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I trigger this specifically when trying to use VegaLite, which depends on OpenCV. I was originally using 1.10.0, but am now using 1.10.4 – I get the same errors there, that I'm reporting here.
I'm executing this in a Linux Dev Container on an M1 Macbook. Specifically, the base imagd I'm using is from Jupyter's Docker Stacks: quay.io/jupyer/datascience-notebook:2024-08-05 (previously it was the 2024-01-29 tag).
The main error I'm getting is (it repeats multiple times in the "Full Error" section below because I triggered it by attempting to precompile OpenCV. I'm unable to precompile CxxWrap OpenCV OpenCV_jll – which all trigger this error.
Not sure if this is helpful to know – but, I'm typically in a conda environment when running Julia, though Julia was installed by downloading the binary (vs using juliaup). Deactivating conda entirely doesn't appear to fix anything, though.
ERROR: LoadError: InitError: could not load library "/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so"
/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so: undefined symbol: small_typeof, version JL_LIBJULIA_1.10
Full Error
pkg> precompile OpenCV
Precompiling OpenCV
Info Given OpenCV was explicitly requested, output will be shown live
ERROR: LoadError: InitError: could not load library "/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so"/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so: undefined symbol: small_typeof, version JL_LIBJULIA_1.10
Stacktrace:
[1] dlopen(s::String, flags::UInt32; throw_error::Bool)
@ Base.Libc.Libdl ./libdl.jl:117
[2] dlopen(s::String, flags::UInt32)
@ Base.Libc.Libdl ./libdl.jl:116
[3] macro expansion
@ /opt/julia/packages/JLLWrappers/pG9bm/src/products/library_generators.jl:63 [inlined]
[4] __init__()
@ libcxxwrap_julia_jll /opt/julia/packages/libcxxwrap_julia_jll/zmDeI/src/wrappers/aarch64-linux-gnu-cxx11-julia_version+1.10.0.jl:9
[5] run_module_init(mod::Module, i::Int64)
@ Base ./loading.jl:1134
[6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
@ Base ./loading.jl:1122
[7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::String, depmods::Vector{Any})
@ Base ./loading.jl:1067
[8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128)
@ Base ./loading.jl:1581
[9] _require(pkg::Base.PkgId, env::String)
@ Base ./loading.jl:1938
[10] __require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1812
[11] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[12] invoke_in_world
@ ./essentials.jl:923 [inlined]
[13] _require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1803
[14] macro expansion
@ ./loading.jl:1790 [inlined]
[15] macro expansion
@ ./lock.jl:267 [inlined]
[16] __require(into::Module, mod::Symbol)
@ Base ./loading.jl:1753
[17] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[18] invoke_in_world
@ ./essentials.jl:923 [inlined]
[19] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1746
[20] include(mod::Module, _path::String)
@ Base ./Base.jl:495
[21] top-level scope
@ /opt/julia/packages/JLLWrappers/pG9bm/src/toplevel_generators.jl:192
[22] include
@ ./Base.jl:495 [inlined]
[23] 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, UInt128}}, source::String)
@ Base ./loading.jl:2222
[24] top-level scope
@ stdin:3
during initialization of module libcxxwrap_julia_jll
in expression starting at /opt/julia/packages/OpenCV_jll/Hfsh1/src/wrappers/aarch64-linux-gnu-cxx11-julia_version+1.10.0.jl:6
in expression starting at /opt/julia/packages/OpenCV_jll/Hfsh1/src/OpenCV_jll.jl:2
in expression starting at stdin:3
ERROR: LoadError: Failed to precompile OpenCV_jll [33b9d88c-85f9-5d73-bd91-4e2b95a9aa0b] to "/opt/julia/compiled/v1.10/OpenCV_jll/jl_IbYvhS".
Stacktrace:
[1] error(s::String)
@ Base ./error.jl:35
[2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool)
@ Base ./loading.jl:2468
[3] compilecache
@ ./loading.jl:2340 [inlined]
[4] (::Base.var"#968#969"{Base.PkgId})()
@ Base ./loading.jl:1974
[5] mkpidlock(f::Base.var"#968#969"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})
@ FileWatching.Pidfile /opt/julia-1.10.4/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:93
[6] #mkpidlock#6
@ /opt/julia-1.10.4/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:88 [inlined]
[7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})
@ FileWatching.Pidfile /opt/julia-1.10.4/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:111
[8] #invokelatest#2
@ ./essentials.jl:894 [inlined]
[9] invokelatest
@ ./essentials.jl:889 [inlined]
[10] maybe_cachefile_lock(f::Base.var"#968#969"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)
@ Base ./loading.jl:2983
[11] maybe_cachefile_lock
@ ./loading.jl:2980 [inlined]
[12] _require(pkg::Base.PkgId, env::String)
@ Base ./loading.jl:1970
[13] __require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1812
[14] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[15] invoke_in_world
@ ./essentials.jl:923 [inlined]
[16] _require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1803
[17] macro expansion
@ ./loading.jl:1790 [inlined]
[18] macro expansion
@ ./lock.jl:267 [inlined]
[19] __require(into::Module, mod::Symbol)
@ Base ./loading.jl:1753
[20] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[21] invoke_in_world
@ ./essentials.jl:923 [inlined]
[22] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1746
[23] include
@ ./Base.jl:495 [inlined]
[24] 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, UInt128}}, source::Nothing)
@ Base ./loading.jl:2222
[25] top-level scope
@ stdin:3
in expression starting at /opt/julia/packages/OpenCV/2FyNG/src/OpenCV.jl:1
in expression starting at stdin:3
✗ CxxWrap
✗ OpenCV_jll
✗ OpenCV
0 dependencies successfully precompiled in7 seconds. 43 already precompiled.
ERROR: The following 3 direct dependencies failed to precompile:
OpenCV [f878e3a2-a245-4720-8660-60795d644f2a]
Failed to precompile OpenCV [f878e3a2-a245-4720-8660-60795d644f2a] to "/opt/julia/compiled/v1.10/OpenCV/jl_WJ9BZK".
ERROR: LoadError: InitError: could not load library "/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so"/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so: undefined symbol: small_typeof, version JL_LIBJULIA_1.10
Stacktrace:
[1] dlopen(s::String, flags::UInt32; throw_error::Bool)
@ Base.Libc.Libdl ./libdl.jl:117
[2] dlopen(s::String, flags::UInt32)
@ Base.Libc.Libdl ./libdl.jl:116
[3] macro expansion
@ /opt/julia/packages/JLLWrappers/pG9bm/src/products/library_generators.jl:63 [inlined]
[4] __init__()
@ libcxxwrap_julia_jll /opt/julia/packages/libcxxwrap_julia_jll/zmDeI/src/wrappers/aarch64-linux-gnu-cxx11-julia_version+1.10.0.jl:9
[5] run_module_init(mod::Module, i::Int64)
@ Base ./loading.jl:1134
[6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
@ Base ./loading.jl:1122
[7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::String, depmods::Vector{Any})
@ Base ./loading.jl:1067
[8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128)
@ Base ./loading.jl:1581
[9] _require(pkg::Base.PkgId, env::String)
@ Base ./loading.jl:1938
[10] __require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1812
[11] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[12] invoke_in_world
@ ./essentials.jl:923 [inlined]
[13] _require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1803
[14] macro expansion
@ ./loading.jl:1790 [inlined]
[15] macro expansion
@ ./lock.jl:267 [inlined]
[16] __require(into::Module, mod::Symbol)
@ Base ./loading.jl:1753
[17] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[18] invoke_in_world
@ ./essentials.jl:923 [inlined]
[19] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1746
[20] include(mod::Module, _path::String)
@ Base ./Base.jl:495
[21] top-level scope
@ /opt/julia/packages/JLLWrappers/pG9bm/src/toplevel_generators.jl:192
[22] include
@ ./Base.jl:495 [inlined]
[23] 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, UInt128}}, source::String)
@ Base ./loading.jl:2222
[24] top-level scope
@ stdin:3
during initialization of module libcxxwrap_julia_jll
in expression starting at /opt/julia/packages/OpenCV_jll/Hfsh1/src/wrappers/aarch64-linux-gnu-cxx11-julia_version+1.10.0.jl:6
in expression starting at /opt/julia/packages/OpenCV_jll/Hfsh1/src/OpenCV_jll.jl:2
in expression starting at stdin:3
ERROR: LoadError: Failed to precompile OpenCV_jll [33b9d88c-85f9-5d73-bd91-4e2b95a9aa0b] to "/opt/julia/compiled/v1.10/OpenCV_jll/jl_IbYvhS".
Stacktrace:
[1] error(s::String)
@ Base ./error.jl:35
[2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool)
@ Base ./loading.jl:2468
[3] compilecache
@ ./loading.jl:2340 [inlined]
[4] (::Base.var"#968#969"{Base.PkgId})()
@ Base ./loading.jl:1974
[5] mkpidlock(f::Base.var"#968#969"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})
@ FileWatching.Pidfile /opt/julia-1.10.4/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:93
[6] #mkpidlock#6
@ /opt/julia-1.10.4/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:88 [inlined]
[7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})
@ FileWatching.Pidfile /opt/julia-1.10.4/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:111
[8] #invokelatest#2
@ ./essentials.jl:894 [inlined]
[9] invokelatest
@ ./essentials.jl:889 [inlined]
[10] maybe_cachefile_lock(f::Base.var"#968#969"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)
@ Base ./loading.jl:2983
[11] maybe_cachefile_lock
@ ./loading.jl:2980 [inlined]
[12] _require(pkg::Base.PkgId, env::String)
@ Base ./loading.jl:1970
[13] __require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1812
[14] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[15] invoke_in_world
@ ./essentials.jl:923 [inlined]
[16] _require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1803
[17] macro expansion
@ ./loading.jl:1790 [inlined]
[18] macro expansion
@ ./lock.jl:267 [inlined]
[19] __require(into::Module, mod::Symbol)
@ Base ./loading.jl:1753
[20] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[21] invoke_in_world
@ ./essentials.jl:923 [inlined]
[22] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1746
[23] include
@ ./Base.jl:495 [inlined]
[24] 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, UInt128}}, source::Nothing)
@ Base ./loading.jl:2222
[25] top-level scope
@ stdin:3
in expression starting at /opt/julia/packages/OpenCV/2FyNG/src/OpenCV.jl:1
in expression starting at stdin:3
OpenCV_jll [33b9d88c-85f9-5d73-bd91-4e2b95a9aa0b]
Failed to precompile OpenCV_jll [33b9d88c-85f9-5d73-bd91-4e2b95a9aa0b] to "/opt/julia/compiled/v1.10/OpenCV_jll/jl_cAB6m6".
ERROR: LoadError: InitError: could not load library "/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so"/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so: undefined symbol: small_typeof, version JL_LIBJULIA_1.10
Stacktrace:
[1] dlopen(s::String, flags::UInt32; throw_error::Bool)
@ Base.Libc.Libdl ./libdl.jl:117
[2] dlopen(s::String, flags::UInt32)
@ Base.Libc.Libdl ./libdl.jl:116
[3] macro expansion
@ /opt/julia/packages/JLLWrappers/pG9bm/src/products/library_generators.jl:63 [inlined]
[4] __init__()
@ libcxxwrap_julia_jll /opt/julia/packages/libcxxwrap_julia_jll/zmDeI/src/wrappers/aarch64-linux-gnu-cxx11-julia_version+1.10.0.jl:9
[5] run_module_init(mod::Module, i::Int64)
@ Base ./loading.jl:1134
[6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
@ Base ./loading.jl:1122
[7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::String, depmods::Vector{Any})
@ Base ./loading.jl:1067
[8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128)
@ Base ./loading.jl:1581
[9] _require(pkg::Base.PkgId, env::String)
@ Base ./loading.jl:1938
[10] __require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1812
[11] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[12] invoke_in_world
@ ./essentials.jl:923 [inlined]
[13] _require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1803
[14] macro expansion
@ ./loading.jl:1790 [inlined]
[15] macro expansion
@ ./lock.jl:267 [inlined]
[16] __require(into::Module, mod::Symbol)
@ Base ./loading.jl:1753
[17] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[18] invoke_in_world
@ ./essentials.jl:923 [inlined]
[19] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1746
[20] include(mod::Module, _path::String)
@ Base ./Base.jl:495
[21] top-level scope
@ /opt/julia/packages/JLLWrappers/pG9bm/src/toplevel_generators.jl:192
[22] include
@ ./Base.jl:495 [inlined]
[23] 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, UInt128}}, source::Nothing)
@ Base ./loading.jl:2222
[24] top-level scope
@ stdin:3
during initialization of module libcxxwrap_julia_jll
in expression starting at /opt/julia/packages/OpenCV_jll/Hfsh1/src/wrappers/aarch64-linux-gnu-cxx11-julia_version+1.10.0.jl:6
in expression starting at /opt/julia/packages/OpenCV_jll/Hfsh1/src/OpenCV_jll.jl:2
in expression starting at stdin:3
CxxWrap [1f15a43c-97ca-5a2a-ae31-89f07a497df4]
Failed to precompile CxxWrap [1f15a43c-97ca-5a2a-ae31-89f07a497df4] to "/opt/julia/compiled/v1.10/CxxWrap/jl_Wsjmbg".
ERROR: LoadError: InitError: could not load library "/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so"/opt/julia/artifacts/fafe9ce52b0f6569c8d86fbb62e9d285ca9f044f/lib/libcxxwrap_julia.so: undefined symbol: small_typeof, version JL_LIBJULIA_1.10
Stacktrace:
[1] dlopen(s::String, flags::UInt32; throw_error::Bool)
@ Base.Libc.Libdl ./libdl.jl:117
[2] dlopen(s::String, flags::UInt32)
@ Base.Libc.Libdl ./libdl.jl:116
[3] macro expansion
@ /opt/julia/packages/JLLWrappers/pG9bm/src/products/library_generators.jl:63 [inlined]
[4] __init__()
@ libcxxwrap_julia_jll /opt/julia/packages/libcxxwrap_julia_jll/zmDeI/src/wrappers/aarch64-linux-gnu-cxx11-julia_version+1.10.0.jl:9
[5] run_module_init(mod::Module, i::Int64)
@ Base ./loading.jl:1134
[6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
@ Base ./loading.jl:1122
[7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::String, depmods::Vector{Any})
@ Base ./loading.jl:1067
[8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128)
@ Base ./loading.jl:1581
[9] _require(pkg::Base.PkgId, env::String)
@ Base ./loading.jl:1938
[10] __require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1812
[11] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[12] invoke_in_world
@ ./essentials.jl:923 [inlined]
[13] _require_prelocked(uuidkey::Base.PkgId, env::String)
@ Base ./loading.jl:1803
[14] macro expansion
@ ./loading.jl:1790 [inlined]
[15] macro expansion
@ ./lock.jl:267 [inlined]
[16] __require(into::Module, mod::Symbol)
@ Base ./loading.jl:1753
[17] #invoke_in_world#3
@ ./essentials.jl:926 [inlined]
[18] invoke_in_world
@ ./essentials.jl:923 [inlined]
[19] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1746
[20] include
@ ./Base.jl:495 [inlined]
[21] 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, UInt128}}, source::Nothing)
@ Base ./loading.jl:2222
[22] top-level scope
@ stdin:3
during initialization of module libcxxwrap_julia_jll
in expression starting at /opt/julia/packages/CxxWrap/aXNBY/src/CxxWrap.jl:1
in expression starting at stdin:3
versioninfo
julia>versioninfo()
Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-0410:41 UTC)
Build Info:
Official https://julialang.org/ release
Platform Info:
OS: Linux (aarch64-linux-gnu)
CPU:10× unknown
WORD_SIZE:64
LIBM: libopenlibm
LLVM: libLLVM-15.0.7 (ORCJIT, generic)
Threads:10 default, 0 interactive, 5 GC (on 10 virtual cores)
Environment:
JULIA_PROJECT =/project
JULIA_CONDAPKG_BACKEND = Current
JULIA_DEPOT_PATH =/opt/julia
JULIA_NUM_THREADS = auto
JULIA_PKGDIR =/opt/julia
This is an OpenCV bug, the fix is to rebuild OpenCV_jll, there are some pointers here if someone wants to take a stab: JuliaPackaging/Yggdrasil#8820 (comment)
I trigger this specifically when trying to use VegaLite, which depends on OpenCV. I was originally using
1.10.0
, but am now using1.10.4
– I get the same errors there, that I'm reporting here.I'm executing this in a Linux Dev Container on an M1 Macbook. Specifically, the base imagd I'm using is from Jupyter's Docker Stacks:
quay.io/jupyer/datascience-notebook:2024-08-05
(previously it was the2024-01-29
tag).The main error I'm getting is (it repeats multiple times in the "Full Error" section below because I triggered it by attempting to precompile OpenCV. I'm unable to precompile
CxxWrap OpenCV OpenCV_jll
– which all trigger this error.Not sure if this is helpful to know – but, I'm typically in a
conda
environment when running Julia, though Julia was installed by downloading the binary (vs usingjuliaup
). Deactivatingconda
entirely doesn't appear to fix anything, though.Full Error
versioninfo
/etc/os-release
I wasn't sure whether to report here on on
libcxxwrap-julia
. 😅The text was updated successfully, but these errors were encountered: