This function gets vital definitions from the RstoxBase environment.
getRstoxBaseDefinitions(name = NULL, ...)A list of definitions.
getRstoxBaseDefinitions()
#> $allResolution
#> $allResolution$NASCData
#> [1] "NASC"
#>
#> $allResolution$SumNASCData
#> [1] "NASC"
#>
#> $allResolution$MeanNASCData
#> [1] "NASC"
#>
#> $allResolution$LengthDistributionData
#> [1] "LengthDistribution"
#>
#> $allResolution$SumLengthDistributionData
#> [1] "LengthDistribution"
#>
#> $allResolution$MeanLengthDistributionData
#> [1] "LengthDistribution"
#>
#> $allResolution$DensityData
#> [1] "Density"
#>
#> $allResolution$MeanDensityData
#> [1] "Density"
#>
#> $allResolution$QuantityData
#> [1] "Quantity"
#>
#>
#> $dataTypeDefinition
#> $dataTypeDefinition$NASCData
#> $dataTypeDefinition$NASCData$horizontalResolution
#> [1] "EDSU"
#>
#> $dataTypeDefinition$NASCData$verticalResolution
#> [1] "Channel"
#>
#> $dataTypeDefinition$NASCData$obserationVariable
#> [1] "Beam"
#>
#> $dataTypeDefinition$NASCData$categoryVariable
#> [1] "AcousticCategory"
#>
#> $dataTypeDefinition$NASCData$groupingVariables
#> [1] "Beam" "Frequency"
#>
#> $dataTypeDefinition$NASCData$data
#> [1] "NASC"
#>
#> $dataTypeDefinition$NASCData$verticalRawDimension
#> [1] "MinChannelDepth" "MaxChannelDepth"
#>
#> $dataTypeDefinition$NASCData$verticalLayerDimension
#> NULL
#>
#> $dataTypeDefinition$NASCData$weighting
#> [1] "NASCWeight"
#>
#> $dataTypeDefinition$NASCData$type
#> [1] "ChannelReferenceType"
#>
#> $dataTypeDefinition$NASCData$other
#> [1] "ChannelReferenceDepth" "ChannelReferenceTilt" "Cruise"
#> [4] "EffectiveLogDistance" "DateTime" "Longitude"
#> [7] "Latitude"
#>
#>
#> $dataTypeDefinition$SumNASCData
#> $dataTypeDefinition$SumNASCData$Data
#> $dataTypeDefinition$SumNASCData$Data$horizontalResolution
#> [1] "EDSU"
#>
#> $dataTypeDefinition$SumNASCData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$SumNASCData$Data$obserationVariable
#> [1] "Beam"
#>
#> $dataTypeDefinition$SumNASCData$Data$categoryVariable
#> [1] "AcousticCategory"
#>
#> $dataTypeDefinition$SumNASCData$Data$groupingVariables
#> [1] "Beam" "Frequency"
#>
#> $dataTypeDefinition$SumNASCData$Data$data
#> [1] "NASC"
#>
#> $dataTypeDefinition$SumNASCData$Data$verticalRawDimension
#> NULL
#>
#> $dataTypeDefinition$SumNASCData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$SumNASCData$Data$weighting
#> [1] "SumNASCWeight"
#>
#> $dataTypeDefinition$SumNASCData$Data$type
#> [1] "ChannelReferenceType"
#>
#> $dataTypeDefinition$SumNASCData$Data$other
#> [1] "ChannelReferenceDepth" "ChannelReferenceTilt" "Cruise"
#> [4] "EffectiveLogDistance" "DateTime" "Longitude"
#> [7] "Latitude"
#>
#>
#> $dataTypeDefinition$SumNASCData$Resolution
#> $dataTypeDefinition$SumNASCData$Resolution$horizontalResolution
#> [1] "EDSU"
#>
#> $dataTypeDefinition$SumNASCData$Resolution$verticalResolution
#> [1] "Layer" "Channel"
#>
#>
#>
#> $dataTypeDefinition$MeanNASCData
#> $dataTypeDefinition$MeanNASCData$Data
#> $dataTypeDefinition$MeanNASCData$Data$surveyDefinition
#> [1] "Survey"
#>
#> $dataTypeDefinition$MeanNASCData$Data$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $dataTypeDefinition$MeanNASCData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$MeanNASCData$Data$obserationVariable
#> [1] "Beam"
#>
#> $dataTypeDefinition$MeanNASCData$Data$categoryVariable
#> [1] "AcousticCategory"
#>
#> $dataTypeDefinition$MeanNASCData$Data$groupingVariables
#> [1] "Beam" "Frequency"
#>
#> $dataTypeDefinition$MeanNASCData$Data$data
#> [1] "NASC"
#>
#> $dataTypeDefinition$MeanNASCData$Data$verticalRawDimension
#> NULL
#>
#> $dataTypeDefinition$MeanNASCData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$MeanNASCData$Data$weighting
#> [1] "MeanNASCWeight"
#>
#> $dataTypeDefinition$MeanNASCData$Data$type
#> [1] "ChannelReferenceType"
#>
#> $dataTypeDefinition$MeanNASCData$Data$other
#> [1] "ChannelReferenceDepth" "ChannelReferenceTilt"
#>
#>
#> $dataTypeDefinition$MeanNASCData$Resolution
#> $dataTypeDefinition$MeanNASCData$Resolution$horizontalResolution
#> [1] "Stratum" "PSU" "EDSU"
#>
#> $dataTypeDefinition$MeanNASCData$Resolution$verticalResolution
#> [1] "Layer" "Channel"
#>
#> $dataTypeDefinition$MeanNASCData$Resolution$other
#> [1] "Cruise" "EffectiveLogDistance" "DateTime"
#> [4] "Longitude" "Latitude"
#>
#>
#>
#> $dataTypeDefinition$LengthDistributionData
#> $dataTypeDefinition$LengthDistributionData$horizontalResolution
#> [1] "Station"
#>
#> $dataTypeDefinition$LengthDistributionData$verticalResolution
#> [1] "Haul"
#>
#> $dataTypeDefinition$LengthDistributionData$obserationVariable
#> NULL
#>
#> $dataTypeDefinition$LengthDistributionData$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$LengthDistributionData$groupingVariables
#> [1] "IndividualTotalLength" "LengthResolution"
#>
#> $dataTypeDefinition$LengthDistributionData$data
#> [1] "WeightedNumber"
#>
#> $dataTypeDefinition$LengthDistributionData$verticalRawDimension
#> [1] "MinHaulDepth" "MaxHaulDepth"
#>
#> $dataTypeDefinition$LengthDistributionData$verticalLayerDimension
#> NULL
#>
#> $dataTypeDefinition$LengthDistributionData$weighting
#> [1] "LengthDistributionWeight"
#>
#> $dataTypeDefinition$LengthDistributionData$type
#> [1] "LengthDistributionType"
#>
#> $dataTypeDefinition$LengthDistributionData$other
#> [1] "Cruise" "EffectiveTowDistance" "DateTime"
#> [4] "Longitude" "Latitude" "Gear"
#> [7] "VerticalNetOpening" "HorizontalNetOpening" "TrawlDoorSpread"
#>
#>
#> $dataTypeDefinition$SumLengthDistributionData
#> $dataTypeDefinition$SumLengthDistributionData$Data
#> $dataTypeDefinition$SumLengthDistributionData$Data$horizontalResolution
#> [1] "Station"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$obserationVariable
#> NULL
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$groupingVariables
#> [1] "IndividualTotalLength" "LengthResolution"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$data
#> [1] "WeightedNumber"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$verticalRawDimension
#> NULL
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$weighting
#> [1] "SumLengthDistributionWeight"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$type
#> [1] "LengthDistributionType"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Data$other
#> [1] "Cruise" "EffectiveTowDistance" "DateTime"
#> [4] "Longitude" "Latitude"
#>
#>
#> $dataTypeDefinition$SumLengthDistributionData$Resolution
#> $dataTypeDefinition$SumLengthDistributionData$Resolution$horizontalResolution
#> [1] "Station"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Resolution$verticalResolution
#> [1] "Layer" "Haul"
#>
#> $dataTypeDefinition$SumLengthDistributionData$Resolution$other
#> [1] "Gear" "VerticalNetOpening" "HorizontalNetOpening"
#> [4] "TrawlDoorSpread"
#>
#>
#>
#> $dataTypeDefinition$MeanLengthDistributionData
#> $dataTypeDefinition$MeanLengthDistributionData$Data
#> $dataTypeDefinition$MeanLengthDistributionData$Data$surveyDefinition
#> [1] "Survey"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$obserationVariable
#> NULL
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$groupingVariables
#> [1] "IndividualTotalLength" "LengthResolution"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$data
#> [1] "WeightedNumber"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$verticalRawDimension
#> NULL
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$weighting
#> [1] "MeanLengthDistributionWeight"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$type
#> [1] "LengthDistributionType"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Data$other
#> NULL
#>
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Resolution
#> $dataTypeDefinition$MeanLengthDistributionData$Resolution$horizontalResolution
#> [1] "Stratum" "PSU" "Station"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Resolution$verticalResolution
#> [1] "Layer" "Haul"
#>
#> $dataTypeDefinition$MeanLengthDistributionData$Resolution$other
#> [1] "Cruise" "EffectiveTowDistance" "DateTime"
#> [4] "Longitude" "Latitude" "Gear"
#> [7] "VerticalNetOpening" "HorizontalNetOpening" "TrawlDoorSpread"
#>
#>
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData
#> $dataTypeDefinition$SpeciesCategoryCatchData$horizontalResolution
#> [1] "Station"
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$verticalResolution
#> [1] "Haul"
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$obserationVariable
#> NULL
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$groupingVariables
#> NULL
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$data
#> Weight Number
#> "TotalCatchWeight" "TotalCatchNumber"
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$verticalRawDimension
#> [1] "MinHaulDepth" "MaxHaulDepth"
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$verticalLayerDimension
#> NULL
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$weighting
#> [1] "SpeciesCategoryCatchWeight"
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$type
#> [1] "SpeciesCategoryCatchType"
#>
#> $dataTypeDefinition$SpeciesCategoryCatchData$other
#> NULL
#>
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$horizontalResolution
#> [1] "Station"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$obserationVariable
#> NULL
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$groupingVariables
#> NULL
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$data
#> Weight Number
#> "TotalCatchWeight" "TotalCatchNumber"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$verticalRawDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$verticalLayerDimension
#> NULL
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$weighting
#> [1] "SumSpeciesCategoryCatchWeight"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$type
#> [1] "SpeciesCategoryCatchType"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Data$other
#> [1] "Cruise" "EffectiveTowDistance" "DateTime"
#> [4] "Longitude" "Latitude"
#>
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Resolution
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Resolution$horizontalResolution
#> [1] "Station"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Resolution$verticalResolution
#> [1] "Layer" "Haul"
#>
#> $dataTypeDefinition$SumSpeciesCategoryCatchData$Resolution$other
#> [1] "Gear" "VerticalNetOpening" "HorizontalNetOpening"
#> [4] "TrawlDoorSpread"
#>
#>
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$surveyDefinition
#> [1] "Survey"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$obserationVariable
#> NULL
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$groupingVariables
#> NULL
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$data
#> Weight Number
#> "TotalCatchWeight" "TotalCatchNumber"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$verticalRawDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$verticalLayerDimension
#> NULL
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$weighting
#> [1] "MeanSpeciesCategoryCatchWeight"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$type
#> [1] "SpeciesCategoryCatchType"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Data$other
#> NULL
#>
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Resolution
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Resolution$horizontalResolution
#> [1] "Stratum" "PSU" "Station"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Resolution$verticalResolution
#> [1] "Layer" "Haul"
#>
#> $dataTypeDefinition$MeanSpeciesCategoryCatchData$Resolution$other
#> [1] "Cruise" "EffectiveTowDistance" "DateTime"
#> [4] "Longitude" "Latitude" "Gear"
#> [7] "VerticalNetOpening" "HorizontalNetOpening" "TrawlDoorSpread"
#>
#>
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData
#> $dataTypeDefinition$AssignmentLengthDistributionData$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$obserationVariable
#> NULL
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$groupingVariables
#> [1] "IndividualTotalLength" "LengthResolution"
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$data
#> [1] "WeightedNumber"
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$verticalLayerDimension
#> NULL
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$weighting
#> NULL
#>
#> $dataTypeDefinition$AssignmentLengthDistributionData$type
#> [1] "LengthDistributionType"
#>
#>
#> $dataTypeDefinition$DensityData
#> $dataTypeDefinition$DensityData$Data
#> $dataTypeDefinition$DensityData$Data$surveyDefinition
#> [1] "Survey"
#>
#> $dataTypeDefinition$DensityData$Data$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $dataTypeDefinition$DensityData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$DensityData$Data$obserationVariable
#> [1] "Beam"
#>
#> $dataTypeDefinition$DensityData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$DensityData$Data$groupingVariables
#> [1] "IndividualTotalLength" "LengthResolution" "Beam"
#> [4] "Frequency"
#>
#> $dataTypeDefinition$DensityData$Data$groupingVariables_biotic
#> [1] "IndividualTotalLength" "LengthResolution"
#>
#> $dataTypeDefinition$DensityData$Data$groupingVariables_acoustic
#> [1] "Beam" "Frequency"
#>
#> $dataTypeDefinition$DensityData$Data$data
#> [1] "Density"
#>
#> $dataTypeDefinition$DensityData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$DensityData$Data$weighting
#> [1] "DensityWeight"
#>
#> $dataTypeDefinition$DensityData$Data$type
#> [1] "DensityType"
#>
#> $dataTypeDefinition$DensityData$Data$other
#> NULL
#>
#>
#> $dataTypeDefinition$DensityData$Resolution
#> $dataTypeDefinition$DensityData$Resolution$horizontalResolution
#> [1] "Stratum" "PSU" "EDSU" "Station"
#>
#> $dataTypeDefinition$DensityData$Resolution$verticalResolution
#> [1] "Layer" "Channel"
#>
#> $dataTypeDefinition$DensityData$Resolution$other
#> [1] "Cruise" "EffectiveLogDistance" "EffectiveTowDistance"
#> [4] "DateTime" "Longitude" "Latitude"
#> [7] "VerticalNetOpening" "HorizontalNetOpening" "TrawlDoorSpread"
#>
#>
#>
#> $dataTypeDefinition$MeanDensityData
#> $dataTypeDefinition$MeanDensityData$Data
#> $dataTypeDefinition$MeanDensityData$Data$surveyDefinition
#> [1] "Survey"
#>
#> $dataTypeDefinition$MeanDensityData$Data$horizontalResolution
#> [1] "Stratum"
#>
#> $dataTypeDefinition$MeanDensityData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$MeanDensityData$Data$obserationVariable
#> [1] "Beam"
#>
#> $dataTypeDefinition$MeanDensityData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$MeanDensityData$Data$groupingVariables
#> [1] "IndividualTotalLength" "LengthResolution" "Beam"
#> [4] "Frequency"
#>
#> $dataTypeDefinition$MeanDensityData$Data$groupingVariables_biotic
#> [1] "IndividualTotalLength" "LengthResolution"
#>
#> $dataTypeDefinition$MeanDensityData$Data$groupingVariables_acoustic
#> [1] "Beam" "Frequency"
#>
#> $dataTypeDefinition$MeanDensityData$Data$data
#> [1] "Density"
#>
#> $dataTypeDefinition$MeanDensityData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$MeanDensityData$Data$weighting
#> [1] "MeanDensityWeight"
#>
#> $dataTypeDefinition$MeanDensityData$Data$type
#> [1] "DensityType"
#>
#> $dataTypeDefinition$MeanDensityData$Data$other
#> NULL
#>
#>
#> $dataTypeDefinition$MeanDensityData$Resolution
#> $dataTypeDefinition$MeanDensityData$Resolution$horizontalResolution
#> [1] "Stratum" "PSU" "EDSU" "Station"
#>
#> $dataTypeDefinition$MeanDensityData$Resolution$verticalResolution
#> [1] "Layer" "Channel"
#>
#> $dataTypeDefinition$MeanDensityData$Resolution$other
#> [1] "Cruise" "EffectiveLogDistance" "EffectiveTowDistance"
#> [4] "DateTime" "Longitude" "Latitude"
#> [7] "VerticalNetOpening" "HorizontalNetOpening" "TrawlDoorSpread"
#>
#>
#>
#> $dataTypeDefinition$QuantityData
#> $dataTypeDefinition$QuantityData$Data
#> $dataTypeDefinition$QuantityData$Data$surveyDefinition
#> [1] "Survey"
#>
#> $dataTypeDefinition$QuantityData$Data$horizontalResolution
#> [1] "Stratum"
#>
#> $dataTypeDefinition$QuantityData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$QuantityData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$QuantityData$Data$groupingVariables
#> [1] "IndividualTotalLength" "LengthResolution" "Beam"
#> [4] "Frequency"
#>
#> $dataTypeDefinition$QuantityData$Data$groupingVariables_biotic
#> [1] "IndividualTotalLength" "LengthResolution"
#>
#> $dataTypeDefinition$QuantityData$Data$groupingVariables_acoustic
#> [1] "Beam" "Frequency"
#>
#> $dataTypeDefinition$QuantityData$Data$data
#> [1] "Abundance" "Biomass"
#>
#> $dataTypeDefinition$QuantityData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$QuantityData$Data$weighting
#> NULL
#>
#> $dataTypeDefinition$QuantityData$Data$type
#> NULL
#>
#> $dataTypeDefinition$QuantityData$Data$other
#> NULL
#>
#>
#> $dataTypeDefinition$QuantityData$Resolution
#> $dataTypeDefinition$QuantityData$Resolution$horizontalResolution
#> [1] "Stratum" "PSU" "EDSU" "Station"
#>
#> $dataTypeDefinition$QuantityData$Resolution$verticalResolution
#> [1] "Layer" "Channel"
#>
#> $dataTypeDefinition$QuantityData$Resolution$other
#> [1] "Cruise" "EffectiveLogDistance" "EffectiveTowDistance"
#> [4] "DateTime" "Longitude" "Latitude"
#> [7] "VerticalNetOpening" "HorizontalNetOpening" "TrawlDoorSpread"
#>
#>
#>
#> $dataTypeDefinition$IndividualsData
#> $dataTypeDefinition$IndividualsData$Data
#> $dataTypeDefinition$IndividualsData$Data$horizontalResolution
#> [1] "Stratum"
#>
#> $dataTypeDefinition$IndividualsData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$IndividualsData$Data$data
#> NULL
#>
#> $dataTypeDefinition$IndividualsData$Data$verticalLayerDimension
#> NULL
#>
#> $dataTypeDefinition$IndividualsData$Data$weighting
#> NULL
#>
#> $dataTypeDefinition$IndividualsData$Data$other
#> NULL
#>
#>
#> $dataTypeDefinition$IndividualsData$VariableNames
#> list()
#>
#>
#> $dataTypeDefinition$SuperIndividualsData
#> $dataTypeDefinition$SuperIndividualsData$Data
#> $dataTypeDefinition$SuperIndividualsData$Data$surveyDefinition
#> [1] "Survey"
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$horizontalResolution
#> [1] "Stratum"
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$categoryVariable
#> [1] "SpeciesCategory"
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$groupingVariables
#> [1] "CruiseKey" "StationKey" "HaulKey"
#> [4] "SpeciesCategoryKey" "SampleKey" "IndividualKey"
#> [7] "IndividualTotalLength" "LengthResolution" "IndividualRoundWeight"
#> [10] "Beam" "Frequency"
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$data
#> [1] "Abundance" "Biomass"
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$verticalLayerDimension
#> [1] "MinLayerDepth" "MaxLayerDepth"
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$weighting
#> NULL
#>
#> $dataTypeDefinition$SuperIndividualsData$Data$other
#> NULL
#>
#>
#> $dataTypeDefinition$SuperIndividualsData$VariableNames
#> list()
#>
#>
#> $dataTypeDefinition$BioticAssignment
#> $dataTypeDefinition$BioticAssignment$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $dataTypeDefinition$BioticAssignment$verticalResolution
#> [1] "Layer"
#>
#> $dataTypeDefinition$BioticAssignment$categoryVariable
#> [1] "Haul"
#>
#> $dataTypeDefinition$BioticAssignment$weighting
#> [1] "WeightingFactor"
#>
#> $dataTypeDefinition$BioticAssignment$other
#> NULL
#>
#>
#> $dataTypeDefinition$BioticPSU
#> $dataTypeDefinition$BioticPSU$Stratum_PSU
#> $dataTypeDefinition$BioticPSU$Stratum_PSU$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#>
#> $dataTypeDefinition$BioticPSU$Station_PSU
#> $dataTypeDefinition$BioticPSU$Station_PSU$horizontalResolution
#> [1] "Station" "PSU"
#>
#>
#>
#> $dataTypeDefinition$AcousticPSU
#> $dataTypeDefinition$AcousticPSU$Stratum_PSU
#> $dataTypeDefinition$AcousticPSU$Stratum_PSU$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#>
#> $dataTypeDefinition$AcousticPSU$EDSU_PSU
#> $dataTypeDefinition$AcousticPSU$EDSU_PSU$horizontalResolution
#> [1] "EDSU" "PSU"
#>
#>
#> $dataTypeDefinition$AcousticPSU$PSUByTime
#> $dataTypeDefinition$AcousticPSU$PSUByTime$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $dataTypeDefinition$AcousticPSU$PSUByTime$categoryVariable
#> [1] "Cruise"
#>
#> $dataTypeDefinition$AcousticPSU$PSUByTime$groupingVariables
#> [1] "StartDateTime" "StopDateTime"
#>
#>
#>
#>
#> $dataTypeUnits
#> dataType variableName quantity
#> <char> <char> <char>
#> 1: DensityData Density area_number_density
#> 2: QuantityData Abundance cardinality
#> 3: QuantityData Biomass mass
#> 4: SpeciesCategoryCatchData TotalCatchNumber cardinality
#> 5: SpeciesCategoryCatchData TotalCatchWeight mass
#> 6: PreySpeciesCategoryCatchData TotalPreyCatchWeight mass
#> 7: SuperIndividualsData IndividualTotalLength length
#> 8: SuperIndividualsData IndividualRoundWeight mass
#> 9: SuperIndividualsData Abundance cardinality
#> 10: SuperIndividualsData Biomass mass
#> 11: SuperIndividualsData TowDistance length
#> 12: SuperIndividualsData EffectiveTowDistance length
#> 13: SuperIndividualsData CatchFractionWeight mass
#> 14: SuperIndividualsData CatchFractionNumber cardinality
#> 15: SuperIndividualsData SampleWeight mass
#> 16: SuperIndividualsData SampleNumber cardinality
#> 17: SuperIndividualsData IndividualAge age
#> 18: SuperIndividualsData Longitude angle
#> 19: SuperIndividualsData Latitude angle
#> 20: SuperIndividualsData BottomDepth length
#> 21: SuperIndividualsData MinHaulDepth length
#> 22: SuperIndividualsData MaxHaulDepth length
#> 23: SuperIndividualsData VerticalNetOpening length
#> 24: SuperIndividualsData HorizontalNetOpening lengthlength
#> 25: SuperIndividualsData TrawlDoorSpread length
#> dataType variableName quantity
#> unit
#> <char>
#> 1: individuals/nmi^2
#> 2: individuals
#> 3: kg
#> 4: individuals
#> 5: kg
#> 6: mg
#> 7: cm
#> 8: g
#> 9: individuals
#> 10: g
#> 11: nmi
#> 12: nmi
#> 13: kg
#> 14: individuals
#> 15: kg
#> 16: individuals
#> 17: year
#> 18: degree east
#> 19: degree north
#> 20: m
#> 21: m
#> 22: m
#> 23: m
#> 24: m
#> 25: m
#> unit
#>
#> $dataVariables
#> [1] "NASC" "WeightedNumber" "TotalCatchWeight" "TotalCatchNumber"
#> [5] "Density" "Abundance" "Biomass"
#>
#> $defaultEstimationMethod
#> $defaultEstimationMethod$Regression
#> $defaultEstimationMethod$Regression$SimpleLinear
#> [1] "SimpleLinear"
#>
#> $defaultEstimationMethod$Regression$Power
#> [1] "LogLogLinear"
#>
#>
#>
#> $defaultPlotOptions
#> $defaultPlotOptions$defaultPlotGeneralOptions
#> $defaultPlotOptions$defaultPlotGeneralOptions$AxisTitleSize
#> [1] 12
#>
#> $defaultPlotOptions$defaultPlotGeneralOptions$AxisTickSize
#> [1] 10
#>
#> $defaultPlotOptions$defaultPlotGeneralOptions$LegendTitleSize
#> [1] 12
#>
#> $defaultPlotOptions$defaultPlotGeneralOptions$LegendTextSize
#> [1] 10
#>
#>
#> $defaultPlotOptions$defaultPlotFileOptions
#> $defaultPlotOptions$defaultPlotFileOptions$Format
#> [1] "png"
#>
#> $defaultPlotOptions$defaultPlotFileOptions$Width
#> [1] 17
#>
#> $defaultPlotOptions$defaultPlotFileOptions$Height
#> [1] 10
#>
#> $defaultPlotOptions$defaultPlotFileOptions$DotsPerInch
#> [1] 500
#>
#>
#> $defaultPlotOptions$defaultMapPlotNASCOptions
#> $defaultPlotOptions$defaultMapPlotNASCOptions$TrackColor
#> [1] "black"
#>
#> $defaultPlotOptions$defaultMapPlotNASCOptions$MaxPointSize
#> [1] 10
#>
#> $defaultPlotOptions$defaultMapPlotNASCOptions$MinPointSize
#> [1] 0.5
#>
#> $defaultPlotOptions$defaultMapPlotNASCOptions$TrackSize
#> [1] 0.5
#>
#>
#> $defaultPlotOptions$defaultMapPlotOptions
#> $defaultPlotOptions$defaultMapPlotOptions$Zoom
#> [1] 1
#>
#> $defaultPlotOptions$defaultMapPlotOptions$LongitudeCenter
#> [1] 0.5
#>
#> $defaultPlotOptions$defaultMapPlotOptions$LatitudeCenter
#> [1] 0.5
#>
#> $defaultPlotOptions$defaultMapPlotOptions$LandColor
#> [1] "#FDFECC"
#>
#> $defaultPlotOptions$defaultMapPlotOptions$BorderColor
#> [1] "grey50"
#>
#> $defaultPlotOptions$defaultMapPlotOptions$OceanColor
#> [1] "white"
#>
#> $defaultPlotOptions$defaultMapPlotOptions$GridColor
#> [1] "#DFF2FF"
#>
#>
#> $defaultPlotOptions$defaultAcousticPSUPlotOptions
#> $defaultPlotOptions$defaultAcousticPSUPlotOptions$AcousticPSULabelSize
#> [1] 4
#>
#> $defaultPlotOptions$defaultAcousticPSUPlotOptions$AcousticPSULabelColor
#> [1] "black"
#>
#> $defaultPlotOptions$defaultAcousticPSUPlotOptions$AcousticPSULabelPosition
#> [1] "mean"
#>
#> $defaultPlotOptions$defaultAcousticPSUPlotOptions$AcousticPSULabelHjust
#> [1] 0.5
#>
#> $defaultPlotOptions$defaultAcousticPSUPlotOptions$AcousticPSULabelVjust
#> [1] 0.5
#>
#>
#> $defaultPlotOptions$defaultColorVariableOptions
#> $defaultPlotOptions$defaultColorVariableOptions$ColorVariable
#> [1] "NASC"
#>
#>
#>
#> $emptyStratumPolygon
#> Simple feature collection with 0 features and 0 fields
#> Bounding box: xmin: NA ymin: NA xmax: NA ymax: NA
#> Geodetic CRS: +proj=longlat +no_defs +ellps=WGS84 +towgs84=0,0,0
#> [1] sf..st_sfc..
#> <0 rows> (or 0-length row.names)
#>
#> $emptyStratumPolygonGeojson
#> [1] "{\n\t\"type\": \"FeatureCollection\",\n\t\"features\": []\n}\n"
#>
#> $estimationFunctions
#> $estimationFunctions$Regression
#> $estimationFunctions$Regression$SimpleLinear
#> function (dependentVariable, independentVariable, data)
#> {
#> fit <- stats::lm(get(dependentVariable) ~ get(independentVariable),
#> data = data, na.action = stats::na.exclude)
#> return(fit)
#> }
#> <bytecode: 0x11c0e7938>
#> <environment: 0x11c0eabe0>
#>
#> $estimationFunctions$Regression$Power
#> function (dependentVariable, independentVariable, data)
#> {
#> is0 <- which(data[, c(dependentVariable, independentVariable),
#> with = FALSE] == 0, arr.ind = TRUE)
#> if (NROW(is0)) {
#> stop("There are zeros in the data, causing -Inf in the regression. This can happen when regressing IndividualTotalLength in SuperIndividualsData, where the length resolution may have been reduced to that some individuals end up with IndividualTotalLength = 0.")
#> }
#> fit <- stats::lm(log(get(dependentVariable)) ~ log(get(independentVariable)),
#> data = data, na.action = stats::na.exclude)
#> fit$coefficients[1] <- exp(fit$coefficients[1])
#> return(fit)
#> }
#> <bytecode: 0x11c0e7120>
#> <environment: 0x11c0eabe0>
#>
#>
#>
#> $getPSUPrefix
#> function (PSUType)
#> {
#> if (PSUType == "Acoustic") {
#> prefix <- "PSU"
#> }
#> else if (PSUType == "Biotic") {
#> prefix <- "PSU"
#> }
#> else {
#> stop("PSUType must be one of \"Acoustic\" or \"Biotic\"")
#> }
#> return(prefix)
#> }
#> <bytecode: 0x11c0e8cf8>
#> <environment: 0x11c0eabe0>
#>
#> $getSSULabel
#> function (PSUType)
#> {
#> if (PSUType == "Acoustic") {
#> SSULabel <- "EDSU"
#> }
#> else if (PSUType == "Biotic") {
#> SSULabel <- "Station"
#> }
#> else {
#> stop("PSUType must be one of \"Acoustic\" or \"Biotic\"")
#> }
#> return(SSULabel)
#> }
#> <bytecode: 0x11c0e84a8>
#> <environment: 0x11c0eabe0>
#>
#> $getStationLevel
#> function (PSUType)
#> {
#> if (PSUType == "Acoustic") {
#> SSULabel <- "Log"
#> }
#> else if (PSUType == "Biotic") {
#> SSULabel <- "Station"
#> }
#> else {
#> stop("PSUType must be one of \"Acoustic\" or \"Biotic\"")
#> }
#> return(SSULabel)
#> }
#> <bytecode: 0x11c0ebb30>
#> <environment: 0x11c0eabe0>
#>
#> $implementedModelClasses
#> [1] "AcousticTargetStrength" "Regression"
#>
#> $modelFunctions
#> $modelFunctions$AcousticTargetStrength
#> $modelFunctions$AcousticTargetStrength$LengthDependent
#> function (midIndividualTotalLength, TargetStrength0, LengthExponent,
#> Depth)
#> {
#> TargetStrength0 + LengthExponent * log10(midIndividualTotalLength)
#> }
#> <bytecode: 0x11c0e5190>
#> <environment: 0x11c0eabe0>
#>
#> $modelFunctions$AcousticTargetStrength$LengthAndDepthDependent
#> function (midIndividualTotalLength, TargetStrength0, LengthExponent,
#> DepthExponent, Depth)
#> {
#> TargetStrength0 + LengthExponent * log10(midIndividualTotalLength) +
#> DepthExponent * log10(1 + Depth/10)
#> }
#> <bytecode: 0x11c0e4d68>
#> <environment: 0x11c0eabe0>
#>
#> $modelFunctions$AcousticTargetStrength$LengthExponent
#> function (midIndividualTotalLength, LengthExponent)
#> {
#> LengthExponent * log10(midIndividualTotalLength)
#> }
#> <bytecode: 0x11c0e4630>
#> <environment: 0x11c0eabe0>
#>
#> $modelFunctions$AcousticTargetStrength$TargetStrengthByLength
#> [1] NA
#>
#>
#> $modelFunctions$Regression
#> $modelFunctions$Regression$SimpleLinear
#> function (independentVariable, parameters)
#> {
#> parameters$Intercept + parameters$Slope * independentVariable
#> }
#> <bytecode: 0x11c0e42e8>
#> <environment: 0x11c0eabe0>
#>
#> $modelFunctions$Regression$Power
#> function (independentVariable, parameters)
#> {
#> parameters$Factor * independentVariable^parameters$Exponent
#> }
#> <bytecode: 0x11c0e7d98>
#> <environment: 0x11c0eabe0>
#>
#>
#>
#> $modelNames
#> $modelNames$AcousticTargetStrength
#> [1] "LengthDependent" "LengthAndDepthDependent"
#> [3] "LengthExponent" "TargetStrengthByLength"
#>
#> $modelNames$Regression
#> $modelNames$Regression[[1]]
#> [1] "SimpleLinear"
#>
#> $modelNames$Regression[[2]]
#> [1] "Power"
#>
#>
#>
#> $modelParameters
#> $modelParameters$AcousticTargetStrength
#> $modelParameters$AcousticTargetStrength$LengthDependent
#> [1] "TargetStrength0" "LengthExponent"
#>
#> $modelParameters$AcousticTargetStrength$LengthAndDepthDependent
#> [1] "TargetStrength0" "LengthExponent" "DepthExponent"
#>
#> $modelParameters$AcousticTargetStrength$LengthExponent
#> [1] "LengthExponent"
#>
#> $modelParameters$AcousticTargetStrength$TargetStrengthByLength
#> [1] "TargetStrength" "TotalLength"
#>
#>
#> $modelParameters$Regression
#> $modelParameters$Regression$SimpleLinear
#> [1] "Intercept" "Slope"
#>
#> $modelParameters$Regression$Power
#> [1] "Factor" "Exponent"
#>
#>
#>
#> $modelTypes
#> $modelTypes$AcousticTargetStrength
#> $modelTypes$AcousticTargetStrength$LengthDependent
#> [1] "Function"
#>
#> $modelTypes$AcousticTargetStrength$LengthAndDepthDependent
#> [1] "Function"
#>
#> $modelTypes$AcousticTargetStrength$LengthExponent
#> [1] "Function"
#>
#> $modelTypes$AcousticTargetStrength$TargetStrengthByLength
#> [1] "Table"
#>
#>
#> $modelTypes$Regression
#> $modelTypes$Regression$SimpleLinear
#> [1] "Function"
#>
#> $modelTypes$Regression$Power
#> [1] "Function"
#>
#>
#>
#> $nauticalMileInMeters
#> [1] 1852
#>
#> $proj4string_laea
#> [1] "+proj=laea +no_defs +ellps=WGS84 +towgs84=0,0,0"
#>
#> $proj4string_longlat
#> [1] "+proj=longlat +no_defs +ellps=WGS84 +towgs84=0,0,0"
#>
#> $PSUByTime
#> $PSUByTime$horizontalResolution
#> [1] "Stratum" "PSU"
#>
#> $PSUByTime$categoryVariable
#> [1] "Cruise"
#>
#> $PSUByTime$groupingVariables
#> [1] "StartDateTime" "StopDateTime"
#>
#>
#> $RemoveMissingValuesWarning
#> function (TargetVariable)
#> {
#> paste0("StoX: The TargetVariable (", TargetVariable, ") has missing values. Use RemoveMissingValues = TRUE with extreme caution!!! Instead, GroupingVariables can be used to isolate missing values in the TargetVariable. E.g., using SpeciesCategory and Survey often suffices to isolate missing values to missing SpeciesCategory and missing Survey. In addition, the Baseline function ImputeSuperIndividuals can be used to fill in missing information from other super-individuals.")
#> }
#> <bytecode: 0x11c0eb350>
#> <environment: 0x11c0eabe0>
#>
#> $reportFunctions
#> $reportFunctions$functionName
#> [1] "summaryStox" "sum" "mean"
#> [4] "weighted.mean" "median" "min"
#> [7] "max" "sd" "var"
#> [10] "cv" "number" "fractionOfOccurrence"
#> [13] "fractionOfSum"
#>
#> $reportFunctions$functionAlias
#> [1] NA NA NA NA NA NA NA NA
#> [9] NA NA "sum" "number" "sum"
#>
#> $reportFunctions$packageName
#> [1] "RstoxBase" "base" "base" "stats" "stats" "base"
#> [7] "base" "stats" "stats" "RstoxBase" "RstoxBase" "RstoxBase"
#> [13] "RstoxBase"
#>
#> $reportFunctions$hasX
#> [1] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE FALSE FALSE
#> [13] FALSE
#>
#> $reportFunctions$specified
#> [1] TRUE FALSE FALSE TRUE FALSE FALSE FALSE FALSE FALSE FALSE TRUE TRUE
#> [13] TRUE
#>
#> $reportFunctions$specificationParameterDisplayName
#> $reportFunctions$specificationParameterDisplayName[[1]]
#> [1] "Percentages"
#>
#> $reportFunctions$specificationParameterDisplayName[[2]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[3]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[4]]
#> [1] "WeightingVariable"
#>
#> $reportFunctions$specificationParameterDisplayName[[5]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[6]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[7]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[8]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[9]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[10]]
#> [1] ""
#>
#> $reportFunctions$specificationParameterDisplayName[[11]]
#> [1] "ConditionOperator" "ConditionValue"
#>
#> $reportFunctions$specificationParameterDisplayName[[12]]
#> [1] "ConditionOperator" "ConditionValue" "FractionOverVariable"
#>
#> $reportFunctions$specificationParameterDisplayName[[13]]
#> [1] "FractionOverVariable"
#>
#>
#> $reportFunctions$multiple
#> [1] TRUE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
#> [13] FALSE
#>
#> $reportFunctions$use
#> [1] "Bootstrap" "Baseline" "Baseline" "Baseline" "Baseline" "Baseline"
#> [7] "Baseline" "Baseline" "Baseline" "Baseline" "Baseline" "Baseline"
#> [13] "Baseline"
#>
#> $reportFunctions$enabled
#> [1] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
#>
#>
#> $resolutionClasses
#> $resolutionClasses$NASC
#> $resolutionClasses$NASC$vertical
#> [1] "Layer" "Channel"
#>
#> $resolutionClasses$NASC$horizontal
#> [1] "Stratum" "PSU" "EDSU"
#>
#>
#> $resolutionClasses$LengthDistribution
#> $resolutionClasses$LengthDistribution$vertical
#> [1] "Layer" "Haul"
#>
#> $resolutionClasses$LengthDistribution$horizontal
#> [1] "Stratum" "PSU" "Station"
#>
#>
#> $resolutionClasses$Density
#> $resolutionClasses$Density$vertical
#> [1] "Layer"
#>
#> $resolutionClasses$Density$horizontal
#> [1] "Stratum" "PSU"
#>
#>
#> $resolutionClasses$Quantity
#> $resolutionClasses$Quantity$vertical
#> [1] "Layer"
#>
#> $resolutionClasses$Quantity$horizontal
#> [1] "Stratum"
#>
#>
#>
#> $seedSequenceLength
#> [1] 1e+07
#>