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add Artifacts.toml directly in example #8

add Artifacts.toml directly in example

add Artifacts.toml directly in example #8

Re-run triggered November 8, 2024 16:22
Status Failure
Total duration 8m 26s
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9 errors
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/advanced_reco.md:69-77 ```@example advanced_reco CS = Dict{Symbol,Any}() CS[:sparseTrafo] = "Wavelet" #sparse trafo CS[:reg] = L1Regularization(100.) # regularization CS[:solver] = FISTA # solver CS[:iterations] = 30 d = reconstruction_MP2RAGE(path_bruker; mean_NR=true,paramsCS = CS) ``` exception = SystemError: opening file "/home/runner/.julia/artifacts/04cd4c29bb9e2aeb5384fbc70a9af0e1a37ca369/MP2RAGE_CS2/acqp": No such file or directory Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:176 [2] systemerror @ ./error.jl:175 [inlined] [3] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Nothing, append::Nothing) @ Base ./iostream.jl:295 [4] open @ ./iostream.jl:277 [inlined] [5] open(f::MRIFiles.var"#40#41"{Int64, MRIFiles.JcampdxFile, Vector{String}}, args::String; kwargs::@kwargs{}) @ Base ./io.jl:408 [6] open(f::Function, args::String) @ Base ./io.jl:407 [7] #read#39 @ ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Jcampdx.jl:197 [inlined] [8] read (repeats 2 times) @ ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Jcampdx.jl:195 [inlined] [9] getindex(b::MRIFiles.BrukerFile, parameter::String) @ MRIFiles ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Bruker.jl:47 [10] acqWordSize(b::MRIFiles.BrukerFile) @ MRIFiles ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Bruker.jl:243 [11] RawAcquisitionData_MP2RAGE(b::MRIFiles.BrukerFile) @ SEQ_BRUKER_a_MP2RAGE_CS_360 ~/work/SEQ_BRUKER_a_MP2RAGE_CS_360/SEQ_BRUKER_a_MP2RAGE_CS_360/src/bruker_sequence.jl:16 [12] reconstruction_MP2RAGE(path_bruker::String; mean_NR::Bool, paramsCS::Dict{Symbol, Any}) @ SEQ_BRUKER_a_MP2RAGE_CS_360 ~/work/SEQ_BRUKER_a_MP2RAGE_CS_360/SEQ_BRUKER_a_MP2RAGE_CS_360/src/reconstruction.jl:5 [13] top-level scope @ advanced_reco.md:76 [14] eval @ ./boot.jl:430 [inlined] [15] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [inlined] [16] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [17] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:753 [18] (::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 [19] 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 [20] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [21] 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 [22] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:752
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/advanced_reco.md:81-83 ```@example advanced_reco d_under = reconstruction_MP2RAGE(path_bruker; mean_NR=true) ``` exception = SystemError: opening file "/home/runner/.julia/artifacts/04cd4c29bb9e2aeb5384fbc70a9af0e1a37ca369/MP2RAGE_CS2/acqp": No such file or directory Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:176 [2] systemerror @ ./error.jl:175 [inlined] [3] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Nothing, append::Nothing) @ Base ./iostream.jl:295 [4] open @ ./iostream.jl:277 [inlined] [5] open(f::MRIFiles.var"#40#41"{Int64, MRIFiles.JcampdxFile, Vector{String}}, args::String; kwargs::@kwargs{}) @ Base ./io.jl:408 [6] open(f::Function, args::String) @ Base ./io.jl:407 [7] #read#39 @ ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Jcampdx.jl:197 [inlined] [8] read (repeats 2 times) @ ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Jcampdx.jl:195 [inlined] [9] getindex(b::MRIFiles.BrukerFile, parameter::String) @ MRIFiles ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Bruker.jl:47 [10] acqWordSize(b::MRIFiles.BrukerFile) @ MRIFiles ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Bruker.jl:243 [11] RawAcquisitionData_MP2RAGE(b::MRIFiles.BrukerFile) @ SEQ_BRUKER_a_MP2RAGE_CS_360 ~/work/SEQ_BRUKER_a_MP2RAGE_CS_360/SEQ_BRUKER_a_MP2RAGE_CS_360/src/bruker_sequence.jl:16 [12] reconstruction_MP2RAGE(path_bruker::String; mean_NR::Bool, paramsCS::Dict{Any, Any}) @ SEQ_BRUKER_a_MP2RAGE_CS_360 ~/work/SEQ_BRUKER_a_MP2RAGE_CS_360/SEQ_BRUKER_a_MP2RAGE_CS_360/src/reconstruction.jl:5 [13] top-level scope @ advanced_reco.md:82 [14] eval @ ./boot.jl:430 [inlined] [15] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [inlined] [16] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [17] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:753 [18] (::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 [19] 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 [20] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [21] 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 [22] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:752
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/advanced_reco.md:87-110 ```@example advanced_reco begin f = Figure(size=(500,400)) ax=Axis(f[1,1],title="TI₁ undersampled") h=heatmap!(ax,abs.(d_under["im_reco"][:,:,60,1,1,1]),colormap=:grays) ax=Axis(f[1,2],title="TI₁ CS") h=heatmap!(ax,abs.(d["im_reco"][:,:,60,1,1,1]),colormap=:grays) ax=Axis(f[2,1],title="UNIT1 undersampled") h=heatmap!(ax,d_under["T1map"][:,:,60,1,1],colorrange = (500,2000)) ax=Axis(f[2,2],title="UNIT1 CS") h=heatmap!(ax,d["T1map"][:,:,60,1,1],colorrange = (500,2000)) for ax in f.content # hide decoration befor adding colorbar hidedecorations!(ax) end Colorbar(f[2,3],h,label = "T₁ [ms]", flip_vertical_label=true) f end ``` exception = UndefVarError: `d_under` not defined in `Main.__atexample__named__advanced_reco` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ ./advanced_reco.md:91 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [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/C1XEF/src/expander_pipeline.jl:753 [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/C1XEF/src/expander_pipeline.jl:752
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/advanced_reco.md:115-119 ```@example advanced_reco subject_name = "sub_01_cs" dir_path = "" # directory path where the files will be create write_bids_MP2RAGE(d,subject_name,dir_path) ``` exception = UndefVarError: `d` not defined in `Main.__atexample__named__advanced_reco` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ advanced_reco.md:118 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [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/C1XEF/src/expander_pipeline.jl:753 [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/C1XEF/src/expander_pipeline.jl:752
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/simple_reco.md:59-61 ```@example simple_reco d = reconstruction_MP2RAGE(path_bruker; mean_NR=true) ``` exception = SystemError: opening file "/home/runner/.julia/artifacts/04cd4c29bb9e2aeb5384fbc70a9af0e1a37ca369/MP2RAGE_FULLY/acqp": No such file or directory Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:176 [2] systemerror @ ./error.jl:175 [inlined] [3] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Nothing, append::Nothing) @ Base ./iostream.jl:295 [4] open @ ./iostream.jl:277 [inlined] [5] open(f::MRIFiles.var"#40#41"{Int64, MRIFiles.JcampdxFile, Vector{String}}, args::String; kwargs::@kwargs{}) @ Base ./io.jl:408 [6] open(f::Function, args::String) @ Base ./io.jl:407 [7] #read#39 @ ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Jcampdx.jl:197 [inlined] [8] read (repeats 2 times) @ ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Jcampdx.jl:195 [inlined] [9] getindex(b::MRIFiles.BrukerFile, parameter::String) @ MRIFiles ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Bruker.jl:47 [10] acqWordSize(b::MRIFiles.BrukerFile) @ MRIFiles ~/.julia/packages/MRIFiles/9hXgx/src/Bruker/Bruker.jl:243 [11] RawAcquisitionData_MP2RAGE(b::MRIFiles.BrukerFile) @ SEQ_BRUKER_a_MP2RAGE_CS_360 ~/work/SEQ_BRUKER_a_MP2RAGE_CS_360/SEQ_BRUKER_a_MP2RAGE_CS_360/src/bruker_sequence.jl:16 [12] reconstruction_MP2RAGE(path_bruker::String; mean_NR::Bool, paramsCS::Dict{Any, Any}) @ SEQ_BRUKER_a_MP2RAGE_CS_360 ~/work/SEQ_BRUKER_a_MP2RAGE_CS_360/SEQ_BRUKER_a_MP2RAGE_CS_360/src/reconstruction.jl:5 [13] top-level scope @ simple_reco.md:60 [14] eval @ ./boot.jl:430 [inlined] [15] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [inlined] [16] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [17] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:753 [18] (::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 [19] 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 [20] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [21] 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 [22] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:752
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/simple_reco.md:76-98 ```@example simple_reco begin f = Figure(size=(500,400)) ax=Axis(f[1,1],title="TI₁") h=heatmap!(ax,abs.(d["im_reco"][:,:,60,1,1,1]),colormap=:grays) ax=Axis(f[1,2],title="TI₂") h=heatmap!(ax,abs.(d["im_reco"][:,:,60,1,1,2]),colormap=:grays) ax=Axis(f[2,1],title="UNIT1 / MP2RAGE") h=heatmap!(ax,d["MP2RAGE"][:,:,60,1,1],colormap=:grays) ax=Axis(f[2,2],title="UNIT1 / MP2RAGE") h=heatmap!(ax,d["T1map"][:,:,60,1,1],colorrange = (500,2000)) for ax in f.content # hide decoration befor adding colorbar hidedecorations!(ax) end Colorbar(f[2,3],h,label = "T₁ [ms]", flip_vertical_label=true) f end ``` exception = UndefVarError: `d` not defined in `Main.__atexample__named__simple_reco` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ ./simple_reco.md:80 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [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/C1XEF/src/expander_pipeline.jl:753 [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/C1XEF/src/expander_pipeline.jl:752
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/simple_reco.md:103-108 ```@example simple_reco f=Figure() ax = Axis(f[1,1],xlabel="T₁ [ms]") lines!(ax,d["LUT"]) f ``` exception = UndefVarError: `d` not defined in `Main.__atexample__named__simple_reco` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ simple_reco.md:106 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [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/C1XEF/src/expander_pipeline.jl:753 [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/C1XEF/src/expander_pipeline.jl:752
Documentation: ../../../.julia/packages/Documenter/C1XEF/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/examples/simple_reco.md:113-117 ```@example simple_reco subject_name = "sub_01" dir_path = "" # directory path where the files will be create write_bids_MP2RAGE(d,subject_name,dir_path) ``` exception = UndefVarError: `d` not defined in `Main.__atexample__named__simple_reco` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ simple_reco.md:116 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/C1XEF/src/expander_pipeline.jl:754 [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/C1XEF/src/expander_pipeline.jl:753 [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/C1XEF/src/expander_pipeline.jl:752
Documentation
Process completed with exit code 1.