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1.5.0-DEV-e0740fe5a6.log
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Julia Version 1.5.0-DEV.147
Commit e0740fe5a6 (2020-01-24 14:13 UTC)
Platform Info:
OS: Linux (x86_64-pc-linux-gnu)
CPU: Intel(R) Xeon(R) Silver 4114 CPU @ 2.20GHz
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-8.0.1 (ORCJIT, skylake)
Environment:
JULIA_DEPOT_PATH = ::/usr/local/share/julia
JULIA_NUM_THREADS = 2
Resolving package versions...
Installed JSExpr ────────────────────── v0.5.1
Installed PooledArrays ──────────────── v0.5.3
Installed Mustache ──────────────────── v1.0.0
Installed Codecs ────────────────────── v0.5.0
Installed FixedPointNumbers ─────────── v0.7.1
Installed Observables ───────────────── v0.2.3
Installed Colors ────────────────────── v0.11.2
Installed Combinatorics ─────────────── v0.7.0
Installed Requires ──────────────────── v1.0.0
Installed VariantVisualization ──────── v0.4.0
Installed ArgParse ──────────────────── v0.6.2
Installed TableTraits ───────────────── v1.0.0
Installed Compat ────────────────────── v2.2.0
Installed GeneticVariation ──────────── v0.4.0
Installed WebIO ─────────────────────── v0.8.13
Installed URIParser ─────────────────── v0.4.0
Installed Missings ──────────────────── v0.4.3
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed RecipesBase ───────────────── v0.7.0
Installed CodecZlib ─────────────────── v0.6.0
Installed OrderedCollections ────────── v1.1.0
Installed Tables ────────────────────── v0.2.11
Installed Widgets ───────────────────── v0.6.2
Installed HTTP ──────────────────────── v0.8.8
Installed BioCore ───────────────────── v2.0.5
Installed IndexableBitVectors ───────── v1.0.0
Installed JSON ──────────────────────── v0.21.0
Installed TextWrap ──────────────────── v0.3.0
Installed WebSockets ────────────────── v1.5.2
Installed InvertedIndices ───────────── v1.0.0
Installed Reexport ──────────────────── v0.2.0
Installed Conda ─────────────────────── v1.3.0
Installed Lazy ──────────────────────── v0.14.0
Installed FunctionalCollections ─────── v0.5.0
Installed PlotlyBase ────────────────── v0.3.0
Installed MacroTools ────────────────── v0.5.3
Installed IntervalTrees ─────────────── v1.0.0
Installed DataStructures ────────────── v0.17.9
Installed BioSequences ──────────────── v1.1.0
Installed ORCA ──────────────────────── v0.3.1
Installed Hiccup ────────────────────── v0.2.2
Installed DocStringExtensions ───────── v0.8.1
Installed DataAPI ───────────────────── v1.1.0
Installed DataValueInterfaces ───────── v1.0.0
Installed Automa ────────────────────── v0.8.0
Installed YAML ──────────────────────── v0.3.2
Installed CategoricalArrays ─────────── v0.7.7
Installed BinaryProvider ────────────── v0.5.8
Installed IniFile ───────────────────── v0.5.0
Installed MbedTLS ───────────────────── v0.7.0
Installed Mux ───────────────────────── v0.7.1
Installed VersionParsing ────────────── v1.2.0
Installed BinDeps ───────────────────── v1.0.0
Installed Parsers ───────────────────── v0.3.10
Installed ColorTypes ────────────────── v0.9.1
Installed Twiddle ───────────────────── v1.1.1
Installed TranscodingStreams ────────── v0.9.5
Installed Polynomials ───────────────── v0.6.0
Installed LaTeXStrings ──────────────── v1.0.3
Installed SortingAlgorithms ─────────── v0.3.1
Installed BioSymbols ────────────────── v3.1.0
Installed PlotlyJS ──────────────────── v0.13.1
Installed BGZFStreams ───────────────── v0.3.0
Installed BufferedStreams ───────────── v1.0.0
Installed AssetRegistry ─────────────── v0.1.0
Installed Pidfile ───────────────────── v1.1.0
Installed DataFrames ────────────────── v0.20.0
Installed Blink ─────────────────────── v0.12.1
Updating `~/.julia/environments/v1.5/Project.toml`
[7f8bf45c] + VariantVisualization v0.4.0
Updating `~/.julia/environments/v1.5/Manifest.toml`
[c7e460c6] + ArgParse v0.6.2
[bf4720bc] + AssetRegistry v0.1.0
[67c07d97] + Automa v0.8.0
[28d598bf] + BGZFStreams v0.3.0
[9e28174c] + BinDeps v1.0.0
[b99e7846] + BinaryProvider v0.5.8
[37cfa864] + BioCore v2.0.5
[7e6ae17a] + BioSequences v1.1.0
[3c28c6f8] + BioSymbols v3.1.0
[ad839575] + Blink v0.12.1
[e1450e63] + BufferedStreams v1.0.0
[324d7699] + CategoricalArrays v0.7.7
[944b1d66] + CodecZlib v0.6.0
[19ecbf4d] + Codecs v0.5.0
[3da002f7] + ColorTypes v0.9.1
[5ae59095] + Colors v0.11.2
[861a8166] + Combinatorics v0.7.0
[34da2185] + Compat v2.2.0
[8f4d0f93] + Conda v1.3.0
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.20.0
[864edb3b] + DataStructures v0.17.9
[e2d170a0] + DataValueInterfaces v1.0.0
[ffbed154] + DocStringExtensions v0.8.1
[53c48c17] + FixedPointNumbers v0.7.1
[de31a74c] + FunctionalCollections v0.5.0
[9bc6ac9d] + GeneticVariation v0.4.0
[cd3eb016] + HTTP v0.8.8
[9fb69e20] + Hiccup v0.2.2
[1cb3b9ac] + IndexableBitVectors v1.0.0
[83e8ac13] + IniFile v0.5.0
[524e6230] + IntervalTrees v1.0.0
[41ab1584] + InvertedIndices v1.0.0
[82899510] + IteratorInterfaceExtensions v1.0.0
[97c1335a] + JSExpr v0.5.1
[682c06a0] + JSON v0.21.0
[b964fa9f] + LaTeXStrings v1.0.3
[50d2b5c4] + Lazy v0.14.0
[1914dd2f] + MacroTools v0.5.3
[739be429] + MbedTLS v0.7.0
[e1d29d7a] + Missings v0.4.3
[ffc61752] + Mustache v1.0.0
[a975b10e] + Mux v0.7.1
[47be7bcc] + ORCA v0.3.1
[510215fc] + Observables v0.2.3
[bac558e1] + OrderedCollections v1.1.0
[69de0a69] + Parsers v0.3.10
[fa939f87] + Pidfile v1.1.0
[a03496cd] + PlotlyBase v0.3.0
[f0f68f2c] + PlotlyJS v0.13.1
[f27b6e38] + Polynomials v0.6.0
[2dfb63ee] + PooledArrays v0.5.3
[3cdcf5f2] + RecipesBase v0.7.0
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v1.0.0
[a2af1166] + SortingAlgorithms v0.3.1
[3783bdb8] + TableTraits v1.0.0
[bd369af6] + Tables v0.2.11
[b718987f] + TextWrap v0.3.0
[3bb67fe8] + TranscodingStreams v0.9.5
[7200193e] + Twiddle v1.1.1
[30578b45] + URIParser v0.4.0
[7f8bf45c] + VariantVisualization v0.4.0
[81def892] + VersionParsing v1.2.0
[0f1e0344] + WebIO v0.8.13
[104b5d7c] + WebSockets v1.5.2
[cc8bc4a8] + Widgets v0.6.2
[ddb6d928] + YAML v0.3.2
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[7b1f6079] + FileWatching
[9fa8497b] + Future
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[44cfe95a] + Pkg
[de0858da] + Printf
[9abbd945] + Profile
[3fa0cd96] + REPL
[9a3f8284] + Random
[ea8e919c] + SHA
[9e88b42a] + Serialization
[1a1011a3] + SharedArrays
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building CodecZlib ───────────→ `~/.julia/packages/CodecZlib/5t9zO/deps/build.log`
Updating `/tmp/jl_rRtpRg/Project.toml`
[no changes]
Updating `/tmp/jl_rRtpRg/Manifest.toml`
[no changes]
Building MbedTLS ─────────────→ `~/.julia/packages/MbedTLS/a1JFn/deps/build.log`
Updating `/tmp/jl_Ci2zum/Project.toml`
[no changes]
Updating `/tmp/jl_Ci2zum/Manifest.toml`
[no changes]
Building WebIO ───────────────→ `~/.julia/packages/WebIO/2nnB1/deps/build.log`
Updating `/tmp/jl_vH6fhM/Project.toml`
[no changes]
Updating `/tmp/jl_vH6fhM/Manifest.toml`
[no changes]
Building Blink ───────────────→ `~/.julia/packages/Blink/4FM8Y/deps/build.log`
Updating `/tmp/jl_cnG5qx/Project.toml`
[no changes]
Updating `/tmp/jl_cnG5qx/Manifest.toml`
[no changes]
Building PlotlyJS ────────────→ `~/.julia/packages/PlotlyJS/AhkM5/deps/build.log`
Updating `/tmp/jl_r9UuHK/Project.toml`
[no changes]
Updating `/tmp/jl_r9UuHK/Manifest.toml`
[no changes]
Building Conda ───────────────→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Updating `/tmp/jl_6E3ekk/Project.toml`
[no changes]
Updating `/tmp/jl_6E3ekk/Manifest.toml`
[no changes]
Building ORCA ────────────────→ `~/.julia/packages/ORCA/fiEmb/deps/build.log`
Updating `/tmp/jl_lsbtsV/Project.toml`
[no changes]
Updating `/tmp/jl_lsbtsV/Manifest.toml`
[no changes]
Building VariantVisualization → `~/.julia/packages/VariantVisualization/1yoNl/deps/build.log`
Updating `/tmp/jl_UM59LB/Project.toml`
[no changes]
Updating `/tmp/jl_UM59LB/Manifest.toml`
[no changes]
┌ Error: Error building `VariantVisualization`:
│ ERROR: LoadError: IOError: symlink: permission denied (EACCES)
│ Stacktrace:
│ [1] uv_error at ./libuv.jl:97 [inlined]
│ [2] symlink(::String, ::String) at ./file.jl:955
│ [3] symlink_user_bin(::String) at /home/pkgeval/.julia/packages/VariantVisualization/1yoNl/deps/build.jl:18
│ [4] top-level scope at /home/pkgeval/.julia/packages/VariantVisualization/1yoNl/deps/build.jl:24
│ [5] include(::String) at ./client.jl:439
│ [6] top-level scope at none:5
│ in expression starting at /home/pkgeval/.julia/packages/VariantVisualization/1yoNl/deps/build.jl:24
└ @ Pkg.Operations /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/Operations.jl:883
Testing VariantVisualization
Updating `/tmp/jl_tBfrbv/Project.toml`
[no changes]
Updating `/tmp/jl_tBfrbv/Manifest.toml`
[no changes]
Running sandbox
Status `/tmp/jl_tBfrbv/Project.toml`
[c7e460c6] ArgParse v0.6.2
[a93c6f00] DataFrames v0.20.0
[9bc6ac9d] GeneticVariation v0.4.0
[47be7bcc] ORCA v0.3.1
[f0f68f2c] PlotlyJS v0.13.1
[7f8bf45c] VariantVisualization v0.4.0
[8bb1440f] DelimitedFiles
[8dfed614] Test
ERROR: LoadError: InitError: IOError: could not spawn `'/usr/bin/xvfb-run /home/pkgeval/.julia/conda/3/envs/_ORCA_jl_/bin/orca' server --port=7982 --graph-only`: no such file or directory (ENOENT)
Stacktrace:
[1] _spawn_primitive(::String, ::Cmd, ::Array{Any,1}) at ./process.jl:99
[2] #551 at ./process.jl:112 [inlined]
[3] setup_stdios(::Base.var"#551#552"{Cmd}, ::Array{Any,1}) at ./process.jl:196
[4] _spawn at ./process.jl:111 [inlined]
[5] open(::Cmd, ::Base.DevNull; write::Bool, read::Bool) at ./process.jl:370
[6] open at ./process.jl:361 [inlined] (repeats 2 times)
[7] restart_server() at /home/pkgeval/.julia/packages/ORCA/fiEmb/src/ORCA.jl:84
[8] __init__() at /home/pkgeval/.julia/packages/ORCA/fiEmb/src/ORCA.jl:94
[9] _include_from_serialized(::String, ::Array{Any,1}) at ./loading.jl:697
[10] _require_from_serialized(::String) at ./loading.jl:748
[11] _require(::Base.PkgId) at ./loading.jl:1039
[12] require(::Base.PkgId) at ./loading.jl:927
[13] require(::Module, ::Symbol) at ./loading.jl:922
[14] include(::Module, ::String) at ./Base.jl:377
[15] top-level scope at none:2
[16] eval at ./boot.jl:331 [inlined]
[17] eval(::Expr) at ./client.jl:449
[18] top-level scope at ./none:3
during initialization of module ORCA
in expression starting at /home/pkgeval/.julia/packages/VariantVisualization/1yoNl/src/VariantVisualization.jl:5
ERROR: LoadError: Failed to precompile VariantVisualization [7f8bf45c-0ad5-53b5-97e6-33c1305e0aa4] to /home/pkgeval/.julia/compiled/v1.5/VariantVisualization/v8cR2_U1LPP.ji.
Stacktrace:
[1] error(::String) at ./error.jl:33
[2] compilecache(::Base.PkgId, ::String) at ./loading.jl:1270
[3] _require(::Base.PkgId) at ./loading.jl:1029
[4] require(::Base.PkgId) at ./loading.jl:927
[5] require(::Module, ::Symbol) at ./loading.jl:922
[6] include(::String) at ./client.jl:439
[7] top-level scope at none:6
in expression starting at /home/pkgeval/.julia/packages/VariantVisualization/1yoNl/test/runtests.jl:3
err = ProcessFailedException(Base.Process[Process(`/opt/julia/bin/julia -Cnative -J/opt/julia/lib/julia/sys.so -g1 --code-coverage=none --color=no --compiled-modules=yes --check-bounds=yes --inline=yes --startup-file=no --track-allocation=none --eval 'append!(empty!(Base.DEPOT_PATH), ["/home/pkgeval/.julia", "/opt/julia/local/share/julia", "/opt/julia/share/julia", "/usr/local/share/julia"])
append!(empty!(Base.DL_LOAD_PATH), String[])
cd("/home/pkgeval/.julia/packages/VariantVisualization/1yoNl/test")
append!(empty!(ARGS), String[])
include("/home/pkgeval/.julia/packages/VariantVisualization/1yoNl/test/runtests.jl")
'`, ProcessExited(1))])
ERROR: Package VariantVisualization errored during testing
Stacktrace:
[1] pkgerror(::String, ::Vararg{String,N} where N) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/Types.jl:54
[2] test(::Pkg.Types.Context, ::Array{Pkg.Types.PackageSpec,1}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/Operations.jl:1471
[3] test(::Pkg.Types.Context, ::Array{Pkg.Types.PackageSpec,1}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, kwargs::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:313
[4] test(::Pkg.Types.Context, ::Array{Pkg.Types.PackageSpec,1}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:300
[5] #test#66 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:294 [inlined]
[6] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:294 [inlined]
[7] #test#65 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:293 [inlined]
[8] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:293 [inlined]
[9] test(::String; kwargs::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:292
[10] test(::String) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:292
[11] top-level scope at none:13