Error with julia 1.5.2 via Plots.jl

ahbarnett commented 3 years ago

I can't get a hello-world plot working on my Ubuntu 16.04 LTS as follows. Any help appreciated - thanks, Alex

julia> versioninfo() Julia Version 1.5.2 Commit 539f3ce943 (2020-09-23 23:17 UTC) Platform Info: OS: Linux (x86_64-pc-linux-gnu) CPU: Intel(R) Core(TM) i7-7700HQ CPU @ 2.80GHz WORD_SIZE: 64 LIBM: libopenlibm LLVM: libLLVM-9.0.1 (ORCJIT, skylake) Environment: JULIA_NUM_THREADS = 8

julia> using Plots julia> inspectdr() Plots.InspectDRBackend()

julia> plot(rand(1,3),rand(1,3)) Error showing value of type Plots.Plot{Plots.InspectDRBackend}: ERROR: could not load symbol "jl_function_ptr": /usr/local/julia-1.5.2/bin/../lib/libjulia.so.1: undefined symbol: jl_functionptr Stacktrace: [1] cfunction(::Any, ::Any, ::Any) at /home/alex/.julia/packages/Gtk/X3A4U/src/GLib/GLib.jl:35 [2] cfunction_ at /home/alex/.julia/packages/Gtk/X3A4U/src/GLib/GLib.jl:32 [inlined] [3] signal_connect_generic(::Function, ::Gtk.GtkCanvas, ::String, ::Type{Nothing}, ::Tuple{}, ::Bool, ::Gtk.GtkCanvas) at /home/alex/.julia/packages/Gtk/X3A4U/src/GLib/signals.jl:11 [4] signal_connect at /home/alex/.julia/packages/Gtk/X3A4U/src/GLib/signals.jl:6 [inlined] (repeats 2 times) [5] Gtk.GtkCanvas(::Int64, ::Int64) at /home/alex/.julia/packages/Gtk/X3A4U/src/cairo.jl:20 [6] GtkCanvas at /home/alex/.julia/packages/Gtk/X3A4U/src/cairo.jl:15 [inlined] [7] InspectDR.PlotWidget(::InspectDR.Plot2D) at /home/alex/.julia/packages/InspectDR/nVO9m/src/gtk_top.jl:132 [8] InspectDR.PlotWidget(::InspectDR.GtkPlot, ::InspectDR.Plot2D) at /home/alex/.julia/packages/InspectDR/nVO9m/src/gtk_top.jl:205 [9] sync_subplots(::InspectDR.GtkPlot) at /home/alex/.julia/packages/InspectDR/nVO9m/src/gtk_top.jl:218 [10] InspectDR.GtkPlot(::InspectDR.Multiplot) at /home/alex/.julia/packages/InspectDR/nVO9m/src/gtk_top.jl:275 [11] display at /home/alex/.julia/packages/InspectDR/nVO9m/src/gtk_top.jl:327 [inlined] [12] _display(::Plots.Plot{Plots.InspectDRBackend}) at /home/alex/.julia/packages/Plots/qZHsp/src/backends/inspectdr.jl:469 [13] display(::Plots.PlotsDisplay, ::Plots.Plot{Plots.InspectDRBackend}) at /home/alex/.julia/packages/Plots/qZHsp/src/output.jl:144 [14] display(::Any) at ./multimedia.jl:328 [15] #invokelatest#1 at ./essentials.jl:710 [inlined] [16] invokelatest at ./essentials.jl:709 [inlined] [17] print_response(::IO, ::Any, ::Bool, ::Bool, ::Any) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/REPL/src/REPL.jl:238 [18] print_response(::REPL.AbstractREPL, ::Any, ::Bool, ::Bool) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/REPL/src/REPL.jl:223 [19] (::REPL.var"#do_respond#54"{Bool,Bool,REPL.var"#64#73"{REPL.LineEditREPL,REPL.REPLHistoryProvider},REPL.LineEditREPL,REPL.LineEdit.Prompt})(::Any, ::Any, ::Any) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/REPL/src/REPL.jl:822 [20] #invokelatest#1 at ./essentials.jl:710 [inlined] [21] invokelatest at ./essentials.jl:709 [inlined] [22] run_interface(::REPL.Terminals.TextTerminal, ::REPL.LineEdit.ModalInterface, ::REPL.LineEdit.MIState) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/REPL/src/LineEdit.jl:2355 [23] run_frontend(::REPL.LineEditREPL, ::REPL.REPLBackendRef) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/REPL/src/REPL.jl:1144 [24] (::REPL.var"#38#42"{REPL.LineEditREPL,REPL.REPLBackendRef})() at ./task.jl:356

ma-laforge commented 3 years ago

Hi @ahbarnett,

I got a similar issue (though with different errors) when I tried moving from Julia 1.3->Julia 1.5.3 on Ubuntu 18.04.
I did not get the same issue when I went back to Julia 1.5.2 (i.e. I could not reproduce this error exactly).
I have the impression this error has something to do with stale versions of compiled packages.

What worked for me in the past:

Try to update packages (especially if you moved from one version of Julia to another):
```
] pkg> up
```
Trigger a build of individual subpackages in a sequence of lowest-to-highest dependencies (Should only need to be done once after you switch between different Julia versions):
```
using Colors
using Cairo
using Gtk
using InspectDR
using Plots
```
NOTE: you must ensure these sub-packages are all "add"ed to your Julia environment - otherwise you won't be able to call using on them.

Please let me know if this worked.

ahbarnett commented 3 years ago

THanks for the help, but it still failed. I'm new to julia Pkg system so don't know what else to try. An empty grey graphics window comes up and here's the output (also has my output updating Pkgs in case some clues there):

(@v1.5) pkg> up
   Updating registry at `~/.julia/registries/General`
   Updating git-repo `https://github.com/JuliaRegistries/General.git`
┌ Warning: Some registries failed to update:
│     — /home/alex/.julia/registries/General — failed to fetch from repo
└ @ Pkg.Types /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/Types.jl:1194
   Updating git-repo `https://github.com/mbaz/Gaston.jl.git`
No Changes to `~/.julia/environments/v1.5/Project.toml`
No Changes to `~/.julia/environments/v1.5/Manifest.toml`

(@v1.5) pkg> using Colors
ERROR: Could not determine command

(@v1.5) pkg> add Colors
  Resolving package versions...
Updating `~/.julia/environments/v1.5/Project.toml`
  [5ae59095] + Colors v0.11.2
No Changes to `~/.julia/environments/v1.5/Manifest.toml`

julia> using Colors

julia> using Cairo
ERROR: ArgumentError: Package Cairo not found in current path:
- Run `import Pkg; Pkg.add("Cairo")` to install the Cairo package.

Stacktrace:
 [1] require(::Module, ::Symbol) at ./loading.jl:893

(@v1.5) pkg> add Cairo
  Resolving package versions...
Updating `~/.julia/environments/v1.5/Project.toml`
  [159f3aea] + Cairo v1.0.2
No Changes to `~/.julia/environments/v1.5/Manifest.toml`

julia> using Cairo

julia> using Gtk
ERROR: ArgumentError: Package Gtk not found in current path:
- Run `import Pkg; Pkg.add("Gtk")` to install the Gtk package.

Stacktrace:
 [1] require(::Module, ::Symbol) at ./loading.jl:893

(@v1.5) pkg> add Gtk
  Resolving package versions...
Updating `~/.julia/environments/v1.5/Project.toml`
  [4c0ca9eb] + Gtk v1.1.3
No Changes to `~/.julia/environments/v1.5/Manifest.toml`

julia> using Gtk
[ Info: Precompiling Gtk [4c0ca9eb-093a-5379-98c5-f87ac0bbbf44]

julia> using InspectDR
[ Info: Precompiling InspectDR [d0351b0e-4b05-5898-87b3-e2a8edfddd1d]
┌ Warning: Pkg.installed() is deprecated
└ @ Pkg /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/Pkg.jl:554

julia> using Plots

julia> inspectdr()
Plots.InspectDRBackend()

julia> plot(rand(1,3),rand(1,3))

(julia:28648): Gtk-WARNING **: 15:54:32.357: Theme parsing error: gtk-widgets.css:20:33: The style property GtkMenu:horizontal-padding is deprecated and shouldn't be used anymore. It will be removed in a future version
 ...
[lots of similar, then same errors as reported above]

current system (sorry, should I try on a fresh project?):

(@v1.5) pkg> st
Status `~/.julia/environments/v1.5/Project.toml`
  [537997a7] AbstractPlotting v0.9.21
  [6e4b80f9] BenchmarkTools v0.5.0
  [159f3aea] Cairo v1.0.2
  [13f3f980] CairoMakie v0.1.2
  [35d6a980] ColorSchemes v3.9.0 `https://github.com/JuliaGraphics/ColorSchemes.jl.git#v3.9.0`
  [5ae59095] Colors v0.11.2
  [c64915e2] ComplexRegions v0.1.0
  [adafc99b] CpuId v0.2.2
  [497a8b3b] DoubleFloats v1.0.3
  [28b8d3ca] GR v0.46.0
  [92c85e6c] GSL v0.6.0
  [4b11ee91] Gaston v1.0.4 `https://github.com/mbaz/Gaston.jl.git#master`
  [4d00f742] GeometryTypes v0.7.8
  [dc211083] Gnuplot v1.0.0
  [4c0ca9eb] Gtk v1.1.3
  [7073ff75] IJulia v1.21.1
  [d0351b0e] InspectDR v0.3.6
  [c8ce9da6] IntelVectorMath v0.3.0
  [42fd0dbc] IterativeSolvers v0.8.1
  [b964fa9f] LaTeXStrings v1.0.3
  [ee78f7c6] Makie v0.9.5
  [91a5bcdd] Plots v0.29.1
  [d330b81b] PyPlot v2.8.2
  [1fd47b50] QuadGK v2.3.1
  [3cdcf5f2] RecipesBase v0.8.0
  [fdea26ae] SIMD v2.8.0
  [3e6341c9] SLEEF v0.5.2
  [276daf66] SpecialFunctions v0.10.0
  [90137ffa] StaticArrays v0.12.1
  [fd094767] Suppressor v0.1.1
  [3d5dd08c] VectorizationBase v0.5.0

Best, Alex

ma-laforge commented 3 years ago

Interesting. You have old versions of Plots.jl and InspectDR.jl. They are presently at v1.91 & 0.3.9 respectively.

Option 1

Ok. well, you could start by updating your packages using the package manager:

] up

Option 2

If that fails (or you just want to start fresh), they yes: go ahead and start a fresh project.

Warning

Please be aware that, by default ~/.julia/environments/v1.5/Project.toml is in your project stack. So even if you create a new environment, the packages "add"ed to this v1.5 project/environment will still be available (though possibly overwritten by newer versions of the packages in your new, active environment).

So it might be best to rename this v1.5 environment directory to something else in order to truly start fresh.

Option 3

In the past, I have sometimes needed to completely remove the ~/.julia repository to "start fresh". Note that I haven't needed to do this in a while, though. I think I used to do this when I moved between versions of julia with different "revision" numbers (ex: 0.6.2->0.6.3).

Testing InspectDR

You can also that InspectDR.jl works by itself by running the following:

using InspectDR
pathInspect = dirname(pathof(InspectDR))
include(joinpath(pathInspect, "..", "sample", "runsamples.jl"))

ufechner7 commented 2 years ago

@ma-laforge Please, close this issue.

ahbarnett commented 2 years ago

As of julia 1.7.1 I have tested InspectDR works by itself after installing Colors and NumericIO also by hand. Thanks! Alex

JuliaPlots / InspectDR.jl