1.6.0-DEV-a6de8b6186.log

Julia Version 1.6.0-DEV.587
Commit a6de8b6186 (2020-08-05 14:09 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-9.0.1 (ORCJIT, skylake-avx512)
Environment:
  JULIA_DEPOT_PATH = ::/usr/local/share/julia
  JULIA_NUM_THREADS = 2

  Resolving package versions...
[ Info: LEGAL NOTICE: package operations send anonymous data about your system to https://pkg.julialang.org (your current package server), including the operating system and Julia versions you are using, and a random client UUID. Running `Pkg.telemetryinfo()` will show exactly what data is sent. See https://julialang.org/legal/data/ for more details about what this data is used for, how long it is retained, and how to opt out of sending it.
  Installed Requires ──────────────────── v1.0.1
  Installed TableTraits ───────────────── v1.0.0
  Installed IteratorInterfaceExtensions ─ v1.0.0
  Installed Twiddle ───────────────────── v1.1.2
  Installed PlotlyBase ────────────────── v0.3.1
  Installed Blink ─────────────────────── v0.12.3
  Installed WebIO ─────────────────────── v0.8.14
  Installed XML2_jll ──────────────────── v2.9.10+1
  Installed Mux ───────────────────────── v0.7.0
  Installed VariantVisualization ──────── v0.4.0
  Installed Observables ───────────────── v0.3.1
  Installed Mustache ──────────────────── v1.0.3
  Installed ColorTypes ────────────────── v0.10.8
  Installed HTTP ──────────────────────── v0.8.17
  Installed DataStructures ────────────── v0.17.20
  Installed JSON ──────────────────────── v0.21.0
  Installed Reexport ──────────────────── v0.2.0
  Installed JSExpr ────────────────────── v0.5.2
  Installed FunctionalCollections ─────── v0.5.0
  Installed BufferedStreams ───────────── v1.0.0
  Installed RecipesBase ───────────────── v1.0.2
  Installed IntervalTrees ─────────────── v1.0.0
  Installed WebSockets ────────────────── v1.5.2
  Installed Lazy ──────────────────────── v0.15.0
  Installed PooledArrays ──────────────── v0.5.3
  Installed BioSequences ──────────────── v1.1.0
  Installed ORCA ──────────────────────── v0.4.0
  Installed EzXML ─────────────────────── v1.1.0
  Installed FixedPointNumbers ─────────── v0.8.4
  Installed CategoricalArrays ─────────── v0.8.1
  Installed Colors ────────────────────── v0.12.3
  Installed Polynomials ───────────────── v0.8.0
  Installed MbedTLS ───────────────────── v1.0.2
  Installed CodecZlib ─────────────────── v0.7.0
  Installed InvertedIndices ───────────── v1.0.0
  Installed YAML ──────────────────────── v0.4.0
  Installed IniFile ───────────────────── v0.5.0
  Installed Widgets ───────────────────── v0.6.2
  Installed BGZFStreams ───────────────── v0.3.0
  Installed Compat ────────────────────── v3.13.0
  Installed BinDeps ───────────────────── v1.0.1
  Installed GeneticVariation ──────────── v0.4.0
  Installed DataFrames ────────────────── v0.21.5
  Installed AssetRegistry ─────────────── v0.1.0
  Installed DataAPI ───────────────────── v1.3.0
  Installed URIParser ─────────────────── v0.4.1
  Installed Libiconv_jll ──────────────── v1.16.0+5
  Installed Pidfile ───────────────────── v1.2.0
  Installed Combinatorics ─────────────── v0.7.0
  Installed Hiccup ────────────────────── v0.2.2
  Installed MacroTools ────────────────── v0.5.5
  Installed Mocking ───────────────────── v0.7.1
  Installed OrderedCollections ────────── v1.3.0
  Installed Missings ──────────────────── v0.4.3
  Installed NodeJS ────────────────────── v1.1.1
  Installed Parsers ───────────────────── v1.0.7
  Installed TranscodingStreams ────────── v0.9.5
  Installed TextWrap ──────────────────── v1.0.1
  Installed Automa ────────────────────── v0.8.0
  Installed BioCore ───────────────────── v2.0.5
  Installed TimeZones ─────────────────── v1.3.1
  Installed ExprTools ─────────────────── v0.1.1
  Installed DataValueInterfaces ───────── v1.0.0
  Installed DocStringExtensions ───────── v0.8.2
  Installed ArgParse ──────────────────── v1.1.0
  Installed Intervals ─────────────────── v1.4.1
  Installed Zlib_jll ──────────────────── v1.2.11+15
  Installed SortingAlgorithms ─────────── v0.3.1
  Installed MbedTLS_jll ───────────────── v2.16.6+1
  Installed IndexableBitVectors ───────── v1.0.0
  Installed LaTeXStrings ──────────────── v1.1.0
  Installed BioSymbols ────────────────── v3.1.0
  Installed Tables ────────────────────── v1.0.5
  Installed PlotlyJS ──────────────────── v0.13.1
Updating `~/.julia/environments/v1.6/Project.toml`
  [7f8bf45c] + VariantVisualization v0.4.0
Updating `~/.julia/environments/v1.6/Manifest.toml`
  [c7e460c6] + ArgParse v1.1.0
  [bf4720bc] + AssetRegistry v0.1.0
  [67c07d97] + Automa v0.8.0
  [28d598bf] + BGZFStreams v0.3.0
  [9e28174c] + BinDeps v1.0.1
  [37cfa864] + BioCore v2.0.5
  [7e6ae17a] + BioSequences v1.1.0
  [3c28c6f8] + BioSymbols v3.1.0
  [ad839575] + Blink v0.12.3
  [e1450e63] + BufferedStreams v1.0.0
  [324d7699] + CategoricalArrays v0.8.1
  [944b1d66] + CodecZlib v0.7.0
  [3da002f7] + ColorTypes v0.10.8
  [5ae59095] + Colors v0.12.3
  [861a8166] + Combinatorics v0.7.0
  [34da2185] + Compat v3.13.0
  [9a962f9c] + DataAPI v1.3.0
  [a93c6f00] + DataFrames v0.21.5
  [864edb3b] + DataStructures v0.17.20
  [e2d170a0] + DataValueInterfaces v1.0.0
  [ffbed154] + DocStringExtensions v0.8.2
  [e2ba6199] + ExprTools v0.1.1
  [8f5d6c58] + EzXML v1.1.0
  [53c48c17] + FixedPointNumbers v0.8.4
  [de31a74c] + FunctionalCollections v0.5.0
  [9bc6ac9d] + GeneticVariation v0.4.0
  [cd3eb016] + HTTP v0.8.17
  [9fb69e20] + Hiccup v0.2.2
  [1cb3b9ac] + IndexableBitVectors v1.0.0
  [83e8ac13] + IniFile v0.5.0
  [524e6230] + IntervalTrees v1.0.0
  [d8418881] + Intervals v1.4.1
  [41ab1584] + InvertedIndices v1.0.0
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [97c1335a] + JSExpr v0.5.2
  [682c06a0] + JSON v0.21.0
  [b964fa9f] + LaTeXStrings v1.1.0
  [50d2b5c4] + Lazy v0.15.0
  [94ce4f54] + Libiconv_jll v1.16.0+5
  [1914dd2f] + MacroTools v0.5.5
  [739be429] + MbedTLS v1.0.2
  [c8ffd9c3] + MbedTLS_jll v2.16.6+1
  [e1d29d7a] + Missings v0.4.3
  [78c3b35d] + Mocking v0.7.1
  [ffc61752] + Mustache v1.0.3
  [a975b10e] + Mux v0.7.0
  [2bd173c7] + NodeJS v1.1.1
  [47be7bcc] + ORCA v0.4.0
  [510215fc] + Observables v0.3.1
  [bac558e1] + OrderedCollections v1.3.0
  [69de0a69] + Parsers v1.0.7
  [fa939f87] + Pidfile v1.2.0
  [a03496cd] + PlotlyBase v0.3.1
  [f0f68f2c] + PlotlyJS v0.13.1
  [f27b6e38] + Polynomials v0.8.0
  [2dfb63ee] + PooledArrays v0.5.3
  [3cdcf5f2] + RecipesBase v1.0.2
  [189a3867] + Reexport v0.2.0
  [ae029012] + Requires v1.0.1
  [a2af1166] + SortingAlgorithms v0.3.1
  [3783bdb8] + TableTraits v1.0.0
  [bd369af6] + Tables v1.0.5
  [b718987f] + TextWrap v1.0.1
  [f269a46b] + TimeZones v1.3.1
  [3bb67fe8] + TranscodingStreams v0.9.5
  [7200193e] + Twiddle v1.1.2
  [30578b45] + URIParser v0.4.1
  [7f8bf45c] + VariantVisualization v0.4.0
  [0f1e0344] + WebIO v0.8.14
  [104b5d7c] + WebSockets v1.5.2
  [cc8bc4a8] + Widgets v0.6.2
  [02c8fc9c] + XML2_jll v2.9.10+1
  [ddb6d928] + YAML v0.4.0
  [83775a58] + Zlib_jll v1.2.11+15
  [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 ORCA ────────────────→ `~/.julia/packages/ORCA/jdK40/deps/build.log`
   Building TimeZones ───────────→ `~/.julia/packages/TimeZones/cAGJs/deps/build.log`
   Building WebIO ───────────────→ `~/.julia/packages/WebIO/nTMDV/deps/build.log`
   Building Blink ───────────────→ `~/.julia/packages/Blink/u1xcH/deps/build.log`
   Building PlotlyJS ────────────→ `~/.julia/packages/PlotlyJS/AhkM5/deps/build.log`
   Building VariantVisualization → `~/.julia/packages/VariantVisualization/1yoNl/deps/build.log`
┌ Error: Error building `VariantVisualization`: 
│ ERROR: LoadError: IOError: symlink: permission denied (EACCES)
│ Stacktrace:
│  [1] uv_error
│    @ ./libuv.jl:97 [inlined]
│  [2] symlink(p::String, np::String)
│    @ Base.Filesystem ./file.jl:957
│  [3] symlink_user_bin(path_::String)
│    @ Main ~/.julia/packages/VariantVisualization/1yoNl/deps/build.jl:18
│  [4] top-level scope
│    @ ~/.julia/packages/VariantVisualization/1yoNl/deps/build.jl:24
│  [5] include(fname::String)
│    @ Base.MainInclude ./client.jl:443
│  [6] top-level scope
│    @ 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/v1.6/Pkg/src/Operations.jl:943
    Testing VariantVisualization
Status `/tmp/jl_FXDb7L/Project.toml`
  [c7e460c6] ArgParse v1.1.0
  [a93c6f00] DataFrames v0.21.5
  [9bc6ac9d] GeneticVariation v0.4.0
  [47be7bcc] ORCA v0.4.0
  [f0f68f2c] PlotlyJS v0.13.1
  [7f8bf45c] VariantVisualization v0.4.0
  [8bb1440f] DelimitedFiles
  [8dfed614] Test
Status `/tmp/jl_FXDb7L/Manifest.toml`
  [c7e460c6] ArgParse v1.1.0
  [bf4720bc] AssetRegistry v0.1.0
  [67c07d97] Automa v0.8.0
  [28d598bf] BGZFStreams v0.3.0
  [9e28174c] BinDeps v1.0.1
  [37cfa864] BioCore v2.0.5
  [7e6ae17a] BioSequences v1.1.0
  [3c28c6f8] BioSymbols v3.1.0
  [ad839575] Blink v0.12.3
  [e1450e63] BufferedStreams v1.0.0
  [324d7699] CategoricalArrays v0.8.1
  [944b1d66] CodecZlib v0.7.0
  [3da002f7] ColorTypes v0.10.8
  [5ae59095] Colors v0.12.3
  [861a8166] Combinatorics v0.7.0
  [34da2185] Compat v3.13.0
  [9a962f9c] DataAPI v1.3.0
  [a93c6f00] DataFrames v0.21.5
  [864edb3b] DataStructures v0.17.20
  [e2d170a0] DataValueInterfaces v1.0.0
  [ffbed154] DocStringExtensions v0.8.2
  [e2ba6199] ExprTools v0.1.1
  [8f5d6c58] EzXML v1.1.0
  [53c48c17] FixedPointNumbers v0.8.4
  [de31a74c] FunctionalCollections v0.5.0
  [9bc6ac9d] GeneticVariation v0.4.0
  [cd3eb016] HTTP v0.8.17
  [9fb69e20] Hiccup v0.2.2
  [1cb3b9ac] IndexableBitVectors v1.0.0
  [83e8ac13] IniFile v0.5.0
  [524e6230] IntervalTrees v1.0.0
  [d8418881] Intervals v1.4.1
  [41ab1584] InvertedIndices v1.0.0
  [82899510] IteratorInterfaceExtensions v1.0.0
  [97c1335a] JSExpr v0.5.2
  [682c06a0] JSON v0.21.0
  [b964fa9f] LaTeXStrings v1.1.0
  [50d2b5c4] Lazy v0.15.0
  [94ce4f54] Libiconv_jll v1.16.0+5
  [1914dd2f] MacroTools v0.5.5
  [739be429] MbedTLS v1.0.2
  [c8ffd9c3] MbedTLS_jll v2.16.6+1
  [e1d29d7a] Missings v0.4.3
  [78c3b35d] Mocking v0.7.1
  [ffc61752] Mustache v1.0.3
  [a975b10e] Mux v0.7.0
  [2bd173c7] NodeJS v1.1.1
  [47be7bcc] ORCA v0.4.0
  [510215fc] Observables v0.3.1
  [bac558e1] OrderedCollections v1.3.0
  [69de0a69] Parsers v1.0.7
  [fa939f87] Pidfile v1.2.0
  [a03496cd] PlotlyBase v0.3.1
  [f0f68f2c] PlotlyJS v0.13.1
  [f27b6e38] Polynomials v0.8.0
  [2dfb63ee] PooledArrays v0.5.3
  [3cdcf5f2] RecipesBase v1.0.2
  [189a3867] Reexport v0.2.0
  [ae029012] Requires v1.0.1
  [a2af1166] SortingAlgorithms v0.3.1
  [3783bdb8] TableTraits v1.0.0
  [bd369af6] Tables v1.0.5
  [b718987f] TextWrap v1.0.1
  [f269a46b] TimeZones v1.3.1
  [3bb67fe8] TranscodingStreams v0.9.5
  [7200193e] Twiddle v1.1.2
  [30578b45] URIParser v0.4.1
  [7f8bf45c] VariantVisualization v0.4.0
  [0f1e0344] WebIO v0.8.14
  [104b5d7c] WebSockets v1.5.2
  [cc8bc4a8] Widgets v0.6.2
  [02c8fc9c] XML2_jll v2.9.10+1
  [ddb6d928] YAML v0.4.0
  [83775a58] Zlib_jll v1.2.11+15
  [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
┌ Warning: `@get!(dict, key, default)` at /home/pkgeval/.julia/packages/WebIO/nTMDV/src/scope.jl:160 is deprecated, use `get!(()->default, dict, key)` instead.
└ @ Base deprecated.jl:204
┌ Warning: `@get!(dict, key, default)` at /home/pkgeval/.julia/packages/WebIO/nTMDV/src/scope.jl:357 is deprecated, use `get!(()->default, dict, key)` instead.
└ @ Base deprecated.jl:204
WARNING: using HTTP.stack in module Mux conflicts with an existing identifier.
ERROR: LoadError: InitError: IOError: could not spawn `'/usr/bin/xvfb-run /home/pkgeval/.julia/artifacts/a42f5c72a500a8683c08a5e818d27a104fc9cd5a/bin/orca' server --port=7982 --graph-only`: no such file or directory (ENOENT)
Stacktrace:
  [1] _spawn_primitive(file::String, cmd::Cmd, stdio::Vector{Any})
    @ Base ./process.jl:99
  [2] #596
    @ ./process.jl:112 [inlined]
  [3] setup_stdios(f::Base.var"#596#597"{Cmd}, stdios::Vector{Any})
    @ Base ./process.jl:196
  [4] _spawn
    @ ./process.jl:111 [inlined]
  [5] open(cmds::Cmd, stdio::Base.DevNull; write::Bool, read::Bool)
    @ Base ./process.jl:370
  [6] open
    @ ./process.jl:361 [inlined]
  [7] restart_server()
    @ ORCA ~/.julia/packages/ORCA/jdK40/src/ORCA.jl:84
  [8] __init__()
    @ ORCA ~/.julia/packages/ORCA/jdK40/src/ORCA.jl:94
  [9] _include_from_serialized(path::String, depmods::Vector{Any})
    @ Base ./loading.jl:697
 [10] _require_from_serialized(path::String)
    @ Base ./loading.jl:749
 [11] _require(pkg::Base.PkgId)
    @ Base ./loading.jl:1040
 [12] require(uuidkey::Base.PkgId)
    @ Base ./loading.jl:928
 [13] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:923
 [14] include
    @ ./Base.jl:375 [inlined]
 [15] include_package_for_output(input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId,UInt64}}, uuid_tuple::Tuple{UInt64,UInt64}, source::String)
    @ Base ./loading.jl:1219
 [16] top-level scope
    @ none:1
 [17] eval
    @ ./boot.jl:344 [inlined]
 [18] eval(x::Expr)
    @ Base.MainInclude ./client.jl:445
 [19] top-level scope
    @ none:1
during initialization of module ORCA
in expression starting at /home/pkgeval/.julia/packages/VariantVisualization/1yoNl/src/VariantVisualization.jl:1
ERROR: LoadError: Failed to precompile VariantVisualization [7f8bf45c-0ad5-53b5-97e6-33c1305e0aa4] to /home/pkgeval/.julia/compiled/v1.6/VariantVisualization/v8cR2_2LnLR.ji.
Stacktrace:
 [1] error(s::String)
   @ Base ./error.jl:33
 [2] compilecache(pkg::Base.PkgId, path::String)
   @ Base ./loading.jl:1350
 [3] _require(pkg::Base.PkgId)
   @ Base ./loading.jl:1030
 [4] require(uuidkey::Base.PkgId)
   @ Base ./loading.jl:928
 [5] require(into::Module, mod::Symbol)
   @ Base ./loading.jl:923
 [6] include(fname::String)
   @ Base.MainInclude ./client.jl:443
 [7] top-level scope
   @ none:6
in expression starting at /home/pkgeval/.julia/packages/VariantVisualization/1yoNl/test/runtests.jl:1
ERROR: Package VariantVisualization errored during testing
Stacktrace:
  [1] pkgerror(::String, ::Vararg{String,N} where N)
    @ Pkg.Types /buildworker/worker/package_linux64/build/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 /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1567
  [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 /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:328
  [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec})
    @ Pkg.API /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:315
  [5] #test#62
    @ /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:67 [inlined]
  [6] test
    @ /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:67 [inlined]
  [7] #test#61
    @ /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:66 [inlined]
  [8] test
    @ /buildworker/worker/package_linux64/build/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 /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
 [10] test(pkg::String)
    @ Pkg.API /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
 [11] top-level scope
    @ none:16