Matteo
October 7, 2022, 3:56pm
1
I’m using Julia 1.8 on my Mac with Atom. I know that Atom is not anymore the editor recommended for Julia, but I think my problem is not related to Atom. In fact I have a problem with the package “Plots”: when I run the code:
using Pkg
Pkg.add("Plots")
using Plots
I get the error message:
LoadError: Failed to precompile Plots [91a5bcdd-55d7-5caf-9e0b-520d859cae80] to /Users/matteomassaro/.julia/compiled/v1.8/Plots/jl_Ws5Lcl.
in expression starting at untitled-5f892e86ad849cf5f05bd80a594d2d04:3
error(s::String) at error.jl:35
compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) at loading.jl:1707
compilecache at loading.jl:1651 [inlined]
_require(pkg::Base.PkgId) at loading.jl:1337
_require_prelocked(uuidkey::Base.PkgId) at loading.jl:1200
macro expansion at loading.jl:1180 [inlined]
macro expansion at lock.jl:223 [inlined]
require(into::Module, mod::Symbol) at loading.jl:1144
eval at boot.jl:368 [inlined]
include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) at loading.jl:1428
So it looks like Julia fails to precompile the package Plots. How can I fix this?
What is your current project environment? You can see this by running
status --manifest
from the package manager prompt.
Can you try installing in a fresh environment? For example,
using Pkg
Pkg.activate(temp=true)
Pkg.add("Plots")
using Plots
Matteo
October 7, 2022, 6:17pm
3
The command :
awasserman:
status --manifest
gives me:
(@v1.8 ) pkg> status --manifest~/.julia/environments/v1.8/Manifest.tomlstatus --outdated -m
I also tried :
But I get the same error as before.
0.69.4 is the latest release for GR. You should try to Pkg.update() as there have been some bug fixes.
1 Like
Matteo
October 7, 2022, 6:34pm
5
if I do that I get:
julia> Pkg.update()~/.julia/registries/General.toml/private/var/folders/zw/gq5r1ghj2jb57rmp8k58cz3c0000gn/T/jl_b4CrkG/Project.toml/private/var/folders/zw/gq5r1ghj2jb57rmp8k58cz3c0000gn/T/jl_b4CrkG/Manifest.toml
Which is strange because it seems I already have all the latest versions, as it says “no changes”. I don’t know what I’m doing wrong here.
You can see why things are held back by status --outdated -m in Pkg mode in the REPL.
Matteo
October 7, 2022, 6:59pm
7
status --outdated -m
gives me:
(jl_b4CrkG) pkg> status --outdated -m
Status `/private/var/folders/zw/gq5r1ghj2jb57rmp8k58cz3c0000gn/T/jl_b4CrkG/Manifest.toml`
⌅ [214eeab7] fzf_jll v0.29.0+0 (<v0.30.0+0): JLFzf
But I don’t really know what it means…
t-bltg
October 7, 2022, 7:04pm
8
Weird, GR should update itself to 0.69.4. I can tag a new Plots patch if needed.
Matteo
October 7, 2022, 7:12pm
9
I’m open to different solutions. Though It would be nice to begin able to use the package Plots… The strange thing is that it was working before and then for some reason it started giving me that error. I also tried to uninstall Julia and Atom and install them again. But nothing seems to work.
t-bltg
October 7, 2022, 7:23pm
10
After Pkg.update(), can you show again pkg> status -m Plots GR ?
You can try so set the environment variable JULIA_PKG_SERVER to force julia to use the github registry.
$ JULIA_PKG_SERVER='' julia
julia> ]
pkg> update
Matteo
October 7, 2022, 7:34pm
11
I did
Pkg.update()
and then
t-bltg:
status -m Plots GR
which gives me:
(jl_b4CrkG) pkg> status -m Plots GR
Status `/private/var/folders/zw/gq5r1ghj2jb57rmp8k58cz3c0000gn/T/jl_b4CrkG/Manifest.toml`
[28b8d3ca] GR v0.69.4
[91a5bcdd] Plots v1.35.2
But doing
$ JULIA_PKG_SERVER='' julia
julia> ]
pkg> update
gives me a syntax error. Do I have to run that in Julia in the REPL?
t-bltg
October 7, 2022, 7:35pm
12
This is what I wanted to see:
[28b8d3ca] GR v0.69.4
[91a5bcdd] Plots v1.35.2
Now type julia> using Plots, it should work.
Matteo
October 7, 2022, 7:37pm
13
Unfortunately it doesn’t. Same error as before…
t-bltg
October 7, 2022, 7:38pm
14
Can you delete ~/.julia/compiled and try again ?
t-bltg
October 7, 2022, 7:47pm
16
Unfortunately, the error message above is not helpful.using Pkg; Pkg.precompile() show the same error ?
Matteo
October 7, 2022, 7:48pm
17
yes it gives:
julia> using Pkg; Pkg.precompile()
Precompiling project...
✗ GR_jll
✗ Plots
0 dependencies successfully precompiled in 12 seconds. 132 already precompiled.
ERROR: The following 1 direct dependency failed to precompile:
Plots [91a5bcdd-55d7-5caf-9e0b-520d859cae80]
Failed to precompile Plots [91a5bcdd-55d7-5caf-9e0b-520d859cae80] to /Users/matteomassaro/.julia/compiled/v1.8/Plots/jl_MeTmZV.
ERROR: LoadError: InitError: UndefVarError: GR_jll not defined
Stacktrace:
[1] __init__()
@ GR.GRPreferences ~/.julia/packages/GR/eEMaG/src/preferences.jl:40
[2] _include_from_serialized(pkg::Base.PkgId, path::String, depmods::Vector{Any})
@ Base ./loading.jl:831
[3] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt64)
@ Base ./loading.jl:1039
[4] _require(pkg::Base.PkgId)
@ Base ./loading.jl:1315
[5] _require_prelocked(uuidkey::Base.PkgId)
@ Base ./loading.jl:1200
[6] macro expansion
@ ./loading.jl:1180 [inlined]
[7] macro expansion
@ ./lock.jl:223 [inlined]
[8] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[9] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[10] include(x::String)
@ Plots ~/.julia/packages/Plots/CUQan/src/Plots.jl:1
[11] top-level scope
@ ~/.julia/packages/Plots/CUQan/src/Plots.jl:201
[12] include
@ ./Base.jl:419 [inlined]
[13] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt64}}, source::Nothing)
@ Base ./loading.jl:1554
[14] top-level scope
@ stdin:1
during initialization of module GRPreferences
in expression starting at /Users/matteomassaro/.julia/packages/Plots/CUQan/src/backends/gr.jl:3
in expression starting at /Users/matteomassaro/.julia/packages/Plots/CUQan/src/Plots.jl:1
in expression starting at stdin:1
Stacktrace:
[1] pkgerror(msg::String)
@ Pkg.Types /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/Types.jl:67
[2] precompile(ctx::Pkg.Types.Context, pkgs::Vector{String}; internal_call::Bool, strict::Bool, warn_loaded::Bool, already_instantiated::Bool, kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Pkg.API /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1432
[3] precompile
@ /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1063 [inlined]
[4] #precompile#225
@ /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1062 [inlined]
[5] precompile (repeats 2 times)
@ /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1062 [inlined]
[6] top-level scope
@ none:1
t-bltg
October 7, 2022, 7:55pm
18
Can you restart julia, then type:
julia> ENV["JULIA_DEBUG"] = "GR";
julia> using Pkg; Pkg.precompile()
You should see the debug message as in Cannot Precompile Plots.jl due to GR - #7 by t-bltg .
How did you install Julia? One thing you could try is ignoring your old julia configuration and package files and trying again. You could do this by starting your Julia REPL like this
JULIA_DEPOT_PATH="$HOME/tmp/.julia" julia
(assuming that the $HOME/tmp/.julia directory is not currently used for anything else)
Then try a fresh install of Plots.
Matteo
October 7, 2022, 8:01pm
20
This :
gives me as output:
julia> ENV["JULIA_DEBUG"] = "GR";
julia> using Pkg; Pkg.precompile()
Precompiling project...
✗ GR_jll
✓ Atom
✗ Plots
17 dependencies successfully precompiled in 64 seconds. 150 already precompiled.
1 dependency precompiled but a different version is currently loaded. Restart julia to access the new version
ERROR: The following 1 direct dependency failed to precompile:
Plots [91a5bcdd-55d7-5caf-9e0b-520d859cae80]
Failed to precompile Plots [91a5bcdd-55d7-5caf-9e0b-520d859cae80] to /Users/matteomassaro/.julia/compiled/v1.8/Plots/jl_vsOjN9.
ERROR: LoadError: InitError: UndefVarError: GR_jll not defined
Stacktrace:
[1] __init__()
@ GR.GRPreferences ~/.julia/packages/GR/Wz6ek/src/preferences.jl:40
[2] _include_from_serialized(pkg::Base.PkgId, path::String, depmods::Vector{Any})
@ Base ./loading.jl:831
[3] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt64)
@ Base ./loading.jl:1039
[4] _require(pkg::Base.PkgId)
@ Base ./loading.jl:1315
[5] _require_prelocked(uuidkey::Base.PkgId)
@ Base ./loading.jl:1200
[6] macro expansion
@ ./loading.jl:1180 [inlined]
[7] macro expansion
@ ./lock.jl:223 [inlined]
[8] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[9] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[10] include(x::String)
@ Plots ~/.julia/packages/Plots/CUQan/src/Plots.jl:1
[11] top-level scope
@ ~/.julia/packages/Plots/CUQan/src/Plots.jl:201
[12] include
@ ./Base.jl:419 [inlined]
[13] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt64}}, source::Nothing)
@ Base ./loading.jl:1554
[14] top-level scope
@ stdin:1
during initialization of module GRPreferences
in expression starting at /Users/matteomassaro/.julia/packages/Plots/CUQan/src/backends/gr.jl:3
in expression starting at /Users/matteomassaro/.julia/packages/Plots/CUQan/src/Plots.jl:1
in expression starting at stdin:1
Stacktrace:
[1] pkgerror(msg::String)
@ Pkg.Types /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/Types.jl:67
[2] precompile(ctx::Pkg.Types.Context, pkgs::Vector{String}; internal_call::Bool, strict::Bool, warn_loaded::Bool, already_instantiated::Bool, kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Pkg.API /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1432
[3] precompile
@ /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1063 [inlined]
[4] #precompile#225
@ /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1062 [inlined]
[5] precompile (repeats 2 times)
@ /Applications/Julia-1.8.app/Contents/Resources/julia/share/julia/stdlib/v1.8/Pkg/src/API.jl:1062 [inlined]
[6] top-level scope
@ none:1