Update save_results.jl #268
Triggered via pull request
November 15, 2024 16:56
Status
Failure
Total duration
12m 45s
Artifacts
–
CI.yml
on: pull_request
Documentation
12m 33s
Matrix: test
Annotations
11 errors, 2 warnings, and 2 notices
Julia 1.9 - ubuntu-latest - x64 - pull_request
Process completed with exit code 1.
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Julia 1.9 - macOS-latest - x64 - pull_request
Process completed with exit code 1.
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Julia 1.9 - windows-latest - x64 - pull_request
Process completed with exit code 1.
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Julia 1 - ubuntu-latest - x64 - pull_request
Process completed with exit code 1.
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Julia 1 - macOS-latest - x64 - pull_request
Process completed with exit code 1.
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Julia 1 - windows-latest - x64 - pull_request
Process completed with exit code 1.
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Documentation:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/model_coupling/multiscale.md:221-224
```@example usepkg
sim = run!(mtg, mapping, meteo, outputs = outs);
nothing # hide
```
exception =
You requested outputs for variable node in organ Scene, but it has no model.
Stacktrace:
[1] error(s::String)
@ Base ./error.jl:35
[2] pre_allocate_outputs(statuses::Dict{String, Vector{Status}}, statuses_template::Dict{String, Dict{Symbol, Any}}, reverse_multiscale_mapping::Dict{String, Dict{String, Dict{Symbol, Any}}}, vars_need_init::Dict{String, Base.KeySet{Symbol, Dict{Symbol, Any}}}, outs::Dict{String, Tuple{Symbol, Vararg{Symbol}}}, nsteps::Int64; type_promotion::Nothing, check::Bool)
@ PlantSimEngine ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/mtg/save_results.jl:155
[3] pre_allocate_outputs
@ ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/mtg/save_results.jl:112 [inlined]
[4] init_simulation(mtg::MultiScaleTreeGraph.Node{MultiScaleTreeGraph.NodeMTG, Dict{Symbol, Any}}, mapping::Dict{String, Any}; nsteps::Int64, outputs::Dict{String, Tuple{Symbol, Vararg{Symbol}}}, type_promotion::Nothing, check::Bool, verbose::Bool)
@ PlantSimEngine ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/mtg/initialisation.jl:321
[5] init_simulation
@ ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/mtg/initialisation.jl:307 [inlined]
[6] #GraphSimulation#134
@ ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/mtg/GraphSimulation.jl:31 [inlined]
[7] GraphSimulation
@ ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/mtg/GraphSimulation.jl:30 [inlined]
[8] run!(object::MultiScaleTreeGraph.Node{MultiScaleTreeGraph.NodeMTG, Dict{Symbol, Any}}, mapping::Dict{String, Any}, meteo::TimeStepTable{Atmosphere{(:date, :duration, :T, :Wind, :P, :Rh, :Precipitations, :Cₐ, :e, :eₛ, :VPD, :ρ, :λ, :γ, :ε, :Δ, :clearness, :Ri_SW_f, :Ri_PAR_f, :Ri_NIR_f, :Ri_TIR_f, :Ri_custom_f), Tuple{Dates.DateTime, Dates.Second, Vararg{Float64, 20}}}}, constants::Constants{Float64}, extra::Nothing; nsteps::Nothing, outputs::Dict{String, Tuple{Symbol, Vararg{Symbol}}}, check::Bool, executor::ThreadedEx{@NamedTuple{}})
@ PlantSimEngine ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/run.jl:331
[9] run!
@ ~/work/PlantSimEngine.jl/PlantSimEngine.jl/src/run.jl:318 [inlined]
[10] top-level scope
@ multiscale.md:222
[11] eval
@ ./boot.jl:430 [inlined]
[12] #60
@ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined]
[13] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String)
@ Base.Filesystem ./file.jl:112
[14] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})()
@ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802
[15] (::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
[16] 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
[17] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger)
@ Base.CoreLogging ./logging/logging.jl:632
[18] 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
[19] 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
|
Documentation:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/model_coupling/multiscale.md:230-233
```@example usepkg
outputs(sim);
nothing # hide
```
exception =
UndefVarError: `sim` not defined in `Main.__atexample__named__usepkg`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ multiscale.md:231
[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
|
Documentation:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/model_coupling/multiscale.md:237-240
```@example usepkg
using DataFrames
outputs(sim, DataFrame)
```
exception =
UndefVarError: `sim` not defined in `Main.__atexample__named__usepkg`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ multiscale.md:239
[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
|
Documentation:
../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/model_coupling/multiscale.md:244-247
```@example usepkg
status(sim);
nothing # hide
```
exception =
UndefVarError: `sim` not defined in `Main.__atexample__named__usepkg`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
[1] top-level scope
@ multiscale.md:245
[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
|
Documentation
Process completed with exit code 1.
|
Documentation:
src/run.jl#L242
A parallel executor was provided (`executor=ThreadedEx()`) but some models cannot be run in parallel: PlantSimEngine.Examples.ToyRUEGrowthModel{Float64}(0.2). The simulation will be run sequentially. Use `executor=SequentialEx()` to remove this warning.
maxlog = 1
|
Documentation:
src/run.jl#L242
A parallel executor was provided (`executor=ThreadedEx()`) but some models cannot be run in parallel: PlantSimEngine.Examples.ToyAssimGrowthModel{Float64}(0.2, 0.5, 1.2). The simulation will be run sequentially. Use `executor=SequentialEx()` to remove this warning.
maxlog = 1
|
[julia-buildpkg] Caching of the julia depot was not detected
Consider using `julia-actions/cache` to speed up runs https://github.com/julia-actions/cache. To ignore, set input `ignore-no-cache: true`
|
[julia-buildpkg] Caching of the julia depot was not detected
Consider using `julia-actions/cache` to speed up runs https://github.com/julia-actions/cache. To ignore, set input `ignore-no-cache: true`
|