canBeDeleted() — Method in classLabelTree: Determines if the label tree can be safely deleted.
$LabelTreeVersion#casts — Property in classLabelTreeVersion: The attributes that should be casted to native types.
CleanupImageTiles — Class in namespaceBiigle\Listeners
CleanupThumbnails — Class in namespaceBiigle\Listeners
CreateRedisLogger — Class in namespaceBiigle\Logging
$LogManager#channel — Property in classLogManager: The default logging channel.
$AnnotationAssistanceRequest#casts — Property in classAnnotationAssistanceRequest: The attributes that should be casted to native types.
AnnotationAssistanceRequestController::create() — Method in classAnnotationAssistanceRequestController: Create a new annotation assistance request.
AnnotationAssistanceRequestObserver::created() — Method in classAnnotationAssistanceRequestObserver: Handle the event of creatinga new assistance request.
ColorSortServiceProvider — Class in namespaceBiigle\Modules\ColorSort
ComputeNewSequence — Class in namespaceBiigle\Modules\ColorSort\Jobs
$Sequence#casts — Property in classSequence: The attributes that should be casted to native types.
Config — Class in namespaceBiigle\Modules\Geo\Console\Commands
$GeoOverlay#casts — Property in classGeoOverlay: The attributes that should be casted to native types.
LabelTreeVersionsController::create() — Method in classLabelTreeVersionsController: Show the create label tree version page.
LabelTreesController::create() — Method in classLabelTreesController: Show the create label tree page.
$StoreMerge#create — Property in classStoreMerge: Flat array of labels to create.
$WormsAdapter#client — Property in classWormsAdapter: SOAP client for the WoRMS webservice.
WormsAdapter::create() — Method in classWormsAdapter: Create the label (or labels) from the label source based on an API request.
WormsAdapter::createSingleLabel() — Method in classWormsAdapter: Create (and save) a single label.
WormsAdapter::createRecursiveLabels() — Method in classWormsAdapter: Create (and save) a label and all WoRMS parents that don't already exist in the tree.
Config — Class in namespaceBiigle\Modules\Largo\Console\Commands
$GenerateMissing#count — Property in classGenerateMissing: Number of annotations missing patches.
$RemoveAnnotationPatches#chunkSize — Property in classRemoveAnnotationPatches: Number of annotations to start chunking of this job.
Config — Class in namespaceBiigle\Modules\Laserpoints\Console\Commands
LaserpointsController::computeImage() — Method in classLaserpointsController: Compute distance between laser points for an image.
LaserpointsController::computeVolume() — Method in classLaserpointsController: Compute distance between laser points for a volume.
ComputeImage — Class in namespaceBiigle\Modules\Laserpoints\Http\Requests
ComputeVolume — Class in namespaceBiigle\Modules\Laserpoints\Http\Requests
Image::convert() — Method in classImage: Converts a regular Biigle image to a Laserpoints image.
$ProcessDelphiJob#cacheKey — Property in classProcessDelphiJob: Key of the cached count of other jobs that run on the same volume than this one.
Volume::convert() — Method in classVolume: Converts a regular Biigle volume to a Laserpoints volume.
ProjectsController::create() — Method in classProjectsController: Shows the create project page.
ReportObserver::creating() — Method in classReportObserver: Fill the attributes that depend on the source.
$Report#casts — Property in classReport: The attributes that should be casted to native types.
CsvFile — Class in namespaceBiigle\Modules\Reports\Support
File::close() — Method in classFile: Close the file.
CsvReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\Annotations
CsvReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\ImageLabels
CsvReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\VideoAnnotations
CsvReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Videos\VideoAnnotations
CsvReportGenerator::createCsv() — Method in classCsvReportGenerator: Create a CSV file for this report.
AbundanceReportGenerator::createCsv() — Method in classAbundanceReportGenerator: Create a CSV file for a single sheet of the spreadsheet of this report.
AreaReportGenerator::createCsv() — Method in classAreaReportGenerator: Create a CSV file for a single sheet of the spreadsheet of this report.
BasicReportGenerator::createCsv() — Method in classBasicReportGenerator: Create a CSV file for a single plot of this report.
CsvReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\Annotations
CsvReportGenerator::createCsv() — Method in classCsvReportGenerator: Create a CSV file for this report.
ExtendedReportGenerator::createCsv() — Method in classExtendedReportGenerator: Create a CSV file for a single sheet of the spreadsheet of this report.
FullReportGenerator::createCsv() — Method in classFullReportGenerator: Create a CSV file for a single sheet of the spreadsheet of this report.
BasicReportGenerator::createCsv() — Method in classBasicReportGenerator: Create a CSV file for a single sheet of the spreadsheet of this report.
CsvReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\ImageLabels
CsvReportGenerator::createCsv() — Method in classCsvReportGenerator: Create a CSV file for this report.
$PythonScriptRunner#code — Property in classPythonScriptRunner: Exit code of the exec call.
Volume::convert() — Method in classVolume: Converts a regular Biigle volume to an export volume.
Controller — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Api\Export
AnnotationExport::cleanUp() — Method in classAnnotationExport: Clean up any temporary files.
AnnotationLabelExport::cleanUp() — Method in classAnnotationLabelExport: Clean up any temporary files.
Export::cleanUp() — Method in classExport: Clean up any temporary files.
ImageExport::cleanUp() — Method in classImageExport: Clean up any temporary files.
ImageLabelExport::cleanUp() — Method in classImageLabelExport: Clean up any temporary files.
PublicLabelExport::cleanUp() — Method in classPublicLabelExport: Clean up any temporary files.
Import::collectJson() — Method in classImport: Read a JSON file containing an array and wrap it in a Laravel collection.
TrackObject::createInputJson() — Method in classTrackObject: Create the JSON file that is the input for the object tracking script.
$GreaterThan#compare — Property in classGreaterThan: The value to compare.
$LessThan#compare — Property in classLessThan: The value to compare.
$Video#casts — Property in classVideo: The attributes that should be casted to native types.
Video::creator() — Method in classVideo: The user who created this video.
$VideoAnnotation#casts — Property in classVideoAnnotation: The attributes that should be casted to native types.
$VolumeImageMetadataController#columnSynonyms — Property in classVolumeImageMetadataController: Column name synonyms.
VolumeController::create() — Method in classVolumeController: Shows the create volume page.
ProjectObserver::creating() — Method in classProjectObserver: A project must not be created without having a creator.
ProjectObserver::created() — Method in classProjectObserver: Handle actions for newly created projects.
VolumeObserver::creating() — Method in classVolumeObserver: A volume must not be created without having a creator.
ApiTokenPolicy::create() — Method in classApiTokenPolicy: Determine if the given user can create API tokens.
CachedPolicy — Class in namespaceBiigle\Policies: A policy for caching the return values of the authorization rules during a request.
$CachedPolicy#cache — Property in classCachedPolicy: The cache instance to use for caching policies.
LabelTreePolicy::create() — Method in classLabelTreePolicy: Determine if the given user can create label trees.
LabelTreePolicy::createLabel() — Method in classLabelTreePolicy: Determine if the user can add labels to the given label tree.
LabelTreeVersionPolicy::create() — Method in classLabelTreeVersionPolicy: Determine if the given user can create version of a label tree.
ProjectPolicy::create() — Method in classProjectPolicy: Determine if the given user can create projects.
SystemMessagePolicy::create() — Method in classSystemMessagePolicy: Determine whether the user can create systemMessages.
UserPolicy::create() — Method in classUserPolicy: Determine if the given user can create users.
Project::creator() — Method in classProject: The user that created this project. On creation this user is automatically added to the project's users with the 'admin' role by the ProjectObserver.
Project::changeRole() — Method in classProject: Changes the role of an existing user in this project.
$Modules#controllerMixins — Property in classModules: The controller mixins of every module.
Modules::callControllerMixins() — Method in classModules: Call all controller mixins registered for a certain controller.
$SystemMessage#casts — Property in classSystemMessage: The attributes that should be casted to native types.
$User#casts — Property in classUser: The attributes that should be casted to native types.
User::checkCanBeDeleted() — Method in classUser: Checks if the user can be deleted.
$Volume#casts — Property in classVolume: The attributes that should be casted to native types.
Volume::creator() — Method in classVolume: The user that created the volume.

D

$Apidoc#description — Property in classApidoc: The console command description.
$MigrateTiledImages#description — Property in classMigrateTiledImages: The console command description.
$NewUser#description — Property in classNewUser: The console command description.
$PruneNotifications#description — Property in classPruneNotifications: The console command description.
$UpdateImageMetadata#description — Property in classUpdateImageMetadata: The console command description.
$UpdateImageMetadata#dryRun — Property in classUpdateImageMetadata: Is this a dry run?
UpdateImageMetadata::dispatchReprocessJobs() — Method in classUpdateImageMetadata: Dispatches jobs to process all images anew.
$UpdateVolumeUrls#description — Property in classUpdateVolumeUrls: The console command description.
$UpdateVolumeUrls#dryRun — Property in classUpdateVolumeUrls: Is this a dry run?
$UpdateVolumeUrls#disks — Property in classUpdateVolumeUrls: Available storage disks.
$Handler#dontReport — Property in classHandler: A list of the exception types that are not reported.
$Handler#dontFlash — Property in classHandler: A list of the inputs that are never flashed for validation exceptions.
$PruneFileCache#description — Property in classPruneFileCache: The console command description.
FileCache::delete() — Method in classFileCache: Delete a cached file it it is not used.
AnnotationController::destroy() — Method in classAnnotationController: Removes the annotation.
AnnotationLabelController::destroy() — Method in classAnnotationLabelController: Deletes the specified annotation label.
AnnotationSessionController::destroy() — Method in classAnnotationSessionController: Removes the annotation session.
ApiTokenController::destroy() — Method in classApiTokenController: Removes the specified API token.
ImageController::destroy() — Method in classImageController: Deletes the image.
ImageLabelController::destroy() — Method in classImageLabelController: Deletes the specified image label.
LabelController::destroy() — Method in classLabelController: Delete a label.
LabelTreeAuthorizedProjectController::destroy() — Method in classLabelTreeAuthorizedProjectController: Remove authorization of a project to use a private label tree.
LabelTreeController::destroy() — Method in classLabelTreeController: Removes the specified label tree.
LabelTreeUserController::destroy() — Method in classLabelTreeUserController: Removes the specified member from the specified label tree.
LabelTreeVersionController::destroy() — Method in classLabelTreeVersionController: Removes the specified label tree version.
NotificationController::destroy() — Method in classNotificationController: Delete a read notification.
ProjectController::destroy() — Method in classProjectController: Removes the specified project.
ProjectLabelTreeController::destroy() — Method in classProjectLabelTreeController: Removes a label tree form the specified project.
ProjectUserController::destroy() — Method in classProjectUserController: Removes a user form the specified project.
ProjectVolumeController::destroy() — Method in classProjectVolumeController: Removes the specified volume from the specified project.
SystemMessageController::destroy() — Method in classSystemMessageController: Delete an unpublished system message.
UserController::destroy() — Method in classUserController: Removes the specified user.
UserController::destroyOwn() — Method in classUserController: Removes the own user.
UserPinnedProjectController::destroy() — Method in classUserPinnedProjectController: Unpin a project.
UsersController::delete() — Method in classUsersController: Shows the admin delete user page.
DashboardController — Class in namespaceBiigle\Http\Controllers\Views
ManualController::documentationArticle() — Method in classManualController: Show a documentation article.
DestroyAnnotationSession — Class in namespaceBiigle\Http\Requests
DestroyLabel — Class in namespaceBiigle\Http\Requests
DestroyLabelTree — Class in namespaceBiigle\Http\Requests
DestroyLabelTreeUser — Class in namespaceBiigle\Http\Requests
DestroyLabelTreeVersion — Class in namespaceBiigle\Http\Requests
DestroyOwnUser — Class in namespaceBiigle\Http\Requests
DestroyPinnedProject — Class in namespaceBiigle\Http\Requests
DestroyProjectUser — Class in namespaceBiigle\Http\Requests
DestroyUser — Class in namespaceBiigle\Http\Requests
$DestroyUser#destroyUser — Property in classDestroyUser: The user to delete.
$Image#dates — Property in classImage: The attributes that should be mutated to dates.
DeleteVolume — Class in namespaceBiigle\Jobs
$MigrateTiledImage#disk — Property in classMigrateTiledImage: Name of the storage disk that holds the ZIP files of tiled images.
$ProcessNewImages#deleteWhenMissingModels — Property in classProcessNewImages: Ignore this job if the volume does not exist any more.
$TileSingleImage#deleteWhenMissingModels — Property in classTileSingleImage: Ignore this job if the image does not exist any more.
LabelTree::detachUnauthorizedProjects() — Method in classLabelTree: Detaches all projects that are not among the authorized projects.
$Publish#description — Property in classPublish: The console command description.
AnnotationAssistanceRequestController::destroy() — Method in classAnnotationAssistanceRequestController: Delete an annotation assistance request.
AnnotationAssistanceRequestPolicy::destroy() — Method in classAnnotationAssistanceRequestPolicy: Determine if the given assistance request can be deleted by the user.
$Publish#description — Property in classPublish: The console command description.
DashboardControllerMixin — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Mixins\Views
$Install#description — Property in classInstall: The console command description.
$Publish#description — Property in classPublish: The console command description.
VolumeColorSortSequenceController::destroy() — Method in classVolumeColorSortSequenceController: Delete a color sort sequence.
$ComputeNewSequence#deleteWhenMissingModels — Property in classComputeNewSequence: Ignore this job if the annotation does not exist any more.
ImageObserver::deleted() — Method in classImageObserver: Updates the color sort sequences containing the ID of the deleted image.
$Config#description — Property in classConfig: The console command description.
$Publish#description — Property in classPublish: The console command description.
GeoOverlayController::destroy() — Method in classGeoOverlayController: Deletes the geo overlay.
$Publish#description — Property in classPublish: The console command description.
$Config#description — Property in classConfig: The console command description.
$GenerateMissing#description — Property in classGenerateMissing: The console command description.
$GenerateMissing#disk — Property in classGenerateMissing: Largo patch storage disk.
$MigratePatchStorage#description — Property in classMigratePatchStorage: The console command description.
$MigratePatchStorage#disk — Property in classMigratePatchStorage: Largo patch storage disk.
$MigratePatchStorage#dryRun — Property in classMigratePatchStorage: Specifies if this is a dry run.
$Publish#description — Property in classPublish: The console command description.
RemoveAnnotationPatches::deletePatches() — Method in classRemoveAnnotationPatches: Delete the annotation patches.
AnnotationObserver::deleting() — Method in classAnnotationObserver: Handle the event of deleting a single annotation.
$Config#description — Property in classConfig: The console command description.
$Publish#description — Property in classPublish: The console command description.
$Job#distance — Property in classJob: Distance between laser points im cm to use for computation.
$ProcessDelphiJob#distance — Property in classProcessDelphiJob: Distance between laser points im cm to use for computation.
$ProcessDelphiJob#deleteWhenMissingModels — Property in classProcessDelphiJob: Ignore this job if the image does not exist any more.
$ProcessImageManualJob#deleteWhenMissingModels — Property in classProcessImageManualJob: Ignore this job if the image does not exist any more.
$ProcessManualJob#distance — Property in classProcessManualJob: Distance between laser points im cm to use for computation.
$ProcessManualJob#deleteWhenMissingModels — Property in classProcessManualJob: Ignore this job if the image does not exist any more.
$ProcessVolumeDelphiJob#deleteWhenMissingModels — Property in classProcessVolumeDelphiJob: Ignore this job if the image does not exist any more.
DelphiApply — Class in namespaceBiigle\Modules\Laserpoints\Support: Wrapper for the Delphi laser points detection script.
DelphiGather — Class in namespaceBiigle\Modules\Laserpoints\Support: Wrapper for the Delphi gather script.
Detect — Class in namespaceBiigle\Modules\Laserpoints\Support: Wrapper for the manual laser points detection script.
$Publish#description — Property in classPublish: The console command description.
$Publish#description — Property in classPublish: The console command description.
ReportsController::destroy() — Method in classReportsController: Delete a report.
ExportAreaController::destroy() — Method in classExportAreaController: Remove the export area.
ProjectObserver::deleted() — Method in classProjectObserver: Update the source name of reports when the source is deleted.
ReportObserver::deleted() — Method in classReportObserver: Remove report file of a report that should be deleted.
UserObserver::deleting() — Method in classUserObserver: Remove report files of a user that should be deleted.
VolumeObserver::deleted() — Method in classVolumeObserver: Update the source name of reports when the source is deleted.
ReportPolicy::destroy() — Method in classReportPolicy: Determine if the given report can be destroyed by the user.
Report::deleteFile() — Method in classReport: Delete the file that belongs to this report.
$CsvFile#delimiter — Property in classCsvFile: Field delimiter.
File::delete() — Method in classFile: Delete the file.
$Prune#description — Property in classPrune: The console command description.
$Publish#description — Property in classPublish: The console command description.
$Uuids#description — Property in classUuids: The console command description.
ImportController::destroy() — Method in classImportController
$ArchiveManager#disk — Property in classArchiveManager: Storage disk for uploaded import archives.
ArchiveManager::delete() — Method in classArchiveManager: Delete the files of an import.
$Publish#description — Property in classPublish: The console command description.
VideoAnnotationController::destroy() — Method in classVideoAnnotationController: Removes a video annotation.
VideoAnnotationLabelController::destroy() — Method in classVideoAnnotationLabelController: Detach a label
VideoController::destroy() — Method in classVideoController: Delete a video.
DashboardControllerMixin — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Mixins
DestroyVideo — Class in namespaceBiigle\Modules\Videos\Http\Requests
DestroyVideoAnnotationLabel — Class in namespaceBiigle\Modules\Videos\Http\Requests
DeleteVideoThumbnails — Class in namespaceBiigle\Modules\Videos\Jobs
$TrackObject#deleteWhenMissingModels — Property in classTrackObject: Ignore this job if the annotation does not exist any more.
VideoAnnotationLabelPolicy::destroy() — Method in classVideoAnnotationLabelPolicy: Determine if the user may detach the given video annotation label.
VideoAnnotationPolicy::destroy() — Method in classVideoAnnotationPolicy: Determine if the user may delete the given annotation.
VideoPolicy::destroy() — Method in classVideoPolicy: Determine if the given video can be deleted by the user.
$Video#dispatchesEvents — Property in classVideo: The event map for the model.
$Publish#description — Property in classPublish: The console command description.
BrowserController::diskAccessible() — Method in classBrowserController: Determines if a storage disk is accessible.
DashboardControllerMixin — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Mixins\Views
ImageObserver::deleting() — Method in classImageObserver: Handle the event of deleting a single image.
VolumeObserver::deleting() — Method in classVolumeObserver: Handle the deletion of a volume.
AnnotationLabelPolicy::destroy() — Method in classAnnotationLabelPolicy: Determine if the user can delete the given annotation label.
AnnotationPolicy::destroy() — Method in classAnnotationPolicy: Determine if the user may delete the given annotation.
ApiTokenPolicy::destroy() — Method in classApiTokenPolicy: Determine if the given token can be deleted by the user.
ImageLabelPolicy::destroy() — Method in classImageLabelPolicy: Determine if the user can delete the given image label.
ImagePolicy::destroy() — Method in classImagePolicy: Determine if the user can delete the given image.
LabelPolicy::destroy() — Method in classLabelPolicy: Determine if the user can remove the given label.
LabelTreePolicy::destroy() — Method in classLabelTreePolicy: Determine if the given label tree can be deleted by the user.
LabelTreeVersionPolicy::destroy() — Method in classLabelTreeVersionPolicy: Determine if the given label tree version can be deleted by the user.
ProjectPolicy::destroy() — Method in classProjectPolicy: Determine if the given project can be deleted by the user.
SystemMessagePolicy::destroy() — Method in classSystemMessagePolicy: Determine whether the user can delete the systemMessage.
UserPolicy::destroy() — Method in classUserPolicy: Determine if the given user can delete the user.
VolumePolicy::destroy() — Method in classVolumePolicy: Determine if the given volume can be deleted by the user.
$User#dates — Property in classUser: The attributes that should be mutated to dates.

E

FileCache::exists() — Method in classFileCache: Check if a file exists.
FileCache::exists() — Method in classFileCache: Check if a file exists.
FileCache::existsRemote() — Method in classFileCache: Check for existence of a remte file.
FileCache::existsDisk() — Method in classFileCache: Check for existence of a file from a storage disk.
FileCache::ensurePathExists() — Method in classFileCache: Creates the cache directory if it doesn't exist yet.
FileCacheFake::exists() — Method in classFileCacheFake: Check if a file exists.
UsersController::edit() — Method in classUsersController: Shows the admin edit user page.
$CheckForMaintenanceMode#except — Property in classCheckForMaintenanceMode: The URIs that should be reachable while maintenance mode is enabled.
EncryptCookies — Class in namespaceBiigle\Http\Middleware
$EncryptCookies#except — Property in classEncryptCookies: The names of the cookies that should not be encrypted.
$TrimStrings#except — Property in classTrimStrings: The names of the attributes that should not be trimmed.
$UpdateUserActivity#except — Property in classUpdateUserActivity: The URIs that should be excluded from updating the user activity.
$VerifyCsrfToken#except — Property in classVerifyCsrfToken: The URIs that should be excluded from CSRF verification.
Sort::execute() — Method in classSort: Compute a color sort sequence.
WormsAdapter::extractParents() — Method in classWormsAdapter: Extract the aphia IDs in correct ordering from a WoRMS classification hierarchy.
DelphiApply::execute() — Method in classDelphiApply: Execute a new Delphi laser point detection.
DelphiGather::execute() — Method in classDelphiGather: Execute a new Delphi preprocessing.
Detect::execute() — Method in classDetect: Execute a new manual laser point detection.
LaserpointsScript::exec() — Method in classLaserpointsScript: Execute a laser point detection command.
ExportAreaController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Api\Volumes
$CsvFile#enclosure — Property in classCsvFile: String enclosure character.
$CsvFile#escape_char — Property in classCsvFile: Escape character.
ExtendedReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\Annotations
$ProjectReportGenerator#extension — Property in classProjectReportGenerator: File extension of the report file.
$ReportGenerator#extension — Property in classReportGenerator: File extension of the report file.
ReportGenerator::expandLabelName() — Method in classReportGenerator: Constructs a label name from the names of all parent labels and the label itself.
$CsvReportGenerator#extension — Property in classCsvReportGenerator: File extension of the report file.
CsvReportGenerator::expandLabelName() — Method in classCsvReportGenerator: Constructs a label name from the names of all parent labels and the label itself.
$AbundanceReportGenerator#extension — Property in classAbundanceReportGenerator: File extension of the report file.
$AreaReportGenerator#extension — Property in classAreaReportGenerator: File extension of the report file.
$BasicReportGenerator#extension — Property in classBasicReportGenerator: File extension of the report file.
$CsvReportGenerator#extension — Property in classCsvReportGenerator: File extension of the report file.
ExtendedReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\Annotations
$ExtendedReportGenerator#extension — Property in classExtendedReportGenerator: File extension of the report file.
$FullReportGenerator#extension — Property in classFullReportGenerator: File extension of the report file.
$BasicReportGenerator#extension — Property in classBasicReportGenerator: File extension of the report file.
$CsvReportGenerator#extension — Property in classCsvReportGenerator: File extension of the report file.
VolumeReportGenerator::expandLabelName() — Method in classVolumeReportGenerator: Constructs a label name from the names of all parent labels and the label itself.
VolumeReportGenerator::executeScript() — Method in classVolumeReportGenerator: Execute the external report parsing Python script.
ExportAdminController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Views
Export — Class in namespaceBiigle\Modules\Sync\Support\Export
Import::expectedFiles() — Method in classImport: The files expected by this import.
Import::expectKeysInJson() — Method in classImport: Validates a JSON file to contain an array of objects, each of which has all the expected keys.
Import::expectColumnsInCsv() — Method in classImport: Validates a CSV file to contain the expected columns.
LabelTreeImport::expectedFiles() — Method in classLabelTreeImport: The files expected by this import.
PublicLabelTreeImport::expectedFiles() — Method in classPublicLabelTreeImport: The files expected by this import.
UserImport::expectedFiles() — Method in classUserImport: The files expected by this import.
VolumeImport::expectedFiles() — Method in classVolumeImport: The files expected by this import.
VideoPolicy::editIn() — Method in classVideoPolicy: Determine if the user can edit something in the given video.
VideoCodecExtractor::extract() — Method in classVideoCodecExtractor: Extract the video codec from the specified video file.
VolumeController::edit() — Method in classVolumeController: Shows the volume edit page.
ProjectPolicy::editIn() — Method in classProjectPolicy: Determine if the user can edit things in the given project.
VolumePolicy::editIn() — Method in classVolumePolicy: Determine if the user can edit something in the given volume.
Project::editors() — Method in classProject: All members of this project with the editor role.
EventServiceProvider — Class in namespaceBiigle\Providers

F

LabelSourceAdapterContract::find() — Method in classLabelSourceAdapterContract: Find a label in the label source.
File — Class in namespaceBiigle\FileCache\Contracts
FileCache — Class in namespaceBiigle\FileCache\Contracts
FileCache — Class in namespaceBiigle\FileCache\Facades
FileCache::fake() — Method in classFileCache: Use testing instance.
FileCache — Class in namespaceBiigle\FileCache: The file cache.
$FileCache#files — Property in classFileCache: The Filesytem instance to use
FileCacheServiceProvider — Class in namespaceBiigle\FileCache
FileCacheFake — Class in namespaceBiigle\FileCache\Testing
Controller::fuzzyRedirect() — Method in classController: Redirects to the _redirect URL, to a route or else back.
LabelSourceController::find() — Method in classLabelSourceController: Find labels from a label source.
UserController::find() — Method in classUserController: Finds all users with firstnames or lastnames like $pattern.
ForgotPasswordController — Class in namespaceBiigle\Http\Controllers\Auth
$CreateNewImages#filenames — Property in classCreateNewImages: The filenames of the images to create.
ProcessNewImageChunk::fracToFloat() — Method in classProcessNewImageChunk: Converts a fracture (string) like "1/2" to a float.
ComputeNewSequence::failed() — Method in classComputeNewSequence: Handle a job failure.
WormsAdapter::find() — Method in classWormsAdapter: Find labels by scientific name.
WormsAdapter::filterUnaccepted() — Method in classWormsAdapter: Returns true for accepted WoRMS items and false otherwise.
$GenerateMissing#format — Property in classGenerateMissing: Largo patch storage file format.
FilterAnnotationsByLabelController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Api\Projects
FilterAnnotationsByLabelController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Api\Volumes
ProcessDelphiJob::failed() — Method in classProcessDelphiJob: Handle a job failure.
DelphiGather::finish() — Method in classDelphiGather: Finish the Delphi preprocessing after all images have been processed.
FiltersInvalidLaserPoints — Class in namespaceBiigle\Modules\Laserpoints\Traits
FiltersInvalidLaserPoints::filterInvalidLaserPoints() — Method in classFiltersInvalidLaserPoints: Removes items from the annotations array if the laser point annotations are invalid.
File — Class in namespaceBiigle\Modules\Reports\Support
$AbundanceReportGenerator#filename — Property in classAbundanceReportGenerator: Name of the report for use as (part of) a filename.
$AreaReportGenerator#filename — Property in classAreaReportGenerator: Name of the report for use as (part of) a filename.
$BasicReportGenerator#filename — Property in classBasicReportGenerator: Name of the report for use as (part of) a filename.
$CsvReportGenerator#filename — Property in classCsvReportGenerator: Name of the report for use as (part of) a filename.
$ExtendedReportGenerator#filename — Property in classExtendedReportGenerator: Name of the report for use as (part of) a filename.
FullReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects\Annotations
$FullReportGenerator#filename — Property in classFullReportGenerator: Name of the report for use as (part of) a filename.
$BasicReportGenerator#filename — Property in classBasicReportGenerator: Name of the report for use as (part of) a filename.
$CsvReportGenerator#filename — Property in classCsvReportGenerator: Name of the report for use as (part of) a filename.
$CsvReportGenerator#filename — Property in classCsvReportGenerator: Name of the report for use as (part of) a filename.
$ReportGenerator#filename — Property in classReportGenerator: Name of the report for use as (part of) a filename.
$CsvReportGenerator#filename — Property in classCsvReportGenerator: Name of the report for use as (part of) a filename.
$AbundanceReportGenerator#filename — Property in classAbundanceReportGenerator: Name of the report for use as (part of) a filename.
$AreaReportGenerator#filename — Property in classAreaReportGenerator: Name of the report for use as (part of) a filename.
$BasicReportGenerator#filename — Property in classBasicReportGenerator: Name of the report for use as (part of) a filename.
$CsvReportGenerator#filename — Property in classCsvReportGenerator: Name of the report for use as (part of) a filename.
$ExtendedReportGenerator#filename — Property in classExtendedReportGenerator: Name of the report for use as (part of) a filename.
FullReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes\Annotations
$FullReportGenerator#filename — Property in classFullReportGenerator: Name of the report for use as (part of) a filename.
$BasicReportGenerator#filename — Property in classBasicReportGenerator: Name of the report for use as (part of) a filename.
$CsvReportGenerator#filename — Property in classCsvReportGenerator: Name of the report for use as (part of) a filename.
Import::filesMatch() — Method in classImport: Check if this import matches to the given import files.
Import::files() — Method in classImport: Get the basename of each file of this import.
$LinkVideoAnnotation#firstAnnotation — Property in classLinkVideoAnnotation: The first annotation that should be linked.
$ProcessNewVideo#ffmpegVideo — Property in classProcessNewVideo: The FFMpeg video instance.
TrackObject::failed() — Method in classTrackObject: The job failed to process.
VideoPolicy::forceEditIn() — Method in classVideoPolicy: Determine if the user can edit things created by other users in the given video.
$VideoCodecExtractor#ffprobe — Property in classVideoCodecExtractor: FFProbe instance.
$Video#fillable — Property in classVideo: The attributes that are mass assignable.
$VideoAnnotation#fillable — Property in classVideoAnnotation: The attributes that are mass assignable.
$VideoAnnotationLabel#fillable — Property in classVideoAnnotationLabel: The attributes that are mass assignable.
VolumeImageMetadataController::fillImageAttributes() — Method in classVolumeImageMetadataController: Fill the attributes of an image.
VolumeImageMetadataController::fillImageMetadata() — Method in classVolumeImageMetadataController: Fill metadata of an image.
ProjectPolicy::forceEditIn() — Method in classProjectPolicy: Determine if the user can edit things created by other users in the given project.
VolumePolicy::forceEditIn() — Method in classVolumePolicy: Determine if the user can edit things created by other users in the given volume.
Project::flushGeoInfoCache() — Method in classProject: Flush the cached information if this project has volumes which have images with GPS coordinates.
$SystemMessage#fillable — Property in classSystemMessage: The attributes that are mass assignable.
Volume::flushThumbnailCache() — Method in classVolume: Flush the cache that stores the volume thumbnail.
Volume::flushGeoInfoCache() — Method in classVolume: Flush the cached information if this volume has images with GPS coordinates.

G

Annotation::getPoints() — Method in classAnnotation: Get the points array of the annotation.
Annotation::getShape() — Method in classAnnotation: Get the shape of an annotation.
Annotation::getImage() — Method in classAnnotation: Get the image, the annotation belongs to.
AnnotationSession::getImageAnnotations() — Method in classAnnotationSession: Get the annotations of the image (with labels), filtered by the restrictions of this annotation session.
AnnotationSession::getStartsAtIso8601Attribute() — Method in classAnnotationSession: Get the start date formatted as ISO8601 string.
AnnotationSession::getEndsAtIso8601Attribute() — Method in classAnnotationSession: Get the end date formatted as ISO8601 string.
Annotation::getPoints() — Method in classAnnotation: Get the points array of the annotation.
Annotation::getShape() — Method in classAnnotation: Get the shape of an annotation.
Annotation::getImage() — Method in classAnnotation: Get the image, the annotation belongs to.
Modules::getFacadeAccessor() — Method in classModules: Get the registered name of the component.
VipsImage::getFacadeAccessor() — Method in classVipsImage: Get the registered name of the component.
File::getUrl() — Method in classFile: Get the file URL.
FileCache::get() — Method in classFileCache: Perform a callback with the path of a cached file. This takes care of shared locks on the cached file file so it is not corrupted due to concurrent write operations.
FileCache::getOnce() — Method in classFileCache: Like get but deletes the cached file afterwards (if it is not used somewhere else).
FileCache::getStream() — Method in classFileCache: Get a stream resource for an file. If the file is cached, the resource points to the cached file instead. This will not cache uncached files. Make sure to close the streams!
FileCache::getFacadeAccessor() — Method in classFileCache: Get the registered name of the component.
FileCache::get() — Method in classFileCache: Perform a callback with the path of a cached file. This takes care of shared locks on the cached file file so it is not corrupted due to concurrent write operations.
FileCache::getOnce() — Method in classFileCache: Like get but deletes the cached file afterwards (if it is not used somewhere else).
FileCache::getStream() — Method in classFileCache: Get a stream resource for an file. If the file is cached, the resource points to the cached file instead. This will not cache uncached files. Make sure to close the streams!
FileCache::getRemoteFile() — Method in classFileCache: Cache a remote file and get the path to the cached file.
FileCache::getDiskFile() — Method in classFileCache: Cache an file from a storage disk and get the path to the cached file. Files from local disks are not cached.
FileCache::getCachedPath() — Method in classFileCache: Get the path to the cached file file.
FileCache::getFileStream() — Method in classFileCache: Get the stream resource for an file.
FileCache::getDisk() — Method in classFileCache: Get the storage disk on which a file is stored.
GenericFile — Class in namespaceBiigle\FileCache
GenericFile::getUrl() — Method in classGenericFile: Get the file URL.
FileCacheFake::get() — Method in classFileCacheFake: Perform a callback with the path of a cached file. This takes care of shared locks on the cached file file so it is not corrupted due to concurrent write operations.
FileCacheFake::getOnce() — Method in classFileCacheFake: Like get but deletes the cached file afterwards (if it is not used somewhere else).
FileCacheFake::getStream() — Method in classFileCacheFake: Get a stream resource for an file. If the file is cached, the resource points to the cached file instead. This will not cache uncached files. Make sure to close the streams!
IndexController::get() — Method in classIndexController: Shows the admin dashboard.
LabelsController::get() — Method in classLabelsController: Shows the admin labels page.
UsersController::get() — Method in classUsersController: Shows the admin users page.
Image::getUrl() — Method in classImage: Get the file URL.
Image::getUrlAttribute() — Method in classImage: Adds the url attribute to the image model. The url is the absolute path to the original image file.
Image::getMetadataAttribute() — Method in classImage: Get the image metadata attribute.
Image::getFile() — Method in classImage: Get the original image as download response.
Image::getWidthAttribute() — Method in classImage: Get the width attribute.
Image::getHeightAttribute() — Method in classImage: Get the height attribute.
Image::getSizeAttribute() — Method in classImage: Get the size attribute.
Image::getMimetypeAttribute() — Method in classImage: Get the mimetype attribute.
Image::getTilingInProgressAttribute() — Method in classImage: Get the tilingInProgress attribute.
ProcessNewImageChunk::getExif() — Method in classProcessNewImageChunk: Get the exif information of an image if possible.
ProcessNewImageChunk::getGps() — Method in classProcessNewImageChunk: Converts a EXIF GPS coordinate to a float see: http://stackoverflow.com/a/2572991/1796523.
TileSingleImage::generateTiles() — Method in classTileSingleImage: Generate tiles for the image and put them to temporary storage.
TileSingleImage::getVipsImage() — Method in classTileSingleImage: Get the vips image instance.
TileSingleImage::getIterator() — Method in classTileSingleImage: Get the recursive directory iterator for the given path.
LabelSource::getAdapter() — Method in classLabelSource: Returns the label source adapter of this label source.
LabelTree::getVersionedNameAttribute() — Method in classLabelTree: Get the name with a version suffix of this label tree.
LogManager::getLogFilenames() — Method in classLogManager: Get the filenames of the logfiles.
LogManager::getLogFileContent() — Method in classLogManager: Get the content of a logfile.
LogManager::getRedisLogMessages() — Method in classLogManager: Get the log messages.
LogManager::getRecentCount() — Method in classLogManager: Get the number of log messages of the last day(s).
AnnotationAssistanceRequest::generateToken() — Method in classAnnotationAssistanceRequest: Generate a token for use in the annotation assistance request URL.
AnnotationAssistanceRequest::getResponseLabelAttribute() — Method in classAnnotationAssistanceRequest: Get the chosen response label from the request labels array.
GeoOverlay — Class in namespaceBiigle\Modules\Geo
GeoOverlay::getPathAttribute() — Method in classGeoOverlay: Get the local path to the overlay image file.
GeoServiceProvider — Class in namespaceBiigle\Modules\Geo
GeoOverlayController — Class in namespaceBiigle\Modules\Geo\Http\Controllers\Api
StoreMerge::getFlatLabels() — Method in classStoreMerge: Returns a flat list of a nested array of labels and assigns a parent_index to each label, which indicates the position of the parent label in the list (as opposed to a parent_id, sinde the labels have no ID yet).
WormsAdapter::getSoapClient() — Method in classWormsAdapter: Get the SOAP client instance to use for requests.
GenerateMissing — Class in namespaceBiigle\Modules\Largo\Console\Commands
LargoController::getAffectedAnnotations() — Method in classLargoController: Get a list of unique annotation IDs that are either dismissed or changed.
LargoController::getRequiredLabelTrees() — Method in classLargoController: Returns the IDs of all label trees that must be available to apply the changes.
LargoController::getAvailableLabelTrees() — Method in classLargoController: Get label trees of projects that the user and the volume have in common.
GenerateAnnotationPatch — Class in namespaceBiigle\Modules\Largo\Jobs
GenerateAnnotationPatch::getVipsImage() — Method in classGenerateAnnotationPatch: Get the vips image instance.
GenerateAnnotationPatch::getPatchRect() — Method in classGenerateAnnotationPatch: Calculate the bounding rectangle of the patch to extract.
GenerateAnnotationPatch::getTargetPath() — Method in classGenerateAnnotationPatch: Assemble the target path for an annotation patch.
Image::getLaserpointsAttribute() — Method in classImage: Return the dynamic attribute for the laser points information.
Image::getAreaAttribute() — Method in classImage: Get the area attribute from the laser point detection.
Image::getCountAttribute() — Method in classImage: Get the count attribute from the laser point detection.
Image::getMethodAttribute() — Method in classImage: Get the method attribute from the laser point detection.
Image::getDistanceAttribute() — Method in classImage: Get the distance attribute from the laser point detection.
Image::getPointsAttribute() — Method in classImage: Get the points attribute from the laser point detection.
Image::getErrorAttribute() — Method in classImage: Get the error attribute from the laser point detection.
Image::getMessageAttribute() — Method in classImage: Get the message attribute from the lase point detection.
Job::getLaserpointsForVolume() — Method in classJob: Collects all images of a volume that contain laser point annotations.
Job::gather() — Method in classJob: Perform the gather step.
$ProcessDelphiJob#gatherFile — Property in classProcessDelphiJob: Path to the output of the Delphi gather script.
ProcessImageManualJob::getLaserpointsForImage() — Method in classProcessImageManualJob: Collects the laser point annotations of the given image.
DelphiGather::getOutputPath() — Method in classDelphiGather: Get the path to the temporary ouput file of the Delphi gather script.
ReportController::getOptions() — Method in classReportController: Get the options of the requested report.
VolumeReportController::getOptions() — Method in classVolumeReportController: Get the options of the requested report.
GenerateReportJob — Class in namespaceBiigle\Modules\Reports\Jobs
Report::getSourceNameAttribute() — Method in classReport: Get the source name dynamically if the source still exists.
Report::getReportGenerator() — Method in classReport: Get the report generator for this report;.
Report::generate() — Method in classReport: Generate the report file for this report.
Report::getSubjectAttribute() — Method in classReport: Get the subject for this report.
Report::getNameAttribute() — Method in classReport: Get the name for this report.
Report::getFilenameAttribute() — Method in classReport: Get the filename for this report.
Report::getUrl() — Method in classReport: Get the URL to download the report.
File::getPath() — Method in classFile: Returns the path to the file.
AnnotationReportGenerator::getName() — Method in classAnnotationReportGenerator: Get the report name.
AnnotationReportGenerator::getFilename() — Method in classAnnotationReportGenerator: Get the filename.
ProjectReportGenerator::generateReport() — Method in classProjectReportGenerator: Generate the report.
ProjectReportGenerator::getReportGenerator() — Method in classProjectReportGenerator: Get the report generator.
ProjectReportGenerator::getProjectSources() — Method in classProjectReportGenerator: Get sources for the sub-reports that should be generated for this project.
CsvReportGenerator::getProjectSources() — Method in classCsvReportGenerator: Get sources for the sub-reports that should be generated for this project.
ReportGenerator::get() — Method in classReportGenerator: Get the report generator for the given type.
ReportGenerator::generate() — Method in classReportGenerator: Generate the report.
ReportGenerator::generateReport() — Method in classReportGenerator: Internal function to generate the report.
ReportGenerator::getName() — Method in classReportGenerator: Get the report name.
ReportGenerator::getFilename() — Method in classReportGenerator: Get the report filename.
ReportGenerator::getFullFilename() — Method in classReportGenerator: Get the filename with extension.
ReportGenerator::getSiblingLabels() — Method in classReportGenerator: Get all labels that belong to the label tree of the given label.
ReportGenerator::getOnlyLabels() — Method in classReportGenerator: Returns the array of label ids to which this report should be restricted.
CsvReportGenerator::generateReport() — Method in classCsvReportGenerator: Generate the report.
CsvReportGenerator::getVideoLabels() — Method in classCsvReportGenerator: Get all labels that are attached to the volume of this report (through project label trees).
AbundanceReportGenerator::generateReport() — Method in classAbundanceReportGenerator: Generate the report.
AnnotationReportGenerator::getName() — Method in classAnnotationReportGenerator: Get the report name.
AnnotationReportGenerator::getFilename() — Method in classAnnotationReportGenerator: Get the filename.
AnnotationReportGenerator::getAnnotationSessionName() — Method in classAnnotationReportGenerator: Get the name of the annotation session if it exists.
AnnotationReportGenerator::getSkipIds() — Method in classAnnotationReportGenerator: Returns the annotation IDs to skip as outside of the volume export area.
AnnotationReportGenerator::getAnnotationSession() — Method in classAnnotationReportGenerator: Returns the annotation session this report should be restricted to.
AreaReportGenerator::generateReport() — Method in classAreaReportGenerator: Generate the report.
BasicReportGenerator::generateReport() — Method in classBasicReportGenerator: Generate the report.
CsvReportGenerator::generateReport() — Method in classCsvReportGenerator: Generate the report.
ExtendedReportGenerator::generateReport() — Method in classExtendedReportGenerator: Generate the report.
FullReportGenerator::generateReport() — Method in classFullReportGenerator: Generate the report.
FullReportGenerator::getArea() — Method in classFullReportGenerator: Parses the image attrs JSON object to retrieve the computed area of the laserpoint detection.
BasicReportGenerator::generateReport() — Method in classBasicReportGenerator: Generate the report.
CsvReportGenerator::generateReport() — Method in classCsvReportGenerator: Generate the report.
VolumeReportGenerator::getVolumeLabels() — Method in classVolumeReportGenerator: Get all labels that are attached to the volume of this report (through project label trees).
Volume::getExportAreaAttribute() — Method in classVolume: Return the dynamic attribute for the export area.
Uuids::generateOutput() — Method in classUuids: Generate the output that can be used as file to synchronize user UUIDs.
Controller::getQuery() — Method in classController: Get the query for the model to export.
Controller::getExport() — Method in classController: Get the new export instance.
Controller::getExportFilename() — Method in classController: Get the filename of the export archive.
LabelTreeExportController::getQuery() — Method in classLabelTreeExportController: Get the query for the model to export.
LabelTreeExportController::getExport() — Method in classLabelTreeExportController: Get the new export instance.
LabelTreeExportController::getExportFilename() — Method in classLabelTreeExportController: Get the filename of the export archive.
UserExportController::getQuery() — Method in classUserExportController: Get the query for the model to export.
UserExportController::getExport() — Method in classUserExportController: Get the new export instance.
UserExportController::getExportFilename() — Method in classUserExportController: Get the filename of the export archive.
VolumeExportController::getQuery() — Method in classVolumeExportController: Get the query for the model to export.
VolumeExportController::getExport() — Method in classVolumeExportController: Get the new export instance.
VolumeExportController::getExportFilename() — Method in classVolumeExportController: Get the filename of the export archive.
AnnotationExport::getContent() — Method in classAnnotationExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
AnnotationExport::getFileName() — Method in classAnnotationExport: Get the name of the export file.
AnnotationLabelExport::getContent() — Method in classAnnotationLabelExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
AnnotationLabelExport::getFileName() — Method in classAnnotationLabelExport: Get the name of the export file.
Export::getArchive() — Method in classExport: Generate the export archive file and return the temporary file path.
Export::getContent() — Method in classExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
Export::getFileName() — Method in classExport: Get the name of the export file.
Export::getAdditionalExports() — Method in classExport: Get additional exports that should be included in the export archive.
ImageExport::getContent() — Method in classImageExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
ImageExport::getFileName() — Method in classImageExport: Get the name of the export file.
ImageLabelExport::getContent() — Method in classImageLabelExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
ImageLabelExport::getFileName() — Method in classImageLabelExport: Get the name of the export file.
LabelTreeExport::getContent() — Method in classLabelTreeExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
LabelTreeExport::getFileName() — Method in classLabelTreeExport: Get the name of the export file.
LabelTreeExport::getAdditionalExports() — Method in classLabelTreeExport: Get additional exports that should be included in the export archive.
PublicLabelExport::getContent() — Method in classPublicLabelExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
PublicLabelExport::getFileName() — Method in classPublicLabelExport: Get the name of the export file.
PublicLabelTreeExport::getContent() — Method in classPublicLabelTreeExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
PublicLabelTreeExport::getFileName() — Method in classPublicLabelTreeExport: Get the name of the export file.
PublicLabelTreeExport::getAdditionalExports() — Method in classPublicLabelTreeExport: Get additional exports that should be included in the export archive.
UserExport::getContent() — Method in classUserExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
UserExport::getFileName() — Method in classUserExport: Get the name of the export file.
VolumeExport::getContent() — Method in classVolumeExport: Get the content of the export file. If a string, it is the path to the temporary file containing the content (like a CSV).
VolumeExport::getFileName() — Method in classVolumeExport: Get the name of the export file.
VolumeExport::getAdditionalExports() — Method in classVolumeExport: Get additional exports that should be included in the export archive.
ArchiveManager::get() — Method in classArchiveManager: Get the correct import instance for the import with the given token.
ArchiveManager::generateToken() — Method in classArchiveManager: Generates a new token for an import.
LabelTreeImport::getImportLabelTrees() — Method in classLabelTreeImport: Get the contents of the label tree import file.
LabelTreeImport::getLabelTreeImportCandidates() — Method in classLabelTreeImport: Get label trees that can be imported and don't already exist.
LabelTreeImport::getLabelImportCandidates() — Method in classLabelTreeImport: Get labels of existing label trees that can be imported.
LabelTreeImport::getUserImportCandidates() — Method in classLabelTreeImport: Get users who might be implicitly imported along with a label tree.
LabelTreeImport::getUserImport() — Method in classLabelTreeImport: Get the user import instance that belongs to this import.
LabelTreeImport::getInsertLabelTrees() — Method in classLabelTreeImport: Get the array that can be used to insert the label trees that should be imported.
LabelTreeImport::getInsertUserIds() — Method in classLabelTreeImport: Get IDs of label tree admins that should be imported.
LabelTreeImport::getInsertLabels() — Method in classLabelTreeImport: Get the array that can be used to insert the labels that should be imported.
PublicLabelTreeImport::getImportLabelTree() — Method in classPublicLabelTreeImport: Get the contents of the label tree import file.
UserImport::getImportUsers() — Method in classUserImport: Get the contents of the user import file.
UserImport::getUserImportCandidates() — Method in classUserImport: Get users that can be imported.
UserImport::getConflicts() — Method in classUserImport: Get import users whose email address matches with an existing user but the UUID doesn't.
VolumeImport::getImportVolumes() — Method in classVolumeImport: Get the contents of the volume import file.
VolumeImport::getImportLabelTrees() — Method in classVolumeImport: Get the contents of the label tree import file.
VolumeImport::getVolumeImportCandidates() — Method in classVolumeImport: Get all volumes of this import augmented by the IDs of the users, label trees and labels that they require.
VolumeImport::getLabelTreeImportCandidates() — Method in classVolumeImport: Get all label trees that might have to be imported for the volumes.
VolumeImport::getLabelImportCandidates() — Method in classVolumeImport: Get all labels that might have to be imported for the volumes.
VolumeImport::getUserImportCandidates() — Method in classVolumeImport: Get the users who might have to be imported for the volumes.
VolumeImport::getUserImport() — Method in classVolumeImport: Get the user import instance that belongs to this import.
VolumeImport::getLabelTreeImport() — Method in classVolumeImport: Get the label tree import instance that belongs to this import.
VolumeImport::getCsvIdMap() — Method in classVolumeImport: Get a map of one CSV ID column to another.
VolumeImport::getRequiredEntities() — Method in classVolumeImport: Get the list of labels and users that whould need to be imported for each volume.
ProjectVideoController::getDiskAttrs() — Method in classProjectVideoController: Get the size and mime type of a video from a storage disk.
ProjectVideoController::getRemoteAttrs() — Method in classProjectVideoController: Get the size and mime type of a video from a remote source.
VideoFileController::getByteRange() — Method in classVideoFileController: Determine the byte range that should be included in the response.
ProcessNewVideo::getVideoDuration() — Method in classProcessNewVideo: Get the duration of the video.
ProcessNewVideo::generateVideoThumbnail() — Method in classProcessNewVideo: Generate a thumbnail from the video at the specified time.
ProcessNewVideo::getThumbnailTimes() — Method in classProcessNewVideo: Get the times at which thumbnails should be sampled.
TrackObject::getTrackingKeyframes() — Method in classTrackObject: Execute the object tracking method and get the resulting annotation key frames.
TrackObject::getInputJsonPath() — Method in classTrackObject: Get the path to to input file for the object tracking script.
TrackObject::getOutputJsonPath() — Method in classTrackObject: Get the path to to output file for the object tracking script.
TrackObject::getStartWindow() — Method in classTrackObject: Get the coordinates and dimensions of the start window for the object tracking script.
TrackObject::getPointsFromKeyframe() — Method in classTrackObject: Get the points of a keyframe depending on the annotation shape.
VideoPolicy::getBaseQuery() — Method in classVideoPolicy: Get the base query for all policy methods.
GreaterThan — Class in namespaceBiigle\Modules\Videos\Rules
Video::getUrl() — Method in classVideo: Get the file URL.
Video::getDiskAttribute() — Method in classVideo: Get the name of the storage disk of this video.
Video::getPathAttribute() — Method in classVideo: Get the file path in the storage disk of this video.
Video::getGisLinkAttribute() — Method in classVideo: Get the gis_link attribute of this volume.
Video::getDoiAttribute() — Method in classVideo: Get the doi attribute of this volume.
Video::getThumbnailAttribute() — Method in classVideo: Thumbnail string of this video. Use with the thumbnail_url helper function.
Video::getThumbnailUrlAttribute() — Method in classVideo: URL to the thumbnail of this video.
Video::getThumbnailsAttribute() — Method in classVideo: Thumbnails array of this video. Use with the thumbnail_url helper function.
Video::getThumbnailsUrlAttribute() — Method in classVideo: URLs to the thumbnails of this video.
VideoAnnotation::getInterpolationPoints() — Method in classVideoAnnotation: Get the points of this annotation prepared for interpolation.
VolumeController::getProjects() — Method in classVolumeController: Get all projects that belong to a volume and that the user can access.
ProjectPolicy::getBaseQuery() — Method in classProjectPolicy: Get the base query for all policy methods.
VolumePolicy::getBaseQuery() — Method in classVolumePolicy: Get the base query for all policy methods.
Project::guests() — Method in classProject: All members of this project with the guest role.
Project::getThumbnailUrlAttribute() — Method in classProject: URL to a unique thumbnail image for this project.
ApiGuard::getTokenForRequest() — Method in classApiGuard: Get the token for the current request.
Modules::getViewMixins() — Method in classModules: Returns all mixins for a view that were registered by modules.
Modules::getMixins() — Method in classModules
Modules::getControllerMixins() — Method in classModules: Returns all mixins for a controller that were registered by modules.
Modules::getInstalledModules() — Method in classModules: Returns information about all installed BIIGLE modules
Modules::getApidocPaths() — Method in classModules: Get the registered apidoc paths of the modules.
HasJsonAttributes::getJsonAttr() — Method in classHasJsonAttributes: Get a dynamic JSON attribute.
User::getIsGlobalAdminAttribute() — Method in classUser: Determines if the user has the global admin role.
User::getSettings() — Method in classUser: Get settings of a specific key.
User::getIsInSuperUserModeAttribute() — Method in classUser: Determines if the user is currently in Super User Mode.
Volume::getActiveAnnotationSession() — Method in classVolume: Returns the active annotation session of this volume for the given user.
Volume::getThumbnailAttribute() — Method in classVolume: An image that can be used a unique thumbnail for this volume.
Volume::getThumbnailUrlAttribute() — Method in classVolume: URL to the thumbnail image of this volume.
Volume::getThumbnailsAttribute() — Method in classVolume: Several images that can be used for the preview thumbnail of a volume.
Volume::getThumbnailsUrlAttribute() — Method in classVolume: URLs to the thumbnail images of this volume.
Volume::getVideoLinkAttribute() — Method in classVolume: Get the video_link attribute of this volume.
Volume::getGisLinkAttribute() — Method in classVolume: Get the gis_link attribute of this volume.
Volume::getDoiAttribute() — Method in classVolume: Get the doi attribute of this volume.

H

$Annotation#hidden — Property in classAnnotation: The attributes excluded from the model's JSON form.
$AnnotationLabel#hidden — Property in classAnnotationLabel: The attributes excluded from the model's JSON form.
$ApiToken#hidden — Property in classApiToken: The attributes excluded from the model's JSON form.
Apidoc::handle() — Method in classApidoc: Handle the command.
MigrateTiledImages::handle() — Method in classMigrateTiledImages: Handle the command.
NewUser::handle() — Method in classNewUser: Handle the command.
PruneNotifications::handle() — Method in classPruneNotifications: Execute the console command.
UpdateImageMetadata::handle() — Method in classUpdateImageMetadata: Handle the command.
UpdateVolumeUrls::handle() — Method in classUpdateVolumeUrls: Handle the command.
Handler — Class in namespaceBiigle\Exceptions
PruneFileCache::handle() — Method in classPruneFileCache: Execute the console command.
ClearFileCache::handle() — Method in classClearFileCache: Handle the event.
HeartbeatController — Class in namespaceBiigle\Http\Controllers\Views
RedirectIfAuthenticated::handle() — Method in classRedirectIfAuthenticated: Handle an incoming request.
SessionOnly::handle() — Method in classSessionOnly: Handle an incoming request.
$TrustProxies#headers — Property in classTrustProxies: The headers that should be used to detect proxies.
UpdateUserActivity::handle() — Method in classUpdateUserActivity: Handle an outgoing response.
$Image#hidden — Property in classImage: The attributes hidden in the model's JSON form.
CreateNewImages::handle() — Method in classCreateNewImages: Execute the job.
DeleteVolume::handle() — Method in classDeleteVolume: Execute the job.
MigrateTiledImage::handle() — Method in classMigrateTiledImage: Execute the job.
$ProcessNewImageChunk#height — Property in classProcessNewImageChunk: The desired thumbnail height.
ProcessNewImageChunk::handle() — Method in classProcessNewImageChunk: Execute the job.
ProcessNewImageChunk::hasTakenAtInfo() — Method in classProcessNewImageChunk: Check if an exif array contains a creation date.
ProcessNewImageChunk::hasGpsInfo() — Method in classProcessNewImageChunk: Check if an exif array contains GPS information.
ProcessNewImageChunk::hasExtendedGpsInfo() — Method in classProcessNewImageChunk: Check if an exif array contains even more GPS information.
ProcessNewImages::handle() — Method in classProcessNewImages: Execute the job.
TileSingleImage::handle() — Method in classTileSingleImage: Execute the job.
$Label#hidden — Property in classLabel: The attributes hidden from the model's JSON form.
$LabelTree#hidden — Property in classLabelTree: The attributes hidden from the model's JSON form.
CleanupImageTiles::handle() — Method in classCleanupImageTiles: Handle the event.
CleanupThumbnails::handle() — Method in classCleanupThumbnails: Handle the event.
Publish::handle() — Method in classPublish: Execute the command.
Publish::handle() — Method in classPublish: Execute the command.
VolumeImageController::hasAnnotation() — Method in classVolumeImageController: List the IDs of images having one or more annotations.
VolumeImageController::hasAnnotationUser() — Method in classVolumeImageController: List the IDs of images having one or more annotations of the specified user.
Install::handle() — Method in classInstall: Execute the command.
Publish::handle() — Method in classPublish: Execute the command.
ComputeNewSequence::handle() — Method in classComputeNewSequence: Execute the job.
ImagesCreatedListener::handle() — Method in classImagesCreatedListener: Handle the event.
Config::handle() — Method in classConfig: Execute the command.
Publish::handle() — Method in classPublish: Execute the command.
$GeoOverlay#hidden — Property in classGeoOverlay: The attributes hidden in the model's JSON form.
Publish::handle() — Method in classPublish: Execute the command.
Config::handle() — Method in classConfig: Execute the command.
GenerateMissing::handle() — Method in classGenerateMissing: Execute the command.
MigratePatchStorage::handle() — Method in classMigratePatchStorage: Execute the command.
Publish::handle() — Method in classPublish: Execute the command.
GenerateAnnotationPatch::handle() — Method in classGenerateAnnotationPatch: Execute the job.
GenerateAnnotationPatch::handleImage() — Method in classGenerateAnnotationPatch: Handle a single image.
RemoveAnnotationPatches::handle() — Method in classRemoveAnnotationPatches: Execute the job.
ImagesCleanupListener::handle() — Method in classImagesCleanupListener: Handle the event.
Config::handle() — Method in classConfig: Execute the command.
Publish::handle() — Method in classPublish: Execute the command.
Job::handle() — Method in classJob: Execute the job.
ProcessDelphiJob::handle() — Method in classProcessDelphiJob: Execute the job.
ProcessImageDelphiJob::handle() — Method in classProcessImageDelphiJob: Execute the job.
ProcessImageManualJob::handle() — Method in classProcessImageManualJob: Execute the job.
ProcessManualJob::handle() — Method in classProcessManualJob: Execute the job.
ProcessVolumeDelphiJob::handle() — Method in classProcessVolumeDelphiJob: Execute the job.
Volume::hasDetectedLaserpoints() — Method in classVolume: Determines whether there are images with automatically detected laser points in this volume.
Publish::handle() — Method in classPublish: Execute the command.
Publish::handle() — Method in classPublish: Execute the command.
GenerateReportJob::handle() — Method in classGenerateReportJob: Execute the job.
$File#handle — Property in classFile: File handle.
Prune::handle() — Method in classPrune: Execute the command.
Publish::handle() — Method in classPublish: Execute the command.
Uuids::handle() — Method in classUuids: Execute the command.
Uuids::handleSync() — Method in classUuids: Read the input file and perform interactive synchronization of user UUIDs.
ImportAdminController::hideUserCredentials() — Method in classImportAdminController: Hides sensitive user credentials that should not be returned to the frontend.
PostprocessVolumeImport::handle() — Method in classPostprocessVolumeImport: Execute the job.
ArchiveManager::has() — Method in classArchiveManager: Determine if the files of an import with tthe given token exist.
Publish::handle() — Method in classPublish: Execute the command.
DeleteVideoThumbnails::handle() — Method in classDeleteVideoThumbnails: Execute the job.
ProcessNewVideo::handle() — Method in classProcessNewVideo: Execute the job.
ProcessNewVideo::handleFile() — Method in classProcessNewVideo: Process a cached video file.
TrackObject::handle() — Method in classTrackObject: Execute the job.
PrepareDeleteVideoThumbnails::handle() — Method in classPrepareDeleteVideoThumbnails: Handle the event.
$Video#hidden — Property in classVideo: The attributes hidden from the model's JSON form.
Publish::handle() — Method in classPublish: Execute the command.
$Project#hidden — Property in classProject: The attributes hidden from the model's JSON form.
Project::hasGeoInfo() — Method in classProject: Check if the project has volumes which have some images with GPS coordinates.
HasConstantInstances — Class in namespaceBiigle\Traits: Some models have fixed, "constant" instances. An example is the Role model, which may have e.g. the roles "admin" and "user". These are always the same and do not change.
HasJsonAttributes — Class in namespaceBiigle\Traits
HasPointsAttribute — Class in namespaceBiigle\Traits
$User#hidden — Property in classUser: The attributes hidden from the model's JSON form.
$Volume#hidden — Property in classVolume: The attributes hidden from the model's JSON form.
Volume::hasConflictingAnnotationSession() — Method in classVolume: Check if the given annotation session is in conflict with existing ones.
Volume::hasGeoInfo() — Method in classVolume: Check if the volume has some images with GPS coordinates.
Volume::hasTiledImages() — Method in classVolume: Check if the there are tiled images in this volume.

I

Annotation::image() — Method in classAnnotation: The image, this annotation belongs to.
ImagesDeleted — Class in namespaceBiigle\Events
FileCache::isRemote() — Method in classFileCache: Determine if an file is remote, i.e. served by a public webserver.
AnnotationLabelController::index() — Method in classAnnotationLabelController: Shows all labels of the specified annotation.
ApiTokenController::index() — Method in classApiTokenController: Shows a list of all API tokens belonging to the authenticated user.
ImageAnnotationController — Class in namespaceBiigle\Http\Controllers\Api
ImageAnnotationController::index() — Method in classImageAnnotationController: Shows a list of all annotations of the specified image.
ImageController — Class in namespaceBiigle\Http\Controllers\Api
ImageLabelController — Class in namespaceBiigle\Http\Controllers\Api
ImageLabelController::index() — Method in classImageLabelController: Shows all labels of the specified image.
LabelTreeController::index() — Method in classLabelTreeController: Shows all label trees the user has access to.
MediaTypeController::index() — Method in classMediaTypeController: Shows all media types.
ProjectController::index() — Method in classProjectController: Shows all projects that are accessible by the requesting user.
ProjectLabelTreeController::index() — Method in classProjectLabelTreeController: Display all label trees used by the specified project.
ProjectUserController::index() — Method in classProjectUserController: Displays the users belonging to the specified project.
ProjectVolumeController::index() — Method in classProjectVolumeController: Shows a list of all volumes belonging to the specified project.
RoleController::index() — Method in classRoleController: Shows all roles.
ShapeController::index() — Method in classShapeController: Shows all shapes.
UserController::index() — Method in classUserController: Shows a list of all users.
UserPinnedProjectController::index() — Method in classUserPinnedProjectController: Shows all pinned projects of the user.
UserRegistrationController::isAdminConfirmationEnabled() — Method in classUserRegistrationController: Determines if the user registration confirmation by admins is enabled.
VisibilityController::index() — Method in classVisibilityController: Shows all visibilities.
VolumeAnnotationSessionController::index() — Method in classVolumeAnnotationSessionController: Shows a list of all annotation sessions of the specified volume.
VolumeController::index() — Method in classVolumeController: Shows all volumes the user has access to.
VolumeImageController::index() — Method in classVolumeImageController: List the image IDs of the specified volume.
RegisterController::isRegistrationDisabled() — Method in classRegisterController: Determines if the user registration mechansim is disabled.
RegisterController::isAdminConfirmationEnabled() — Method in classRegisterController: Determines if the user registration confirmation by admins is enabled.
Controller::isAutomatedRequest() — Method in classController: Determines if the request was done by an automated script (with API token or ajax).
IndexController — Class in namespaceBiigle\Http\Controllers\Views\Admin
LogsController::index() — Method in classLogsController: Shows the available logfiles.
SystemMessagesController::index() — Method in classSystemMessagesController: Shows the admin system messages page.
DashboardController::index() — Method in classDashboardController: Show the application dashboard to the user.
DashboardController::indexDashboard() — Method in classDashboardController: Show the dashboard for a logged in user.
DashboardController::indexLandingPage() — Method in classDashboardController: Show the landing page if no user is authenticated.
ImprintController — Class in namespaceBiigle\Http\Controllers\Views
ManualController::index() — Method in classManualController: Show the application manual to the user.
NotificationsController::index() — Method in classNotificationsController: Shows the notification center.
SearchController::index() — Method in classSearchController: Shows the search page.
SettingsController::index() — Method in classSettingsController: Redirects to the profile settings.
SystemMessagesController::index() — Method in classSystemMessagesController: Shows the system message list.
UpdateUserActivity::inExceptArray() — Method in classUpdateUserActivity: Determine if the request has a URI that should not update the user activity.
$StoreAnnotation#image — Property in classStoreAnnotation: The image on which the annotation should be created.
$StoreAnnotations#imageIds — Property in classStoreAnnotations: Unique image IDs of this request.
$StoreAnnotations#images — Property in classStoreAnnotations: The images on which the annotations should be created.
$StoreImageLabel#image — Property in classStoreImageLabel: The image to which the label should be attached.
$StoreLabelTreeUser#isGlobalGuest — Property in classStoreLabelTreeUser: Determines whether the user to be attached is a global guest.
$UpdateLabelTreeUser#isGlobalGuest — Property in classUpdateLabelTreeUser: Determines whether the user to be attached is a global guest.
Image — Class in namespaceBiigle: This model stores information on an image file in the file system.
ImageLabel — Class in namespaceBiigle: Pivot object for the connection between Images and Labels.
ImageLabel::image() — Method in classImageLabel: The image, this image label belongs to.
$ProcessNewImageChunk#ids — Property in classProcessNewImageChunk: IDs of the images to generate thumbnails for.
$TileSingleImage#image — Property in classTileSingleImage: The image to generate tiles for.
Label::isUsed() — Method in classLabel: Determines if the label is used anywhere (e.g. attached to an annotation).
LogManager::isFile() — Method in classLogManager: Determine whether logs are written to files.
LogManager::isRedis() — Method in classLogManager: Determine whether logs are written to files.
ImageController — Class in namespaceBiigle\Modules\Ananas\Http\Controllers\Api
AnnotationAssistanceRequestController::index() — Method in classAnnotationAssistanceRequestController: Show the list of all assistance requests of the user.
StoreAnnotationAssistanceRequest::invalidLabels() — Method in classStoreAnnotationAssistanceRequest: Check if the user attempts to use invalid labels for the request.
VolumeImageAreaController::index() — Method in classVolumeImageAreaController: Get the area of the images of a volume in m².
VolumeLabelController::index() — Method in classVolumeLabelController: Get all annotation labels that were used in a volume.
SearchControllerMixin::index() — Method in classSearchControllerMixin: Add image results to the search view.
Install — Class in namespaceBiigle\Modules\ColorSort\Console\Commands
VolumeColorSortSequenceController::index() — Method in classVolumeColorSortSequenceController: List all color sort sequence colors of the specified volume.
ImagesCreatedListener — Class in namespaceBiigle\Modules\ColorSort\Listeners
ImageObserver — Class in namespaceBiigle\Modules\ColorSort\Observers
ProjectImageAnnotationLabelController::index() — Method in classProjectImageAnnotationLabelController: List the IDs of images of a project having one or more annotations with the specified label.
VolumeGeoOverlayController::index() — Method in classVolumeGeoOverlayController: Shows the geo overlays of the specified volume.
LabelTreeMergeController::index() — Method in classLabelTreeMergeController: Show the label tree merge index page.
LabelTreesController::index() — Method in classLabelTreesController: Show the label tree list.
SearchControllerMixin::index() — Method in classSearchControllerMixin: Add label tree results to the search view.
AnnotationsController::index() — Method in classAnnotationsController: Show annotations of a label.
LargoController::ignoreDeletedLabels() — Method in classLargoController: Removes changes to annotations that should get a new label which no longer exists.
FilterAnnotationsByLabelController::index() — Method in classFilterAnnotationsByLabelController: Show all annotations of the project that have a specific label attached.
AnnotationExamplesController::index() — Method in classAnnotationExamplesController: Show example annotations of a label or of a similar label if no annotation exists.
FilterAnnotationsByLabelController::index() — Method in classFilterAnnotationsByLabelController: Show all annotations of the volume that have a specific label attached.
LargoController::index() — Method in classLargoController: Show the Largo view for a project.
LargoController::index() — Method in classLargoController: Show the the Largo view for a volume.
ImagesCleanupListener — Class in namespaceBiigle\Modules\Largo\Listeners
ImagesController — Class in namespaceBiigle\Modules\Laserpoints\Http\Controllers\Api
VolumeImageController::index() — Method in classVolumeImageController: List the IDs of images having automatically detected laser points.
$ComputeImage#image — Property in classComputeImage: The image that should be processed with laser point detection.
Image — Class in namespaceBiigle\Modules\Laserpoints: Extends the base Biigle image.
$Image#infoParams — Property in classImage: Properties of the laser points object.
$ProcessDelphiJob#image — Property in classProcessDelphiJob: The image to process.
$ProcessImageDelphiJob#image — Property in classProcessImageDelphiJob: The image to compute the area for.
$ProcessImageManualJob#image — Property in classProcessImageManualJob: The image to compute the area for.
$ProcessManualJob#image — Property in classProcessManualJob: The image to process.
AttachableVolumesController::index() — Method in classAttachableVolumesController: Shows all volumes that can be attached to the project by the requesting user.
SearchControllerMixin::index() — Method in classSearchControllerMixin: Add project results to the search view.
ProjectsController::index() — Method in classProjectsController: Shows the project index page.
SearchControllerMixin::index() — Method in classSearchControllerMixin: Add report results to the search view.
ReportsController::index() — Method in classReportsController: Show the reports list of the user.
AnnotationReportGenerator::isRestrictedToExportArea() — Method in classAnnotationReportGenerator: Should this report be restricted to the export area?
AnnotationReportGenerator::isRestrictedToNewestLabel() — Method in classAnnotationReportGenerator: Determines if this report should take only the newest label for each annotation.
ReportGenerator::isRestrictedToLabels() — Method in classReportGenerator: Determines if this report is restricted to a subset of labels.
CsvReportGenerator::initQuery() — Method in classCsvReportGenerator: Assembles the part of the DB query that is the same for all annotation reports.
AnnotationReportGenerator::initQuery() — Method in classAnnotationReportGenerator: Assembles the part of the DB query that is the same for all annotation reports.
AnnotationReportGenerator::isRestrictedToExportArea() — Method in classAnnotationReportGenerator: Should this report be restricted to the export area?
AnnotationReportGenerator::isRestrictedToAnnotationSession() — Method in classAnnotationReportGenerator: Should this report be restricted an annotation session?
AnnotationReportGenerator::isRestrictedToNewestLabel() — Method in classAnnotationReportGenerator: Determines if this report should take only the newest label of each annotation.
$AreaReportGenerator#images — Property in classAreaReportGenerator: All images that contain annotations which are included in this report.
Controller::isAllowed() — Method in classController: Determine if this kind of export is allowed by the config.
LabelTreeExportController::isAllowed() — Method in classLabelTreeExportController: Determine if this kind of export is allowed by the config.
UserExportController::isAllowed() — Method in classUserExportController: Determine if this kind of export is allowed by the config.
VolumeExportController::isAllowed() — Method in classVolumeExportController: Determine if this kind of export is allowed by the config.
ImportController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Api\Import
ExportAdminController::index() — Method in classExportAdminController: Shows the export admin page.
ImportAdminController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Views
ImportAdminController::index() — Method in classImportAdminController: Shows the import admin page.
PublicLabelTreeImportController::index() — Method in classPublicLabelTreeImportController: Shows the import admin page.
$PostprocessVolumeImport#ids — Property in classPostprocessVolumeImport: IDs of the imported volumes.
$Export#ids — Property in classExport: IDs of the models of this export.
ImageExport — Class in namespaceBiigle\Modules\Sync\Support\Export
ImageLabelExport — Class in namespaceBiigle\Modules\Sync\Support\Export
$ArchiveManager#importTypes — Property in classArchiveManager: Class names of available imports.
Import — Class in namespaceBiigle\Modules\Sync\Support\Import
$LabelTreeImport#importLabelTrees — Property in classLabelTreeImport: Caches the decoded label tree import file.
LabelTreeImport::insertLabelTrees() — Method in classLabelTreeImport: Insert label trees that should be imported in the database.
LabelTreeImport::insertLabelTreeVersions() — Method in classLabelTreeImport: Create label tree versions for imported versioned label trees.
LabelTreeImport::insertLabels() — Method in classLabelTreeImport: Insert labels that should be imported in the database.
$PublicLabelTreeImport#importLabelTree — Property in classPublicLabelTreeImport: Caches the decoded label tree import file.
PublicLabelTreeImport::importLabels() — Method in classPublicLabelTreeImport: Import the labels of this import.
$UserImport#importUsers — Property in classUserImport: Caches the decoded user import file.
$VolumeImport#importVolumes — Property in classVolumeImport: Caches the decoded volume import file.
VolumeImport::insertVolumes() — Method in classVolumeImport: Insert import volumes into the database.
VolumeImport::insertUsers() — Method in classVolumeImport: Insert import users into the database.
VolumeImport::insertLabelTreesAndLabels() — Method in classVolumeImport: Insert import label trees and labels into the database.
VolumeImport::insertImages() — Method in classVolumeImport: Insert import images into the database.
VolumeImport::insertImageLabels() — Method in classVolumeImport: Insert import image labels into the database.
VolumeImport::insertAnnotations() — Method in classVolumeImport: Insert import annotations into the database.
ProjectVideoController::index() — Method in classProjectVideoController: Shows a list of all videos belonging to the specified project.
VideoAnnotationController::index() — Method in classVideoAnnotationController: Shows a list of all annotations of the specified video.
SearchControllerMixin::index() — Method in classSearchControllerMixin: Add video results to the search view.
Video::isRemote() — Method in classVideo: Determine if this video comes from a remote source.
VideoAnnotation::interpolatePoints() — Method in classVideoAnnotation: Get the interpolated points at a specific point of time.
VideoAnnotation::interpolateBetweenFrames() — Method in classVideoAnnotation: Get the interpolated points of this annotation between the specified frames.
VideoAnnotation::interpolateNaive() — Method in classVideoAnnotation: Interpolate between two points arrays.
VideoAnnotation::interpolationPointsToRectangle() — Method in classVideoAnnotation: Convert points that can be interpolated back to the points of a rectangle (frame).
AdminController::index() — Method in classAdminController: Shows the volumes admin page.
BrowserController::indexDirectories() — Method in classBrowserController: List directories in a storage disk.
BrowserController::indexImages() — Method in classBrowserController: List images in a storage disk.
AnyImageLabelController::index() — Method in classAnyImageLabelController: List the IDs of images having one or more image labels attached.
ImageAnnotationLabelController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api\VolumeFilters
ImageAnnotationLabelController::index() — Method in classImageAnnotationLabelController: List the IDs of images having one or more annotations with the specified label.
ImageFilenameController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api\VolumeFilters
ImageFilenameController::index() — Method in classImageFilenameController: List the IDs of images with a filename matching the given pattern.
ImageLabelController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api\VolumeFilters
ImageLabelController::index() — Method in classImageLabelController: List the IDs of images having the specified label attached.
ImageLabelUserController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api\VolumeFilters
ImageLabelUserController::index() — Method in classImageLabelUserController: List the IDs of images having one or more image labels attached by the specified user.
VolumeImageFilenamesController::index() — Method in classVolumeImageFilenamesController: Get all image filenames of a volume.
VolumeImageLabelsController::index() — Method in classVolumeImageLabelsController: Get the image labels for each image
ImageFilenameController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api\VolumeSorters
ImageFilenameController::index() — Method in classImageFilenameController: List the image IDs of the specified volume, ordered by filename.
VolumeUsedImageLabelsController::index() — Method in classVolumeUsedImageLabelsController: Get all image labels that were used in a volume.
VolumeUserController::index() — Method in classVolumeUserController: List the users of a volume.
ImageController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers
ImageController::index() — Method in classImageController: Shows the image index page.
SearchControllerMixin::index() — Method in classSearchControllerMixin: Add volume results to the search view.
VolumeController::index() — Method in classVolumeController: Shows the volume index page.
InAppNotification — Class in namespaceBiigle\Notifications: A notification that is displayed through the in-app notification system.
ImageObserver — Class in namespaceBiigle\Observers
ImageLabelPolicy — Class in namespaceBiigle\Policies
ImagePolicy — Class in namespaceBiigle\Policies
$VolumeImageUnique#images — Property in classVolumeImageUnique: The filenames of the images that already exist.
SystemMessage::isPublished() — Method in classSystemMessage: Returns whether this system message is published.
Volume::images() — Method in classVolume: The images belonging to this volume.
Volume::isRemote() — Method in classVolume: Check if the images of this volume come from a remote URL.

J

Job — Class in namespaceBiigle\Jobs
Job — Class in namespaceBiigle\Modules\Laserpoints\Jobs

K

Kernel — Class in namespaceBiigle\Console
Kernel — Class in namespaceBiigle\Http

L

Annotation::labels() — Method in classAnnotation: The labels, this annotation got assigned by the users.
AnnotationLabel::label() — Method in classAnnotationLabel: The label, this annotation label belongs to.
LabelSourceAdapterContract — Class in namespaceBiigle\Contracts: A label source adapter.
LabelController — Class in namespaceBiigle\Http\Controllers\Api
LabelSourceController — Class in namespaceBiigle\Http\Controllers\Api
LabelTreeAuthorizedProjectController — Class in namespaceBiigle\Http\Controllers\Api
LabelTreeController — Class in namespaceBiigle\Http\Controllers\Api
LabelTreeLabelController — Class in namespaceBiigle\Http\Controllers\Api
LabelTreeUserController — Class in namespaceBiigle\Http\Controllers\Api
LabelTreeVersionController — Class in namespaceBiigle\Http\Controllers\Api
LoginController — Class in namespaceBiigle\Http\Controllers\Auth
LabelsController — Class in namespaceBiigle\Http\Controllers\Views\Admin
LogsController — Class in namespaceBiigle\Http\Controllers\Views\Admin
$DestroyLabel#label — Property in classDestroyLabel: The label to destroy.
$StoreAnnotationLabel#label — Property in classStoreAnnotationLabel: The label that should be attached.
$StoreAnnotations#labels — Property in classStoreAnnotations: The labels that should be attached to the new annotations.
$StoreImageLabel#label — Property in classStoreImageLabel: The label that should be attached to the image.
$UpdateLabel#label — Property in classUpdateLabel: The label to update.
Image::labels() — Method in classImage: The labels, this image got attached by the users.
ImageLabel::label() — Method in classImageLabel: The label, this image label belongs to.
Label — Class in namespaceBiigle: Annotations on an image can have multiple labels. A label is e.g. the type of the object visible in the region of the annotation. So if you put a circle annotation around a rock, you would label the annotation with rock.
LabelSource — Class in namespaceBiigle: The source (database) of a label.
LabelTree — Class in namespaceBiigle: A label tree is a group of labels. Projects can choose to used different label trees, which are then offered for labeling things in the project.
LabelTree::labels() — Method in classLabelTree: The labels that belong to this tree.
LabelTreeVersion — Class in namespaceBiigle
LabelTreeVersion::labelTree() — Method in classLabelTreeVersion: The "master" label tree of this version.
LogManager — Class in namespaceBiigle\Logging
LabelTreeMergeController — Class in namespaceBiigle\Modules\LabelTrees\Http\Controllers\Api
LabelTreeMergeController — Class in namespaceBiigle\Modules\LabelTrees\Http\Controllers
LabelTreeVersionsController — Class in namespaceBiigle\Modules\LabelTrees\Http\Controllers
LabelTreesController — Class in namespaceBiigle\Modules\LabelTrees\Http\Controllers
LabelTreesServiceProvider — Class in namespaceBiigle\Modules\LabelTrees
LargoController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Api
LargoController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Api\Projects
LargoController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Api\Volumes
LargoController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Views\Projects
LargoController — Class in namespaceBiigle\Modules\Largo\Http\Controllers\Views\Volumes
LargoServiceProvider — Class in namespaceBiigle\Modules\Largo
LaserpointsController — Class in namespaceBiigle\Modules\Laserpoints\Http\Controllers\Api
$Job#labelId — Property in classJob: ID of the laser point label.
LaserpointsServiceProvider — Class in namespaceBiigle\Modules\Laserpoints
LaserpointsScript — Class in namespaceBiigle\Modules\Laserpoints\Support
$ReportGenerator#labels — Property in classReportGenerator: Cache for labels of all label trees that are used for this report.
$PythonScriptRunner#lines — Property in classPythonScriptRunner: Array of output lines of the exec call.
LabelTreeExportController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Api\Export
LabelTreeExport — Class in namespaceBiigle\Modules\Sync\Support\Export
LabelTreeImport — Class in namespaceBiigle\Modules\Sync\Support\Import
$VolumeImport#labelTreeImport — Property in classVolumeImport: The label tree import instance that belongs to this import.
LinkVideoAnnotationController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Api
LinkVideoAnnotation — Class in namespaceBiigle\Modules\Videos\Http\Requests
$StoreVideoAnnotationLabel#label — Property in classStoreVideoAnnotationLabel: The label that should be attached.
LessThan — Class in namespaceBiigle\Modules\Videos\Rules
VideoAnnotation::labels() — Method in classVideoAnnotation: The labels that are attached to this annotation.
VideoAnnotationLabel::label() — Method in classVideoAnnotationLabel: The label, this annotation label belongs to.
LabelPolicy — Class in namespaceBiigle\Policies
LabelTreePolicy — Class in namespaceBiigle\Policies
LabelTreeVersionPolicy — Class in namespaceBiigle\Policies
Project::labelTrees() — Method in classProject: The label trees, this project is using.
$EventServiceProvider#listen — Property in classEventServiceProvider: The event listener mappings for the application.
User::labelTrees() — Method in classUser: The label trees, this user is a member of.

M

MigrateTiledImages — Class in namespaceBiigle\Console\Commands
Modules — Class in namespaceBiigle\Facades
MediaTypeController — Class in namespaceBiigle\Http\Controllers\Api
ManualController — Class in namespaceBiigle\Http\Controllers\Views
$Kernel#middleware — Property in classKernel: The application's global HTTP middleware stack.
$Kernel#middlewareGroups — Property in classKernel: The application's route middleware groups.
$Kernel#middlewarePriority — Property in classKernel: The priority-sorted list of middleware.
AttachProjectUser::messages() — Method in classAttachProjectUser: Get the error messages for the defined validation rules.
$DestroyLabelTreeUser#member — Property in classDestroyLabelTreeUser: The label tree member to update.
StoreLabelTreeUser::messages() — Method in classStoreLabelTreeUser: Get the error messages for the defined validation rules.
$UpdateLabelTreeUser#member — Property in classUpdateLabelTreeUser: The label tree member to update.
UpdateLabelTreeUser::messages() — Method in classUpdateLabelTreeUser: Get the error messages for the defined validation rules.
UpdateProjectUser::messages() — Method in classUpdateProjectUser: Get the error messages for the defined validation rules.
$UpdateSystemMessage#message — Property in classUpdateSystemMessage: The system message to update.
MigrateTiledImage — Class in namespaceBiigle\Jobs
ProcessNewImageChunk::makeThumbnail() — Method in classProcessNewImageChunk: Makes a thumbnail for a single image.
LabelTree::memberCanLooseAdminStatus() — Method in classLabelTree: Check if a member can loose their admin status.
LabelTree::members() — Method in classLabelTree: The members of this label tree. Every member has a tree-specific role.
LabelTree::memberCanBeRemoved() — Method in classLabelTree: Determines if a member can be removed.
MediaType — Class in namespaceBiigle: Volumes can contain different types of image-series. One type would be a time-series of a static camera taking photos in regular intervals for example. Another type coud be images from a moving camera.
StoreColorSortSequence::messages() — Method in classStoreColorSortSequence: Get the error messages for the defined validation rules.
MigratePatchStorage — Class in namespaceBiigle\Modules\Largo\Console\Commands
GenerateAnnotationPatch::makeRectContained() — Method in classGenerateAnnotationPatch: Adjust the position and size of the patch rectangle so it is contained in the image.
ProcessDelphiJob::maybeDeleteGatherFile() — Method in classProcessDelphiJob: Handles the deletion of the gatherFile once all "sibling" jobs finished.
File::makeTmp() — Method in classFile: Creates a new temporary file.
MakesZipArchives — Class in namespaceBiigle\Modules\Reports\Support\Reports
MakesZipArchives::makeZip() — Method in classMakesZipArchives: Create a ZIP archive as a report.
LabelTreeImport::mergeLabels() — Method in classLabelTreeImport: Merge conflicts between import labels and existing labels.
LinkVideoAnnotationController::mergeAnnotationLabels() — Method in classLinkVideoAnnotationController: Update annotation labels of the second annotation to point to the first annotation unless there already are equivalent annotation labels there.
TrackObject::maybeDeleteFile() — Method in classTrackObject: Delete a file if it exists.
GreaterThan::message() — Method in classGreaterThan: Get the validation error message.
LessThan::message() — Method in classLessThan: Get the validation error message.
$VideoUrl#message — Property in classVideoUrl: The validation message to display.
VideoUrl::message() — Method in classVideoUrl: Get the validation error message.
$InAppNotification#message — Property in classInAppNotification: Message (body) of the notification.
RouteServiceProvider::map() — Method in classRouteServiceProvider: Define the routes for the application.
RouteServiceProvider::mapWebRoutes() — Method in classRouteServiceProvider: Define the "web" routes for the application.
RouteServiceProvider::mapApiRoutes() — Method in classRouteServiceProvider: Define the "api" routes for the application.
Uuid4::message() — Method in classUuid4: Get the validation error message.
VolumeImageUnique::message() — Method in classVolumeImageUnique: Get the validation error message.
$VolumeImages#message — Property in classVolumeImages: The validation message to display.
VolumeImages::message() — Method in classVolumeImages: Get the validation error message.
$VolumeUrl#message — Property in classVolumeUrl: The validation message to display.
VolumeUrl::message() — Method in classVolumeUrl: Get the validation error message.
Modules — Class in namespaceBiigle\Services: The module registry service.
Volume::mediaType() — Method in classVolume: The media type of this volume.

N

$Apidoc#name — Property in classApidoc: The console command name.
NewUser — Class in namespaceBiigle\Console\Commands
$NewUser#name — Property in classNewUser: The console command name.
NotificationController — Class in namespaceBiigle\Http\Controllers\Api
UsersController::newUser() — Method in classUsersController: Shows the admin new user page.
NotificationsController — Class in namespaceBiigle\Http\Controllers\Views\Notifications
SettingsController::notifications() — Method in classSettingsController: Shows the notification settings.
$ProcessNewImageChunk#needsThumbnailCache — Property in classProcessNewImageChunk: Caches if an image needs a new thumbnail.
$ProcessNewImageChunk#needsMetadataCache — Property in classProcessNewImageChunk: Caches if an image needs a check for metadata.
ProcessNewImageChunk::needsProcessing() — Method in classProcessNewImageChunk: Determine if an image needs to be processed.
ProcessNewImageChunk::needsThumbnail() — Method in classProcessNewImageChunk: Chack if an image needs a thumbnail.
ProcessNewImageChunk::needsMetadata() — Method in classProcessNewImageChunk: Chack if an image has missing metadata.
$Publish#name — Property in classPublish: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Install#name — Property in classInstall: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Config#name — Property in classConfig: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Config#name — Property in classConfig: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Config#name — Property in classConfig: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Publish#name — Property in classPublish: The console command name.
$AbundanceReportGenerator#name — Property in classAbundanceReportGenerator: Name of the report for use in text.
$AreaReportGenerator#name — Property in classAreaReportGenerator: Name of the report for use in text.
$BasicReportGenerator#name — Property in classBasicReportGenerator: Name of the report for use in text.
$CsvReportGenerator#name — Property in classCsvReportGenerator: Name of the report for use in text.
$ExtendedReportGenerator#name — Property in classExtendedReportGenerator: Name of the report for use in text.
$FullReportGenerator#name — Property in classFullReportGenerator: Name of the report for use in text.
$BasicReportGenerator#name — Property in classBasicReportGenerator: Name of the report for use in text.
$CsvReportGenerator#name — Property in classCsvReportGenerator: Name of the report for use in text.
$CsvReportGenerator#name — Property in classCsvReportGenerator: Name of the report for use in text.
$ReportGenerator#name — Property in classReportGenerator: Name of the report for use in text.
$CsvReportGenerator#name — Property in classCsvReportGenerator: Name of the report for use in text.
$AbundanceReportGenerator#name — Property in classAbundanceReportGenerator: Name of the report for use in text.
$AreaReportGenerator#name — Property in classAreaReportGenerator: Name of the report for use in text.
$BasicReportGenerator#name — Property in classBasicReportGenerator: Name of the report for use in text.
$CsvReportGenerator#name — Property in classCsvReportGenerator: Name of the report for use in text.
$ExtendedReportGenerator#name — Property in classExtendedReportGenerator: Name of the report for use in text.
$FullReportGenerator#name — Property in classFullReportGenerator: Name of the report for use in text.
$BasicReportGenerator#name — Property in classBasicReportGenerator: Name of the report for use in text.
$CsvReportGenerator#name — Property in classCsvReportGenerator: Name of the report for use in text.
$Prune#name — Property in classPrune: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Publish#name — Property in classPublish: The console command name.
$Publish#name — Property in classPublish: The console command name.
NewSystemMessageNotification — Class in namespaceBiigle\Notifications
$RouteServiceProvider#namespace — Property in classRouteServiceProvider: This namespace is applied to your controller routes.

O

ApiToken::owner() — Method in classApiToken: The user, this token belongs to.
$ProcessNewImages#only — Property in classProcessNewImages: Array of image IDs to restrict processing to.
$DelphiGather#outputPath — Property in classDelphiGather: Path to the temporary ouput file of the Delphi gather script.
$ReportGenerator#options — Property in classReportGenerator: Options for this report.
Volume::orderedImages() — Method in classVolume: The images belonging to this volume ordered by filename (ascending).

P

PruneNotifications — Class in namespaceBiigle\Console\Commands
Handler::prepareException() — Method in classHandler: Prepare exception for rendering.
PruneFileCache — Class in namespaceBiigle\FileCache\Console\Commands
FileCache::prune() — Method in classFileCache: Remove cached files that are too old or exceed the maximum cache size.
FileCache::prune() — Method in classFileCache: Remove cached files that are too old or exceed the maximum cache size.
FileCacheServiceProvider::provides() — Method in classFileCacheServiceProvider: Get the services provided by the provider.
FileCacheFake::prune() — Method in classFileCacheFake: Remove cached files that are too old or exceed the maximum cache size.
ProjectController — Class in namespaceBiigle\Http\Controllers\Api
ProjectLabelTreeController — Class in namespaceBiigle\Http\Controllers\Api
ProjectUserController — Class in namespaceBiigle\Http\Controllers\Api
ProjectVolumeController — Class in namespaceBiigle\Http\Controllers\Api
PrivacyController — Class in namespaceBiigle\Http\Controllers\Views
SettingsController::profile() — Method in classSettingsController: Shows the profile settings.
$TrustProxies#proxies — Property in classTrustProxies: The trusted proxies for this application.
$AttachProjectUser#project — Property in classAttachProjectUser: The project to attach a user to.
$DestroyPinnedProject#project — Property in classDestroyPinnedProject: The project to unpin.
$DestroyProjectUser#project — Property in classDestroyProjectUser: The project to detach the user from.
$StoreLabelTree#project — Property in classStoreLabelTree: The project to which the new label tree should be attached (if any).
$StorePinnedProject#project — Property in classStorePinnedProject: The project to pin.
$StoreProjectLabelTree#project — Property in classStoreProjectLabelTree: The project to attach the label tree to.
StoreUser::prepareForValidation() — Method in classStoreUser: Prepare the data for validation.
$StoreVolume#project — Property in classStoreVolume: The project to attach the new volume to.
StoreVolume::prepareForValidation() — Method in classStoreVolume: Prepare the data for validation.
StoreVolumeImage::prepareForValidation() — Method in classStoreVolumeImage: Prepare the data for validation.
$UpdateProject#project — Property in classUpdateProject: The project to update.
$UpdateProjectUser#project — Property in classUpdateProjectUser: The project to update the user in.
UpdateUser::prepareForValidation() — Method in classUpdateUser: Prepare the data for validation.
ProcessNewImageChunk — Class in namespaceBiigle\Jobs
ProcessNewImages — Class in namespaceBiigle\Jobs
Label::parent() — Method in classLabel: The parent label if the labels are ordered in a tree-like structure.
LabelTree::projects() — Method in classLabelTree: The projects that are using this label tree.
AnanasServiceProvider::provides() — Method in classAnanasServiceProvider: Get the services provided by the provider.
Publish — Class in namespaceBiigle\Modules\Ananas\Console\Commands
StoreAnnotationAssistanceRequest::prepareForValidation() — Method in classStoreAnnotationAssistanceRequest: Prepare the data for validation.
AnnotationsServiceProvider::provides() — Method in classAnnotationsServiceProvider: Get the services provided by the provider.
Publish — Class in namespaceBiigle\Modules\Annotations\Console\Commands
ColorSortServiceProvider::provides() — Method in classColorSortServiceProvider: Get the services provided by the provider.
Publish — Class in namespaceBiigle\Modules\ColorSort\Console\Commands
Publish — Class in namespaceBiigle\Modules\Geo\Console\Commands
GeoServiceProvider::provides() — Method in classGeoServiceProvider: Get the services provided by the provider.
ProjectImageAnnotationLabelController — Class in namespaceBiigle\Modules\Geo\Http\Controllers\Api
ProjectController — Class in namespaceBiigle\Modules\Geo\Http\Controllers\Views
Publish — Class in namespaceBiigle\Modules\LabelTrees\Console\Commands
LabelTreesServiceProvider::provides() — Method in classLabelTreesServiceProvider: Get the services provided by the provider.
WormsAdapter::parseItem() — Method in classWormsAdapter: Parse a WoRMS item to the internal representation.
Publish — Class in namespaceBiigle\Modules\Largo\Console\Commands
LargoServiceProvider::provides() — Method in classLargoServiceProvider: Get the services provided by the provider.
Publish — Class in namespaceBiigle\Modules\Laserpoints\Console\Commands
ProcessDelphiJob — Class in namespaceBiigle\Modules\Laserpoints\Jobs
ProcessImageDelphiJob — Class in namespaceBiigle\Modules\Laserpoints\Jobs
ProcessImageManualJob — Class in namespaceBiigle\Modules\Laserpoints\Jobs
ProcessManualJob — Class in namespaceBiigle\Modules\Laserpoints\Jobs
$ProcessManualJob#points — Property in classProcessManualJob: Laser point coordinates for the image.
ProcessVolumeDelphiJob — Class in namespaceBiigle\Modules\Laserpoints\Jobs
LaserpointsServiceProvider::provides() — Method in classLaserpointsServiceProvider: Get the services provided by the provider.
DelphiGather::python() — Method in classDelphiGather: Execute a python script.
Publish — Class in namespaceBiigle\Modules\Projects\Console\Commands
ProjectsController — Class in namespaceBiigle\Modules\Projects\Http\Controllers
ProjectsServiceProvider — Class in namespaceBiigle\Modules\Projects
ProjectsServiceProvider::provides() — Method in classProjectsServiceProvider: Get the services provided by the provider.
Publish — Class in namespaceBiigle\Modules\Reports\Console\Commands
ProjectReportController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Api\Projects
ProjectReportsController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Views
ProjectObserver — Class in namespaceBiigle\Modules\Reports\Observers
$ReportsServiceProvider#policies — Property in classReportsServiceProvider: The policy mappings for the application.
ReportsServiceProvider::provides() — Method in classReportsServiceProvider: Get the services provided by the provider.
CsvFile::put() — Method in classCsvFile: Append a new row to the CSV file.
$File#path — Property in classFile: File path.
ProjectReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Projects
AreaReportGenerator::parseRows() — Method in classAreaReportGenerator: Creates the array of annotations that is inserted into the CSV file.
PythonScriptRunner — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes
$VolumeReportGenerator#pythonScriptRunner — Property in classVolumeReportGenerator: Object that runs the Python script to generate a report.
Prune — Class in namespaceBiigle\Modules\Sync\Console\Commands
Publish — Class in namespaceBiigle\Modules\Sync\Console\Commands
PublicLabelTreeExportController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Api\Export
PublicLabelTreeImportController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Api\Import
PublicLabelTreeImportController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Views
PostprocessVolumeImport — Class in namespaceBiigle\Modules\Sync\Jobs
PublicLabelExport — Class in namespaceBiigle\Modules\Sync\Support\Export
PublicLabelTreeExport — Class in namespaceBiigle\Modules\Sync\Support\Export
ArchiveManager::prune() — Method in classArchiveManager: Delete uploaded import files that are older than one week.
$Import#path — Property in classImport: Path to the directory with the import files.
LabelTreeImport::perform() — Method in classLabelTreeImport: Perform the import.
PublicLabelTreeImport — Class in namespaceBiigle\Modules\Sync\Support\Import
PublicLabelTreeImport::perform() — Method in classPublicLabelTreeImport: Perform the import.
UserImport::perform() — Method in classUserImport: Perform the import.
VolumeImport::perform() — Method in classVolumeImport: Perform the import.
SyncServiceProvider::provides() — Method in classSyncServiceProvider: Get the services provided by the provider.
Publish — Class in namespaceBiigle\Modules\Videos\Console\Commands
ProjectVideoController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Api
$StoreVideo#project — Property in classStoreVideo: The project to attach the video to.
ProcessNewVideo — Class in namespaceBiigle\Modules\Videos\Jobs
TrackObject::python() — Method in classTrackObject: Execute a Python script.
PrepareDeleteVideoThumbnails — Class in namespaceBiigle\Modules\Videos\Listeners
Project — Class in namespaceBiigle\Modules\Videos
GreaterThan::passes() — Method in classGreaterThan: Determine if the validation rule passes.
LessThan::passes() — Method in classLessThan: Determine if the validation rule passes.
VideoUrl::passes() — Method in classVideoUrl: Determine if the validation rule passes.
VideoUrl::passesDiskUrl() — Method in classVideoUrl: Validate a storage disk video URL.
VideoUrl::passesRemoteUrl() — Method in classVideoUrl: Validate a remote video URL.
VideoUrl::passesMimeType() — Method in classVideoUrl: Validate the MIME type of a video
VideoUrl::passesCodec() — Method in classVideoUrl: Validate the codec of a video
Video::project() — Method in classVideo: The project this video belongs to.
VideosServiceProvider::provides() — Method in classVideosServiceProvider: Get the services provided by the provider.
Publish — Class in namespaceBiigle\Modules\Volumes\Console\Commands
VolumesServiceProvider::provides() — Method in classVolumesServiceProvider: Get the services provided by the provider.
ProjectObserver — Class in namespaceBiigle\Observers
ProjectPolicy — Class in namespaceBiigle\Policies
Project — Class in namespaceBiigle
$AuthServiceProvider#policies — Property in classAuthServiceProvider: The policy mappings for the application.
Uuid4::passes() — Method in classUuid4: Determine if the validation rule passes.
VolumeImageUnique::passes() — Method in classVolumeImageUnique: Check if the given image filenames don't already exist in the volume.
VolumeImages::passes() — Method in classVolumeImages: Check if an array of image filenames is valid.
VolumeUrl::passes() — Method in classVolumeUrl: Determine if the validation rule passes.
VolumeUrl::passesRemoteUrl() — Method in classVolumeUrl: Validate a remote volume URL.
VolumeUrl::passesDiskUrl() — Method in classVolumeUrl: Validate a storage disk volume URL.
SystemMessage::publish() — Method in classSystemMessage: Publishes this system message if it wasn't alerady published.
User::projects() — Method in classUser: The projects, this user is a member of.
Volume::parseImagesQueryString() — Method in classVolume: Parses a comma separated list of image filenames to an array.
Volume::projects() — Method in classVolume: The project(s), this volume belongs to.

Q

CsvReportGenerator::query() — Method in classCsvReportGenerator: Assemble a new DB query for the video of this report.
AbundanceReportGenerator::query() — Method in classAbundanceReportGenerator: Assemble a new DB query for the volume of this report.
AreaReportGenerator::query() — Method in classAreaReportGenerator: Assemble a new DB query for the volume of this report.
BasicReportGenerator::query() — Method in classBasicReportGenerator: Assemble a new DB query for the volume of this report.
CsvReportGenerator::query() — Method in classCsvReportGenerator: Assemble a new DB query for the volume of this report.
ExtendedReportGenerator::query() — Method in classExtendedReportGenerator: Assemble a new DB query for the volume of this report.
FullReportGenerator::query() — Method in classFullReportGenerator: Assemble a new DB query for the volume of this report.
BasicReportGenerator::query() — Method in classBasicReportGenerator: Assemble a new DB query for the volume of this report.
CsvReportGenerator::query() — Method in classCsvReportGenerator: Assemble a new DB query for the volume of this report.

R

Handler::report() — Method in classHandler: Report or log an exception.
Handler::render() — Method in classHandler: Render an exception into an HTTP response.
FileCache::retrieve() — Method in classFileCache: Cache a remote or cloud storage file if it is not cached and get the path to the cached file. If the file is local, nothing will be done and the path to the local file will be returned.
FileCache::retrieveExistingFile() — Method in classFileCache: Get path and handle for a file that exists in the cache.
FileCache::retrieveNewFile() — Method in classFileCache: Get path and handle for a file that does not yet exist in the cache.
FileCacheServiceProvider::register() — Method in classFileCacheServiceProvider: Register the service provider.
FileCacheServiceProvider::registerScheduledPruneCommand() — Method in classFileCacheServiceProvider: Register the scheduled command to prune the file cache.
RoleController — Class in namespaceBiigle\Http\Controllers\Api
UserRegistrationController::reject() — Method in classUserRegistrationController: Reject a user sign up.
$LoginController#redirectTo — Property in classLoginController: Where to redirect users after login / registration.
RegisterController — Class in namespaceBiigle\Http\Controllers\Auth
$RegisterController#redirectTo — Property in classRegisterController: Where to redirect users after login / registration.
RegisterController::register() — Method in classRegisterController: Handle a registration request for the application.
RegisterController::registered() — Method in classRegisterController: The user has been registered.
ResetPasswordController — Class in namespaceBiigle\Http\Controllers\Auth
ResetPasswordController::rules() — Method in classResetPasswordController: Get the password reset validation rules.
UsersController::roleClassMap() — Method in classUsersController: Determines the Boostrap label class for a role label.
$Kernel#routeMiddleware — Property in classKernel: The application's route middleware.
Authenticate::redirectTo() — Method in classAuthenticate: Get the path the user should be redirected to when they are not authenticated.
RedirectIfAuthenticated — Class in namespaceBiigle\Http\Middleware
AttachProjectUser::rules() — Method in classAttachProjectUser: Get the validation rules that apply to the request.
DestroyAnnotationSession::rules() — Method in classDestroyAnnotationSession: Get the validation rules that apply to the request.
DestroyLabel::rules() — Method in classDestroyLabel: Get the validation rules that apply to the request.
DestroyLabelTree::rules() — Method in classDestroyLabelTree: Get the validation rules that apply to the request.
DestroyLabelTreeUser::rules() — Method in classDestroyLabelTreeUser: Get the validation rules that apply to the request.
DestroyLabelTreeVersion::rules() — Method in classDestroyLabelTreeVersion: Get the validation rules that apply to the request.
DestroyPinnedProject::rules() — Method in classDestroyPinnedProject: Get the validation rules that apply to the request.
DestroyProjectUser::rules() — Method in classDestroyProjectUser: Get the validation rules that apply to the request.
DestroyUser::rules() — Method in classDestroyUser: Get the validation rules that apply to the request.
StoreAnnotation::rules() — Method in classStoreAnnotation: Get the validation rules that apply to the request.
StoreAnnotationLabel::rules() — Method in classStoreAnnotationLabel: Get the validation rules that apply to the request.
StoreAnnotationSession::rules() — Method in classStoreAnnotationSession: Get the validation rules that apply to the request.
StoreAnnotations::rules() — Method in classStoreAnnotations: Get the validation rules that apply to the request.
StoreImageLabel::rules() — Method in classStoreImageLabel: Get the validation rules that apply to the request.
StoreLabel::rules() — Method in classStoreLabel: Get the validation rules that apply to the request.
StoreLabelTree::rules() — Method in classStoreLabelTree: Get the validation rules that apply to the request.
StoreLabelTreeAuthorizedProject::rules() — Method in classStoreLabelTreeAuthorizedProject: Get the validation rules that apply to the request.
StoreLabelTreeUser::rules() — Method in classStoreLabelTreeUser: Get the validation rules that apply to the request.
StoreLabelTreeVersion::rules() — Method in classStoreLabelTreeVersion: Get the validation rules that apply to the request.
StorePinnedProject::rules() — Method in classStorePinnedProject: Get the validation rules that apply to the request.
StoreProject::rules() — Method in classStoreProject: Get the validation rules that apply to the request.
StoreProjectLabelTree::rules() — Method in classStoreProjectLabelTree: Get the validation rules that apply to the request.
StoreSystemMessage::rules() — Method in classStoreSystemMessage: Get the validation rules that apply to the request.
StoreUser::rules() — Method in classStoreUser: Get the validation rules that apply to the request.
StoreVolume::rules() — Method in classStoreVolume: Get the validation rules that apply to the request.
StoreVolumeImage::rules() — Method in classStoreVolumeImage: Get the validation rules that apply to the request.
UpdateAnnotationSession::rules() — Method in classUpdateAnnotationSession: Get the validation rules that apply to the request.
UpdateLabel::rules() — Method in classUpdateLabel: Get the validation rules that apply to the request.
UpdateLabelTree::rules() — Method in classUpdateLabelTree: Get the validation rules that apply to the request.
UpdateLabelTreeUser::rules() — Method in classUpdateLabelTreeUser: Get the validation rules that apply to the request.
UpdateLabelTreeVersion::rules() — Method in classUpdateLabelTreeVersion: Get the validation rules that apply to the request.
UpdateProject::rules() — Method in classUpdateProject: Get the validation rules that apply to the request.
UpdateProjectUser::rules() — Method in classUpdateProjectUser: Get the validation rules that apply to the request.
UpdateSystemMessage::rules() — Method in classUpdateSystemMessage: Get the validation rules that apply to the request.
UpdateUser::rules() — Method in classUpdateUser: Get the validation rules that apply to the request.
UpdateVolume::rules() — Method in classUpdateVolume: Get the validation rules that apply to the request.
LabelTree::replicateLabelsOf() — Method in classLabelTree: Replicate all labels of one label tree to this one.
AnanasServiceProvider::register() — Method in classAnanasServiceProvider: Register the service provider.
AnanasServiceProvider::registerEloquentFactoriesFrom() — Method in classAnanasServiceProvider: Register factories.
AnnotationAssistanceRequest::receiver() — Method in classAnnotationAssistanceRequest: The (optional) user that should receive the assistance request.
AnnotationAssistanceRequestController::respond() — Method in classAnnotationAssistanceRequestController: Respond to an assistance request.
StoreAnnotationAssistanceRequest::rules() — Method in classStoreAnnotationAssistanceRequest: Get the validation rules that apply to the request.
StoreAnnotationAssistanceRequest::rateLimitApplies() — Method in classStoreAnnotationAssistanceRequest: Check if the rate limit of creating new requests applies.
UpdateAnnotationAssistanceRequest::rules() — Method in classUpdateAnnotationAssistanceRequest: Get the validation rules that apply to the request.
$AnnotationAssistanceRequest#request — Property in classAnnotationAssistanceRequest: The annotation assistance request.
AnnotationsServiceProvider::register() — Method in classAnnotationsServiceProvider: Register the service provider.
ColorSortServiceProvider::register() — Method in classColorSortServiceProvider: Register the service provider.
StoreColorSortSequence::rules() — Method in classStoreColorSortSequence: Get the validation rules that apply to the request.
GeoServiceProvider::register() — Method in classGeoServiceProvider: Register the service provider.
$StoreMerge#remove — Property in classStoreMerge: Array of label IDs to remove.
StoreMerge::rules() — Method in classStoreMerge: Get the validation rules that apply to the request.
LabelTreesServiceProvider::register() — Method in classLabelTreesServiceProvider: Register the service provider.
RemoveAnnotationPatches — Class in namespaceBiigle\Modules\Largo\Jobs
LargoServiceProvider::register() — Method in classLargoServiceProvider: Register the service provider.
ComputeImage::rules() — Method in classComputeImage: Get the validation rules that apply to the request.
ComputeVolume::rules() — Method in classComputeVolume: Get the validation rules that apply to the request.
Image::readyForManualDetection() — Method in classImage: Determines if this image has a valid number of manually annotated laser points.
LaserpointsServiceProvider::register() — Method in classLaserpointsServiceProvider: Register the service provider.
Volume::readyForDelphiDetection() — Method in classVolume: Determines if the images of this volume can be processed with Delphi.
ProjectsServiceProvider::register() — Method in classProjectsServiceProvider: Register the service provider.
ReportController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Api
ReportsController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Api
ReportsController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Views
$GenerateReportJob#report — Property in classGenerateReportJob: The report that should be generated.
ReportReady — Class in namespaceBiigle\Modules\Reports\Notifications
$ReportReady#report — Property in classReportReady: The report that is ready.
ReportObserver — Class in namespaceBiigle\Modules\Reports\Observers
ReportPolicy — Class in namespaceBiigle\Modules\Reports\Policies
Report — Class in namespaceBiigle\Modules\Reports
$Report#reportGenerator — Property in classReport: The report generator for this report.
ReportType — Class in namespaceBiigle\Modules\Reports
ReportsServiceProvider — Class in namespaceBiigle\Modules\Reports
ReportsServiceProvider::register() — Method in classReportsServiceProvider: Register the service provider.
ReportsServiceProvider::registerEloquentFactoriesFrom() — Method in classReportsServiceProvider: Register factories.
$AbundanceReportGenerator#reportClass — Property in classAbundanceReportGenerator: The class of the volume report to use for this project report.
$AreaReportGenerator#reportClass — Property in classAreaReportGenerator: The class of the volume report to use for this project report.
$BasicReportGenerator#reportClass — Property in classBasicReportGenerator: The class of the volume report to use for this project report.
$CsvReportGenerator#reportClass — Property in classCsvReportGenerator: The class of the volume report to use for this project report.
$ExtendedReportGenerator#reportClass — Property in classExtendedReportGenerator: The class of the volume report to use for this project report.
$FullReportGenerator#reportClass — Property in classFullReportGenerator: The class of the volume report to use for this project report.
$BasicReportGenerator#reportClass — Property in classBasicReportGenerator: The class of the volume report to use for this project report.
$CsvReportGenerator#reportClass — Property in classCsvReportGenerator: The class of the volume report to use for this project report.
$ProjectReportGenerator#reportClass — Property in classProjectReportGenerator: The class of the report generator to use for this project report.
$CsvReportGenerator#reportClass — Property in classCsvReportGenerator: The class of the video report to use for this project report.
ReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports
CsvReportGenerator::restrictToLabelsQuery() — Method in classCsvReportGenerator: Callback to be used in a when query statement that restricts the results to a specific subset of annotation labels.
AnnotationReportGenerator::restrictToExportAreaQuery() — Method in classAnnotationReportGenerator: Callback to be used in a when query statement that restricts the resulting annotations to the export area of the reansect of this report (if there is any).
AnnotationReportGenerator::restrictToAnnotationSessionQuery() — Method in classAnnotationReportGenerator: Callback to be used in a when query statement that restricts the resulting annotation labels to the annotation session of this report.
AnnotationReportGenerator::restrictToNewestLabelQuery() — Method in classAnnotationReportGenerator: Callback to be used in a when query statement that restricts the results to the newest annotation labels of each annotation.
AnnotationReportGenerator::restrictToLabelsQuery() — Method in classAnnotationReportGenerator: Callback to be used in a when query statement that restricts the results to a specific subset of annotation labels.
BasicReportGenerator::restrictToLabelsQuery() — Method in classBasicReportGenerator: Callback to be used in a when query statement that restricts the results to a specific subset of annotation labels.
CsvReportGenerator::restrictToLabelsQuery() — Method in classCsvReportGenerator: Callback to be used in a when query statement that restricts the results to a specific subset of annotation labels.
PythonScriptRunner::run() — Method in classPythonScriptRunner: Execute the external report parsing Python script.
ShowPublicLabelTreeExport::rules() — Method in classShowPublicLabelTreeExport: Get the validation rules that apply to the request.
SyncServiceProvider::register() — Method in classSyncServiceProvider: Register the service provider.
DestroyVideo::rules() — Method in classDestroyVideo: Get the validation rules that apply to the request.
DestroyVideoAnnotationLabel::rules() — Method in classDestroyVideoAnnotationLabel: Get the validation rules that apply to the request.
LinkVideoAnnotation::rules() — Method in classLinkVideoAnnotation: Get the validation rules that apply to the request.
SplitVideoAnnotation::rules() — Method in classSplitVideoAnnotation: Get the validation rules that apply to the request.
StoreVideo::rules() — Method in classStoreVideo: Get the validation rules that apply to the request.
StoreVideoAnnotation::rules() — Method in classStoreVideoAnnotation: Get the validation rules that apply to the request.
StoreVideoAnnotationLabel::rules() — Method in classStoreVideoAnnotationLabel: Get the validation rules that apply to the request.
UpdateVideo::rules() — Method in classUpdateVideo: Get the validation rules that apply to the request.
UpdateVideoAnnotation::rules() — Method in classUpdateVideoAnnotation: Get the validation rules that apply to the request.
VideoAnnotation::rectangleToInterpolationPoints() — Method in classVideoAnnotation: Convert the points array of a rectangle (frame) to points that can be interpolated.
VideosServiceProvider::register() — Method in classVideosServiceProvider: Register the service provider.
VideosServiceProvider::registerEloquentFactoriesFrom() — Method in classVideosServiceProvider: Register factories.
BrowserController::removePrefix() — Method in classBrowserController: Removes a prefix from all strings in an array.
VolumesServiceProvider::register() — Method in classVolumesServiceProvider: Register the service provider.
RegistrationAccepted — Class in namespaceBiigle\Notifications
RegistrationConfirmation — Class in namespaceBiigle\Notifications
RegistrationRejected — Class in namespaceBiigle\Notifications
CachedPolicy::remember() — Method in classCachedPolicy: Wrapper for the Cache::remember function of the array cache.
LabelTreePolicy::removeMember() — Method in classLabelTreePolicy: Determine if the user can remove the given member from the given label tree.
ProjectPolicy::removeMember() — Method in classProjectPolicy: Determine if user can remove the given project member from the given project.
Project::removeUserId() — Method in classProject: Removes the user by ID from this project.
Project::removeVolume() — Method in classProject: Detaches the volume from this project. Fails if this is the last project, the volume is attached to, unless force is true.
Project::removeAllVolumes() — Method in classProject: Detaches all volumes from this project. Fails if this is the last project, one of the volumes is attached to, unless force is true.
AppServiceProvider::register() — Method in classAppServiceProvider: Register any application services.
RouteServiceProvider — Class in namespaceBiigle\Providers
Role — Class in namespaceBiigle: A role of a user. Users have one global role and can have many project- specific roles.
Modules::register() — Method in classModules: Register module assets in one step.
Modules::registerViewMixin() — Method in classModules: Registers a new view mixin of a module for a view.
Modules::registerControllerMixin() — Method in classModules: Registers a new controller mixin of a module.
User::role() — Method in classUser: The global role of this user.

S

Annotation::scopeVisibleFor() — Method in classAnnotation: Scope a query to only include annotations that are visible for a certain user.
Annotation::scopeWithLabel() — Method in classAnnotation: Scope a query to only include annotations that have a certain label attached.
Annotation::scopeAllowedBySession() — Method in classAnnotation: Scope a query to only include annotations allowed by the session for the user.
Annotation::shape() — Method in classAnnotation: The shape of this annotation.
AnnotationSession::setStartsAtAttribute() — Method in classAnnotationSession: Set the start date.
AnnotationSession::setEndsAtAttribute() — Method in classAnnotationSession: Set the end date.
$MigrateTiledImages#signature — Property in classMigrateTiledImages: The name and signature of the console command.
$PruneNotifications#signature — Property in classPruneNotifications: The name and signature of the console command.
$UpdateImageMetadata#signature — Property in classUpdateImageMetadata: The name and signature of the console command.
UpdateImageMetadata::stripTileProperties() — Method in classUpdateImageMetadata: Removes the tileProperties attribute from images.
$UpdateVolumeUrls#signature — Property in classUpdateVolumeUrls: The name and signature of the console command.
Kernel::schedule() — Method in classKernel: Define the application's command schedule.
$PruneFileCache#signature — Property in classPruneFileCache: The name and signature of the console command.
$FileCache#storage — Property in classFileCache: File FilesystemManager instance to use
AnnotationController::show() — Method in classAnnotationController: Displays the annotation.
AnnotationController::store() — Method in classAnnotationController: Create new annotations
AnnotationLabelController::store() — Method in classAnnotationLabelController: Creates a new label for the specified annotation.
ApiTokenController::store() — Method in classApiTokenController: Creates a new API token.
ImageAnnotationController::store() — Method in classImageAnnotationController: Creates a new annotation in the specified image.
ImageController::show() — Method in classImageController: Shows the specified image.
ImageController::showFile() — Method in classImageController: Shows the specified image file.
ImageLabelController::store() — Method in classImageLabelController: Creates a new label for the specified image.
LabelTreeAuthorizedProjectController::store() — Method in classLabelTreeAuthorizedProjectController: Authorize a project to use a private label tree.
LabelTreeController::show() — Method in classLabelTreeController: Shows a label tree.
LabelTreeController::store() — Method in classLabelTreeController: Creates a new label tree.
LabelTreeLabelController::store() — Method in classLabelTreeLabelController: Add labels to a label tree.
LabelTreeUserController::store() — Method in classLabelTreeUserController: Add a member to a label tree.
LabelTreeVersionController::store() — Method in classLabelTreeVersionController: Creates a new label tree version.
MediaTypeController::show() — Method in classMediaTypeController: Displays the specified media type.
ProjectController::show() — Method in classProjectController: Displays the specified project.
ProjectController::store() — Method in classProjectController: Creates a new project.
ProjectLabelTreeController::store() — Method in classProjectLabelTreeController: Adds a label tree to the specified project.
ProjectVolumeController::store() — Method in classProjectVolumeController: Creates a new volume associated to the specified project.
RoleController::show() — Method in classRoleController: Displays the specified role.
ShapeController — Class in namespaceBiigle\Http\Controllers\Api
ShapeController::show() — Method in classShapeController: Displays the specified shape.
SystemMessageController — Class in namespaceBiigle\Http\Controllers\Api
SystemMessageController::store() — Method in classSystemMessageController: Creates a new system message.
UserController::show() — Method in classUserController: Shows the specified user.
UserController::showOwn() — Method in classUserController: Shows the requesting user.
UserController::store() — Method in classUserController: Creates a new user.
UserPinnedProjectController::store() — Method in classUserPinnedProjectController: Pin a project.
VisibilityController::show() — Method in classVisibilityController: Displays the specified visibility.
VolumeAnnotationSessionController::store() — Method in classVolumeAnnotationSessionController: Creates a new annotation session for the specified volume.
VolumeController::show() — Method in classVolumeController: Displays the specified volume.
VolumeImageController::store() — Method in classVolumeImageController: Add images to the specified volume.
ForgotPasswordController::sendResetLinkEmail() — Method in classForgotPasswordController: Send a reset link to the given user.
RegisterController::showRegistrationForm() — Method in classRegisterController: Show the application registration form.
LogsController::show() — Method in classLogsController: Shows a specific logfile.
SystemMessagesController — Class in namespaceBiigle\Http\Controllers\Views\Admin
UsersController::show() — Method in classUsersController: Shows the user information page.
HeartbeatController::store() — Method in classHeartbeatController: Do nothing but to keep the CSRF token valid.
ImprintController::show() — Method in classImprintController: Show the the imprint view.
PrivacyController::show() — Method in classPrivacyController: Show the the privacy view.
SearchController — Class in namespaceBiigle\Http\Controllers\Views
SettingsController — Class in namespaceBiigle\Http\Controllers\Views
SystemMessagesController — Class in namespaceBiigle\Http\Controllers\Views\SystemMessages
SystemMessagesController::show() — Method in classSystemMessagesController: Show a system message.
TermsController::show() — Method in classTermsController: Show the the terms view.
SessionOnly — Class in namespaceBiigle\Http\Middleware: Middleware to allow session cookie authentication for the route only.
$DestroyAnnotationSession#session — Property in classDestroyAnnotationSession: The annotation session that should be deleted.
StoreAnnotation — Class in namespaceBiigle\Http\Requests
StoreAnnotationLabel — Class in namespaceBiigle\Http\Requests
StoreAnnotationSession — Class in namespaceBiigle\Http\Requests
StoreAnnotations — Class in namespaceBiigle\Http\Requests
StoreImageLabel — Class in namespaceBiigle\Http\Requests
StoreLabel — Class in namespaceBiigle\Http\Requests
StoreLabelTree — Class in namespaceBiigle\Http\Requests
StoreLabelTreeAuthorizedProject — Class in namespaceBiigle\Http\Requests
StoreLabelTreeUser — Class in namespaceBiigle\Http\Requests
StoreLabelTreeVersion — Class in namespaceBiigle\Http\Requests
StorePinnedProject — Class in namespaceBiigle\Http\Requests
StoreProject — Class in namespaceBiigle\Http\Requests
StoreProjectLabelTree — Class in namespaceBiigle\Http\Requests
StoreSystemMessage — Class in namespaceBiigle\Http\Requests
StoreUser — Class in namespaceBiigle\Http\Requests
StoreVolume — Class in namespaceBiigle\Http\Requests
StoreVolumeImage — Class in namespaceBiigle\Http\Requests
$UpdateAnnotationSession#session — Property in classUpdateAnnotationSession: The annotation session that should be updated.
Image::setMetadataAttribute() — Method in classImage: Set the image metadata attribute.
Image::setWidthAttribute() — Method in classImage: Set the width attribute.
Image::setHeightAttribute() — Method in classImage: Set the height attribute.
Image::setSizeAttribute() — Method in classImage: Set the size attribute.
Image::setMimetypeAttribute() — Method in classImage: Set the mimetype attribute.
Image::setTilingInProgressAttribute() — Method in classImage: Set the tilingInProgress attribute.
ProcessNewImageChunk::shouldBeTiled() — Method in classProcessNewImageChunk: Determine if an image should be tiled.
Label::setColorAttribute() — Method in classLabel: Remove the optional '#' from a hexadecimal color.
LabelTree::scopePublicTrees() — Method in classLabelTree: Scope a query to public label trees.
LabelTree::scopePrivateTrees() — Method in classLabelTree: Scope a query to private label trees.
LabelTree::scopeAccessibleBy() — Method in classLabelTree: Scope a query to all trees that are accessible by a user.
LabelTree::scopeWithoutVersions() — Method in classLabelTree: Scope a query to all trees that are not a varsion of another tree.
LabelTree::scopeGlobal() — Method in classLabelTree: Scope a query to all "global" trees.
LabelTreeVersion::setDoiAttribute() — Method in classLabelTreeVersion: Set the doi attribute of this version.
AnnotationAssistanceRequestController::store() — Method in classAnnotationAssistanceRequestController: Create a new annotation assistance request.
ImageController::show() — Method in classImageController: Shows the image file that belongs to the assistance request.
SettingsController — Class in namespaceBiigle\Modules\Ananas\Http\Controllers\Api
SettingsController::store() — Method in classSettingsController: Update the user settings for annotation assistance requests.
AnnotationAssistanceRequestController::show() — Method in classAnnotationAssistanceRequestController: Show an assistance request.
StoreAnnotationAssistanceRequest — Class in namespaceBiigle\Modules\Ananas\Http\Requests
UsersControllerMixin::show() — Method in classUsersControllerMixin: Add project statistics to the view.
SearchControllerMixin — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Mixins\Views
AnnotationController::show() — Method in classAnnotationController: Redirect to the annotator link that shows a specified annotation.
AnnotationToolController::show() — Method in classAnnotationToolController: Shows the annotation tool.
VolumeColorSortSequenceController::show() — Method in classVolumeColorSortSequenceController: Show the sequence of images sorted by a specific color.
VolumeColorSortSequenceController::store() — Method in classVolumeColorSortSequenceController: Request a new color sort sequence.
StoreColorSortSequence — Class in namespaceBiigle\Modules\ColorSort\Http\Requests
$ComputeNewSequence#sequence — Property in classComputeNewSequence: The color sort sequence that should be computed.
Sequence — Class in namespaceBiigle\Modules\ColorSort: This model represents a sequence of volume images sorted by a specific color.
Sort — Class in namespaceBiigle\Modules\ColorSort\Support: Wrapper for the color sort script.
GeoOverlay::storeFile() — Method in classGeoOverlay: Store the uploaded image file of thes geo overlay.
GeoOverlayController::showFile() — Method in classGeoOverlayController: Shows the specified geo overlay file.
VolumeGeoOverlayController::storePlain() — Method in classVolumeGeoOverlayController: Stores a new geo overlay that was uploaded with the plain method.
ProjectController::show() — Method in classProjectController: Shows the project geo page.
VolumeController::show() — Method in classVolumeController: Shows the volume geo page.
LabelTreeMergeController::store() — Method in classLabelTreeMergeController: Add or remove many labels of a tree.
LabelTreeMergeController::show() — Method in classLabelTreeMergeController: Show the label tree merge page.
LabelTreeVersionsController::show() — Method in classLabelTreeVersionsController: Show the label tree version page.
LabelTreesController::show() — Method in classLabelTreesController: Show the label tree page.
LabelTreesController::showMasterLabelTree() — Method in classLabelTreesController: Show the label tree page of a master label tree.
LabelTreesController::showVersionedLabelTree() — Method in classLabelTreesController: Show the label tree page of a versioned label tree.
SearchControllerMixin — Class in namespaceBiigle\Modules\LabelTrees\Http\Controllers\Mixins\Views
StoreMerge — Class in namespaceBiigle\Modules\LabelTrees\Http\Requests
WormsAdapter::setSoapClient() — Method in classWormsAdapter: Set the SOAP client instance to use for requests.
$GenerateMissing#signature — Property in classGenerateMissing: The name and signature of the console command.
$MigratePatchStorage#signature — Property in classMigratePatchStorage: The name and signature of the console command.
LargoController::save() — Method in classLargoController: Save changes of an Largo session for a project.
LargoController::save() — Method in classLargoController: Save changes of an Largo session for a volume.
AnnotationCatalogController::show() — Method in classAnnotationCatalogController: Show the annotation catalog of a label tree.
GenerateAnnotationPatch::shouldRetryAfterException() — Method in classGenerateAnnotationPatch: Determine if this job should retry instead of fail after an exception
RemoveAnnotationPatches::submitChunkedJobs() — Method in classRemoveAnnotationPatches: Submit more instances of this job that should process smaller chunks.
AnnotationObserver::saved() — Method in classAnnotationObserver: Handle the event of creating/saving a single annotation.
ImagesController::showLaserpoints() — Method in classImagesController: Show laserpoint data for this image.
Image::setLaserpointsAttribute() — Method in classImage: Set or update the dynamic attribute for the laser points information.
UsersControllerMixin::show() — Method in classUsersControllerMixin: Add project statistics to the view.
SearchControllerMixin — Class in namespaceBiigle\Modules\Projects\Http\Controllers\Mixins\Views
ProjectsController::show() — Method in classProjectsController: Shows the project show page.
ProjectReportController::store() — Method in classProjectReportController: Generate a project report.
ReportsController::show() — Method in classReportsController: Shows the specified report file.
SettingsController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Api
SettingsController::store() — Method in classSettingsController: Update the user settings for reports.
VideoReportController::store() — Method in classVideoReportController: Generate a video report.
ExportAreaController::show() — Method in classExportAreaController: Show the export area of the volume.
ExportAreaController::store() — Method in classExportAreaController: Set the export area.
VolumeReportController::store() — Method in classVolumeReportController: Generate a volume report.
SearchControllerMixin — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Mixins\Views
ProjectReportsController::show() — Method in classProjectReportsController: Show the project reports view.
VideoReportsController::show() — Method in classVideoReportsController: Show the video reports view.
VolumeReportsController::show() — Method in classVolumeReportsController: Show the volumes reports view.
Report::source() — Method in classReport: Source of the report (\Biigle\Volume, \Biigle\Project or \Biigle\Modules\Videos\Video).
Report::setReportGenerator() — Method in classReport: Set the report generator for this model.
MakesZipArchives::sanitizeFilename() — Method in classMakesZipArchives: Sanitizes a filename.
$ReportGenerator#source — Property in classReportGenerator: Source this report belongs to (e.g. a volume).
ReportGenerator::setSource() — Method in classReportGenerator: Set the source.
ReportGenerator::shouldSeparateLabelTrees() — Method in classReportGenerator: Should this report separate the output files for different label trees?
AnnotationReportGenerator::shouldAggregateChildLabels() — Method in classAnnotationReportGenerator: Determines if this report should aggregate child labels.
AreaReportGenerator::setSize() — Method in classAreaReportGenerator: Calculate the pixel/sqm size and dimensions for an annotation.
VolumeReportGenerator::setPythonScriptRunner() — Method in classVolumeReportGenerator: Set the Python script runner object.
Volume::setExportAreaAttribute() — Method in classVolume: Set or update the dynamic attribute for the export area.
$Uuids#signature — Property in classUuids: The name and signature of the console command.
Controller::show() — Method in classController: Handle a generic export request.
PublicLabelTreeExportController::show() — Method in classPublicLabelTreeExportController: Handle a public label tree export request.
ImportController::store() — Method in classImportController: Initiate a new import.
PublicLabelTreeImportController::store() — Method in classPublicLabelTreeImportController: Perform a public label tree import.
ImportAdminController::show() — Method in classImportAdminController: Shows the import admin page for a specific import which wasn't completed yet.
ImportAdminController::showUserImport() — Method in classImportAdminController: Show the view for an unfinished user import.
ImportAdminController::showLabelTreeImport() — Method in classImportAdminController: Show the view for an unfinished label tree import.
ImportAdminController::showVolumeImport() — Method in classImportAdminController: Show the view for an unfinished volume tree import.
ShowPublicLabelTreeExport — Class in namespaceBiigle\Modules\Sync\Http\Requests
ArchiveManager::store() — Method in classArchiveManager: Stores an uploaded archive file and returns its token.
SyncServiceProvider — Class in namespaceBiigle\Modules\Sync
LinkVideoAnnotationController::store() — Method in classLinkVideoAnnotationController: Link two video annotations
ProjectVideoController::store() — Method in classProjectVideoController: Creates a new video associated to the specified project.
SplitVideoAnnotationController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Api
SplitVideoAnnotationController::store() — Method in classSplitVideoAnnotationController: Split the video annotation
VideoAnnotationController::show() — Method in classVideoAnnotationController: Shows a video annotation.
VideoAnnotationController::store() — Method in classVideoAnnotationController: Creates a new annotation in the specified video.
VideoAnnotationLabelController::store() — Method in classVideoAnnotationLabelController: Attach a label to a video annotation
VideoFileController::show() — Method in classVideoFileController: Get a video file.
UsersControllerMixin::show() — Method in classUsersControllerMixin: Add project statistics to the view.
SearchControllerMixin — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Mixins
VideoController::show() — Method in classVideoController: Show the video annotation tool.
VideoController::store() — Method in classVideoController: Shows the create video page.
$LinkVideoAnnotation#secondAnnotation — Property in classLinkVideoAnnotation: The second annotation that should be linked.
SplitVideoAnnotation — Class in namespaceBiigle\Modules\Videos\Http\Requests
StoreVideo — Class in namespaceBiigle\Modules\Videos\Http\Requests
StoreVideoAnnotation — Class in namespaceBiigle\Modules\Videos\Http\Requests
StoreVideoAnnotation::shouldTrack() — Method in classStoreVideoAnnotation: Determine if the new annotation should be tracked.
StoreVideoAnnotationLabel — Class in namespaceBiigle\Modules\Videos\Http\Requests
Video::scopeAccessibleBy() — Method in classVideo: Scope a query to all videos that are accessible by a user.
Video::setGisLinkAttribute() — Method in classVideo: Set the gis_link attribute of this volume.
Video::setDoiAttribute() — Method in classVideo: Set the doi attribute of this volume.
VideoAnnotation::shape() — Method in classVideoAnnotation: The shape of this annotation.
VideoAnnotation::setPointsAttribute() — Method in classVideoAnnotation: Round the floats of the points array to 2 decimals before saving.
VolumeImageMetadataController::store() — Method in classVolumeImageMetadataController: Add or update image metadata for a volume.
UsersControllerMixin::show() — Method in classUsersControllerMixin: Add volume statistics to the view.
SearchControllerMixin — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Mixins\Views
SystemMessagePolicy — Class in namespaceBiigle\Policies
Project::scopeInCommon() — Method in classProject: Scope a query to all projects that the user and the volume with the given ID have in common.
$VolumeImages#sampleCount — Property in classVolumeImages: Number of sample images to check for existence.
VolumeImages::sampleImagesExist() — Method in classVolumeImages: Check a random sample of the image files for existence.
Shape — Class in namespaceBiigle: A shape, e.g. point or circle.
SystemMessage — Class in namespaceBiigle: System messages are broadcasts from the application administrators that reach all users of the instance. Whenevr a new system message is published, each user will get a notification to read it.
SystemMessage::scopePublished() — Method in classSystemMessage: All published system messages.
SystemMessageType — Class in namespaceBiigle
HasJsonAttributes::setJsonAttr() — Method in classHasJsonAttributes: Set a dynamic JSON attribute.
HasPointsAttribute::setPointsAttribute() — Method in classHasPointsAttribute: Round the floats of the points array to 2 decimals before saving.
User::setEmailAttribute() — Method in classUser: Set the email attribute and transform it to lowercase.
User::setSettings() — Method in classUser: Set settings and merge them with the existing settings.
User::setIsInSuperUserModeAttribute() — Method in classUser: Enables or disables Super User Mode if the user is a global admin.
Volume::scopeAccessibleBy() — Method in classVolume: Scope a query to all volumes that are accessible by a user.
Volume::setMediaType() — Method in classVolume: Sets the media type of this volume.
Volume::setMediaTypeId() — Method in classVolume: Sets the media type of this volume to the media type with the given ID.
Volume::setUrlAttribute() — Method in classVolume: Set the url attribute of this volume.
Volume::setVideoLinkAttribute() — Method in classVolume: Set the video_link attribute of this volume.
Volume::setGisLinkAttribute() — Method in classVolume: Set the gis_link attribute of this volume.
Volume::setDoiAttribute() — Method in classVolume: Set the doi attribute of this volume.

T

TiledImagesDeleted — Class in namespaceBiigle\Events
ManualController::tutorialsArticle() — Method in classManualController: Show a tutorials article.
SettingsController::tokens() — Method in classSettingsController: Shows the tokens settings.
TermsController — Class in namespaceBiigle\Http\Controllers\Views
TrimStrings — Class in namespaceBiigle\Http\Middleware
TrustProxies — Class in namespaceBiigle\Http\Middleware
UpdateUserActivity::terminate() — Method in classUpdateUserActivity: Perform any final actions for the request lifecycle.
VerifyCsrfToken::tokensMatch() — Method in classVerifyCsrfToken: Determine if the request has a URI that should pass through CSRF verification.
$DestroyLabelTree#tree — Property in classDestroyLabelTree: The label tree to destroy.
$DestroyLabelTreeUser#tree — Property in classDestroyLabelTreeUser: The label tree to attach a user to.
$StoreLabel#tree — Property in classStoreLabel: The label tree to which the label should be attached.
$StoreLabelTreeAuthorizedProject#tree — Property in classStoreLabelTreeAuthorizedProject: The label tree to attach an authorized project to.
$StoreLabelTreeUser#tree — Property in classStoreLabelTreeUser: The label tree to attach a user to.
$StoreLabelTreeVersion#tree — Property in classStoreLabelTreeVersion: The label tree from which a new version should be created.
$UpdateLabelTree#tree — Property in classUpdateLabelTree: The label tree to update.
$UpdateLabelTreeUser#tree — Property in classUpdateLabelTreeUser: The label tree to attach a user to.
$Image#timestamps — Property in classImage: Don't maintain timestamps for this model.
$ProcessNewImageChunk#threshold — Property in classProcessNewImageChunk: If the image dimensions exceed this threshold the imag eshould be tiled.
TileSingleImage — Class in namespaceBiigle\Jobs
$TileSingleImage#tempPath — Property in classTileSingleImage: Path to the temporary storage file for the tiles.
$Label#timestamps — Property in classLabel: Don't maintain timestamps for this model.
Label::tree() — Method in classLabel: The label tree this label belongs to.
$LabelSource#timestamps — Property in classLabelSource: Don't maintain timestamps for this model.
$LabelTreeVersion#timestamps — Property in classLabelTreeVersion: Don't maintain timestamps for this model.
$MediaType#timestamps — Property in classMediaType: Don't maintain timestamps for this model.
AnnotationAssistanceRequest::toMail() — Method in classAnnotationAssistanceRequest: Get the mail representation of the notification.
AnnotationAssistanceRequest::toArray() — Method in classAnnotationAssistanceRequest: Get the array representation of the notification.
$ComputeNewSequence#tries — Property in classComputeNewSequence: The number of times the job may be attempted.
$Sequence#table — Property in classSequence: The table associated with the model.
$Sequence#timestamps — Property in classSequence: Don't maintain timestamps for this model.
$GeoOverlay#timestamps — Property in classGeoOverlay: Don't maintain timestamps for this model.
LabelTreesController::tutorial() — Method in classLabelTreesController: Show a tutorials article.
$StoreMerge#tree — Property in classStoreMerge: The label tree to create/remove the labels of.
$GenerateAnnotationPatch#targetDisk — Property in classGenerateAnnotationPatch: The storage disk to store the annotation patches to.
$ProcessDelphiJob#tries — Property in classProcessDelphiJob: The number of times the job may be attempted.
ProjectsController::tutorial() — Method in classProjectsController: Show a tutorials article.
ReportReady::toMail() — Method in classReportReady: Get the mail representation of the notification.
ReportReady::toArray() — Method in classReportReady: Get the array representation of the notification.
Report::type() — Method in classReport: Type of the report.
$ReportType#timestamps — Property in classReportType: Don't maintain timestamps for this model.
$ReportGenerator#tmpFiles — Property in classReportGenerator: Temporary files that are created when generating a report.
$ShowPublicLabelTreeExport#tree — Property in classShowPublicLabelTreeExport: The label tree that should be exported.
$AnnotationExport#tmpPath — Property in classAnnotationExport: Path to the temporary CSV file.
$AnnotationLabelExport#tmpPath — Property in classAnnotationLabelExport: Path to the temporary CSV file.
$ImageExport#tmpPath — Property in classImageExport: Path to the temporary CSV file.
$ImageLabelExport#tmpPath — Property in classImageLabelExport: Path to the temporary CSV file.
$PublicLabelExport#tmpPath — Property in classPublicLabelExport: Path to the temporary CSV file.
$ArchiveManager#tmpPath — Property in classArchiveManager: Base path to the temporary directory to store extracted imports.
PublicLabelTreeImport::treeExists() — Method in classPublicLabelTreeImport: Checks if the label tree of the import already exists.
TrackObject — Class in namespaceBiigle\Modules\Videos\Jobs: Attempts to track an obect in a video. The object is initially defined by a video annotation. The annotation will be updated with the positions determined with the object tracking method.
$TrackObject#tries — Property in classTrackObject: The number of times the job may be attempted.
$InAppNotification#title — Property in classInAppNotification: Title of the notification.
$InAppNotification#type — Property in classInAppNotification: Notification type.
InAppNotification::toArray() — Method in classInAppNotification: Get the array representation of the notification.
RegistrationAccepted::toMail() — Method in classRegistrationAccepted: Get the mail representation of the notification.
RegistrationConfirmation::toMail() — Method in classRegistrationConfirmation: Get the mail representation of the notification.
RegistrationRejected::toMail() — Method in classRegistrationRejected: Get the mail representation of the notification.
$Role#timestamps — Property in classRole: Don't maintain timestamps for this model.
$Shape#timestamps — Property in classShape: Don't maintain timestamps for this model.
SystemMessage::type() — Method in classSystemMessage: The type of this system message.
$SystemMessageType#timestamps — Property in classSystemMessageType: Don't maintain timestamps for this model.
$Visibility#timestamps — Property in classVisibility: Don't maintain timestamps for this model.

U

AnnotationLabel::user() — Method in classAnnotationLabel: The user who created this annotation label.
AnnotationSession::users() — Method in classAnnotationSession: The users, this annotation session is restricted to.
UpdateImageMetadata — Class in namespaceBiigle\Console\Commands
UpdateVolumeUrls — Class in namespaceBiigle\Console\Commands
UpdateVolumeUrls::updateVolumes() — Method in classUpdateVolumeUrls
$ImagesDeleted#uuids — Property in classImagesDeleted: UUIDs of deleted images.
$GenericFile#url — Property in classGenericFile: The file URL.
AnnotationController::update() — Method in classAnnotationController: Updates the annotation including its points.
AnnotationLabelController::update() — Method in classAnnotationLabelController: Updates the attributes of the specified annotation label.
AnnotationSessionController::update() — Method in classAnnotationSessionController: Updates the annotation session.
LabelController::update() — Method in classLabelController: Update a label.
LabelTreeController::update() — Method in classLabelTreeController: Updates the attributes of the specified label tree.
LabelTreeUserController::update() — Method in classLabelTreeUserController: Updates a member of a label tree.
LabelTreeVersionController::update() — Method in classLabelTreeVersionController: Update the specified label tree version.
NotificationController::update() — Method in classNotificationController: Mark a notification as read.
ProjectController::update() — Method in classProjectController: Updates the attributes of the specified project.
ProjectUserController::update() — Method in classProjectUserController: Updates the attributes of the specified user in the specified project.
SystemMessageController::update() — Method in classSystemMessageController: Updates the attributes of the specified system message.
UserController — Class in namespaceBiigle\Http\Controllers\Api
UserController::update() — Method in classUserController: Updates the attributes of the specified user.
UserController::updateOwn() — Method in classUserController: Updates the attributes of the own user.
UserPinnedProjectController — Class in namespaceBiigle\Http\Controllers\Api
UserRegistrationController — Class in namespaceBiigle\Http\Controllers\Api
VolumeController::update() — Method in classVolumeController: Updates the attributes of the specified volume.
SystemMessagesController::update() — Method in classSystemMessagesController: Shows the admin edit system message page.
UsersController — Class in namespaceBiigle\Http\Controllers\Views\Admin
UpdateUserActivity — Class in namespaceBiigle\Http\Middleware
$AttachProjectUser#user — Property in classAttachProjectUser: The user to attach.
$DestroyProjectUser#user — Property in classDestroyProjectUser: The user to detach.
$StoreLabelTree#upstreamLabelTree — Property in classStoreLabelTree: The upstream label tree that should be forked (if any)
UpdateAnnotationSession — Class in namespaceBiigle\Http\Requests
UpdateLabel — Class in namespaceBiigle\Http\Requests
UpdateLabelTree — Class in namespaceBiigle\Http\Requests
UpdateLabelTreeUser — Class in namespaceBiigle\Http\Requests
UpdateLabelTreeVersion — Class in namespaceBiigle\Http\Requests
UpdateOwnUser — Class in namespaceBiigle\Http\Requests
UpdateProject — Class in namespaceBiigle\Http\Requests
UpdateProjectUser — Class in namespaceBiigle\Http\Requests
$UpdateProjectUser#user — Property in classUpdateProjectUser: The user to update.
UpdateSystemMessage — Class in namespaceBiigle\Http\Requests
UpdateUser — Class in namespaceBiigle\Http\Requests
$UpdateUser#updateUser — Property in classUpdateUser: The user to update.
UpdateVolume — Class in namespaceBiigle\Http\Requests
ImageLabel::user() — Method in classImageLabel: The user who created this image label.
TileSingleImage::uploadToStorage() — Method in classTileSingleImage: Upload the tiles from temporary local storage to the tiles storage disk.
LabelTree::updateMember() — Method in classLabelTree: Update a member (role).
AnnotationAssistanceRequest::user() — Method in classAnnotationAssistanceRequest: The user that created the assistance request.
AnnotationAssistanceRequestController::update() — Method in classAnnotationAssistanceRequestController: Close an annotation assistance request.
UpdateAnnotationAssistanceRequest — Class in namespaceBiigle\Modules\Ananas\Http\Requests
UsersControllerMixin — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Mixins\Views\Admin
UsersControllerMixin — Class in namespaceBiigle\Modules\Projects\Http\Controllers\Mixins\Views\Admin
UserObserver — Class in namespaceBiigle\Modules\Reports\Observers
Report::user() — Method in classReport: The user that requested the report.
Uuids — Class in namespaceBiigle\Modules\Sync\Console\Commands
UserExportController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Api\Export
ImportController::update() — Method in classImportController
ImportController::updateUserImport() — Method in classImportController: Perform a user import.
ImportController::updateLabelTreeImport() — Method in classImportController: Perform a label tree import.
ImportController::updateVolumeImport() — Method in classImportController: Perform a volume import.
UserExport — Class in namespaceBiigle\Modules\Sync\Support\Export
$LabelTreeImport#userImport — Property in classLabelTreeImport: The user import instance that belongs to this import.
LabelTreeImport::updateInsertedLabelParentIds() — Method in classLabelTreeImport: Update/set the parent_id of imported labels.
UserImport — Class in namespaceBiigle\Modules\Sync\Support\Import
$VolumeImport#userImport — Property in classVolumeImport: The user import instance that belongs to this import.
VideoAnnotationController::update() — Method in classVideoAnnotationController: Updates the video annotation
VideoController::update() — Method in classVideoController: Updates the attributes of the specified video.
UsersControllerMixin — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Mixins\Admin
UpdateVideo — Class in namespaceBiigle\Modules\Videos\Http\Requests
UpdateVideoAnnotation — Class in namespaceBiigle\Modules\Videos\Http\Requests
$DeleteVideoThumbnails#uuid — Property in classDeleteVideoThumbnails: UUID of the video to delete the thumbnails of.
VideoAnnotationPolicy::update() — Method in classVideoAnnotationPolicy: Determine if the user may update the given annotation.
VideoPolicy::update() — Method in classVideoPolicy: Determine if the given video can be updated by the user.
VideoAnnotationLabel::user() — Method in classVideoAnnotationLabel: The user who created this annotation label.
UsersControllerMixin — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Mixins\Views\Admin
$RegistrationConfirmation#user — Property in classRegistrationConfirmation: User who has been newly registered.
AnnotationLabelPolicy::update() — Method in classAnnotationLabelPolicy: Determine if the user can edit the given annotation label.
AnnotationPolicy::update() — Method in classAnnotationPolicy: Determine if the user may update the given annotation.
LabelPolicy::update() — Method in classLabelPolicy: Determine if the given label can be updated by the user.
LabelTreePolicy::update() — Method in classLabelTreePolicy: Determine if the given label tree can be updated by the user.
LabelTreePolicy::updateMember() — Method in classLabelTreePolicy: Determine if the user can update the given member of the given label tree.
LabelTreeVersionPolicy::update() — Method in classLabelTreeVersionPolicy: Determine if the given label tree version can be updated by the user.
ProjectPolicy::update() — Method in classProjectPolicy: Determine if the given project can be updated by the user.
SystemMessagePolicy::update() — Method in classSystemMessagePolicy: Determine whether the user can update the systemMessage.
UserPolicy — Class in namespaceBiigle\Policies
UserPolicy::update() — Method in classUserPolicy: Determine if the given user can update the user.
VolumePolicy::update() — Method in classVolumePolicy: Determine if the given volume can be updated by the user.
Project::users() — Method in classProject: The members of this project. Every member has a project-specific project_role_id besides their global user role.
Project::userCanBeRemoved() — Method in classProject: Determines if the user can be removed from the project.
Uuid4 — Class in namespaceBiigle\Rules
$VolumeImages#url — Property in classVolumeImages: The volume URL to check the image files.
ApiGuard::user() — Method in classApiGuard: Get the currently authenticated user.
User — Class in namespaceBiigle
Volume::users() — Method in classVolume: Return a query for all users associated to this volume through projects.

V

AnnotationSession::volume() — Method in classAnnotationSession: The volume, this annotation session belongs to.
VipsImage — Class in namespaceBiigle\Facades
VisibilityController — Class in namespaceBiigle\Http\Controllers\Api
VolumeAnnotationSessionController — Class in namespaceBiigle\Http\Controllers\Api
VolumeController — Class in namespaceBiigle\Http\Controllers\Api
VolumeImageController — Class in namespaceBiigle\Http\Controllers\Api
RegisterController::validator() — Method in classRegisterController: Get a validator for an incoming registration request.
VerifyCsrfToken — Class in namespaceBiigle\Http\Middleware
$DestroyLabelTreeVersion#version — Property in classDestroyLabelTreeVersion: The label tree version that should be deleted.
$StoreAnnotationSession#volume — Property in classStoreAnnotationSession: The volume to store the annotation session to.
$StoreVolumeImage#volume — Property in classStoreVolumeImage: The volume to create the images in.
$UpdateLabelTreeVersion#version — Property in classUpdateLabelTreeVersion: The label tree version that should be updated.
$UpdateVolume#volume — Property in classUpdateVolume: The volume to update.
Image::volume() — Method in classImage: The volume, this image belongs to.
$CreateNewImages#volume — Property in classCreateNewImages: The volume to create the images for.
$DeleteVolume#volume — Property in classDeleteVolume: The volume that should be deleted.
$ProcessNewImages#volume — Property in classProcessNewImages: The volume for which the images should be processed.
LabelTree::version() — Method in classLabelTree: The version of this label tree (if it is a version of a master label tree).
LabelTree::versions() — Method in classLabelTree: The versions of this (master) label tree.
LabelTree::visibility() — Method in classLabelTree: The visibility of the label tree.
AnnotationAssistanceRequest::via() — Method in classAnnotationAssistanceRequest: Get the notification's delivery channels.
VolumeImageAreaController — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Api
VolumeImageController — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Api
VolumeLabelController — Class in namespaceBiigle\Modules\Annotations\Http\Controllers\Api
VolumeColorSortSequenceController — Class in namespaceBiigle\Modules\ColorSort\Http\Controllers\Api
$Sequence#visible — Property in classSequence: The attributes included in the model's JSON form. All other are hidden.
Sequence::volume() — Method in classSequence: The volume, this image belongs to.
GeoOverlay::volume() — Method in classGeoOverlay: The volume, this overlay belongs to.
VolumeGeoOverlayController — Class in namespaceBiigle\Modules\Geo\Http\Controllers\Api
VolumeController — Class in namespaceBiigle\Modules\Geo\Http\Controllers\Views
StoreMerge::validateCreate() — Method in classStoreMerge: Validate the create labels.
StoreMerge::validateRemove() — Method in classStoreMerge: Validate the remove labels.
LargoController::validateLargoInput() — Method in classLargoController: Validates the input for saving an Largo session.
VolumeImageController — Class in namespaceBiigle\Modules\Laserpoints\Http\Controllers\Api
$ComputeVolume#volume — Property in classComputeVolume: The volume that should be processed with laser point detection.
$ProcessVolumeDelphiJob#volume — Property in classProcessVolumeDelphiJob: The volume to process the images of.
Volume — Class in namespaceBiigle\Modules\Laserpoints: Extends the base Biigle volume.
VideoReportController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Api\Videos
VolumeReportController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Api\Volumes
VideoReportsController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Views
VolumeReportsController — Class in namespaceBiigle\Modules\Reports\Http\Controllers\Views
ReportReady::via() — Method in classReportReady: Get the notification's delivery channels.
VolumeObserver — Class in namespaceBiigle\Modules\Reports\Observers
VolumeReportGenerator — Class in namespaceBiigle\Modules\Reports\Support\Reports\Volumes
Volume — Class in namespaceBiigle\Modules\Reports: Extends the base Biigle volume.
VolumeExportController — Class in namespaceBiigle\Modules\Sync\Http\Controllers\Api\Export
VolumeExport — Class in namespaceBiigle\Modules\Sync\Support\Export
ArchiveManager::validate() — Method in classArchiveManager: Validate the uploaded import archive.
Import::validateFiles() — Method in classImport: Check if the files of this import are valid.
Import::validateFile() — Method in classImport: Validate a file of this import.
LabelTreeImport::validateFile() — Method in classLabelTreeImport: Validate a file of this import.
PublicLabelTreeImport::validateFile() — Method in classPublicLabelTreeImport: Validate a file of this import.
UserImport::validateFile() — Method in classUserImport: Validate a file of this import.
VolumeImport — Class in namespaceBiigle\Modules\Sync\Support\Import
VolumeImport::validateFile() — Method in classVolumeImport: Validate a file of this import.
VideoDeleted — Class in namespaceBiigle\Modules\Videos\Events
$VideoDeleted#video — Property in classVideoDeleted: The video that caused this event.
VideoAnnotationController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Api
VideoAnnotationLabelController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Api
VideoController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Api
VideoFileController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Api
VideoController — Class in namespaceBiigle\Modules\Videos\Http\Controllers\Views
$DestroyVideo#video — Property in classDestroyVideo: The video that should be deleted.
$StoreVideoAnnotation#video — Property in classStoreVideoAnnotation: The video on which the annotation should be created.
$UpdateVideo#video — Property in classUpdateVideo: The video that should be updated.
$ProcessNewVideo#video — Property in classProcessNewVideo: The new video that should be processed.
VideoAnnotationLabelPolicy — Class in namespaceBiigle\Modules\Videos\Policies
VideoAnnotationPolicy — Class in namespaceBiigle\Modules\Videos\Policies
VideoPolicy — Class in namespaceBiigle\Modules\Videos\Policies
Project::videos() — Method in classProject: The videos of this project.
VideoUrl — Class in namespaceBiigle\Modules\Videos\Rules
VideoCodecExtractor — Class in namespaceBiigle\Modules\Videos\Support
Video — Class in namespaceBiigle\Modules\Videos
VideoAnnotation — Class in namespaceBiigle\Modules\Videos
VideoAnnotation::video() — Method in classVideoAnnotation: The video, this annotation belongs to.
VideoAnnotation::validatePoints() — Method in classVideoAnnotation: Validate the points and frames of this annotation.
VideoAnnotationLabel — Class in namespaceBiigle\Modules\Videos
VideosServiceProvider — Class in namespaceBiigle\Modules\Videos
VolumeImageFilenamesController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api
VolumeImageLabelsController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api
VolumeImageMetadataController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api
VolumeUsedImageLabelsController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api
VolumeUserController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers\Api
VolumeController — Class in namespaceBiigle\Modules\Volumes\Http\Controllers
VolumesServiceProvider — Class in namespaceBiigle\Modules\Volumes
InAppNotification::via() — Method in classInAppNotification: Get the notification's delivery channels.
RegistrationAccepted::via() — Method in classRegistrationAccepted: Get the notification's delivery channels.
RegistrationConfirmation::via() — Method in classRegistrationConfirmation: Get the notification's delivery channels.
RegistrationRejected::via() — Method in classRegistrationRejected: Get the notification's delivery channels.
VolumeObserver — Class in namespaceBiigle\Observers
VolumePolicy — Class in namespaceBiigle\Policies
Project::volumes() — Method in classProject: The volumes of this project.
VolumeImageUnique — Class in namespaceBiigle\Rules
$VolumeImageUnique#volume — Property in classVolumeImageUnique: The volume to check for existing images.
VolumeImages — Class in namespaceBiigle\Rules
VolumeUrl — Class in namespaceBiigle\Rules
$Modules#viewMixins — Property in classModules: The view mixins of every module for every view.
HasPointsAttribute::validatePoints() — Method in classHasPointsAttribute: Validates a points array for the shape of this annotation.
Visibility — Class in namespaceBiigle: The visibility of a model.
Volume — Class in namespaceBiigle: A volume is a collection of images. Volumes belong to one or many projects.

W

AttachProjectUser::withValidator() — Method in classAttachProjectUser: Configure the validator instance.
DestroyProjectUser::withValidator() — Method in classDestroyProjectUser: Configure the validator instance.
DestroyUser::withValidator() — Method in classDestroyUser: Configure the validator instance.
StoreAnnotations::withValidator() — Method in classStoreAnnotations: Configure the validator instance.
StoreLabel::withValidator() — Method in classStoreLabel: Configure the validator instance.
StoreLabelTree::withValidator() — Method in classStoreLabelTree: Configure the validator instance.
StoreLabelTreeUser::withValidator() — Method in classStoreLabelTreeUser: Configure the validator instance.
StorePinnedProject::withValidator() — Method in classStorePinnedProject: Configure the validator instance.
StoreProjectLabelTree::withValidator() — Method in classStoreProjectLabelTree: Configure the validator instance.
UpdateLabel::withValidator() — Method in classUpdateLabel: Configure the validator instance.
UpdateLabelTreeUser::withValidator() — Method in classUpdateLabelTreeUser: Configure the validator instance.
UpdateProjectUser::withValidator() — Method in classUpdateProjectUser: Configure the validator instance.
UpdateUser::withValidator() — Method in classUpdateUser: Configure the validator instance.
$ProcessNewImageChunk#width — Property in classProcessNewImageChunk: The desired thumbnail width.
StoreAnnotationAssistanceRequest::withValidator() — Method in classStoreAnnotationAssistanceRequest: Configure the validator instance.
UpdateAnnotationAssistanceRequest::withValidator() — Method in classUpdateAnnotationAssistanceRequest: Configure the validator instance.
StoreColorSortSequence::withValidator() — Method in classStoreColorSortSequence: Configure the validator instance.
StoreMerge::withValidator() — Method in classStoreMerge: Configure the validator instance.
WormsAdapter — Class in namespaceBiigle\Modules\LabelTrees\Services\LabelSourceAdapters: WoRMS label source adapter.
ComputeImage::withValidator() — Method in classComputeImage: Configure the validator instance.
ComputeVolume::withValidator() — Method in classComputeVolume: Configure the validator instance.
DestroyVideo::withValidator() — Method in classDestroyVideo: Configure the validator instance.
DestroyVideoAnnotationLabel::withValidator() — Method in classDestroyVideoAnnotationLabel: Configure the validator instance.
LinkVideoAnnotation::withValidator() — Method in classLinkVideoAnnotation: Configure the validator instance.
SplitVideoAnnotation::withValidator() — Method in classSplitVideoAnnotation: Configure the validator instance.
StoreVideoAnnotation::withValidator() — Method in classStoreVideoAnnotation: Configure the validator instance.
StoreVideoAnnotationLabel::withValidator() — Method in classStoreVideoAnnotationLabel: Configure the validator instance.

_

ImagesDeleted::__construct() — Method in classImagesDeleted: Create a new event instance.
FileCache::__construct() — Method in classFileCache: Create an instance.
GenericFile::__construct() — Method in classGenericFile: Create a new instance.
FileCacheFake::__construct() — Method in classFileCacheFake
ApiTokenController::__construct() — Method in classApiTokenController: Creates a new ApiTokenController instance.
UserController::__construct() — Method in classUserController: Creates a new UserController instance.
UserRegistrationController::__construct() — Method in classUserRegistrationController: Creates a new instance.
ForgotPasswordController::__construct() — Method in classForgotPasswordController: Create a new controller instance.
LoginController::__construct() — Method in classLoginController: Create a new controller instance.
RegisterController::__construct() — Method in classRegisterController: Create a new controller instance.
ResetPasswordController::__construct() — Method in classResetPasswordController: Create a new controller instance.
DashboardController::__construct() — Method in classDashboardController: Create a new instance.
CreateNewImages::__construct() — Method in classCreateNewImages: Create a new job instance.
DeleteVolume::__construct() — Method in classDeleteVolume: Create a new job instance.
MigrateTiledImage::__construct() — Method in classMigrateTiledImage: Create a new job instance.
ProcessNewImageChunk::__construct() — Method in classProcessNewImageChunk: Create a new job instance.
ProcessNewImages::__construct() — Method in classProcessNewImages: Create a new job instance.
TileSingleImage::__construct() — Method in classTileSingleImage: Create a new job instance.
CreateRedisLogger::__invoke() — Method in classCreateRedisLogger: Create a custom Monolog instance.
LogManager::__construct() — Method in classLogManager: Create a new instance.
AnnotationAssistanceRequest::__construct() — Method in classAnnotationAssistanceRequest: Create a new instance.
AnnotationAssistanceResponse::__construct() — Method in classAnnotationAssistanceResponse: Create a new notification instance.
ComputeNewSequence::__construct() — Method in classComputeNewSequence: Create a new job instance.
GenerateMissing::__construct() — Method in classGenerateMissing: Create a new command instance.
GenerateAnnotationPatch::__construct() — Method in classGenerateAnnotationPatch: Create a new job instance.
RemoveAnnotationPatches::__construct() — Method in classRemoveAnnotationPatches: Create a new job instance.
Job::__construct() — Method in classJob: Create a new job instance.
ProcessDelphiJob::__construct() — Method in classProcessDelphiJob: Create a new job instance.
ProcessImageDelphiJob::__construct() — Method in classProcessImageDelphiJob: Create a new job instance.
ProcessImageManualJob::__construct() — Method in classProcessImageManualJob: Create a new job instance.
ProcessManualJob::__construct() — Method in classProcessManualJob: Create a new job instance.
ProcessVolumeDelphiJob::__construct() — Method in classProcessVolumeDelphiJob: Create a new job instance.
DelphiGather::__construct() — Method in classDelphiGather
GenerateReportJob::__construct() — Method in classGenerateReportJob: Create a new job instance.
ReportReady::__construct() — Method in classReportReady: Create a new notification instance.
CsvFile::__construct() — Method in classCsvFile: Create a new CSV file.
File::__construct() — Method in classFile: Create a new file.
File::__destruct() — Method in classFile
ReportGenerator::__construct() — Method in classReportGenerator: Create a report generator instance.
PythonScriptRunner::__construct() — Method in classPythonScriptRunner: Create and execute the exec command.
VolumeReportGenerator::__construct() — Method in classVolumeReportGenerator: Create a report generator instance.
PostprocessVolumeImport::__construct() — Method in classPostprocessVolumeImport: Create a new job instance.
Export::__construct() — Method in classExport: Create a new instance.
ArchiveManager::__construct() — Method in classArchiveManager: Create a new instance.
Import::__construct() — Method in classImport: Create a new instance.
VideoDeleted::__construct() — Method in classVideoDeleted: Create a new instance
DeleteVideoThumbnails::__construct() — Method in classDeleteVideoThumbnails: Create a new instance.
ProcessNewVideo::__construct() — Method in classProcessNewVideo: Create a new instance.
TrackObject::__construct() — Method in classTrackObject: Create a new instance.
GreaterThan::__construct() — Method in classGreaterThan: Create a new instance.
LessThan::__construct() — Method in classLessThan: Create a new instance.
VideoUrl::__construct() — Method in classVideoUrl: Create a new instance.
BrowserController::__construct() — Method in classBrowserController: Instantiate a new controller instance.
InAppNotification::__construct() — Method in classInAppNotification: Create a new notification instance.
NewSystemMessageNotification::__construct() — Method in classNewSystemMessageNotification: Create a new notification instance.
RegistrationConfirmation::__construct() — Method in classRegistrationConfirmation: Create a new notification instance.
CachedPolicy::__construct() — Method in classCachedPolicy: Create a new CachedPolicy.
VolumeImageUnique::__construct() — Method in classVolumeImageUnique: Create a new instance.
VolumeImages::__construct() — Method in classVolumeImages: Create a new instance.
VolumeUrl::__construct() — Method in classVolumeUrl: Create a new instance.
Modules::__construct() — Method in classModules: Create a new instance.
HasConstantInstances::__callStatic() — Method in classHasConstantInstances: Get one of the instances of this model that are defined in the INSTANCES constant array.