ERROR: Package Gridap errored during testing #859
Comments
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You seem to be running a very old version of Gridap. Also, your environment seems to be extremely cluttered, which is probably the cause it is not updating to the newest version of Gridap. You should delete all the non-maintained packages which are probably the ones holding back the updates. Or better still, test Gridap on a clean environment. |
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ian@ian-HP-Convertible-x360-11-ab1XX:~/GridapTest2$ wget https://julialang-s3.julialang.org/bin/linux/x64/1.8/julia-1.8.5-linux-x86_64.tar.gz julia-1.8.5-linux-x 100%[===================>] 124.81M 17.9MB/s in 7.0s 2023-01-20 13:03:08 (17.7 MB/s) - ‘julia-1.8.5-linux-x86_64.tar.gz’ saved [130873886/130873886] ian@ian-HP-Convertible-x360-11-ab1XX: (@v1.8) pkg> add Gridap (@v1.8) pkg> test Gridap Fatal error: (@v1.8) pkg> |
ian@ian-HP-Convertible-x360-11-ab1XX:~$ julia
_
_ _ ()_ | Documentation: https://docs.julialang.org
() | () () |
_ _ | | __ _ | Type "?" for help, "]?" for Pkg help.
| | | | | | |/ ` | |
| | || | | | (| | | Version 1.8.4 (2022-12-23)
/ |_'|||_'_| | Official https://julialang.org/ release
|__/ |
(@v1.8) pkg> add Gridap
┌ Warning: could not download https://pkg.julialang.org/registries
│ exception = HTTP/2 502 while requesting https://pkg.julialang.org/registries
└ @ Pkg.Registry /cache/build/default-aws-shared0-3/julialang/julia-release-1-dot-8/usr/share/julia/stdlib/v1.8/Pkg/src/Registry/Registry.jl:68
Updating registry at
~/.julia/registries/General.tomlResolving package versions...
No Changes to
~/.julia/environments/v1.8/Project.tomlNo Changes to
~/.julia/environments/v1.8/Manifest.toml(@v1.8) pkg> test Gridapp
ERROR: The following package names could not be resolved:
Suggestions: Gridap GeneralizedGenerated
(@v1.8) pkg> test Gridap
Testing Gridap
Status
/tmp/jl_mBQcdn/Project.toml⌅ [1520ce14] AbstractTrees v0.3.4
[fbb218c0] BSON v0.3.6
⌃ [8e7c35d0] BlockArrays v0.12.12
[861a8166] Combinatorics v1.0.2
⌅ [ffbed154] DocStringExtensions v0.8.6
⌅ [442a2c76] FastGaussQuadrature v0.4.5
[5789e2e9] FileIO v1.16.0
⌅ [1a297f60] FillArrays v0.9.7
[f6369f11] ForwardDiff v0.10.34
⌃ [56d4f2e9] Gridap v0.16.5
⌃ [033835bb] JLD2 v0.4.3
[682c06a0] JSON v0.21.3
⌃ [d3d80556] LineSearches v7.1.1
[2774e3e8] NLsolve v4.5.1
[b8a86587] NearestNeighbors v0.4.13
[1fd47b50] QuadGK v2.6.0
[a0a7dd2c] SparseMatricesCSR v0.6.6
⌃ [90137ffa] StaticArrays v0.12.5
⌃ [64499a7a] WriteVTK v1.9.2
[37e2e46d] LinearAlgebra
@stdlib/LinearAlgebra[9a3f8284] Random
@stdlib/Random[2f01184e] SparseArrays
@stdlib/SparseArrays[8dfed614] Test
@stdlib/TestStatus
/tmp/jl_mBQcdn/Manifest.toml⌅ [1520ce14] AbstractTrees v0.3.4
[30b0a656] ArrayInterfaceCore v0.1.27
⌅ [4c555306] ArrayLayouts v0.4.7
[fbb218c0] BSON v0.3.6
[9e28174c] BinDeps v1.0.2
[b99e7846] BinaryProvider v0.5.10
⌃ [8e7c35d0] BlockArrays v0.12.12
[944b1d66] CodecZlib v0.7.0
[861a8166] Combinatorics v1.0.2
[bbf7d656] CommonSubexpressions v0.3.0
⌅ [34da2185] Compat v2.2.1
[187b0558] ConstructionBase v1.4.1
⌃ [864edb3b] DataStructures v0.17.20
[163ba53b] DiffResults v1.1.0
⌃ [b552c78f] DiffRules v1.5.0
[b4f34e82] Distances v0.10.7
⌅ [ffbed154] DocStringExtensions v0.8.6
⌅ [442a2c76] FastGaussQuadrature v0.4.5
[5789e2e9] FileIO v1.16.0
⌅ [1a297f60] FillArrays v0.9.7
[6a86dc24] FiniteDiff v2.17.0
[f6369f11] ForwardDiff v0.10.34
⌃ [56d4f2e9] Gridap v0.16.5
[92d709cd] IrrationalConstants v0.1.1
⌃ [033835bb] JLD2 v0.4.3
[692b3bcd] JLLWrappers v1.4.1
[682c06a0] JSON v0.21.3
[9c8b4983] LightXML v0.9.0
⌃ [d3d80556] LineSearches v7.1.1
⌃ [2ab3a3ac] LogExpFunctions v0.3.0
[1914dd2f] MacroTools v0.5.10
[d41bc354] NLSolversBase v7.8.3
[2774e3e8] NLsolve v4.5.1
⌅ [77ba4419] NaNMath v0.3.7
[b8a86587] NearestNeighbors v0.4.13
[bac558e1] OrderedCollections v1.4.1
[d96e819e] Parameters v0.12.3
[69de0a69] Parsers v2.5.2
[21216c6a] Preferences v1.3.0
[1fd47b50] QuadGK v2.6.0
⌃ [189a3867] Reexport v0.2.0
[ae029012] Requires v1.3.0
⌃ [efcf1570] Setfield v0.8.2
[66db9d55] SnoopPrecompile v1.0.1
[a0a7dd2c] SparseMatricesCSR v0.6.6
⌅ [276daf66] SpecialFunctions v0.8.0
⌃ [90137ffa] StaticArrays v0.12.5
[1e83bf80] StaticArraysCore v1.4.0
[82ae8749] StatsAPI v1.5.0
[3bb67fe8] TranscodingStreams v0.9.10
[30578b45] URIParser v0.4.1
[3a884ed6] UnPack v1.0.2
⌃ [64499a7a] WriteVTK v1.9.2
[94ce4f54] Libiconv_jll v1.16.1+2
[02c8fc9c] XML2_jll v2.10.3+0
[0dad84c5] ArgTools v1.1.1
@stdlib/ArgTools[56f22d72] Artifacts
@stdlib/Artifacts[2a0f44e3] Base64
@stdlib/Base64[ade2ca70] Dates
@stdlib/Dates[8bb1440f] DelimitedFiles
@stdlib/DelimitedFiles[8ba89e20] Distributed
@stdlib/Distributed[f43a241f] Downloads v1.6.0
@stdlib/Downloads[7b1f6079] FileWatching
@stdlib/FileWatching[9fa8497b] Future
@stdlib/Future[b77e0a4c] InteractiveUtils
@stdlib/InteractiveUtils[b27032c2] LibCURL v0.6.3
@stdlib/LibCURL[76f85450] LibGit2
@stdlib/LibGit2[8f399da3] Libdl
@stdlib/Libdl[37e2e46d] LinearAlgebra
@stdlib/LinearAlgebra[56ddb016] Logging
@stdlib/Logging[d6f4376e] Markdown
@stdlib/Markdown[a63ad114] Mmap
@stdlib/Mmap[ca575930] NetworkOptions v1.2.0
@stdlib/NetworkOptions[44cfe95a] Pkg v1.8.0
@stdlib/Pkg[de0858da] Printf
@stdlib/Printf[3fa0cd96] REPL
@stdlib/REPL[9a3f8284] Random
@stdlib/Random[ea8e919c] SHA v0.7.0
@stdlib/SHA[9e88b42a] Serialization
@stdlib/Serialization[1a1011a3] SharedArrays
@stdlib/SharedArrays[6462fe0b] Sockets
@stdlib/Sockets[2f01184e] SparseArrays
@stdlib/SparseArrays[10745b16] Statistics
@stdlib/Statistics[4607b0f0] SuiteSparse
@stdlib/SuiteSparse[fa267f1f] TOML v1.0.0
@stdlib/TOML[a4e569a6] Tar v1.10.1
@stdlib/Tar[8dfed614] Test
@stdlib/Test[cf7118a7] UUIDs
@stdlib/UUIDs[4ec0a83e] Unicode
@stdlib/Unicode[e66e0078] CompilerSupportLibraries_jll v1.0.1+0
@stdlib/CompilerSupportLibraries_jll[deac9b47] LibCURL_jll v7.84.0+0
@stdlib/LibCURL_jll[29816b5a] LibSSH2_jll v1.10.2+0
@stdlib/LibSSH2_jll[c8ffd9c3] MbedTLS_jll v2.28.0+0
@stdlib/MbedTLS_jll[14a3606d] MozillaCACerts_jll v2022.2.1
@stdlib/MozillaCACerts_jll[4536629a] OpenBLAS_jll v0.3.20+0
@stdlib/OpenBLAS_jll[83775a58] Zlib_jll v1.2.12+3
@stdlib/Zlib_jll[8e850b90] libblastrampoline_jll v5.1.1+0
@stdlib/libblastrampoline_jll[8e850ede] nghttp2_jll v1.48.0+0
@stdlib/nghttp2_jll[3f19e933] p7zip_jll v17.4.0+0
@stdlib/p7zip_jllInfo Packages marked with ⌃ and ⌅ have new versions available, but those with ⌅ are restricted by compatibility constraints from upgrading.
Testing Running tests...
Test Summary: | Pass Total Time
Helpers | 8 8 13.0s
13.615841 seconds (12.95 M allocations: 963.093 MiB, 10.23% gc time, 44.29% compilation time: 79% of which was recompilation)
Error encountered while save FileIO.File{FileIO.DataFormat{:JLD2}, String}("/tmp/jl_5TgH8K/foo.jld2").
Fatal error:
JLD2: Error During Test at /home/ian/.julia/packages/Gridap/J87be/test/IoTests/runtests.jl:11
Got exception outside of a @test
LoadError: type DataType has no field mutable
Stacktrace:
[1] getproperty
@ ./Base.jl:33 [inlined]
[2] hasfielddata(T::Any, encounteredtypes::Vector{DataType})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/data/writing_datatypes.jl:24
[3] hasdata(T::DataType, encounteredtypes::Vector{DataType})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/data/writing_datatypes.jl:32
[4] hasdata
@ ~/.julia/packages/JLD2/qncOK/src/data/writing_datatypes.jl:30 [inlined]
[5] odr(#unused#::Type{Main.GridapRunTests.IoTests.JLD2Tests.Foo})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/data/writing_datatypes.jl:563
[6] objodr
@ ~/.julia/packages/JLD2/qncOK/src/data/writing_datatypes.jl:109 [inlined]
[7] write_dataset
@ ~/.julia/packages/JLD2/qncOK/src/datasets.jl:541 [inlined]
[8] write(g::JLD2.Group{JLD2.JLDFile{JLD2.MmapIO}}, name::String, obj::Main.GridapRunTests.IoTests.JLD2Tests.Foo, wsession::JLD2.JLDWriteSession{Dict{UInt64, JLD2.RelOffset}})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/groups.jl:119
[9] write(f::JLD2.JLDFile{JLD2.MmapIO}, name::String, obj::Main.GridapRunTests.IoTests.JLD2Tests.Foo, wsession::JLD2.JLDWriteSession{Dict{UInt64, JLD2.RelOffset}})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/JLD2.jl:347
[10] (::JLD2.var"#62#63"{String, Main.GridapRunTests.IoTests.JLD2Tests.Foo, Tuple{}})(file::JLD2.JLDFile{JLD2.MmapIO})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/fileio.jl:23
[11] jldopen(::JLD2.var"#62#63"{String, Main.GridapRunTests.IoTests.JLD2Tests.Foo, Tuple{}}, ::String, ::Vararg{String}; kws::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/loadsave.jl:4
[12] jldopen(::Function, ::String, ::String)
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/loadsave.jl:1
[13] save(::FileIO.File{FileIO.DataFormat{:JLD2}, String}, ::String, ::Main.GridapRunTests.IoTests.JLD2Tests.Foo; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/fileio.jl:21
[14] save(::FileIO.File{FileIO.DataFormat{:JLD2}, String}, ::String, ::Main.GridapRunTests.IoTests.JLD2Tests.Foo)
@ JLD2 ~/.julia/packages/JLD2/qncOK/src/fileio.jl:17
[15] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[16] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[17] action(::Symbol, ::Vector{Union{Base.PkgId, Module}}, ::FileIO.Formatted, ::String, ::Vararg{Any}; options::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ FileIO ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:219
[18] action(::Symbol, ::Vector{Union{Base.PkgId, Module}}, ::FileIO.Formatted, ::String, ::Main.GridapRunTests.IoTests.JLD2Tests.Foo)
@ FileIO ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:196
[19] action(::Symbol, ::Vector{Union{Base.PkgId, Module}}, ::Symbol, ::String, ::String, ::Vararg{Any}; options::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ FileIO ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:185
[20] action
@ ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:185 [inlined]
[21] #save#22
@ ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:141 [inlined]
[22] save
@ ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:137 [inlined]
[23] to_jld2_file (repeats 2 times)
@ ~/.julia/packages/Gridap/J87be/src/Io/JLD2.jl:35 [inlined]
[24] top-level scope
@ ~/.julia/packages/Gridap/J87be/test/IoTests/JLD2Tests.jl:18
Stacktrace:
[1] handle_error(e::ErrorException, q::Base.PkgId, bt::Vector{Union{Ptr{Nothing}, Base.InterpreterIP}})
@ FileIO ~/.julia/packages/FileIO/aP78L/src/error_handling.jl:61
[2] handle_exceptions(exceptions::Vector{Tuple{Any, Union{Base.PkgId, Module}, Vector}}, action::String)
@ FileIO ~/.julia/packages/FileIO/aP78L/src/error_handling.jl:56
[3] action(::Symbol, ::Vector{Union{Base.PkgId, Module}}, ::FileIO.Formatted, ::String, ::Vararg{Any}; options::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ FileIO ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:228
[4] action(::Symbol, ::Vector{Union{Base.PkgId, Module}}, ::FileIO.Formatted, ::String, ::Main.GridapRunTests.IoTests.JLD2Tests.Foo)
@ FileIO ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:196
[5] action(::Symbol, ::Vector{Union{Base.PkgId, Module}}, ::Symbol, ::String, ::String, ::Vararg{Any}; options::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ FileIO ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:185
[6] action
@ ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:185 [inlined]
[7] #save#22
@ ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:141 [inlined]
[8] save
@ ~/.julia/packages/FileIO/aP78L/src/loadsave.jl:137 [inlined]
[9] to_jld2_file (repeats 2 times)
@ ~/.julia/packages/Gridap/J87be/src/Io/JLD2.jl:35 [inlined]
[10] top-level scope
@ ~/.julia/packages/Gridap/J87be/test/IoTests/JLD2Tests.jl:18
[11] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[12] include(x::String)
@ Main.GridapRunTests.IoTests ~/.julia/packages/Gridap/J87be/test/IoTests/runtests.jl:1
[13] macro expansion
@ ~/.julia/packages/Gridap/J87be/test/IoTests/runtests.jl:11 [inlined]
[14] macro expansion
@ /snap/julia/70/share/julia/stdlib/v1.8/Test/src/Test.jl:1363 [inlined]
[15] top-level scope
@ ~/.julia/packages/Gridap/J87be/test/IoTests/runtests.jl:11
[16] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[17] include
@ ~/.julia/packages/Gridap/J87be/test/runtests.jl:1 [inlined]
[18] macro expansion
@ ~/.julia/packages/Gridap/J87be/test/runtests.jl:7 [inlined]
[19] macro expansion
@ /snap/julia/70/share/julia/stdlib/v1.8/Test/src/Test.jl:1363 [inlined]
[20] macro expansion
@ ~/.julia/packages/Gridap/J87be/test/runtests.jl:7 [inlined]
[21] top-level scope
@ ./timing.jl:262 [inlined]
[22] top-level scope
@ ~/.julia/packages/Gridap/J87be/test/runtests.jl:0
[23] include(fname::String)
@ Base.MainInclude ./client.jl:476
[24] top-level scope
@ none:6
[25] eval
@ ./boot.jl:368 [inlined]
[26] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:276
[27] _start()
@ Base ./client.jl:522
in expression starting at /home/ian/.julia/packages/Gridap/J87be/test/IoTests/JLD2Tests.jl:1
Test Summary: | Pass Error Total Time
Io | 7 1 8 15.2s
Interfaces | None 0.0s
Json | 4 4 2.8s
Bson | 3 3 1.0s
JLD2 | 1 1 11.3s
ERROR: LoadError: Some tests did not pass: 7 passed, 0 failed, 1 errored, 0 broken.
in expression starting at /home/ian/.julia/packages/Gridap/J87be/test/runtests.jl:1
ERROR: Package Gridap errored during testing
(@v1.8) pkg>
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