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Precompilation Error #489

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MLackner opened this issue Aug 27, 2019 · 6 comments
Closed

Precompilation Error #489

MLackner opened this issue Aug 27, 2019 · 6 comments

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@MLackner
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MLackner commented Aug 27, 2019 •
edited
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I get the following error during precompilation. I guess CSV is not able to find the Parsers.Options function.

(SFGTools) pkg> precompile
Precompiling project...
Precompiling CSV
[ Info: Precompiling CSV [336ed68f-0bac-5ca0-87d4-7b16caf5d00b]
ERROR: LoadError: LoadError: UndefVarError: Options not defined
Stacktrace:
 [1] getproperty(::Module, ::Symbol) at ./sysimg.jl:13
 [2] top-level scope at none:0
 [3] include at ./boot.jl:326 [inlined]
 [4] include_relative(::Module, ::String) at ./loading.jl:1038
 [5] include at ./sysimg.jl:29 [inlined]
 [6] include(::String) at /Users/lackner/.julia/packages/CSV/KgT4M/src/CSV.jl:1
 [7] top-level scope at none:0
 [8] include at ./boot.jl:326 [inlined]
 [9] include_relative(::Module, ::String) at ./loading.jl:1038
 [10] include(::Module, ::String) at ./sysimg.jl:29
 [11] top-level scope at none:2
 [12] eval at ./boot.jl:328 [inlined]
 [13] eval(::Expr) at ./client.jl:404
 [14] top-level scope at ./none:3
in expression starting at /Users/lackner/.julia/packages/CSV/KgT4M/src/filedetection.jl:167
in expression starting at /Users/lackner/.julia/packages/CSV/KgT4M/src/CSV.jl:15
ERROR: Failed to precompile CSV [336ed68f-0bac-5ca0-87d4-7b16caf5d00b] to /Users/lackner/.julia/compiled/v1.1/CSV/HHBkp.ji.
Stacktrace:
 [1] error(::String) at ./error.jl:33
 [2] compilecache(::Base.PkgId, ::String) at ./loading.jl:1197
 [3] precompile(::Pkg.Types.Context) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/Pkg/src/API.jl:429
 [4] do_precompile!(::Dict{Symbol,Any}, ::Array{String,1}, ::Dict{Symbol,Any}) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/Pkg/src/REPLMode.jl:612
 [5] #invokelatest#1(::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}, ::Function, ::Any, ::Any, ::Vararg{Any,N} where N) at ./essentials.jl:742
 [6] invokelatest(::Any, ::Any, ::Vararg{Any,N} where N) at ./essentials.jl:741
 [7] do_cmd!(::Pkg.REPLMode.PkgCommand, ::REPL.LineEditREPL) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/Pkg/src/REPLMode.jl:561
 [8] #do_cmd#30(::Bool, ::Function, ::REPL.LineEditREPL, ::String) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/Pkg/src/REPLMode.jl:536
 [9] do_cmd at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/Pkg/src/REPLMode.jl:532 [inlined]
 [10] (::getfield(Pkg.REPLMode, Symbol("##48#51")){REPL.LineEditREPL,REPL.LineEdit.Prompt})(::REPL.LineEdit.MIState, ::Base.GenericIOBuffer{Array{UInt8,1}}, ::Bool) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/Pkg/src/REPLMode.jl:967
 [11] #invokelatest#1 at ./essentials.jl:742 [inlined]
 [12] invokelatest at ./essentials.jl:741 [inlined]
 [13] run_interface(::REPL.Terminals.TextTerminal, ::REPL.LineEdit.ModalInterface, ::REPL.LineEdit.MIState) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/REPL/src/LineEdit.jl:2273
 [14] run_frontend(::REPL.LineEditREPL, ::REPL.REPLBackendRef) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/REPL/src/REPL.jl:1035
 [15] run_repl(::REPL.AbstractREPL, ::Any) at /Users/osx/buildbot/slave/package_osx64/build/usr/share/julia/stdlib/v1.1/REPL/src/REPL.jl:192
 [16] (::getfield(Base, Symbol("##734#736")){Bool,Bool,Bool,Bool})(::Module) at ./client.jl:362
 [17] #invokelatest#1 at ./essentials.jl:742 [inlined]
 [18] invokelatest at ./essentials.jl:741 [inlined]
 [19] run_main_repl(::Bool, ::Bool, ::Bool, ::Bool, ::Bool) at ./client.jl:346
 [20] exec_options(::Base.JLOptions) at ./client.jl:284
 [21] _start() at ./client.jl:436

(SFGTools) pkg> st
Project SFGTools v1.0.0
    Status `~/.julia/dev/SFGTools/Project.toml`
  [d04cd5f8] + AndorSIF v0.0.1 #v1.0fixes (https://github.com/MLackner/AndorSIF.jl)
  [336ed68f] + CSV v0.5.11
  [a93c6f00] + DataFrames v0.19.3
  [39dd38d3] + Dierckx v0.4.1
  [5789e2e9] + FileIO v1.0.7
  [6218d12a] + ImageMagick v0.7.5
  [682c06a0] + JSON v0.21.0
  [9c8b4983] + LightXML v0.8.0
  [429524aa] + Optim v0.17.2
  [ade2ca70] + Dates 
  [8bb1440f] + DelimitedFiles 
  [9a3f8284] + Random 
  [10745b16] + Statistics 
  [8dfed614] + Test 
    Status `~/.julia/dev/SFGTools/Manifest.toml`
  [d04cd5f8] + AndorSIF v0.0.1 #v1.0fixes (https://github.com/MLackner/AndorSIF.jl)
  [336ed68f] + CSV v0.5.11
  [a93c6f00] + DataFrames v0.19.3
  [39dd38d3] + Dierckx v0.4.1
  [5789e2e9] + FileIO v1.0.7
  [6218d12a] + ImageMagick v0.7.5
  [682c06a0] + JSON v0.21.0
  [9c8b4983] + LightXML v0.8.0
  [429524aa] + Optim v0.17.2
  [ade2ca70] + Dates 
  [8bb1440f] + DelimitedFiles 
  [9a3f8284] + Random 
  [10745b16] + Statistics 
  [8dfed614] + Test
@MLackner
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updating CSV.jl to the latest version in my root environment solved the issue

@quinnj quinnj closed this as completed Aug 30, 2019
@Beramos
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Beramos commented Nov 19, 2019 •
edited
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I have the same error with Julia V1.0.5

(neuralFouling) pkg> st
    Status `~/xxxxxxxxxxxxxxxxxxx/neuralFouling/Project.toml`
  [fbb218c0] BSON v0.2.4
  [336ed68f] CSV v0.5.17
  [35d6a980] ColorSchemes v3.5.0
  [a93c6f00] DataFrames v0.19.4
  [aae7a2af] DiffEqFlux v0.8.0
  [0c46a032] DifferentialEquations v6.8.0
  [587475ba] Flux v0.9.0
  [91a5bcdd] Plots v0.27.0
  [44d3d7a6] Weave v0.9.1
  [37e2e46d] LinearAlgebra 
  [9a3f8284] Random

Edit:
Precompiling this environment produces the following error trace

Precompiling CSV
[ Info: Precompiling CSV [336ed68f-0bac-5ca0-87d4-7b16caf5d00b]
ERROR: LoadError: LoadError: UndefVarError: Options not defined
Stacktrace:
 [1] getproperty(::Module, ::Symbol) at ./sysimg.jl:13
 [2] top-level scope at none:0
 [3] include at ./boot.jl:317 [inlined]
 [4] include_relative(::Module, ::String) at ./loading.jl:1044
 [5] include at ./sysimg.jl:29 [inlined]
 [6] include(::String) at /xxxxxx/.julia/packages/CSV/yJFAJ/src/CSV.jl:1
 [7] top-level scope at none:0
 [8] include at ./boot.jl:317 [inlined]
 [9] include_relative(::Module, ::String) at ./loading.jl:1044
 [10] include(::Module, ::String) at ./sysimg.jl:29
 [11] top-level scope at none:2
 [12] eval at ./boot.jl:319 [inlined]
 [13] eval(::Expr) at ./client.jl:393
 [14] top-level scope at ./none:3
in expression starting at /xxxxxx/.julia/packages/CSV/yJFAJ/src/detection.jl:222
in expression starting at /xxxxxx/.julia/packages/CSV/yJFAJ/src/CSV.jl:15
ERROR: Failed to precompile CSV [336ed68f-0bac-5ca0-87d4-7b16caf5d00b] to /home/bram/.julia/compiled/v1.0/CSV/HHBkp.ji.
Stacktrace:
 [1] error(::String) at ./error.jl:33
 [2] compilecache(::Base.PkgId, ::String) at ./loading.jl:1203
 [3] precompile(::Pkg.Types.Context) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/Pkg/src/API.jl:519
 [4] do_precompile!(::Dict{Symbol,Any}, ::Array{String,1}, ::Dict{Symbol,Any}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/Pkg/src/REPLMode.jl:662
 [5] #invokelatest#1(::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}, ::Function, ::Any, ::Any, ::Vararg{Any,N} where N) at ./essentials.jl:697
 [6] invokelatest(::Any, ::Any, ::Vararg{Any,N} where N) at ./essentials.jl:696
 [7] do_cmd!(::Pkg.REPLMode.PkgCommand, ::REPL.LineEditREPL) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/Pkg/src/REPLMode.jl:603
 [8] #do_cmd#33(::Bool, ::Function, ::REPL.LineEditREPL, ::String) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/Pkg/src/REPLMode.jl:577
 [9] do_cmd at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/Pkg/src/REPLMode.jl:573 [inlined]
 [10] (::getfield(Pkg.REPLMode, Symbol("##50#53")){REPL.LineEditREPL,REPL.LineEdit.Prompt})(::REPL.LineEdit.MIState, ::Base.GenericIOBuffer{Array{UInt8,1}}, ::Bool) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/Pkg/src/REPLMode.jl:923
 [11] #invokelatest#1 at ./essentials.jl:697 [inlined]
 [12] invokelatest at ./essentials.jl:696 [inlined]
 [13] run_interface(::REPL.Terminals.TextTerminal, ::REPL.LineEdit.ModalInterface, ::REPL.LineEdit.MIState) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/REPL/src/LineEdit.jl:2273
 [14] run_frontend(::REPL.LineEditREPL, ::REPL.REPLBackendRef) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/REPL/src/REPL.jl:1034
 [15] run_repl(::REPL.AbstractREPL, ::Any) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.0/REPL/src/REPL.jl:191
 [16] (::getfield(Base, Symbol("##720#722")){Bool,Bool,Bool,Bool})(::Module) at ./client.jl:355
 [17] #invokelatest#1 at ./essentials.jl:697 [inlined]
 [18] invokelatest at ./essentials.jl:696 [inlined]
 [19] run_main_repl(::Bool, ::Bool, ::Bool, ::Bool, ::Bool) at ./client.jl:339
 [20] exec_options(::Base.JLOptions) at ./client.jl:277
 [21] _start() at ./client.jl:425

Edit (2):

I pinned the CSV version to v0.4.3, now it is working. But I don't really understand why it is not working for the version that Pkg installs.

@quinnj
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quinnj commented Nov 19, 2019

@Beramos, not sure what's going on? Did you run ] up? What exactly is the error you're seeing? It's not clear which package isn't updating for you.

@Beramos
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Beramos commented Nov 19, 2019

@quinnj I made an edit my apologies for being unclear

@quinnj
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quinnj commented Nov 19, 2019

Hmmm.......not sure why Parsers isnt' getting upgraded; maybe try ] add Parsers; or ] up Parsers?

@Beramos
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Beramos commented Nov 24, 2019

It works with a manual upgrade of Parsers. Thx

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@quinnj @MLackner @Beramos