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More rosalind.info problems #9

More rosalind.info problems

More rosalind.info problems #9

Triggered via pull request March 10, 2025 20:04
@kescobokescobo
synchronize #14
more-rosalind
Status Failure
Total duration 2m 51s
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documentation.yml

on: pull_request
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4 errors
build: ../../../.julia/packages/Documenter/iwb7N/src/utilities/utilities.jl#L44
failed to run `@example` block in src/rosalind/05-gc.md:176-178 ```@example records = parse_fasta(fake_file) ``` exception = UndefVarError: `parse_fasta` not defined in `Main.__atexample__282` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ 05-gc.md:177 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/iwb7N/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/iwb7N/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/iwb7N/src/expander_pipeline.jl:801
build: ../../../.julia/packages/Documenter/iwb7N/src/utilities/utilities.jl#L44
failed to run `@example` block in src/rosalind/05-gc.md:217-220 ```@example seekstart(fake_file) records = parse_fasta(fake_file) ``` exception = UndefVarError: `fake_file` not defined in `Main.__atexample__283` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ 05-gc.md:218 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/iwb7N/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/iwb7N/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/iwb7N/src/expander_pipeline.jl:801
build: ../../../.julia/packages/Documenter/iwb7N/src/utilities/utilities.jl#L44
failed to run `@example` block in src/rosalind/05-gc.md:244-246 ```@example gc top_gc = records[i][1] # the first index gets the record, and the `[1]` gets the identifier ``` exception = ArgumentError: invalid index: (0.6091954022988506, 3) of type Tuple{Float64, Int64} Stacktrace: [1] to_index(i::Tuple{Float64, Int64}) @ Base ./indices.jl:315 [2] to_index(A::Vector{Any}, i::Tuple{Float64, Int64}) @ Base ./indices.jl:292 [3] to_indices @ ./indices.jl:368 [inlined] [4] to_indices @ ./indices.jl:360 [inlined] [5] getindex(A::Vector{Any}, I::Tuple{Float64, Int64}) @ Base ./abstractarray.jl:1312 [6] top-level scope @ 05-gc.md:245 [7] eval @ ./boot.jl:430 [inlined] [8] #60 @ ~/.julia/packages/Documenter/iwb7N/src/expander_pipeline.jl:803 [inlined] [9] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [10] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/iwb7N/src/expander_pipeline.jl:802 [11] (::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 [12] 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 [13] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [14] 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 [15] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/iwb7N/src/expander_pipeline.jl:801
build
Process completed with exit code 1.