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| 1 | +package com.scalableminds.webknossos.datastore.controllers |
| 2 | + |
| 3 | +import com.google.inject.Inject |
| 4 | +import com.scalableminds.util.accesscontext.TokenContext |
| 5 | +import com.scalableminds.util.geometry.Vec3Int |
| 6 | +import com.scalableminds.util.image.{Color, JPEGWriter} |
| 7 | +import com.scalableminds.util.objectid.ObjectId |
| 8 | +import com.scalableminds.util.tools.Fox |
| 9 | +import com.scalableminds.webknossos.datastore.DataStoreConfig |
| 10 | +import com.scalableminds.webknossos.datastore.helpers.MissingBucketHeaders |
| 11 | +import com.scalableminds.webknossos.datastore.image.{ImageCreator, ImageCreatorParameters} |
| 12 | +import com.scalableminds.webknossos.datastore.models.DataRequestCollection._ |
| 13 | +import com.scalableminds.webknossos.datastore.models.{ |
| 14 | + DataRequest, |
| 15 | + RawCuboidRequest, |
| 16 | + VoxelPosition, |
| 17 | + WebknossosDataRequest |
| 18 | +} |
| 19 | +import com.scalableminds.webknossos.datastore.models.requests.{DataServiceDataRequest, DataServiceRequestSettings} |
| 20 | +import com.scalableminds.webknossos.datastore.models.datasource.{Category, DataLayer, DataSourceId} |
| 21 | +import com.scalableminds.webknossos.datastore.services.{ |
| 22 | + BinaryDataService, |
| 23 | + BinaryDataServiceHolder, |
| 24 | + DataSourceRepository, |
| 25 | + DataStoreAccessTokenService, |
| 26 | + DatasetCache, |
| 27 | + FindDataService, |
| 28 | + MappingService, |
| 29 | + UserAccessRequest |
| 30 | +} |
| 31 | +import com.scalableminds.webknossos.datastore.services.mesh.AdHocMeshServiceHolder |
| 32 | +import com.scalableminds.webknossos.datastore.slacknotification.DSSlackNotificationService |
| 33 | +import play.api.i18n.Messages |
| 34 | +import play.api.libs.json.Json |
| 35 | +import play.api.mvc.{Action, AnyContent, PlayBodyParsers, RawBuffer} |
| 36 | + |
| 37 | +import java.io.ByteArrayOutputStream |
| 38 | +import scala.concurrent.ExecutionContext |
| 39 | + |
| 40 | +/** |
| 41 | + * This is equivalent to the BinaryDataController for Datasets by DatasetId |
| 42 | + */ |
| 43 | +class WKDatasetController @Inject()( |
| 44 | + accessTokenService: DataStoreAccessTokenService, |
| 45 | + binaryDataServiceHolder: BinaryDataServiceHolder, |
| 46 | + findDataService: FindDataService, |
| 47 | + datasetCache: DatasetCache |
| 48 | +)(implicit ec: ExecutionContext, bodyParsers: PlayBodyParsers) |
| 49 | + extends Controller |
| 50 | + with MissingBucketHeaders { |
| 51 | + |
| 52 | + val binaryDataService: BinaryDataService = binaryDataServiceHolder.binaryDataService |
| 53 | + |
| 54 | + def requestViaWebknossos(datasetId: String, dataLayerName: String): Action[List[WebknossosDataRequest]] = |
| 55 | + Action.async(validateJson[List[WebknossosDataRequest]]) { implicit request => |
| 56 | + accessTokenService.validateAccessFromTokenContext(UserAccessRequest.readDataset(datasetId)) { |
| 57 | + // TODO Log time |
| 58 | + for { |
| 59 | + datasetId <- ObjectId.fromString(datasetId) |
| 60 | + dataSource <- datasetCache.getById(datasetId) |
| 61 | + dataLayer <- dataSource.getDataLayer(dataLayerName).toFox ?~> "Data layer not found" ~> NOT_FOUND |
| 62 | + (data, indices) <- requestData(dataSource.id, dataLayer, request.body) |
| 63 | + } yield Ok(data).withHeaders(createMissingBucketsHeaders(indices): _*) |
| 64 | + } |
| 65 | + } |
| 66 | + |
| 67 | + def requestRawCuboid(datasetId: String, |
| 68 | + dataLayerName: String, |
| 69 | + x: Int, |
| 70 | + y: Int, |
| 71 | + z: Int, |
| 72 | + width: Int, |
| 73 | + height: Int, |
| 74 | + depth: Int, |
| 75 | + mag: String, |
| 76 | + halfByte: Boolean, |
| 77 | + mappingName: Option[String]): Action[AnyContent] = Action.async { implicit request => |
| 78 | + accessTokenService.validateAccessFromTokenContext(UserAccessRequest.readDataset(datasetId)) { |
| 79 | + for { |
| 80 | + datasetId <- ObjectId.fromString(datasetId) |
| 81 | + (dataSource, dataLayer) <- datasetCache.getWithLayer(datasetId, dataLayerName) ~> NOT_FOUND |
| 82 | + magParsed <- Vec3Int.fromMagLiteral(mag).toFox ?~> "malformedMag" |
| 83 | + dataRequest = DataRequest( |
| 84 | + VoxelPosition(x, y, z, magParsed), |
| 85 | + width, |
| 86 | + height, |
| 87 | + depth, |
| 88 | + DataServiceRequestSettings(halfByte = halfByte, appliedAgglomerate = mappingName) |
| 89 | + ) |
| 90 | + (data, indices) <- requestData(dataSource.id, dataLayer, dataRequest) |
| 91 | + } yield Ok(data).withHeaders(createMissingBucketsHeaders(indices): _*) |
| 92 | + } |
| 93 | + } |
| 94 | + |
| 95 | + def requestRawCuboidPost(datasetId: String, dataLayerName: String): Action[RawCuboidRequest] = |
| 96 | + Action.async(validateJson[RawCuboidRequest]) { implicit request => |
| 97 | + accessTokenService.validateAccessFromTokenContext(UserAccessRequest.readDataset(datasetId)) { |
| 98 | + for { |
| 99 | + datasetId <- ObjectId.fromString(datasetId) |
| 100 | + (dataSource, dataLayer) <- datasetCache.getWithLayer(datasetId, dataLayerName) ~> NOT_FOUND |
| 101 | + (data, indices) <- requestData(dataSource.id, dataLayer, request.body) |
| 102 | + } yield Ok(data).withHeaders(createMissingBucketsHeaders(indices): _*) |
| 103 | + } |
| 104 | + } |
| 105 | + |
| 106 | + def thumbnailJpeg(datasetId: String, |
| 107 | + dataLayerName: String, |
| 108 | + x: Int, |
| 109 | + y: Int, |
| 110 | + z: Int, |
| 111 | + width: Int, |
| 112 | + height: Int, |
| 113 | + mag: String, |
| 114 | + mappingName: Option[String], |
| 115 | + intensityMin: Option[Double], |
| 116 | + intensityMax: Option[Double], |
| 117 | + color: Option[String], |
| 118 | + invertColor: Option[Boolean]): Action[RawBuffer] = Action.async(parse.raw) { implicit request => |
| 119 | + accessTokenService.validateAccessFromTokenContext(UserAccessRequest.readDataset(datasetId)) { |
| 120 | + for { |
| 121 | + datasetIdValidated <- ObjectId.fromString(datasetId) |
| 122 | + (dataSource, dataLayer) <- datasetCache.getWithLayer(datasetIdValidated, dataLayerName) ?~> Messages( |
| 123 | + "dataSource.notFound") ~> NOT_FOUND |
| 124 | + magParsed <- Vec3Int.fromMagLiteral(mag).toFox ?~> "malformedMag" |
| 125 | + dataRequest = DataRequest( |
| 126 | + VoxelPosition(x, y, z, magParsed), |
| 127 | + width, |
| 128 | + height, |
| 129 | + depth = 1, |
| 130 | + DataServiceRequestSettings(appliedAgglomerate = mappingName) |
| 131 | + ) |
| 132 | + (data, _) <- requestData(dataSource.id, dataLayer, dataRequest) |
| 133 | + intensityRange: Option[(Double, Double)] = intensityMin.flatMap(min => intensityMax.map(max => (min, max))) |
| 134 | + layerColor = color.flatMap(Color.fromHTML) |
| 135 | + params = ImageCreatorParameters( |
| 136 | + dataLayer.elementClass, |
| 137 | + useHalfBytes = false, |
| 138 | + slideWidth = width, |
| 139 | + slideHeight = height, |
| 140 | + imagesPerRow = 1, |
| 141 | + blackAndWhite = false, |
| 142 | + intensityRange = intensityRange, |
| 143 | + isSegmentation = dataLayer.category == Category.segmentation, |
| 144 | + color = layerColor, |
| 145 | + invertColor = invertColor |
| 146 | + ) |
| 147 | + dataWithFallback = if (data.length == 0) |
| 148 | + new Array[Byte](width * height * dataLayer.bytesPerElement) |
| 149 | + else data |
| 150 | + spriteSheet <- ImageCreator.spriteSheetFor(dataWithFallback, params).toFox ?~> "image.create.failed" |
| 151 | + firstSheet <- spriteSheet.pages.headOption.toFox ?~> "image.page.failed" |
| 152 | + outputStream = new ByteArrayOutputStream() |
| 153 | + _ = new JPEGWriter().writeToOutputStream(firstSheet.image)(outputStream) |
| 154 | + } yield Ok(outputStream.toByteArray).as(jpegMimeType) |
| 155 | + } |
| 156 | + } |
| 157 | + |
| 158 | + def findData(datasetId: String, dataLayerName: String): Action[AnyContent] = |
| 159 | + Action.async { implicit request => |
| 160 | + accessTokenService.validateAccessFromTokenContext(UserAccessRequest.readDataset(datasetId)) { |
| 161 | + for { |
| 162 | + datasetIdValidated <- ObjectId.fromString(datasetId) |
| 163 | + (dataSource, dataLayer) <- datasetCache.getWithLayer(datasetIdValidated, dataLayerName) ~> NOT_FOUND |
| 164 | + positionAndMagOpt <- findDataService.findPositionWithData(dataSource.id, dataLayer) |
| 165 | + } yield Ok(Json.obj("position" -> positionAndMagOpt.map(_._1), "mag" -> positionAndMagOpt.map(_._2))) |
| 166 | + } |
| 167 | + } |
| 168 | + |
| 169 | + def histogram(datasetId: String, dataLayerName: String): Action[AnyContent] = |
| 170 | + Action.async { implicit request => |
| 171 | + accessTokenService.validateAccessFromTokenContext(UserAccessRequest.readDataset(datasetId)) { |
| 172 | + for { |
| 173 | + datasetIdValidated <- ObjectId.fromString(datasetId) |
| 174 | + (dataSource, dataLayer) <- datasetCache.getWithLayer(datasetIdValidated, dataLayerName) ?~> Messages( |
| 175 | + "dataSource.notFound") ~> NOT_FOUND ?~> Messages("histogram.layerMissing", dataLayerName) |
| 176 | + listOfHistograms <- findDataService.createHistogram(dataSource.id, dataLayer) ?~> Messages("histogram.failed", |
| 177 | + dataLayerName) |
| 178 | + } yield Ok(Json.toJson(listOfHistograms)) |
| 179 | + } |
| 180 | + } |
| 181 | + |
| 182 | + private def requestData( |
| 183 | + dataSourceId: DataSourceId, |
| 184 | + dataLayer: DataLayer, |
| 185 | + dataRequests: DataRequestCollection |
| 186 | + )(implicit tc: TokenContext): Fox[(Array[Byte], List[Int])] = { |
| 187 | + val requests = |
| 188 | + dataRequests.map(r => DataServiceDataRequest(Some(dataSourceId), dataLayer, r.cuboid(dataLayer), r.settings)) |
| 189 | + binaryDataService.handleDataRequests(requests) |
| 190 | + } |
| 191 | +} |
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