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1.6.0-DEV-22b5d93b2b.log
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Julia Version 1.6.0-DEV.1069
Commit 22b5d93b2b (2020-09-28 17:33 UTC)
Platform Info:
OS: Linux (x86_64-linux-gnu)
CPU: Intel(R) Xeon(R) Silver 4114 CPU @ 2.20GHz
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-10.0.1 (ORCJIT, skylake-avx512)
Environment:
JULIA_DEPOT_PATH = ::/usr/local/share/julia
JULIA_NUM_THREADS = 2
Resolving package versions...
Installed VersionParsing ─ v1.2.0
Installed ProgressMeter ── v1.4.0
Installed FEniCS ───────── v0.4.0
Installed Conda ────────── v1.4.1
Installed Parsers ──────── v1.0.10
Installed MacroTools ───── v0.5.5
Installed PyCall ───────── v1.92.0
Installed JSON ─────────── v0.21.1
Installed Requires ─────── v0.5.2
Updating `~/.julia/environments/v1.6/Project.toml`
[186dfeec] + FEniCS v0.4.0
Updating `~/.julia/environments/v1.6/Manifest.toml`
[8f4d0f93] + Conda v1.4.1
[186dfeec] + FEniCS v0.4.0
[682c06a0] + JSON v0.21.1
[1914dd2f] + MacroTools v0.5.5
[69de0a69] + Parsers v1.0.10
[92933f4c] + ProgressMeter v1.4.0
[438e738f] + PyCall v1.92.0
[ae029012] + Requires v0.5.2
[81def892] + VersionParsing v1.2.0
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8ba89e20] + Distributed
[b77e0a4c] + InteractiveUtils
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[de0858da] + Printf
[9a3f8284] + Random
[9e88b42a] + Serialization
[6462fe0b] + Sockets
[8dfed614] + Test
[4ec0a83e] + Unicode
Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/7a58bb32ce5d85f8bf7559aa7c2842f9aecf52fc/build.log`
Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/b4e471a2b1739dba687d22d3293aa16bc5f3925b/build.log`
Building FEniCS → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/89c969fc1f9f010772c642361e2699850899178a/build.log`
Testing FEniCS
Status `/tmp/jl_Nj0S1W/Project.toml`
[186dfeec] FEniCS v0.4.0
[1dea7af3] OrdinaryDiffEq v5.42.9
[92933f4c] ProgressMeter v1.4.0
[438e738f] PyCall v1.92.0
[ae029012] Requires v0.5.2
[8dfed614] Test
Status `/tmp/jl_Nj0S1W/Manifest.toml`
[79e6a3ab] Adapt v2.3.0
[ec485272] ArnoldiMethod v0.0.4
[4fba245c] ArrayInterface v2.13.3
[d360d2e6] ChainRulesCore v0.9.10
[bbf7d656] CommonSubexpressions v0.3.0
[34da2185] Compat v3.17.0
[e66e0078] CompilerSupportLibraries_jll v0.3.3+0
[8f4d0f93] Conda v1.4.1
[adafc99b] CpuId v0.2.2
[9a962f9c] DataAPI v1.3.0
[864edb3b] DataStructures v0.18.6
[e2d170a0] DataValueInterfaces v1.0.0
[2b5f629d] DiffEqBase v6.47.1
[163ba53b] DiffResults v1.0.2
[b552c78f] DiffRules v1.0.1
[b4f34e82] Distances v0.9.0
[ffbed154] DocStringExtensions v0.8.3
[d4d017d3] ExponentialUtilities v1.6.0
[186dfeec] FEniCS v0.4.0
[9aa1b823] FastClosures v0.3.2
[6a86dc24] FiniteDiff v2.7.0
[f6369f11] ForwardDiff v0.10.12
[069b7b12] FunctionWrappers v1.1.1
[01680d73] GenericSVD v0.3.0
[d25df0c9] Inflate v0.1.2
[42fd0dbc] IterativeSolvers v0.8.4
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.1
[2ee39098] LabelledArrays v1.3.0
[093fc24a] LightGraphs v1.3.0
[d3d80556] LineSearches v7.1.0
[bdcacae8] LoopVectorization v0.8.26
[1914dd2f] MacroTools v0.5.5
[46d2c3a1] MuladdMacro v0.2.2
[d41bc354] NLSolversBase v7.7.0
[2774e3e8] NLsolve v4.4.1
[77ba4419] NaNMath v0.3.4
[6fe1bfb0] OffsetArrays v1.3.0
[efe28fd5] OpenSpecFun_jll v0.5.3+3
[bac558e1] OrderedCollections v1.3.1
[1dea7af3] OrdinaryDiffEq v5.42.9
[d96e819e] Parameters v0.12.1
[69de0a69] Parsers v1.0.10
[92933f4c] ProgressMeter v1.4.0
[438e738f] PyCall v1.92.0
[3cdcf5f2] RecipesBase v1.1.0
[731186ca] RecursiveArrayTools v2.7.0
[f2c3362d] RecursiveFactorization v0.1.4
[189a3867] Reexport v0.2.0
[ae029012] Requires v0.5.2
[f2b01f46] Roots v1.0.5
[21efa798] SIMDPirates v0.8.25
[476501e8] SLEEFPirates v0.5.5
[699a6c99] SimpleTraits v0.9.3
[47a9eef4] SparseDiffTools v1.10.0
[276daf66] SpecialFunctions v0.10.3
[90137ffa] StaticArrays v0.12.4
[3783bdb8] TableTraits v1.0.0
[bd369af6] Tables v1.0.5
[a2a6695c] TreeViews v0.3.0
[3a884ed6] UnPack v1.0.2
[3d5dd08c] VectorizationBase v0.12.33
[81def892] VersionParsing v1.2.0
[19fa3120] VertexSafeGraphs v0.1.2
[700de1a5] ZygoteRules v0.2.0
[56f22d72] Artifacts
[2a0f44e3] Base64
[ade2ca70] Dates
[8bb1440f] DelimitedFiles
[8ba89e20] Distributed
[b77e0a4c] InteractiveUtils
[76f85450] LibGit2
[8f399da3] Libdl
[37e2e46d] LinearAlgebra
[56ddb016] Logging
[d6f4376e] Markdown
[a63ad114] Mmap
[44cfe95a] Pkg
[de0858da] Printf
[3fa0cd96] REPL
[9a3f8284] Random
[ea8e919c] SHA
[9e88b42a] Serialization
[1a1011a3] SharedArrays
[6462fe0b] Sockets
[2f01184e] SparseArrays
[10745b16] Statistics
[4607b0f0] SuiteSparse
[fa267f1f] TOML
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
Testing Running tests...
┌ Warning: `@get!(dict, key, default)` at /home/pkgeval/.julia/packages/Requires/9Jse8/src/require.jl:11 is deprecated, use `get!(()->default, dict, key)` instead.
└ @ Base deprecated.jl:204
[ Info: Installing mshr via the Conda mshr=2019.1.0 package...
[ Info: Running `conda config --add channels conda-forge --file /home/pkgeval/.julia/conda/3/condarc-julia.yml --force` in root environment
Warning: 'conda-forge' already in 'channels' list, moving to the top
[ Info: Running `conda install -q -y mshr=2019.1.0` in root environment
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/pkgeval/.julia/conda/3
added / updated specs:
- mshr=2019.1.0
The following packages will be downloaded:
package | build
---------------------------|-----------------
mshr-2019.1.0 | py38hf9f41d3_3 2.2 MB conda-forge
------------------------------------------------------------
Total: 2.2 MB
The following NEW packages will be INSTALLED:
mshr conda-forge/linux-64::mshr-2019.1.0-py38hf9f41d3_3
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
mshr has not been includedWARNING: Method definition lvsolve(Any, Any, Any) in module FEniCS at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:9 overwritten at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition lvsolve##kw(Any, typeof(FEniCS.lvsolve), Any, Any, Any) in module FEniCS at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:9 overwritten at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition nlvsolve(Any, Any) in module FEniCS at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:22 overwritten at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:23.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition nlvsolve##kw(Any, typeof(FEniCS.nlvsolve), Any, Any) in module FEniCS at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:22 overwritten at /home/pkgeval/.julia/packages/FEniCS/bNxUh/src/jsolve.jl:23.
** incremental compilation may be fatally broken for this module **
[ Info: Installing fenics via the Conda fenics=2019.1.0 package...
[ Info: Running `conda config --add channels conda-forge --file /home/pkgeval/.julia/conda/3/condarc-julia.yml --force` in root environment
Warning: 'conda-forge' already in 'channels' list, moving to the top
[ Info: Running `conda install -q -y fenics=2019.1.0` in root environment
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
# All requested packages already installed.
ERROR: LoadError: InitError: PyError (PyImport_ImportModule) <class 'RuntimeError'>
RuntimeError('Could not find DOLFIN pkg-config file. Please make sure appropriate paths are set.')
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/fenics/__init__.py", line 7, in <module>
from dolfin import *
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/__init__.py", line 142, in <module>
from .fem.assembling import (assemble, assemble_system, assemble_multimesh,
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/fem/assembling.py", line 34, in <module>
from dolfin.fem.form import Form
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/fem/form.py", line 12, in <module>
from dolfin.jit.jit import dolfin_pc, ffc_jit
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/jit/jit.py", line 18, in <module>
raise RuntimeError("Could not find DOLFIN pkg-config file. Please make sure appropriate paths are set.")
Stacktrace:
[1] pyimport(name::String)
@ PyCall ~/.julia/packages/PyCall/l64G5/src/PyCall.jl:547
[2] pyimport_conda(modulename::String, condapkg::String, channel::String)
@ PyCall ~/.julia/packages/PyCall/l64G5/src/PyCall.jl:711
[3] __init__()
@ FEniCS ~/.julia/packages/FEniCS/bNxUh/src/FEniCS.jl:27
[4] _include_from_serialized(path::String, depmods::Vector{Any})
@ Base ./loading.jl:605
[5] _require_from_serialized(path::String, cache::Base.TOMLCache)
@ Base ./loading.jl:658
[6] _require(pkg::Base.PkgId, cache::Base.TOMLCache)
@ Base ./loading.jl:963
[7] require(uuidkey::Base.PkgId, cache::Base.TOMLCache)
@ Base ./loading.jl:846
[8] require(into::Module, mod::Symbol)
@ Base ./loading.jl:833
[9] include(fname::String)
@ Base.MainInclude ./client.jl:444
[10] top-level scope
@ none:6
during initialization of module FEniCS
in expression starting at /home/pkgeval/.julia/packages/FEniCS/bNxUh/test/runtests.jl:1
caused by: PyError (PyImport_ImportModule) <class 'RuntimeError'>
RuntimeError('Could not find DOLFIN pkg-config file. Please make sure appropriate paths are set.')
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/fenics/__init__.py", line 7, in <module>
from dolfin import *
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/__init__.py", line 142, in <module>
from .fem.assembling import (assemble, assemble_system, assemble_multimesh,
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/fem/assembling.py", line 34, in <module>
from dolfin.fem.form import Form
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/fem/form.py", line 12, in <module>
from dolfin.jit.jit import dolfin_pc, ffc_jit
File "/home/pkgeval/.julia/conda/3/lib/python3.8/site-packages/dolfin/jit/jit.py", line 18, in <module>
raise RuntimeError("Could not find DOLFIN pkg-config file. Please make sure appropriate paths are set.")
Stacktrace:
[1] pyimport(name::String)
@ PyCall ~/.julia/packages/PyCall/l64G5/src/PyCall.jl:547
[2] pyimport_conda(modulename::String, condapkg::String, channel::String)
@ PyCall ~/.julia/packages/PyCall/l64G5/src/PyCall.jl:705
[3] __init__()
@ FEniCS ~/.julia/packages/FEniCS/bNxUh/src/FEniCS.jl:27
[4] _include_from_serialized(path::String, depmods::Vector{Any})
@ Base ./loading.jl:605
[5] _require_from_serialized(path::String, cache::Base.TOMLCache)
@ Base ./loading.jl:658
[6] _require(pkg::Base.PkgId, cache::Base.TOMLCache)
@ Base ./loading.jl:963
[7] require(uuidkey::Base.PkgId, cache::Base.TOMLCache)
@ Base ./loading.jl:846
[8] require(into::Module, mod::Symbol)
@ Base ./loading.jl:833
[9] include(fname::String)
@ Base.MainInclude ./client.jl:444
[10] top-level scope
@ none:6
ERROR: Package FEniCS errored during testing
Stacktrace:
[1] pkgerror(msg::String)
@ Pkg.Types /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/Types.jl:52
[2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing)
@ Pkg.Operations /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1609
[3] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:331
[4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec})
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:318
[5] #test#62
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:68 [inlined]
[6] test
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:68 [inlined]
[7] #test#61
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:66 [inlined]
[8] test
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:66 [inlined]
[9] test(pkg::String; kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
[10] test(pkg::String)
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
[11] top-level scope
@ none:19