Merge branch 'master' of gitorious.research-infrastructures.eu:infrastructure-management/ansible-playbooks

smartgears/dataminer_app/defaults/main.yml

@@ -7,7 +7,7 @@ dataminer_product: prod
 dataminer_zip_url: 'http://svn.research-infrastructures.eu/public/d4science/gcube/trunk/data-analysis/DataMinerConfiguration/webapp/{{ dataminer_product }}/wps.zip'
 
 # Install from WAR
-dataminer_war_install: False
+dataminer_war_install: True
 dataminer_wps_version: latest
 dataminer_wps_name: wps
 dataminer_wps_group_id: org.gcube.data-analysis
@@ -34,3 +34,15 @@ dataminer_data_file_from_thredds: 'http://thredds.d4science.org/thredds/fileServ
 
 # dev, prod, preprod
 dataminer_infra_reference: dev
+
+dataminer_properties_files:
+  - algorithms.properties
+  - clusterers.properties
+  - dynamictransducerers.properties
+  - evaluators.properties
+  - generators.properties
+  - modelers.properties
+  - models.properties
+  - nodealgorithms.properties
+  - transducerers.properties
+  - userperspective.properties

smartgears/dataminer_app/files/algorithms.properties

@@ -0,0 +1,17 @@
+AQUAMAPS_SUITABLE=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsSuitable
+AQUAMAPS_NATIVE=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNative
+AQUAMAPS_NATIVE_2050=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNative2050
+AQUAMAPS_SUITABLE_2050=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsSuitable2050
+AQUAMAPS_NATIVE_NEURALNETWORK=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNN
+AQUAMAPS_SUITABLE_NEURALNETWORK=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNNSuitable
+FEED_FORWARD_A_N_N_DISTRIBUTION=org.gcube.dataanalysis.ecoengine.spatialdistributions.FeedForwardNeuralNetworkDistribution
+LWR=org.gcube.dataanalysis.executor.nodes.algorithms.LWR
+BIONYM_BIODIV=org.gcube.dataanalysis.executor.nodes.transducers.bionym.BionymBiodiv
+BIONYM=org.gcube.dataanalysis.executor.nodes.transducers.bionym.BionymFlexibleWorkflowTransducer
+OCCURRENCES_MERGER=org.gcube.dataanalysis.executor.nodes.transducers.OccurrenceMergingNode
+OCCURRENCES_INTERSECTOR=org.gcube.dataanalysis.executor.nodes.transducers.OccurrenceIntersectionNode
+OCCURRENCES_SUBTRACTION=org.gcube.dataanalysis.executor.nodes.transducers.OccurrenceSubtractionNode
+CMSY=org.gcube.dataanalysis.executor.nodes.algorithms.CMSY
+FAOMSY=org.gcube.dataanalysis.executor.nodes.algorithms.FAOMSY
+ICCAT_VPA=org.gcube.dataanalysis.executor.nodes.algorithms.ICCATVPA
+FEED_FORWARD_NEURAL_NETWORK_CLOUD_REGRESSOR=org.gcube.data.analysis.algorithms.neuralnetworks.feedforward.FeedForwardNeuralNetworkCloudRegressor

smartgears/dataminer_app/files/clusterers.properties

@@ -0,0 +1,4 @@
+DBSCAN=org.gcube.dataanalysis.ecoengine.clustering.DBScan
+LOF=org.gcube.dataanalysis.ecoengine.clustering.LOF
+KMEANS=org.gcube.dataanalysis.ecoengine.clustering.KMeans
+XMEANS=org.gcube.dataanalysis.ecoengine.clustering.XMeansWrapper

smartgears/dataminer_app/files/dynamictransducerers.properties

@@ -0,0 +1 @@
+#org.gcube.dataanalysis.geo.wps.factory.DynamicWPSTransducerer

smartgears/dataminer_app/files/evaluators.properties

@@ -0,0 +1,4 @@
+MAPS_COMPARISON=org.gcube.dataanalysis.geo.algorithms.MapsComparator
+DISCREPANCY_ANALYSIS=org.gcube.dataanalysis.ecoengine.evaluation.DiscrepancyAnalysis
+QUALITY_ANALYSIS=org.gcube.dataanalysis.ecoengine.evaluation.DistributionQualityAnalysis
+HRS=org.gcube.dataanalysis.ecoengine.evaluation.HabitatRepresentativeness

smartgears/dataminer_app/files/generators.properties

@@ -0,0 +1,3 @@
+LOCAL_WITH_DATABASE=org.gcube.dataanalysis.ecoengine.processing.LocalSplitGenerator
+SIMPLE_LOCAL=org.gcube.dataanalysis.ecoengine.processing.LocalSimpleSplitGenerator
+D4SCIENCE=org.gcube.dataanalysis.executor.generators.D4ScienceDistributedProcessing

smartgears/dataminer_app/files/modelers.properties

@@ -0,0 +1 @@
+HSPEN_MODELER=org.gcube.dataanalysis.ecoengine.modeling.SimpleModeler

smartgears/dataminer_app/files/models.properties

@@ -0,0 +1,3 @@
+HSPEN=org.gcube.dataanalysis.ecoengine.models.ModelHSPEN
+AQUAMAPSNN=org.gcube.dataanalysis.ecoengine.models.ModelAquamapsNN
+FEED_FORWARD_ANN=org.gcube.dataanalysis.ecoengine.models.FeedForwardNN

smartgears/dataminer_app/files/nodealgorithms.properties

@@ -0,0 +1,16 @@
+AQUAMAPS_SUITABLE=org.gcube.dataanalysis.executor.nodes.algorithms.AquamapsSuitableNode
+AQUAMAPS_NATIVE=org.gcube.dataanalysis.executor.nodes.algorithms.AquamapsNativeNode
+AQUAMAPS_NATIVE_2050=org.gcube.dataanalysis.executor.nodes.algorithms.AquamapsNative2050Node
+AQUAMAPS_SUITABLE_2050=org.gcube.dataanalysis.executor.nodes.algorithms.AquamapsSuitable2050Node
+OCCURRENCES_MERGER=org.gcube.dataanalysis.executor.nodes.transducers.OccurrenceMergingNode
+OCCURRENCES_INTERSECTOR=org.gcube.dataanalysis.executor.nodes.transducers.OccurrenceIntersectionNode
+OCCURRENCES_SUBTRACTION=org.gcube.dataanalysis.executor.nodes.transducers.OccurrenceSubtractionNode
+LWR=org.gcube.dataanalysis.executor.nodes.algorithms.LWR
+BIONYM_BIODIV=org.gcube.dataanalysis.executor.nodes.transducers.bionym.BionymBiodiv
+BIONYM=org.gcube.dataanalysis.executor.nodes.transducers.bionym.BionymFlexibleWorkflowTransducer
+CMSY=org.gcube.dataanalysis.executor.nodes.algorithms.CMSY
+FAOMSY=org.gcube.dataanalysis.executor.nodes.algorithms.FAOMSY
+ICCAT_VPA=org.gcube.dataanalysis.executor.nodes.algorithms.ICCATVPA
+FEED_FORWARD_NEURAL_NETWORK_CLOUD_REGRESSOR=org.gcube.data.analysis.algorithms.neuralnetworks.feedforward.FeedForwardNeuralNetworkCloudRegressor
+AQUAMAPS_NATIVE_NEURALNETWORK=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNN
+AQUAMAPS_SUITABLE_NEURALNETWORK=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNNSuitable

smartgears/dataminer_app/files/transducerers.properties

@@ -0,0 +1,185 @@
+HCAF_FILTER=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.HcafFilter
+ABSENCE_CELLS_FROM_AQUAMAPS=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.MarineAbsencePointsFromAquamapsDistribution
+BIOCLIMATE_HCAF=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHCAFTransducer
+BIOCLIMATE_HSPEC=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHSPECTransducer
+BIOCLIMATE_HSPEN=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHSPENTransducer
+BIONYM_LOCAL=org.gcube.dataanalysis.executor.nodes.transducers.bionym.BionymLocalTransducer
+OCCURRENCES_DUPLICATES_DELETER=org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsDuplicatesDeleter
+OCCURRENCES_MARINE_TERRESTRIAL=org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsInSeaOnEarth
+HCAF_INTERPOLATION=org.gcube.dataanalysis.ecoengine.transducers.InterpolationTransducer
+PRESENCE_CELLS_GENERATION=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.MarinePresencePoints
+MOST_OBSERVED_SPECIES=org.gcube.dataanalysis.trendylyzeralgorithms.AbsoluteSpeciesBarChartsAlgorithm
+MOST_OBSERVED_TAXA=org.gcube.dataanalysis.trendylyzeralgorithms.TaxaObservationsBarChartAlgorithm
+SPECIES_OBSERVATIONS_PER_AREA=org.gcube.dataanalysis.trendylyzeralgorithms.SpeciesObservationsAreaBarChart
+SPECIES_OBSERVATIONS_TREND_PER_YEAR=org.gcube.dataanalysis.trendylyzeralgorithms.SpeciesObservationsPerYear
+SPECIES_OBSERVATION_LME_AREA_PER_YEAR=org.gcube.dataanalysis.trendylyzeralgorithms.SpeciesObservationsPerLMEAreaPerYearLineChart
+SPECIES_OBSERVATION_MEOW_AREA_PER_YEAR=org.gcube.dataanalysis.trendylyzeralgorithms.SpeciesObservationsPerMEOWAreaPerYearLineChart
+TAXONOMY_OBSERVATIONS_TREND_PER_YEAR=org.gcube.dataanalysis.trendylyzeralgorithms.TaxaObservationsPerYearLineChart
+GETTABLEDETAILS=org.gcube.dataaccess.algorithms.drmalgorithms.GetTableDetails
+LISTDBINFO=org.gcube.dataaccess.algorithms.drmalgorithms.ListDBInfo
+LISTDBNAMES=org.gcube.dataaccess.algorithms.drmalgorithms.ListNames
+LISTDBSCHEMA=org.gcube.dataaccess.algorithms.drmalgorithms.ListSchemas
+LISTTABLES=org.gcube.dataaccess.algorithms.drmalgorithms.ListTables
+RANDOMSAMPLEONTABLE=org.gcube.dataaccess.algorithms.drmalgorithms.RandomSampleOnTable
+SAMPLEONTABLE=org.gcube.dataaccess.algorithms.drmalgorithms.SampleOnTable
+SMARTSAMPLEONTABLE=org.gcube.dataaccess.algorithms.drmalgorithms.SmartSampleOnTable
+SUBMITQUERY=org.gcube.dataaccess.algorithms.drmalgorithms.SubmitQuery
+XYEXTRACTOR=org.gcube.dataanalysis.geo.algorithms.XYExtraction
+XYEXTRACTOR_TABLE=org.gcube.dataanalysis.geo.algorithms.XYExtractionTable
+ZEXTRACTION=org.gcube.dataanalysis.geo.algorithms.ZExtraction
+ZEXTRACTION_TABLE=org.gcube.dataanalysis.geo.algorithms.ZExtractionTable
+TIMEEXTRACTION=org.gcube.dataanalysis.geo.algorithms.TimeExtraction
+TIMEEXTRACTION_TABLE=org.gcube.dataanalysis.geo.algorithms.TimeExtractionTable
+TIME_GEO_CHART=org.gcube.dataanalysis.geo.algorithms.TimeGeoChartProducer
+TIME_SERIES_ANALYSIS=org.gcube.dataanalysis.ecoengine.transducers.TimeSeriesAnalysis
+TIME_SERIES_CHARTS=org.gcube.dataanalysis.ecoengine.transducers.charts.TimeSeriesChartsTransducerer
+KNITR_COMPILER=org.gcube.dataanalysis.executor.rscripts.KnitrCompiler
+SGVM_INTERPOLATION=org.gcube.dataanalysis.executor.rscripts.SGVMS_Interpolation
+MAX_ENT_NICHE_MODELLING=org.gcube.dataanalysis.geo.algorithms.MaxEnt4NicheModellingTransducer
+SEADATANET_INTERPOLATOR=org.gcube.dataanalysis.seadatanet.SeaDataNetConnector
+RASTER_DATA_PUBLISHER=org.gcube.dataanalysis.geo.algorithms.RasterDataPublisher
+GEO_CHART=org.gcube.dataanalysis.geo.algorithms.StaticGeoChartProducer
+ESRI_GRID_EXTRACTION=org.gcube.dataanalysis.geo.algorithms.ESRIGRIDExtraction
+OCCURRENCE_ENRICHMENT=org.gcube.dataanalysis.geo.algorithms.OccurrenceEnrichment
+POLYGONS_TO_MAP=org.gcube.dataanalysis.geo.algorithms.PolygonMapsCreator
+SPECIES_MAP_FROM_CSQUARES=org.gcube.dataanalysis.geo.algorithms.SpeciesDistributionsMapsCreatorFromCsquares
+SPECIES_MAP_FROM_POINTS=org.gcube.dataanalysis.geo.algorithms.SpeciesDistributionsMapsCreatorFromPoints
+GENERIC_CHARTS=org.gcube.dataanalysis.ecoengine.transducers.charts.QuantitiesAttributesChartsTransducerer
+POINTS_TO_MAP=org.gcube.dataanalysis.geo.algorithms.PointsMapsCreator
+CSQUARES_TO_COORDINATES=org.gcube.dataanalysis.geo.vti.CSquare2Coordinates
+CSQUARE_COLUMN_CREATOR=org.gcube.dataanalysis.geo.algorithms.CSquaresCreator
+FAO_OCEAN_AREA_COLUMN_CREATOR=org.gcube.dataanalysis.geo.algorithms.FAOOceanAreaCreator
+FAO_OCEAN_AREA_COLUMN_CREATOR_FROM_QUADRANT=org.gcube.dataanalysis.geo.algorithms.FAOOceanAreaCreatorQuadrant
+GRID_CWP_TO_COORDINATES=org.gcube.dataanalysis.geo.vti.GridCWP2Coordinates
+EGIP_ENERGY_AGGREGATED_DISTRIBUTION=org.gcube.dataanalysis.geothermal.EnergyHistogramAggregated
+EGIP_ENERGY_COUNTRY_DISTRIBUTION=org.gcube.dataanalysis.geothermal.EnergyHistogramPerCountry
+EGIP_ENERGY_TRENDS=org.gcube.dataanalysis.geothermal.EnergyTrends
+EGIP_ENERGY_YEAR_DISTRIBUTION=org.gcube.dataanalysis.geothermal.EnergyHistogramPerYear
+ESTIMATE_FISHING_ACTIVITY=org.gcube.dataanalysis.geo.vti.EstimateFishingActivity
+ESTIMATE_MONTHLY_FISHING_EFFORT=org.gcube.dataanalysis.geo.vti.EstimateMonthlyFishingEffort
+WEB_APP_PUBLISHER=org.gcube.dataanalysis.executor.nodes.transducers.WebApplicationPublisher
+SHAPEFILE_PUBLISHER=org.gcube.dataanalysis.geo.algorithms.ShapefilePublisher
+GENERIC_WORKER=org.gcube.dataanalysis.executor.job.management.GenericWorker
+ABSENCE_GENERATION_FROM_OBIS=org.gcube.dataanalysis.executor.rscripts.AbsencegenerationfromOBIS
+ECOPATH_WITH_ECOSIM=org.gcube.dataanalysis.ewe.SimpleEwE
+ENSEMBLE_MODEL=org.gcube.dataanalysis.ensemble.EnsembleAlgorithm
+ICHTHYOP_MODEL_ONE_BY_ONE=org.gcube.dataanalysis.executor.rscripts.Ichthyopmodelonebyone
+STEP_3___VPA_ICCAT_BFT_E_PROJECTION=org.gcube.dataanalysis.executor.rscripts.STEP3VPAICCATBFTEProjection
+CCAMLR_EXPORTER_TOOL=org.gcube.dataanalysis.executor.rscripts.CCAMLRExporterTool
+STEP_2__VPA_ICCAT_BFT_E_VISUALISATION=org.gcube.dataanalysis.executor.rscripts.STEP2VPAICCATBFTEVISUALISATION
+ICHTHYOP_MODEL_MULTIPLE_RUNS=org.gcube.dataanalysis.executor.rscripts.Ichthyopmodelmultipleruns
+PARALLELIZED_STEP1_VPA_ICCAT_BFT_E_RETROS=org.gcube.dataanalysis.executor.rscripts.parallelizedSTEP1VPAICCATBFTERetros
+STEP_4_VPA_ICCAT_BFT_E_REPORT=org.gcube.dataanalysis.executor.rscripts.Step4VpaIccatBftEReport
+TUNA_ATLAS_DATA_ACCESS=org.gcube.dataanalysis.executor.rscripts.TunaAtlasDataAccess
+FIGIS_SPATIAL_REALLOCATION_SIMPLIFIED=org.fao.fi.dataanalysis.spread.SpatialReallocationSimplifiedAlgorithm
+FIGIS_SPATIAL_REALLOCATION_GENERIC=org.fao.fi.dataanalysis.spread.SpatialReallocationGenericAlgorithm
+FIGIS_SPATIAL_REALLOCATION_SIMPLIFIED_TABLE=org.fao.fi.dataanalysis.spread.SpatialReallocationSimplifiedTableAlgorithm
+FIGIS_SDMX_DATA_CONVERTER=org.fao.fi.dataanalysis.stats.SDMXDataConverter
+CATCHES_BY_SPECIES=org.gcube.dataanalysis.executor.rscripts.Catchesbyspecies
+CATCHES_BY_FLAGS=org.gcube.dataanalysis.executor.rscripts.Catchesbyflags
+MAKE_ICHTHYOP_NETCDF_CF_COMPLIANT=org.gcube.dataanalysis.executor.rscripts.MakeichthyopnetCDFCFcompliant
+ICHTHYOP_NETCDF_OUTPUT_TO_SHAPEFILE=org.gcube.dataanalysis.executor.rscripts.IchthyopnetCDFoutputtoshapefile
+GENETICALGORITHM=org.gcube.dataanalysis.executor.rscripts.GeneticAlgorithm
+GLOBAL_CATCHES=org.gcube.dataanalysis.executor.rscripts.Globalcatches
+MPA_INTERSECT_V2=org.gcube.dataanalysis.executor.rscripts.MPAIntersectv2
+QUICK_RANK_TRAIN=it.cnr.isti.hpc.quickrank.qrtrain.QuickRankTrain
+QUICK_RANK_TRAIN_NO_VALIDATION=it.cnr.isti.hpc.quickrank.qrtrainnovalid.QuickRankTrainNoValidation
+QUICK_RANK_TEST=it.cnr.isti.hpc.quickrank.qrtest.QuickRankTest
+STAT_VAL=org.gcube.dataanalysis.executor.rscripts.statval
+TUNA_ATLAS_INDICATOR_1__SPECIES_BY_OCEAN_=org.gcube.dataanalysis.executor.rscripts.TunaAtlasIndicator1SpeciesByOcean
+SIMULFISHKPIS=org.gcube.dataanalysis.executor.rscripts.SimulFishKPIs
+READWFS=org.gcube.dataanalysis.executor.rscripts.ReadWFS
+PROJECTIONS_REPORT_VPA_ICCAT_BFT_E=org.gcube.dataanalysis.executor.rscripts.ProjectionsreportVPAICCATBFTE
+WHOLE_STEPS_VPA_ICCAT_BFT_E=org.gcube.dataanalysis.executor.rscripts.WholeStepsVPAICCATBFTE
+CATCHES_BY_TYPE_OF_SCHOOL=org.gcube.dataanalysis.executor.rscripts.Catchesbytypeofschool
+CATCHES_BY_GEAR_SIMPLIFIED_VERSION=org.gcube.dataanalysis.executor.rscripts.Catchesbygearsimplifiedversion
+CATCHES_BY_FLAGS_SIMPLIFIED_VERSION=org.gcube.dataanalysis.executor.rscripts.Catchesbyflagssimplifiedversion
+CATCHES_BY_SPECIES_SIMPLIFIED_VERSION=org.gcube.dataanalysis.executor.rscripts.Catchesbyspeciessimplifiedversion
+CATCHES_BY_GEARS=org.gcube.dataanalysis.executor.rscripts.Catchesbygears
+COMPUTE_FISHERIES_INDICATORS_FROM_OWN_FORMATTED_DATASET=org.gcube.dataanalysis.executor.rscripts.Computefisheriesindicatorsfromownformatteddataset
+IMPORT_FISHERIES_FORMATTED_DATASET___QUICK_IMPORT=org.gcube.dataanalysis.executor.rscripts.ImportFisheriesFormattedDatasetQuickimport
+CATCHES_AGGREGATED_FOLLOWING_A_SELECT_VARIABLE=org.gcube.dataanalysis.executor.rscripts.Catchesaggregatedfollowingaselectvariable
+WTG=org.gcube.dataanalysis.executor.rscripts.WTG
+FEED_FORWARD_NEURAL_NETWORK_TRAINER=org.gcube.data.analysis.algorithms.neuralnetworks.feedforward.FeedForwardNeuralNetworkTrainer
+NCOUTPUTS2CSV_VPA_ICCAT_BFT_E=org.gcube.dataanalysis.executor.rscripts.ncOutputs2csvVPAICCATBFTE
+FEED_FORWARD_NEURAL_NETWORK_REGRESSOR=org.gcube.data.analysis.algorithms.neuralnetworks.feedforward.FeedForwardNeuralNetworkRegressor
+CMSY_2=org.gcube.dataanalysis.executor.rscripts.CMSY2
+CATCHES_INDICATORS_IOTC_REST_SERVICES=org.gcube.dataanalysis.executor.rscripts.catchesindicatorsiotcrestservices
+STAT_VAL_UNIPARTITE_NET=org.gcube.dataanalysis.executor.rscripts.STATVALUNIPARTITENET
+GEOGRSF_INTERSECTS=org.gcube.dataanalysis.executor.rscripts.GeoGRSFIntersects
+TESTING_ALGORITHM=org.gcube.dataanalysis.executor.rscripts.TestingAlgorithm
+SPATIAL_DISTRIBUTION_OF_CORRELATION=org.gcube.dataanalysis.executor.rscripts.SPATIALDISTRIBUTIONOFCORRELATION
+KAPPA_COEFFICIENT=org.gcube.data.analysis.algorithms.kstatistics.KStatistics
+TRANSFORM_IOTC_CATCH_AND_EFFORT_DSD_CECOASTAL_AND_CESURFACE=org.gcube.dataanalysis.executor.rscripts.TransformIOTCCatchandeffortDSDCECoastalandCESurface
+LOAD_CATCHES_DATASET_IN_SARDARA=org.gcube.dataanalysis.executor.rscripts.Loadcatchesdatasetinsardara
+LOAD_EFFORTS_DATASET_IN_SARDARA=org.gcube.dataanalysis.executor.rscripts.Loadeffortsdatasetinsardara
+SCATTERPLOT_DIAGRAM=org.gcube.dataanalysis.executor.rscripts.SCATTERPLOTDIAGRAM
+SPATIAL_DENSITY_DISTRIBUTION=org.gcube.dataanalysis.executor.rscripts.SPATIALDENSITYDISTRIBUTION
+GEOGRSF_BBOXLIST=org.gcube.dataanalysis.executor.rscripts.GeoGRSFBboxlist
+SHAPEFILE_IMPORTER=org.gcube.data.analysis.algorithms.shapefileimporter.ShapefileImporter
+MATLAS_OPTICS_CLUSTERING=it.cnr.isti.kdd.matlas.optics.Optics
+MATLAS_TRAJECTORY_BUILDER=it.cnr.isti.kdd.matlas.trajectoryBuilder.TrajectoryBuilder
+ENGLISH_NAMED_ENTITY_RECOGNIZER=org.gcube.data.analysis.algorithms.samplepipeline.SamplePipeline
+TWITTER_MONITOR=it.cnr.iit.wafi.gcube.twmon.sched.TwMonScheduler
+ENGLISH_NAMED_ENTITY_RECOGNIZER_FOR_TWEETS=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline01
+ENGLISH_NAMED_ENTITY_RECOGNIZER=org.gcube.data.analysis.algorithms.samplepipeline.AbstractPipeline
+GERMAN_NAMED_ENTITY_RECOGNIZER=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline02
+LANGUAGE_IDENTIFICATION_FOR_TWEETS=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline03
+ENGLISH_TWEET_TOKENIZER=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline04
+FRENCH_NAMED_ENTITY_RECOGNIZER=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline05
+PART_OF_SPEECH_TAGGER_FOR_TWEETS=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline06
+CYMRIE_WELSH_NAMED_ENTITY_RECOGNIZER=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline07
+FRENCH_NAMED_ENTITY_RECOGNIZER_FOR_TWEETS=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline08
+GERMAN_NAMED_ENTITY_RECOGNIZER_FOR_TWEETS=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline09
+ENGLISH_PART_OF_SPEECH_AND_MORPHOLOGY_ANAYLIZER=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline10
+NOUN_PHRASE_CHUNKER=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline11
+MEASUREMENT_EXPRESSION_ANNOTATOR=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline12
+ANNIE_PLUS_MEASUREMENTS=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline13
+GENERIC_OPINION_MINING_ENGLISH=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline14
+DECARBONET_ENVIRONMENTAL_ANNOTATOR=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline15
+DECARBONET_GERMAN_ENVIRONMENTAL_ANNOTATOR=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline16
+TWITTER_OPINION_MINING_ENGLISH=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline17
+THE_BREXIT_ANALYZER_PIPELINE=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline18
+SUMMA_TEXT_SUMMARIZATION_EN=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline19
+SUMMA_TEXT_SUMMARIZATION_ES=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline20
+OPEN_NLP_ENGLISH_PIPELINE=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline21
+OPEN_NLP_GERMAN_PIPELINE=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline22
+OPEN_NLP_DUTCH_PIPELINE=org.gcube.data.analysis.algorithms.samplepipeline.Pipeline23
+SMOOTH_SCATTERPLOT_DIAGRAM=org.gcube.dataanalysis.executor.rscripts.SMOOTHSCATTERPLOTDIAGRAM
+ENRICHMENT_FROM_NETCDF=org.gcube.dataanalysis.executor.rscripts.EnrichmentFromNetcdf
+CREATE_YOUR_OWN_VERSION_OF_THE_TUNA_ATLAS=org.gcube.dataanalysis.executor.rscripts.CreateyourownversionoftheTunaAtlas
+LOAD_A_DATASET_IN_SARDARA_DATABASE=org.gcube.dataanalysis.executor.rscripts.LoadadatasetinSardaraDatabase
+SAMPLE_KNIME_WORKFLOW=org.gcube.dataanalysis.executor.rscripts.SampleKnimeWorkflow
+KNIME_WORKSPACE_FILE_UPLOADER=org.gcube.dataanalysis.executor.rscripts.KnimeWorkspaceFileUploader
+MAXANDSAM_NETWORK_RECONTRUCTION_METHOD=org.gcube.dataanalysis.executor.rscripts.MaxAndSamNetworkRecontructionMethod
+DEBTRANK_SYSTEMIC_RISK_ESTIMATION=org.gcube.dataanalysis.executor.rscripts.DebtRankSystemicRiskEstimation
+TRANSFORM_CCSBT_TASK2_LONGLINE=org.gcube.dataanalysis.executor.rscripts.TransformCCSBTtask2Longline
+PROJECT_SIMULFISHKPIS_DEV=org.gcube.dataanalysis.executor.rscripts.ProjectSimulFishKPIsDEV
+AAPS_STAGING_PUBLISHER=org.gcube.dataanalysis.executor.rscripts.AAPSstagingpublisher
+STEP_1___VPA_ICCAT_BFT_E_RETROS_ONERUN=org.gcube.dataanalysis.executor.rscripts.STEP1VPAICCATBFTERetrosOneRun
+R_SAMPLE=org.gcube.dataanalysis.executor.rscripts.RSAMPLE
+STANBOL_WRAPPER=org.gcube.data.analysis.algorithms.stanbolwrapper.StanbolWrapper
+AAPS_NASO_PUBLISHER=org.gcube.dataanalysis.executor.rscripts.AAPSnasopublisher
+GEOGRAPHIC_PROXIMITY_TOOL=org.gcube.dataanalysis.executor.rscripts.GeographicProximityTool
+SCUBE=it.di.unipi.kdd.segregation.scube.SCubeGui
+GEOGRSF_INTERSECTS_BATCH=org.gcube.dataanalysis.executor.rscripts.GeoGRSFIntersectsBatch
+CSV_TO_NETCDF_CONVERTER_XY=org.gcube.data.analysis.algorithms.csvtonetcdfconverter.CsvToNetcdfConverterWrapperXY
+CSV_TO_NETCDF_CONVERTER_XYZ=org.gcube.data.analysis.algorithms.csvtonetcdfconverter.CsvToNetcdfConverterWrapperXYZ
+CSV_TO_NETCDF_CONVERTER_XYT=org.gcube.data.analysis.algorithms.csvtonetcdfconverter.CsvToNetcdfConverterWrapperXYT
+CSV_TO_NETCDF_CONVERTER_XYZT=org.gcube.data.analysis.algorithms.csvtonetcdfconverter.CsvToNetcdfConverterWrapperXYZT
+STEP_1___VPA_ICCAT_BFT_E_RETROS=org.gcube.dataanalysis.executor.rscripts.STEP1VPAICCATBFTERETROS
+AAPS_PUBLIC_PUBLISHER=org.gcube.dataanalysis.executor.rscripts.AAPSpublicpublisher
+SIMULFISHKPIS_PRE=org.gcube.dataanalysis.executor.rscripts.SIMULFISHKPISPRE
+CSV_TO_NETCDF_CONVERTER_DIMCHAR=org.gcube.data.analysis.algorithms.csvtonetcdfconverter.CsvToNetcdfConverterWrapperDimChar
+MPASINTERSECTIONANALYSIS=org.gcube.dataanalysis.executor.rscripts.MPAsIntersectionAnalysis
+VSURF=org.gcube.dataanalysis.executor.rscripts.VSURF
+TRAIN=org.gcube.dataanalysis.executor.rscripts.train
+MPA_INTERSECT_V3=org.gcube.dataanalysis.executor.rscripts.MpaIntersectV3
+SUPPORT_VECTOR_MACHINE_TRAINER=org.gcube.data.analysis.algorithms.supportvectormachine.SupportVectorMachine
+MPA_INTERSECT_V3_2=org.gcube.dataanalysis.executor.rscripts.MpaIntersectV32
+SUPPORT_VECTOR_MACHINE_TRAINER=org.gcube.data.analysis.algorithms.supportvectormachine.SupportVectorMachineTrainer
+SUPPORT_VECTOR_MACHINE_REGRESSOR=org.gcube.data.analysis.algorithms.supportvectormachine.SupportVectorMachineRegressor
+WEBTG_V2=org.gcube.dataanalysis.executor.rscripts.WebTGV2
+CMSY_FOR_DLM_TOOL=org.gcube.dataanalysis.executor.rscripts.CMSYFORDLMTOOL
+TEST_SAI_WS_INTERACTION=org.gcube.dataanalysis.executor.rscripts.TESTSAIWSINTERACTION
+GEO_INTERPOLATION=org.gcube.dataanalysis.seadatanet.SeaDataNetConnector_AutoCorrelation

smartgears/dataminer_app/files/userperspective.properties

@@ -0,0 +1,46 @@
+FILTERING=HCAF_FILTER
+OCCURRENCES=OCCURRENCES_SUBTRACTION,OCCURRENCES_MERGER,OCCURRENCES_INTERSECTOR,ABSENCE_CELLS_FROM_AQUAMAPS,OCCURRENCES_DUPLICATES_DELETER,OCCURRENCES_MARINE_TERRESTRIAL,PRESENCE_CELLS_GENERATION,ABSENCE_GENERATION_FROM_OBIS
+CLIMATE=BIOCLIMATE_HCAF,BIOCLIMATE_HSPEC,BIOCLIMATE_HSPEN
+TAXA=BIONYM_LOCAL,BIONYM,BIONYM_BIODIV
+TIME_SERIES=HCAF_INTERPOLATION,TIME_SERIES_ANALYSIS
+OBIS_OBSERVATIONS_SPECIES_DATA=MOST_OBSERVED_SPECIES,MOST_OBSERVED_TAXA,SPECIES_OBSERVATIONS_PER_AREA
+OBIS_OBSERVATIONS_TRENDS=SPECIES_OBSERVATIONS_TREND_PER_YEAR,SPECIES_OBSERVATION_LME_AREA_PER_YEAR,SPECIES_OBSERVATION_MEOW_AREA_PER_YEAR,TAXONOMY_OBSERVATIONS_TREND_PER_YEAR
+DATABASES=GETTABLEDETAILS,LISTDBINFO,LISTDBNAMES,LISTDBSCHEMA,LISTTABLES,RANDOMSAMPLEONTABLE,SAMPLEONTABLE,SMARTSAMPLEONTABLE,SUBMITQUERY
+GEO_PROCESSING=XYEXTRACTOR,XYEXTRACTOR_TABLE,ZEXTRACTION,ZEXTRACTION_TABLE,TIMEEXTRACTION,TIMEEXTRACTION_TABLE,SEADATANET_INTERPOLATOR,ESRI_GRID_EXTRACTION,OCCURRENCE_ENRICHMENT,CSQUARES_TO_COORDINATES,CSQUARE_COLUMN_CREATOR,FAO_OCEAN_AREA_COLUMN_CREATOR,FAO_OCEAN_AREA_COLUMN_CREATOR_FROM_QUADRANT,GRID_CWP_TO_COORDINATES,CSV_TO_NETCDF_CONVERTER_XY,CSV_TO_NETCDF_CONVERTER_XYZ,CSV_TO_NETCDF_CONVERTER_XYT,CSV_TO_NETCDF_CONVERTER_XYZT,CSV_TO_NETCDF_CONVERTER_DIMCHAR,GEO_INTERPOLATION
+CHARTS=TIME_GEO_CHART,TIME_SERIES_CHARTS,GEO_CHART,GENERIC_CHARTS
+STOCK_ASSESSMENT=KNITR_COMPILER,ECOPATH_WITH_ECOSIM,ENSEMBLE_MODEL,CCAMLR_EXPORTER_TOOL,CMSY_2,CMSY_FOR_DLM_TOOL
+VESSELS=SGVM_INTERPOLATION,ESTIMATE_FISHING_ACTIVITY,ESTIMATE_MONTHLY_FISHING_EFFORT
+BAYESIAN_METHODS=MAX_ENT_NICHE_MODELLING,LWR,CMSY,FAOMSY,FEED_FORWARD_A_N_N_DISTRIBUTION,FEED_FORWARD_NEURAL_NETWORK_TRAINER,FEED_FORWARD_NEURAL_NETWORK_REGRESSOR,FEED_FORWARD_NEURAL_NETWORK_CLOUD_REGRESSOR
+PUBLISHING=RASTER_DATA_PUBLISHER,WEB_APP_PUBLISHER,SHAPEFILE_PUBLISHER,SHAPEFILE_IMPORTER
+MAPS=POLYGONS_TO_MAP,SPECIES_MAP_FROM_CSQUARES,SPECIES_MAP_FROM_POINTS,POINTS_TO_MAP,MAPS_COMPARISON
+EGIP=EGIP_ENERGY_AGGREGATED_DISTRIBUTION,EGIP_ENERGY_COUNTRY_DISTRIBUTION,EGIP_ENERGY_TRENDS,EGIP_ENERGY_YEAR_DISTRIBUTION
+CORRELATION_ANALYSIS=HRS,KAPPA_COEFFICIENT
+PERFORMANCES_EVALUATION=QUALITY_ANALYSIS,DISCREPANCY_ANALYSIS
+DATA_CLUSTERING=DBSCAN,LOF,KMEANS,XMEANS
+TRAINING=AQUAMAPSNN,HSPEN,FEED_FORWARD_ANN
+SPECIES_SIMULATION=AQUAMAPS_NATIVE,AQUAMAPS_NATIVE_2050,AQUAMAPS_SUITABLE,AQUAMAPS_SUITABLE_2050,AQUAMAPS_NATIVE_NEURALNETWORK,AQUAMAPS_SUITABLE_NEURALNETWORK
+SYSTEM=GENERIC_WORKER
+ICHTHYOP_MODEL=ICHTHYOP_MODEL_ONE_BY_ONE,ICHTHYOP_MODEL_MULTIPLE_RUNS,MAKE_ICHTHYOP_NETCDF_CF_COMPLIANT,ICHTHYOP_NETCDF_OUTPUT_TO_SHAPEFILE,SPATIAL_DISTRIBUTION_OF_CORRELATION,SCATTERPLOT_DIAGRAM,SPATIAL_DENSITY_DISTRIBUTION,SMOOTH_SCATTERPLOT_DIAGRAM,ENRICHMENT_FROM_NETCDF
+ICCAT_EASTERN_BFT_STOCK_ASSESSMENT=STEP_3___VPA_ICCAT_BFT_E_PROJECTION,STEP_2__VPA_ICCAT_BFT_E_VISUALISATION,PARALLELIZED_STEP1_VPA_ICCAT_BFT_E_RETROS,STEP_4_VPA_ICCAT_BFT_E_REPORT,PROJECTIONS_REPORT_VPA_ICCAT_BFT_E,WHOLE_STEPS_VPA_ICCAT_BFT_E,NCOUTPUTS2CSV_VPA_ICCAT_BFT_E,STEP_1___VPA_ICCAT_BFT_E_RETROS_ONERUN,STEP_1___VPA_ICCAT_BFT_E_RETROS
+ACCESS_TUNA_ATLAS_DATA=TUNA_ATLAS_DATA_ACCESS,CATCHES_BY_SPECIES,CATCHES_BY_FLAGS,GLOBAL_CATCHES,CATCHES_BY_TYPE_OF_SCHOOL,CATCHES_BY_GEAR_SIMPLIFIED_VERSION,CATCHES_BY_FLAGS_SIMPLIFIED_VERSION,CATCHES_BY_SPECIES_SIMPLIFIED_VERSION,CATCHES_BY_GEARS,COMPUTE_FISHERIES_INDICATORS_FROM_OWN_FORMATTED_DATASET,CATCHES_AGGREGATED_FOLLOWING_A_SELECT_VARIABLE,CATCHES_INDICATORS_IOTC_REST_SERVICES,TRANSFORM_IOTC_CATCH_AND_EFFORT_DSD_CECOASTAL_AND_CESURFACE,LOAD_CATCHES_DATASET_IN_SARDARA,LOAD_EFFORTS_DATASET_IN_SARDARA
+FIGIS_SPREAD=FIGIS_SPATIAL_REALLOCATION_SIMPLIFIED,FIGIS_SPATIAL_REALLOCATION_GENERIC,FIGIS_SPATIAL_REALLOCATION_SIMPLIFIED_TABLE
+FIGIS_STATS=FIGIS_SDMX_DATA_CONVERTER
+SAI_IMPORTED=GENETICALGORITHM,MPA_INTERSECT_V2,QUICK_RANK_TRAIN,QUICK_RANK_TRAIN_NO_VALIDATION,QUICK_RANK_TEST,STAT_VAL,TUNA_ATLAS_INDICATOR_1__SPECIES_BY_OCEAN_,SIMULFISHKPIS,READWFS,STAT_VAL_UNIPARTITE_NET,TESTING_ALGORITHM,MATLAS_OPTICS_CLUSTERING,MATLAS_TRAJECTORY_BUILDER,TWITTER_MONITOR,SCUBE
+TRANSFORM_AND_LOAD_TUNA_ATLAS_DATA=IMPORT_FISHERIES_FORMATTED_DATASET___QUICK_IMPORT,LOAD_A_DATASET_IN_SARDARA_DATABASE,TRANSFORM_CCSBT_TASK2_LONGLINE
+ENVRI=WTG,WEBTG_V2
+GATE_CLOUD=ENGLISH_NAMED_ENTITY_RECOGNIZER,ENGLISH_NAMED_ENTITY_RECOGNIZER_FOR_TWEETS,GERMAN_NAMED_ENTITY_RECOGNIZER,LANGUAGE_IDENTIFICATION_FOR_TWEETS,ENGLISH_TWEET_TOKENIZER,FRENCH_NAMED_ENTITY_RECOGNIZER,PART_OF_SPEECH_TAGGER_FOR_TWEETS,CYMRIE_WELSH_NAMED_ENTITY_RECOGNIZER,FRENCH_NAMED_ENTITY_RECOGNIZER_FOR_TWEETS,GERMAN_NAMED_ENTITY_RECOGNIZER_FOR_TWEETS,ENGLISH_PART_OF_SPEECH_AND_MORPHOLOGY_ANAYLIZER,NOUN_PHRASE_CHUNKER,MEASUREMENT_EXPRESSION_ANNOTATOR,ANNIE_PLUS_MEASUREMENTS,GENERIC_OPINION_MINING_ENGLISH,DECARBONET_ENVIRONMENTAL_ANNOTATOR,DECARBONET_GERMAN_ENVIRONMENTAL_ANNOTATOR,TWITTER_OPINION_MINING_ENGLISH,THE_BREXIT_ANALYZER_PIPELINE,SUMMA_TEXT_SUMMARIZATION_EN,SUMMA_TEXT_SUMMARIZATION_ES,OPEN_NLP_ENGLISH_PIPELINE,OPEN_NLP_GERMAN_PIPELINE,OPEN_NLP_DUTCH_PIPELINE
+CREATE_OWN_TUNA_ATLAS=CREATE_YOUR_OWN_VERSION_OF_THE_TUNA_ATLAS
+WORKFLOWS=SAMPLE_KNIME_WORKFLOW,KNIME_WORKSPACE_FILE_UPLOADER
+NETWORK_RECONSTRUCTION=MAXANDSAM_NETWORK_RECONTRUCTION_METHOD
+SYSTEMIC_RISK_ESTIMATION=DEBTRANK_SYSTEMIC_RISK_ESTIMATION
+DEVELOPMENT=PROJECT_SIMULFISHKPIS_DEV
+BLACK_BOX=R_SAMPLE
+NERLIX_ALGORITHMS=STANBOL_WRAPPER
+GEOSPATIAL=GEOGRAPHIC_PROXIMITY_TOOL
+GRSF=GEOGRSF_INTERSECTS_BATCH,GEOGRSF_INTERSECTS,GEOGRSF_BBOXLIST
+PREPRODUCTION=SIMULFISHKPIS_PRE
+BLUEBRIDGE_PROJECT_VRE=MPASINTERSECTIONANALYSIS,MPA_INTERSECT_V3,MPA_INTERSECT_V3_2
+STATISTICAL_ALGORITHMS=VSURF,TRAIN
+DATA_PUBLISHERS=AAPS_STAGING_PUBLISHER,AAPS_PUBLIC_PUBLISHER,AAPS_NASO_PUBLISHER
+MACHINE_LEARNING_METHODS=SUPPORT_VECTOR_MACHINE_TRAINER,SUPPORT_VECTOR_MACHINE_REGRESSOR
+TESTS=TEST_SAI_WS_INTERACTION

smartgears/dataminer_app/tasks/dataminer-app.yml

@@ -86,7 +86,23 @@
     - name: Create a symlink to the gebco_08.nc file
       file: src={{ smartgears_user_home }}/data/gebco_08.nc dest={{ smartgears_instance_path }}/webapps/{{ dataminer_wps_name }}/ecocfg/gebco_08.nc state=link
       notify: Restart smartgears
-  
+
+    - name: Install a couple of jar files under ecocfg
+      get_url: url=http://svn.research-infrastructures.eu/public/d4science/gcube/trunk/data-analysis/wps/src/main/webapp/ecocfg/{{ item }} dest={{ smartgears_instance_path }}/webapps/{{ dataminer_wps_name }}/ecocfg/{{ item }}
+      with_items:
+        - 'YASMEEN-matcher-1.2.0.1.jar'
+        - 'YASMEEN-parser-1.2.0.jar'
+
+    - name: Install a couple of jar files under ecocfg/PARALLEL_PROCESSING
+      get_url: url=http://svn.research-infrastructures.eu/public/d4science/gcube/trunk/data-analysis/wps/src/main/webapp/ecocfg/{{ item }} dest={{ smartgears_instance_path }}/webapps/{{ dataminer_wps_name }}/ecocfg/PARALLEL_PROCESSING/{{ item }}
+      with_items:
+        - 'YASMEEN-matcher-1.2.0.1.jar'
+        - 'YASMEEN-parser-1.2.0.jar'
+
+    - name: Install the old properties files
+      copy: src={{ item }} dest={{ smartgears_instance_path }}/webapps/{{ dataminer_wps_name }}/ecocfg/{{ item }} force=yes
+      with_items: '{{ dataminer_properties_files }}'
+
     - name: Install the script that fixes the WPS configuration
       become_user: "{{ d4science_ansible_become_user | default('root') }}"
       template: src=wps-config-fixer.j2 dest=/usr/local/bin/wps-config-fixer owner=root group=root mode=0555

smartgears/smartgears-nginx-frontend/templates/generic-smartgears-virtualhost.j2

@@ -13,7 +13,7 @@ server {
 {% endif %}
     access_log /var/log/nginx/{{ item.servername }}_access.log;
     error_log /var/log/nginx/{{ item.servername }}_error.log;
-    root /usr/share/nginx/html/;
+    root {{ item.web_document_root | default('/usr/share/nginx/html/') }};
 
     {% if haproxy_ips is defined %}
     # We are behind haproxy
@@ -90,6 +90,14 @@ server {
         proxy_pass http://127.0.0.1:{{ smartgears_http_port }}/data-transfer-service;
     }
     {% endif %}
+    {% if remote_opencpu_server is defined and remote_opencpu_server %}
+    location {{ opencpu_context | default('/ocpu') }} {
+        {% if smartgears_nginx_cors_enabled %}
+        include /etc/nginx/snippets/nginx-cors.conf;
+        {% endif %}
+        proxy_pass http://{{ remote_opencpu_host }}:{{ opencpu_proxy_port | default('8004') }}{{ opencpu_context | default('/ocpu') }};
+    }
+    {% endif %}
     {% if rstudio_install_server is defined and rstudio_install_server %}
     location / {
         {% if smartgears_nginx_cors_enabled %}
@@ -128,8 +136,7 @@ server {
     access_log /var/log/nginx/{{ item.servername }}_access_ssl.log;
     error_log /var/log/nginx/{{ item.servername }}_error_ssl.log;
 
-    # This is the default for nginx on Ubuntu 14.04
+    root {{ item.web_document_root | default('/usr/share/nginx/html/') }};
-    root /usr/share/nginx/html/;
 
     {% if haproxy_ips is defined %}
     # We are behind haproxy
@@ -206,6 +213,14 @@ server {
         proxy_pass http://127.0.0.1:{{ smartgears_http_port }}/data-transfer-service;
     }
     {% endif %}
+    {% if remote_opencpu_server is defined and remote_opencpu_server %}
+    location {{ opencpu_context | default('/ocpu') }} {
+        {% if smartgears_nginx_cors_enabled %}
+        include /etc/nginx/snippets/nginx-cors.conf;
+        {% endif %}
+        proxy_pass http://{{ remote_opencpu_host }}:{{ opencpu_proxy_port | default('8004') }}{{ opencpu_context | default('/ocpu') }};
+    }
+    {% endif %}
     {% if rstudio_install_server is defined and rstudio_install_server %}
     location / {
         {% if smartgears_nginx_cors_enabled %}

smartgears/smartgears/defaults/main.yml

@@ -64,9 +64,12 @@ smartgears_tomcat_listen_address: '127.0.0.1'
 # The iptables rules use this
 http_port: '{{ smartgears_http_port }}'
 
+# Used by nginx
+smartgears_web_document_root: '/usr/share/nginx/html/'
+
 tomcat_m_webapps_unpack: True
 tomcat_m_instances:
-  - {  http_enabled: True, http_port: '{{ smartgears_http_port }}', http_address: '{{ smartgears_tomcat_listen_address }}', ajp_enabled: False, ajp_port: '8109', ajp_address: '127.0.0.1', restart_timeout: '{{ tomcat_m_restart_timeout }}', shutdown_port: '-1', java_home: '{{ jdk_java_home }}', user: '{{ smartgears_user }}', user_home: '{{ smartgears_user_home }}', user_shell: '{{ tomcat_m_default_user_shell }}', instance_path: '{{ smartgears_instance_path }}', max_threads: '{{ tomcat_m_max_threads }}', autodeploy: '{{ tomcat_m_webapps_autodeploy }}', unpack: '{{ tomcat_m_webapps_unpack }}', default_conf: True, java_opts: '{{ tomcat_m_java_opts }}', java_gc_opts: '{{ tomcat_m_java_gc_opts }}', other_java_opts: '{{ tomcat_m_other_java_opts }}', jmx_enabled: '{{ tomcat_m_jmx_enabled }}', jmx_disable_additional_ports: '{{ tomcat_m_jmx_disable_additional_ports }}', jmx_port: '{{ tomcat_m_jmx_port }}', jmx_use_ssl: '{{ tomcat_m_jmx_use_ssl }}', jmx_auth_enabled: '{{ tomcat_m_jmx_auth_enabled }}', jmx_auth_dir: '{{ tomcat_m_instances_base_path }}/{{ smartgears_http_port }}/conf', jmx_monitorpass: '{{ tomcat_m_jmx_monitorpass | default(omit) }}', jmx_controlpass: '{{ tomcat_m_jmx_controlpass | default(omit) }}', catalina_tmp_directory: '{{ smartgears_tomcat_tmp_dir }}', remote_debugging: '{{ tomcat_m_enable_remote_debugging }}', remote_debugging_port: '{{ smartgears_debugging_port }}', access_log_enabled: True, log_rotation_freq: daily, log_retain: 30, allowed_hosts: [ '0.0.0.0/0' ], app_contexts: '{{ smartgears_tomcat_contexts }}', skip_smartgears: False,smartgears_id: 1, servername: '{{ ansible_fqdn }}' }
+  - {  http_enabled: True, http_port: '{{ smartgears_http_port }}', http_address: '{{ smartgears_tomcat_listen_address }}', ajp_enabled: False, ajp_port: '8109', ajp_address: '127.0.0.1', restart_timeout: '{{ tomcat_m_restart_timeout }}', shutdown_port: '-1', java_home: '{{ jdk_java_home }}', user: '{{ smartgears_user }}', user_home: '{{ smartgears_user_home }}', user_shell: '{{ tomcat_m_default_user_shell }}', instance_path: '{{ smartgears_instance_path }}', max_threads: '{{ tomcat_m_max_threads }}', autodeploy: '{{ tomcat_m_webapps_autodeploy }}', unpack: '{{ tomcat_m_webapps_unpack }}', default_conf: True, java_opts: '{{ tomcat_m_java_opts }}', java_gc_opts: '{{ tomcat_m_java_gc_opts }}', other_java_opts: '{{ tomcat_m_other_java_opts }}', jmx_enabled: '{{ tomcat_m_jmx_enabled }}', jmx_disable_additional_ports: '{{ tomcat_m_jmx_disable_additional_ports }}', jmx_port: '{{ tomcat_m_jmx_port }}', jmx_use_ssl: '{{ tomcat_m_jmx_use_ssl }}', jmx_auth_enabled: '{{ tomcat_m_jmx_auth_enabled }}', jmx_auth_dir: '{{ tomcat_m_instances_base_path }}/{{ smartgears_http_port }}/conf', jmx_monitorpass: '{{ tomcat_m_jmx_monitorpass | default(omit) }}', jmx_controlpass: '{{ tomcat_m_jmx_controlpass | default(omit) }}', catalina_tmp_directory: '{{ smartgears_tomcat_tmp_dir }}', remote_debugging: '{{ tomcat_m_enable_remote_debugging }}', remote_debugging_port: '{{ smartgears_debugging_port }}', access_log_enabled: True, log_rotation_freq: daily, log_retain: 30, allowed_hosts: [ '0.0.0.0/0' ], app_contexts: '{{ smartgears_tomcat_contexts }}', web_document_root: '{{ smartgears_web_document_root }}' , skip_smartgears: False, smartgears_id: 1, servername: '{{ ansible_fqdn }}' }
 
 # To enable debugging:
 # - Set

smartgears/smartgears/tasks/smartgears-app.yml

@@ -119,6 +119,7 @@
   become_user: '{{ smartgears_user }}'
   shell: /usr/local/bin/get-scopes {{ gcube_admin_token | default('') }}
   when: gcube_admin_token is defined or smartgears_upgrade
+  ignore_errors: True
   notify: Restart smartgears
   tags: [ 'smartgears', 'smartgears_conf', 'tomcat' ]
 
@@ -130,6 +131,20 @@
   notify: Restart smartgears
   tags: [ 'smartgears', 'smartgears_conf', 'tomcat' ]
 
+- name: Create the data transfer webapp directory
+  become: True
+  become_user: '{{ smartgears_user }}'
+  file: path={{ smartgears_instance_path }}/webapps/{{ data_trasfer_service_name }} state=directory
+  when: data_transfer_service_install
+  tags: [ 'smartgears', 'smartgears_data_trasfer', 'tomcat' ]
+
+- name: Unarchive the data transfer webapp directory
+  become: True
+  become_user: '{{ smartgears_user }}'
+  unarchive: src={{ smartgears_instance_path }}/webapps/{{ data_trasfer_service_name }}.war dest={{ smartgears_instance_path }}/webapps/{{ data_trasfer_service_name }} creates={{ smartgears_instance_path }}/webapps/{{ data_trasfer_service_name }}/WEB-INF/gcube-app.xml remote_src=yes
+  when: data_transfer_service_install
+  tags: [ 'smartgears', 'smartgears_data_trasfer', 'tomcat' ]
+
 - name: Force a smartgears restart
   service: name='tomcat-instance-{{ smartgears_http_port }}' state=restarted
   when: smartgears_force_restart is defined and smartgears_force_restart