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failed to run `@example` block in src/tutorial/05-SimpleMotion.md:45-59 ```@example 05-SimpleMotion # Read Sequence # hide seq_file1 = joinpath(dirname(pathof(KomaMRI)), "../examples/5.koma_paper/comparison_accuracy/sequences/EPI/epi_100x100_TE100_FOV230.seq") # hide seq1 = read_seq(seq_file1) # hide # Simulate # hide raw1 = simulate(obj, seq1, sys) # hide # Recon # hide acq1 = AcquisitionData(raw1) # hide acq1.traj[1].circular = false # hide Nx, Ny = raw1.params["reconSize"][1:2] # hide reconParams = Dict{Symbol,Any}(:reco=>"direct", :reconSize=>(Nx, Ny)) # hide image1 = reconstruction(acq1, reconParams) # hide ``` exception = MethodError: no method matching *(::Vector{Float32}, ::Vector{Float32}) The function `*` exists, but no method is defined for this combination of argument types. Closest candidates are: *(::Any, ::Any, !Matched::Any, !Matched::Any...) @ Base operators.jl:596 *(!Matched::Type{<:LinearOperatorCollection.ProdOp}, ::Any, !Matched::Any) @ LinearOperatorCollection ~/.julia/packages/LinearOperatorCollection/GRBTA/src/ProdOp.jl:73 *(!Matched::ChainRulesCore.NoTangent, ::Any) @ ChainRulesCore ~/.julia/packages/ChainRulesCore/6Pucz/src/tangent_arithmetic.jl:64 ... Stacktrace: [1] get_spin_coords(m::Motion{Float32}, x::SubArray{Float32, 1, Vector{Float32}, Tuple{UnitRange{Int64}}, true}, y::SubArray{Float32, 1, Vector{Float32}, Tuple{UnitRange{Int64}}, true}, z::SubArray{Float32, 1, Vector{Float32}, Tuple{UnitRange{Int64}}, true}, t::Vector{Float32}) @ KomaMRIBase ~/work/KomaMRI.jl/KomaMRI.jl/KomaMRIBase/src/motion/Motion.jl:194 [2] run_spin_excitation!(p::Phantom{Float32}, seq::DiscreteSequence{Float32}, sig::SubArray{ComplexF32, 2, Array{ComplexF32, 3}, Tuple{UnitRange{Int64}, Base.Slice{Base.OneTo{Int64}}, Int64}, false}, M::Mag{Float32}, sim_method::Bloch, backend::KernelAbstractions.CPU, prealloc::KomaMRICore.BlochCPUPrealloc{Float32}) @ KomaMRICore ~/work/KomaMRI.jl/KomaMRI.jl/KomaMRICore/src/simulation/SimMethods/Bloch/BlochCPU.jl:139 [3] (::KomaMRICore.var"#41#43"{Phantom{Float32}, DiscreteSequence{Float32}, SubArray{ComplexF32, 3, Array{ComplexF32, 3}, Tuple{UnitRange{Int64}, Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}}, false}, Mag{Float32}, Bloch, KernelAbstractions.CPU, KomaMRICore.BlochCPUPrealloc{Float32}, Vector{Colon}})(::Tuple{Int64, UnitRange{Int64}}) @ KomaMRICore ~/work/KomaMRI.jl/KomaMRI.jl/KomaMRICore/src/simulation/SimulatorCore.jl:134 [4] next @ ~/.julia/packages/Transducers/fnznF/src/library.jl:54 [inlined] [5] next @ ~/.julia/packages/Transducers/fnznF/src/core.jl:775 [inlined] [6] macro expansion @ ~/.julia/packages/Transducers/fnznF/src/core.jl:181 [inlined] [7] __foldl__ @ ~/.julia/packages/Transducers/fnznF/src/processes.jl:157 [inlined] [8] foldl_basecase @ ~/.julia/packages/Transducers/fnznF/src/processes.jl:361 [inlined] [9] _reduce_basecase(rf::Transducers.Reduction{Transducers.Map{KomaMRICore.var"#41#43"{Phantom{Float32}, DiscreteSequence{Float32}, SubArray{ComplexF32, 3, Array{ComplexF32, 3}, Tuple{UnitRange{Int64}, Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}}, false}, Mag{Float32}, Bloch, KernelAbstractions.CPU, KomaMRICore.BlochCPUPrealloc{Float32}, Vector{Colon}}}, Transducers.BottomRF{Transducers.Completing{typeof(ThreadsX.Implementations.return_nothing)}}}, init::Nothing, reducible::Transducers.SizedReducible{Base.Iterators.Enumerate{Vector{UnitRange{Int64}}}, Int64}) @ Transducers ~/.julia/packages/Transducers/fnznF/src/threading_utils.jl:58 [10] _reduce(ctx::Transducers.CancellableDACContext, rf::Transducers.Reduction{Transducers.Map{KomaMRICore.var"#41#43"{Phantom{Float32}, DiscreteSequence{Float32}, SubArray{ComplexF32, 3, Array{ComplexF32, 3}, Tuple{UnitRange{Int64}, Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}}, false}, Mag{Float32}, Bloch, KernelAbstractions.CPU, KomaMRICore.BlochCPUPrealloc{Float32}, Vector

failed to run `@example` block in src/tutorial/05-SimpleMotion.md:64-68 ```@example 05-SimpleMotion # Plotting the recon # hide p2 = plot_image(abs.(image1[:, :, 1]); height=400) # hide savefig(p2, "../assets/5-recon1.html") # hide ``` exception = UndefVarError: `image1` not defined in `Main.var"__atexample__named__05-SimpleMotion"` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ 05-SimpleMotion.md:66 [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}, Base.PipeEndpoint, 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}, Base.PipeEndpoint, 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

failed to run `@example` block in src/tutorial/05-SimpleMotion.md:92-107 ```@example 05-SimpleMotion sample_times = get_adc_sampling_times(seq1) displacements = hcat(get_spin_coords(obj.motion, [0.0], [0.0], [0.0], sample_times)...) p3 = plot( # hide sample_times, # hide displacements .* 1e2, # hide Layout( # hide title = "Head displacement in x, y and z", # hide xaxis_title = "time (s)", # hide yaxis_title = "Displacement (cm)" # hide )) # hide restyle!(p3,1:3, name=["ux(t)", "uy(t)", "uz(t)"]) # hide savefig(p3, "../assets/5-displacements.html") # hide ``` exception = MethodError: no method matching *(::Vector{Float64}, ::Vector{Float64}) The function `*` exists, but no method is defined for this combination of argument types. Closest candidates are: *(::Any, ::Any, !Matched::Any, !Matched::Any...) @ Base operators.jl:596 *(!Matched::Type{<:LinearOperatorCollection.ProdOp}, ::Any, !Matched::Any) @ LinearOperatorCollection ~/.julia/packages/LinearOperatorCollection/GRBTA/src/ProdOp.jl:73 *(!Matched::ChainRulesCore.NoTangent, ::Any) @ ChainRulesCore ~/.julia/packages/ChainRulesCore/6Pucz/src/tangent_arithmetic.jl:64 ... Stacktrace: [1] get_spin_coords(m::Motion{Float64}, x::Vector{Float64}, y::Vector{Float64}, z::Vector{Float64}, t::Vector{Float64}) @ KomaMRIBase ~/work/KomaMRI.jl/KomaMRI.jl/KomaMRIBase/src/motion/Motion.jl:194 [2] top-level scope @ 05-SimpleMotion.md:94 [3] eval @ ./boot.jl:430 [inlined] [4] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [5] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [6] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [7] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, Base.PipeEndpoint, Base.PipeEndpoint})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [8] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, Base.PipeEndpoint, Base.PipeEndpoint}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [9] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [10] 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 [11] 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

failed to run `@example` block in src/tutorial/05-SimpleMotion.md:115-118 ```@example 05-SimpleMotion _, kspace = get_kspace(seq1) ΔΦ = 2π*sum(kspace .* displacements, dims=2) ``` exception = UndefVarError: `displacements` not defined in `Main.var"__atexample__named__05-SimpleMotion"` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ 05-SimpleMotion.md:117 [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}, Base.PipeEndpoint, 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}, Base.PipeEndpoint, 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

failed to run `@example` block in src/tutorial/05-SimpleMotion.md:122-130 ```@example 05-SimpleMotion acq1.kdata[1] .*= exp.(im*ΔΦ) image2 = reconstruction(acq1, reconParams) # hide p4 = plot_image(abs.(image2[:, :, 1]); height=400) # hide savefig(p4, "../assets/5-recon2.html") # hide ``` exception = UndefVarError: `acq1` not defined in `Main.var"__atexample__named__05-SimpleMotion"` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ 05-SimpleMotion.md:123 [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}, Base.PipeEndpoint, 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}, Base.PipeEndpoint, 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

failed to run `@example` block in src/tutorial/06-DiffusionMotion.md:176-195 ```@example 06-DiffusionMotion sim_params = KomaMRICore.default_sim_params() sim_params["return_type"] = "mat" sim_params["Δt"] = Δt # Set max. grad. time step to fit diffusion time step signals = simulate.(Ref(obj), seqs, Ref(sys); sim_params) # simulate broadcasted over seqs Sb = [sb[1] for sb in signals] # Reshaping the simulated signals bvals_si = bvals .* 1e6 # Convert b-values from s/mm^2 to s/m^2 E_simulated = abs.(Sb) ./ abs.(Sb[1]) E_theoretical = exp.(-bvals_si .* D) s_sim = scatter(x=bvals, y=E_simulated, name="Simulated") # hide s_theo = scatter(x=bvals, y=E_theoretical, name="exp(-b D)", line=attr(dash="dash")) # hide layout = Layout(title="Diffusion-induced signal attenuation E(b)", xaxis=attr(title="b-value [s/mm^2]")) # hide p3 = plot([s_sim, s_theo], layout) # hide savefig(p3, "../assets/6-pgse_signal_attenuation.html") # hide ``` exception = MethodError: no method matching *(::Vector{Float32}, ::Vector{Float32}) The function `*` exists, but no method is defined for this combination of argument types. Closest candidates are: *(::Any, ::Any, !Matched::Any, !Matched::Any...) @ Base operators.jl:596 *(!Matched::Type{<:LinearOperatorCollection.ProdOp}, ::Any, !Matched::Any) @ LinearOperatorCollection ~/.julia/packages/LinearOperatorCollection/GRBTA/src/ProdOp.jl:73 *(!Matched::ChainRulesCore.NoTangent, ::Any) @ ChainRulesCore ~/.julia/packages/ChainRulesCore/6Pucz/src/tangent_arithmetic.jl:64 ... Stacktrace: [1] get_spin_coords(m::Motion{Float32}, x::SubArray{Float32, 1, Vector{Float32}, Tuple{UnitRange{Int64}}, true}, y::SubArray{Float32, 1, Vector{Float32}, Tuple{UnitRange{Int64}}, true}, z::SubArray{Float32, 1, Vector{Float32}, Tuple{UnitRange{Int64}}, true}, t::Vector{Float32}) @ KomaMRIBase ~/work/KomaMRI.jl/KomaMRI.jl/KomaMRIBase/src/motion/Motion.jl:194 [2] run_spin_excitation!(p::Phantom{Float32}, seq::DiscreteSequence{Float32}, sig::SubArray{ComplexF32, 2, Array{ComplexF32, 3}, Tuple{UnitRange{Int64}, Base.Slice{Base.OneTo{Int64}}, Int64}, false}, M::Mag{Float32}, sim_method::Bloch, backend::KernelAbstractions.CPU, prealloc::KomaMRICore.BlochCPUPrealloc{Float32}) @ KomaMRICore ~/work/KomaMRI.jl/KomaMRI.jl/KomaMRICore/src/simulation/SimMethods/Bloch/BlochCPU.jl:139 [3] (::KomaMRICore.var"#41#43"{Phantom{Float32}, DiscreteSequence{Float32}, SubArray{ComplexF32, 3, Array{ComplexF32, 3}, Tuple{UnitRange{Int64}, Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}}, false}, Mag{Float32}, Bloch, KernelAbstractions.CPU, KomaMRICore.BlochCPUPrealloc{Float32}, Vector{Colon}})(::Tuple{Int64, UnitRange{Int64}}) @ KomaMRICore ~/work/KomaMRI.jl/KomaMRI.jl/KomaMRICore/src/simulation/SimulatorCore.jl:134 [4] next @ ~/.julia/packages/Transducers/fnznF/src/library.jl:54 [inlined] [5] next @ ~/.julia/packages/Transducers/fnznF/src/core.jl:775 [inlined] [6] macro expansion @ ~/.julia/packages/Transducers/fnznF/src/core.jl:181 [inlined] [7] __foldl__ @ ~/.julia/packages/Transducers/fnznF/src/processes.jl:157 [inlined] [8] foldl_basecase @ ~/.julia/packages/Transducers/fnznF/src/processes.jl:361 [inlined] [9] _reduce_basecase(rf::Transducers.Reduction{Transducers.Map{KomaMRICore.var"#41#43"{Phantom{Float32}, DiscreteSequence{Float32}, SubArray{ComplexF32, 3, Array{ComplexF32, 3}, Tuple{UnitRange{Int64}, Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}}, false}, Mag{Float32}, Bloch, KernelAbstractions.CPU, KomaMRICore.BlochCPUPrealloc{Float32}, Vector{Colon}}}, Transducers.BottomRF{Transducers.Completing{typeof(ThreadsX.Implementations.return_nothing)}}}, init::Nothing, reducible::Transducers.SizedReducible{Base.Iterators.Enumerate{Vector{UnitRange{Int64}}}, Int64}) @ Transducers ~/.julia/packages/Transducers/fnznF/src/threading_utils.jl:58 [10] _reduce(ctx::Transducers.CancellableDACContext, rf::Transducers.Reduc

Process completed with exit code 1.

Process completed with exit code 1.

Process completed with exit code 1.

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

The active manifest file has dependencies that were resolved with a different julia version (1.10.5). Unexpected behavior may occur. maxlog = 1

Could not use exact versions of packages in manifest, re-resolving

Operation failed. Removing Manifest and trying again... exception = Unsatisfiable requirements detected for package Statistics [10745b16]: Statistics [10745b16] log: ├─possible versions are: 1.11.0 - 1.11.1 or uninstalled └─restricted to versions 1.10.0 by an explicit requirement — no versions left

The active manifest file has dependencies that were resolved with a different julia version (1.10.4). Unexpected behavior may occur. maxlog = 1

Could not use exact versions of packages in manifest, re-resolving

Operation failed. Removing Manifest and trying again... exception = Unsatisfiable requirements detected for package Statistics [10745b16]: Statistics [10745b16] log: ├─possible versions are: 1.11.0 - 1.11.1 or uninstalled └─restricted to versions 1.10.0 by an explicit requirement — no versions left

The active manifest file has dependencies that were resolved with a different julia version (1.10.4). Unexpected behavior may occur. maxlog = 1