Make everything dimensional #82
Annotations
10 warnings
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Run julia-actions/julia-docdeploy@v1:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L46
failed to run `@example` block in src/eucalyptus_regnans.md:88-91
```@example test
pred = SDM.predict(ensemble, bio_aus; reducer = mean)
plot(pred; colorrange = (0,1))
```
exception =
MethodError: no method matching predict(::SDMensemble{2, Tuple{DimensionalData.Dimensions.Dim{:model, DimensionalData.Dimensions.Lookups.Categorical{Symbol, Vector{Symbol}, DimensionalData.Dimensions.Lookups.Unordered, DimensionalData.Dimensions.Lookups.NoMetadata}}, DimensionalData.Dimensions.Dim{:fold, DimensionalData.Dimensions.Lookups.Sampled{Int64, UnitRange{Int64}, DimensionalData.Dimensions.Lookups.ForwardOrdered, DimensionalData.Dimensions.Lookups.Regular{Int64}, DimensionalData.Dimensions.Lookups.Points, DimensionalData.Dimensions.Lookups.NoMetadata}}}, Tuple{}, OffsetArrays.OffsetMatrix{SpeciesDistributionModels.SDMmachine, Matrix{SpeciesDistributionModels.SDMmachine}}}, ::Rasters.RasterStack{(:bio1, :bio12), @NamedTuple{bio1::Float32, bio12::Float32}, 2, @NamedTuple{bio1::SubArray{Float32, 2, Matrix{Float32}, Tuple{UnitRange{Int64}, UnitRange{Int64}}, false}, bio12::SubArray{Float32, 2, Matrix{Float32}, Tuple{UnitRange{Int64}, UnitRange{Int64}}, false}}, Tuple{DimensionalData.Dimensions.X{Rasters.Projected{Float64, StepRangeLen{Float64, Base.TwicePrecision{Float64}, Base.TwicePrecision{Float64}, Int64}, DimensionalData.Dimensions.Lookups.ForwardOrdered, DimensionalData.Dimensions.Lookups.Regular{Float64}, DimensionalData.Dimensions.Lookups.Intervals{DimensionalData.Dimensions.Lookups.Start}, DimensionalData.Dimensions.Lookups.NoMetadata, GeoFormatTypes.WellKnownText{GeoFormatTypes.CRS}, Nothing, DimensionalData.Dimensions.X{Colon}}}, DimensionalData.Dimensions.Y{Rasters.Projected{Float64, StepRangeLen{Float64, Base.TwicePrecision{Float64}, Base.TwicePrecision{Float64}, Int64}, DimensionalData.Dimensions.Lookups.ReverseOrdered, DimensionalData.Dimensions.Lookups.Regular{Float64}, DimensionalData.Dimensions.Lookups.Intervals{DimensionalData.Dimensions.Lookups.Start}, DimensionalData.Dimensions.Lookups.NoMetadata, GeoFormatTypes.WellKnownText{GeoFormatTypes.CRS}, Nothing, DimensionalData.Dimensions.Y{Colon}}}}, Tuple{}, @NamedTuple{bio1::Tuple{DimensionalData.Dimensions.X{Colon}, DimensionalData.Dimensions.Y{Colon}}, bio12::Tuple{DimensionalData.Dimensions.X{Colon}, DimensionalData.Dimensions.Y{Colon}}}, DimensionalData.Dimensions.Lookups.NoMetadata, @NamedTuple{bio1::DimensionalData.Dimensions.Lookups.Metadata{Rasters.GDALsource, Dict{String, Any}}, bio12::DimensionalData.Dimensions.Lookups.Metadata{Rasters.GDALsource, Dict{String, Any}}}, Float32}; reducer::typeof(Statistics.mean))
This error has been manually thrown, explicitly, so the method may exist but be intentionally marked as unimplemented.
Closest candidates are:
predict(::SDMensemble, ::Any; clamp, threaded) got unsupported keyword argument "reducer"
@ SpeciesDistributionModels ~/work/SpeciesDistributionModels.jl/SpeciesDistributionModels.jl/src/interface.jl:152
predict(!Matched::SpeciesDistributionModels.SDMmachine, ::Any; clamp) got unsupported keyword argument "reducer"
@ SpeciesDistributionModels ~/work/SpeciesDistributionModels.jl/SpeciesDistributionModels.jl/src/interface.jl:149
Stacktrace:
[1] kwerr(::@NamedTuple{reducer::typeof(Statistics.mean)}, ::Function, ::SDMensemble{2, Tuple{DimensionalData.Dimensions.Dim{:model, DimensionalData.Dimensions.Lookups.Categorical{Symbol, Vector{Symbol}, DimensionalData.Dimensions.Lookups.Unordered, DimensionalData.Dimensions.Lookups.NoMetadata}}, DimensionalData.Dimensions.Dim{:fold, DimensionalData.Dimensions.Lookups.Sampled{Int64, UnitRange{Int64}, DimensionalData.Dimensions.Lookups.ForwardOrdered, DimensionalData.Dimensions.Lookups.Regular{Int64}, DimensionalData.Dimensions.Lookups.Points, DimensionalData.Dimensions.Lookups.NoMetadata}}}, Tuple{}, OffsetArrays.OffsetMatrix{SpeciesDistributionModels.SDMmachine, Matrix{SpeciesDistributionModels.SDMmachine}}}, ::Rasters.RasterStack{(:bio1, :bio12), @NamedTuple{bio1::Float32, bio12::Float32}, 2, @NamedTuple{bio1::SubA
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Run julia-actions/julia-docdeploy@v1:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L46
failed to run `@example` block in src/eucalyptus_regnans.md:96-99
```@example test
expl = SDM.explain(ensemble; method = ShapleyValues(8))
variable_importance(expl)
```
exception =
UndefVarError: `ShapleyValues` not defined in `Main.__atexample__named__test`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ eucalyptus_regnans.md:97
[2] eval
@ ./boot.jl:430 [inlined]
[3] #60
@ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined]
[4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String)
@ Base.Filesystem ./file.jl:112
[5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})()
@ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802
[6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})()
@ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170
[7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState)
@ Base.CoreLogging ./logging/logging.jl:522
[8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger)
@ Base.CoreLogging ./logging/logging.jl:632
[9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any})
@ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167
[10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document)
@ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
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Run julia-actions/julia-docdeploy@v1:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L46
failed to run `@example` block in src/eucalyptus_regnans.md:102-104
```@example test
interactive_response_curves(expl)
```
exception =
UndefVarError: `interactive_response_curves` not defined in `Main.__atexample__named__test`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ eucalyptus_regnans.md:103
[2] eval
@ ./boot.jl:430 [inlined]
[3] #60
@ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined]
[4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String)
@ Base.Filesystem ./file.jl:112
[5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})()
@ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802
[6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})()
@ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170
[7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState)
@ Base.CoreLogging ./logging/logging.jl:522
[8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger)
@ Base.CoreLogging ./logging/logging.jl:632
[9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any})
@ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167
[10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document)
@ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
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Run julia-actions/julia-docdeploy@v1:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L46
invalid local link/image: file does not exist in src/eucalyptus_regnans.md
link =
@ast MarkdownAST.Link("www.github.com/rafaqz/Rasters.jl", "") do
MarkdownAST.Text("Rasters")
end
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Run julia-actions/julia-docdeploy@v1:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L46
invalid local link/image: file does not exist in src/eucalyptus_regnans.md
link =
@ast MarkdownAST.Link("www.github.com/rafaqz/GBIF2.jl", "") do
MarkdownAST.Text("GBIF2.jl")
end
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Run julia-actions/julia-docdeploy@v1:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L46
invalid local link/image: file does not exist in src/eucalyptus_regnans.md
link =
@ast MarkdownAST.Link("www.gitlab.com/ExpandingMan/Shapley.jl", "") do
MarkdownAST.Text("Shapley.jl")
end
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