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Error in magic function detect_rdata #338

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hendri54 opened this issue Jun 1, 2021 · 4 comments · Fixed by #343
Closed

Error in magic function detect_rdata #338

hendri54 opened this issue Jun 1, 2021 · 4 comments · Fixed by #343

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@hendri54
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hendri54 commented Jun 1, 2021

Saving a file to pdf resulted in the error:

julia> using CairoMakie, Makie, FileIO
julia> fig = Figure()
julia> ax = Axis(fig)
julia> barplot!(ax, LinRange(1, 1.1, 5); dodge = 1, color = 1)
julia> barplot!(ax, LinRange(2, 2.1, 5); dodge = 2, color = 2)
julia> save("test1.pdf", fig)
┌ Error: There was an error in magic function detect_rdata.
│ Please open an issue at FileIO.jl.
│   exception =
│    EOFError: read end of file
│    Stacktrace:
│      [1] read(s::IOStream, #unused#::Type{UInt8})
│        @ Base ./iostream.jl:399
│      [2] detect_rdata(io::IOStream)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/registry.jl:61
│      [3] match(io::IOStream, magic::Function)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:143
│      [4] querysym_all(io::IOStream)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:169
│      [5] (::FileIO.var"#5#9"{Symbol})(io::IOStream)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:96
│      [6] open(f::FileIO.var"#5#9"{Symbol}, args::String; kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
│        @ Base ./io.jl:330
│      [7] open
│        @ ./io.jl:328 [inlined]
│      [8] querysym(filename::String; checkfile::Bool)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:93
│      [9] query(filename::String; checkfile::Bool)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:76
│     [10] query
│        @ ~/.julia/packages/FileIO/3jBq2/src/query.jl:75 [inlined]
│     [11] save(filename::String, fig::Figure; args::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
│        @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:221
│     [12] save(filename::String, fig::Figure)
│        @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:221
│     [13] top-level scope
│        @ REPL[12]:1
│     [14] eval
│        @ ./boot.jl:360 [inlined]
│     [15] eval_user_input(ast::Any, backend::REPL.REPLBackend)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:139
│     [16] repl_backend_loop(backend::REPL.REPLBackend)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:200
│     [17] start_repl_backend(backend::REPL.REPLBackend, consumer::Any)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:185
│     [18] run_repl(repl::REPL.AbstractREPL, consumer::Any; backend_on_current_task::Bool)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:317
│     [19] run_repl(repl::REPL.AbstractREPL, consumer::Any)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:305
│     [20] (::Base.var"#874#876"{Bool, Bool, Bool})(REPL::Module)
│        @ Base ./client.jl:387
│     [21] #invokelatest#2
│        @ ./essentials.jl:708 [inlined]
│     [22] invokelatest
│        @ ./essentials.jl:706 [inlined]
│     [23] run_main_repl(interactive::Bool, quiet::Bool, banner::Bool, history_file::Bool, color_set::Bool)
│        @ Base ./client.jl:372
│     [24] exec_options(opts::Base.JLOptions)
│        @ Base ./client.jl:302
│     [25] _start()
│        @ Base ./client.jl:485
└ @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:145
┌ Error: There was an error in magic function detect_rdata_single.
│ Please open an issue at FileIO.jl.
│   exception =
│    EOFError: read end of file
│    Stacktrace:
│      [1] read(s::IOStream, #unused#::Type{UInt8})
│        @ Base ./iostream.jl:399
│      [2] detect_rdata_single(io::IOStream)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/registry.jl:75
│      [3] match(io::IOStream, magic::Function)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:143
│      [4] querysym_all(io::IOStream)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:169
│      [5] (::FileIO.var"#5#9"{Symbol})(io::IOStream)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:96
│      [6] open(f::FileIO.var"#5#9"{Symbol}, args::String; kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
│        @ Base ./io.jl:330
│      [7] open
│        @ ./io.jl:328 [inlined]
│      [8] querysym(filename::String; checkfile::Bool)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:93
│      [9] query(filename::String; checkfile::Bool)
│        @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:76
│     [10] query
│        @ ~/.julia/packages/FileIO/3jBq2/src/query.jl:75 [inlined]
│     [11] save(filename::String, fig::Figure; args::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
│        @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:221
│     [12] save(filename::String, fig::Figure)
│        @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:221
│     [13] top-level scope
│        @ REPL[12]:1
│     [14] eval
│        @ ./boot.jl:360 [inlined]
│     [15] eval_user_input(ast::Any, backend::REPL.REPLBackend)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:139
│     [16] repl_backend_loop(backend::REPL.REPLBackend)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:200
│     [17] start_repl_backend(backend::REPL.REPLBackend, consumer::Any)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:185
│     [18] run_repl(repl::REPL.AbstractREPL, consumer::Any; backend_on_current_task::Bool)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:317
│     [19] run_repl(repl::REPL.AbstractREPL, consumer::Any)
│        @ REPL /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/REPL/src/REPL.jl:305
│     [20] (::Base.var"#874#876"{Bool, Bool, Bool})(REPL::Module)
│        @ Base ./client.jl:387
│     [21] #invokelatest#2
│        @ ./essentials.jl:708 [inlined]
│     [22] invokelatest
│        @ ./essentials.jl:706 [inlined]
│     [23] run_main_repl(interactive::Bool, quiet::Bool, banner::Bool, history_file::Bool, color_set::Bool)
│        @ Base ./client.jl:372
│     [24] exec_options(opts::Base.JLOptions)
│        @ Base ./client.jl:302
│     [25] _start()
│        @ Base ./client.jl:485
└ @ FileIO ~/.julia/packages/FileIO/3jBq2/src/query.jl:145
ERROR: MethodError: no method matching format2mime(::Type{DataFormat{:UNKNOWN}})
Closest candidates are:
  format2mime(::Type{DataFormat{:PNG}}) at /Users/lutz/.julia/packages/Makie/Yd637/src/display.jl:182
  format2mime(::Type{DataFormat{:SVG}}) at /Users/lutz/.julia/packages/Makie/Yd637/src/display.jl:183
  format2mime(::Type{DataFormat{:JPEG}}) at /Users/lutz/.julia/packages/Makie/Yd637/src/display.jl:184
  ...
Stacktrace:
 [1] (::Makie.var"#901#902"{Float64, Float64, DataType, Scene})(s::IOStream)
   @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:248
 [2] open(::Makie.var"#901#902"{Float64, Float64, DataType, Scene}, ::String, ::Vararg{String, N} where N; kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
   @ Base ./io.jl:330
 [3] open
   @ ./io.jl:328 [inlined]
 [4] save(file::File{DataFormat{:UNKNOWN}, String}, fig::Figure; resolution::Tuple{Int64, Int64}, pt_per_unit::Float64, px_per_unit::Float64)
   @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:242
 [5] save(file::File{DataFormat{:UNKNOWN}, String}, fig::Figure)
   @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:230
 [6] save(filename::String, fig::Figure; args::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
   @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:221
 [7] save(filename::String, fig::Figure)
   @ Makie ~/.julia/packages/Makie/Yd637/src/display.jl:221
 [8] top-level scope

julia> versioninfo()
Julia Version 1.6.1
Commit 6aaedecc44 (2021-04-23 05:59 UTC)
Platform Info:
  OS: macOS (x86_64-apple-darwin18.7.0)
  CPU: Intel(R) Core(TM) i9-9880H CPU @ 2.30GHz
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-11.0.1 (ORCJIT, skylake)
Environment:
  JULIA_NUM_THREADS = 8
  JULIA_PKG_DEVDIR = /Users/lutz/Documents/julia
  JULIA_EDITOR = /usr/local/bin/code

(jl_0N7CBO) pkg> st
      Status `/private/var/folders/sh/h134ydrd1gzbtd4qflbl50km0000gn/T/jl_0N7CBO/Project.toml`
  [13f3f980] CairoMakie v0.5.5
  [5789e2e9] FileIO v1.9.0
  [ee78f7c6] Makie v0.13.11
@SimonDanisch
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Maybe there is a corrupted file at that path?

@hendri54
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hendri54 commented Jun 1, 2021

Thank you - I think that was the problem.

@hendri54 hendri54 closed this as completed Jun 1, 2021
@ericphanson
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ran into this today too and Simon pointed me to a corrupt file as well. I think this is actually a FileIO bug though, because it should just overwrite the file, not give a confusing error.

@johnnychen94 johnnychen94 mentioned this issue Jun 11, 2021
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@johnnychen94
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johnnychen94 commented Jun 19, 2021 •
edited
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I think this is actually a FileIO bug though, because it should just overwrite the file, not give a confusing error.

Right, FileIO can provide a fallback for broken files.

In the meantime, this is also a Makie issue in https://github.com/JuliaPlots/Makie.jl/blob/beb3fcd1e460b3207b933dcfa758d6df7d48db3d/src/display.jl#L218-L222

Either use FileIO.query(filename; checkfile=false) or remove the string version method could probably fix this one.

shell> touch test.png

julia> query("test.png")
┌ Error: There was an error in magic function detect_rdata.
│ Please open an issue at FileIO.jl.
│   exception =
│    EOFError: read end of file

julia> query("test.png"; checkfile=false)
File{DataFormat{:PNG}, String}("/Users/jc/Documents/Julia/FileIO.jl/test.png")

@johnnychen94 johnnychen94 reopened this Jun 19, 2021
This was referenced Jun 19, 2021
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fallback to extension-based guess when querying an empty file JuliaIO/FileIO.jl
4 participants
@SimonDanisch @ericphanson @johnnychen94 @hendri54