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1.5.0-DEV-6a9a92683d.log
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1.5.0-DEV-6a9a92683d.log
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Julia Version 1.5.0-DEV.299
Commit 6a9a92683d (2020-02-20 07:47 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)
Environment:
JULIA_DEPOT_PATH = ::/usr/local/share/julia
JULIA_NUM_THREADS = 2
Resolving package versions...
Installed IniFile ───────────────────── v0.5.0
Installed FTPClient ─────────────────── v1.0.1
Installed OpenSSL_jll ───────────────── v1.1.1+1
Installed Libiconv_jll ──────────────── v1.16.0+1
Installed Compat ────────────────────── v3.5.0
Installed LibCURL ───────────────────── v0.5.2
Installed IterTools ─────────────────── v1.3.0
Installed BioMedQuery ───────────────── v0.6.6
Installed MariaDB_Connector_C_jll ───── v3.1.6+0
Installed Zlib_jll ──────────────────── v1.2.11+8
Installed URIParser ─────────────────── v0.4.0
Installed DBInterface ───────────────── v2.0.0
Installed OrderedCollections ────────── v1.1.0
Installed EzXML ─────────────────────── v1.1.0
Installed BinaryProvider ────────────── v0.5.8
Installed PooledArrays ──────────────── v0.5.3
Installed JSON ──────────────────────── v0.21.0
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed Tables ────────────────────── v1.0.1
Installed LibCURL_jll ───────────────── v7.68.0+0
Installed TableTraits ───────────────── v1.0.0
Installed DataValueInterfaces ───────── v1.0.0
Installed SQLite_jll ────────────────── v3.31.1+0
Installed SortingAlgorithms ─────────── v0.3.1
Installed OpenSpecFun_jll ───────────── v0.5.3+1
Installed Gumbo ─────────────────────── v0.7.0
Installed HTTP ──────────────────────── v0.8.8
Installed CategoricalArrays ─────────── v0.7.7
Installed Reexport ──────────────────── v0.2.0
Installed Missings ──────────────────── v0.4.3
Installed LightXML ──────────────────── v0.8.1
Installed DecFP ─────────────────────── v0.4.10
Installed BioServices ───────────────── v0.3.2
Installed DataStructures ────────────── v0.17.9
Installed LibSSH2_jll ───────────────── v1.9.0+1
Installed DataAPI ───────────────────── v1.1.0
Installed Parsers ───────────────────── v0.3.11
Installed FilePathsBase ─────────────── v0.7.0
Installed SpecialFunctions ──────────── v0.9.0
Installed SQLite ────────────────────── v1.0.2
Installed InvertedIndices ───────────── v1.0.0
Installed CSV ───────────────────────── v0.5.24
Installed DataFrames ────────────────── v0.20.2
Installed WeakRefStrings ────────────── v0.6.2
Installed MbedTLS_jll ───────────────── v2.16.0+1
Installed XML2_jll ──────────────────── v2.9.9+1
Installed AbstractTrees ─────────────── v0.3.2
Installed MySQL ─────────────────────── v1.0.0
Installed DataStreams ───────────────── v0.4.2
Installed XMLDict ───────────────────── v0.4.0
Installed MbedTLS ───────────────────── v0.7.0
#=#=# ##### 8.2%####################### 32.4%############################################### 65.3%######################################################################## 100.0%
#=#=# ################################################ 66.8%######################################################################## 100.0%
#=#=# ######################################################################## 100.0%
#=#=# ######################################################################## 100.0%
#=#=# ################################################### 70.9%######################################################################## 100.0%
#=#=# ### 4.9%################ 22.5%################################### 49.9%########################################################### 82.5%######################################################################## 100.0%
#=#=# ######################################################################## 100.0%
#=#=# ############################################################ 84.2%######################################################################## 100.0%
#=#=# ################################# 47.1%######################################################################## 100.0%
#=#=# ##### 7.1%##### 7.3%################## 25.9%########################################## 59.1%######################################################################## 100.0%
Updating `~/.julia/environments/v1.5/Project.toml`
[e96904bf] + BioMedQuery v0.6.6
Updating `~/.julia/environments/v1.5/Manifest.toml`
[1520ce14] + AbstractTrees v0.3.2
[b99e7846] + BinaryProvider v0.5.8
[e96904bf] + BioMedQuery v0.6.6
[a0d4ced5] + BioServices v0.3.2
[336ed68f] + CSV v0.5.24
[324d7699] + CategoricalArrays v0.7.7
[34da2185] + Compat v3.5.0
[a10d1c49] + DBInterface v2.0.0
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.20.2
[9a8bc11e] + DataStreams v0.4.2
[864edb3b] + DataStructures v0.17.9
[e2d170a0] + DataValueInterfaces v1.0.0
[55939f99] + DecFP v0.4.10
[8f5d6c58] + EzXML v1.1.0
[01fcc997] + FTPClient v1.0.1
[48062228] + FilePathsBase v0.7.0
[708ec375] + Gumbo v0.7.0
[cd3eb016] + HTTP v0.8.8
[83e8ac13] + IniFile v0.5.0
[41ab1584] + InvertedIndices v1.0.0
[c8e1da08] + IterTools v1.3.0
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[b27032c2] + LibCURL v0.5.2
[deac9b47] + LibCURL_jll v7.68.0+0
[29816b5a] + LibSSH2_jll v1.9.0+1
[94ce4f54] + Libiconv_jll v1.16.0+1
[9c8b4983] + LightXML v0.8.1
[aabc7e14] + MariaDB_Connector_C_jll v3.1.6+0
[739be429] + MbedTLS v0.7.0
[c8ffd9c3] + MbedTLS_jll v2.16.0+1
[e1d29d7a] + Missings v0.4.3
[39abe10b] + MySQL v1.0.0
[458c3c95] + OpenSSL_jll v1.1.1+1
[efe28fd5] + OpenSpecFun_jll v0.5.3+1
[bac558e1] + OrderedCollections v1.1.0
[69de0a69] + Parsers v0.3.11
[2dfb63ee] + PooledArrays v0.5.3
[189a3867] + Reexport v0.2.0
[0aa819cd] + SQLite v1.0.2
[76ed43ae] + SQLite_jll v3.31.1+0
[a2af1166] + SortingAlgorithms v0.3.1
[276daf66] + SpecialFunctions v0.9.0
[3783bdb8] + TableTraits v1.0.0
[bd369af6] + Tables v1.0.1
[30578b45] + URIParser v0.4.0
[ea10d353] + WeakRefStrings v0.6.2
[02c8fc9c] + XML2_jll v2.9.9+1
[228000da] + XMLDict v0.4.0
[83775a58] + Zlib_jll v1.2.11+8
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[9fa8497b] + Future
[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
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building LibCURL ─→ `~/.julia/packages/LibCURL/lWJxD/deps/build.log`
Building SQLite ──→ `~/.julia/packages/SQLite/DRKy9/deps/build.log`
Building Gumbo ───→ `~/.julia/packages/Gumbo/OhZJu/deps/build.log`
Building LightXML → `~/.julia/packages/LightXML/W8FVT/deps/build.log`
Building DecFP ───→ `~/.julia/packages/DecFP/quvcm/deps/build.log`
Building MySQL ───→ `~/.julia/packages/MySQL/0EHhg/deps/build.log`
Building MbedTLS ─→ `~/.julia/packages/MbedTLS/a1JFn/deps/build.log`
Testing BioMedQuery
Status `/tmp/jl_euT7Ao/Manifest.toml`
[1520ce14] AbstractTrees v0.3.2
[b99e7846] BinaryProvider v0.5.8
[e96904bf] BioMedQuery v0.6.6
[a0d4ced5] BioServices v0.3.2
[336ed68f] CSV v0.5.24
[324d7699] CategoricalArrays v0.7.7
[34da2185] Compat v3.5.0
[a10d1c49] DBInterface v2.0.0
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.20.2
[9a8bc11e] DataStreams v0.4.2
[864edb3b] DataStructures v0.17.9
[e2d170a0] DataValueInterfaces v1.0.0
[55939f99] DecFP v0.4.10
[8f5d6c58] EzXML v1.1.0
[01fcc997] FTPClient v1.0.1
[48062228] FilePathsBase v0.7.0
[708ec375] Gumbo v0.7.0
[cd3eb016] HTTP v0.8.8
[83e8ac13] IniFile v0.5.0
[41ab1584] InvertedIndices v1.0.0
[c8e1da08] IterTools v1.3.0
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[b27032c2] LibCURL v0.5.2
[deac9b47] LibCURL_jll v7.68.0+0
[29816b5a] LibSSH2_jll v1.9.0+1
[94ce4f54] Libiconv_jll v1.16.0+1
[9c8b4983] LightXML v0.8.1
[aabc7e14] MariaDB_Connector_C_jll v3.1.6+0
[739be429] MbedTLS v0.7.0
[c8ffd9c3] MbedTLS_jll v2.16.0+1
[e1d29d7a] Missings v0.4.3
[39abe10b] MySQL v1.0.0
[458c3c95] OpenSSL_jll v1.1.1+1
[efe28fd5] OpenSpecFun_jll v0.5.3+1
[bac558e1] OrderedCollections v1.1.0
[69de0a69] Parsers v0.3.11
[2dfb63ee] PooledArrays v0.5.3
[189a3867] Reexport v0.2.0
[0aa819cd] SQLite v1.0.2
[76ed43ae] SQLite_jll v3.31.1+0
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.9.0
[3783bdb8] TableTraits v1.0.0
[bd369af6] Tables v1.0.1
[30578b45] URIParser v0.4.0
[ea10d353] WeakRefStrings v0.6.2
[02c8fc9c] XML2_jll v2.9.9+1
[228000da] XMLDict v0.4.0
[a5390f91] ZipFile v0.9.1
[83775a58] Zlib_jll v1.2.11+8
[2a0f44e3] Base64
[ade2ca70] Dates
[8bb1440f] DelimitedFiles
[8ba89e20] Distributed
[9fa8497b] Future
[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
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
ERROR: LoadError: LoadError: LoadError: UndefVarError: MySQLHandle not defined
Stacktrace:
[1] getproperty(::Module, ::Symbol) at ./Base.jl:26
[2] top-level scope at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/DBUtils/mysql_db_utils.jl:55
[3] include(::Function, ::Module, ::String) at ./Base.jl:380
[4] include at ./Base.jl:368 [inlined]
[5] include(::String) at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/BioMedQuery.jl:4
[6] top-level scope at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/DBUtils/DBUtils.jl:4
[7] include(::Function, ::Module, ::String) at ./Base.jl:380
[8] include at ./Base.jl:368 [inlined]
[9] include(::String) at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/BioMedQuery.jl:4
[10] top-level scope at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/BioMedQuery.jl:21
[11] include(::Function, ::Module, ::String) at ./Base.jl:380
[12] include(::Module, ::String) at ./Base.jl:368
[13] top-level scope at none:2
[14] eval at ./boot.jl:331 [inlined]
[15] eval(::Expr) at ./client.jl:451
[16] top-level scope at ./none:3
in expression starting at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/DBUtils/mysql_db_utils.jl:55
in expression starting at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/DBUtils/DBUtils.jl:4
in expression starting at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/src/BioMedQuery.jl:21
ERROR: LoadError: Failed to precompile BioMedQuery [e96904bf-1073-5077-9b57-b0ce0ff5555a] to /home/pkgeval/.julia/compiled/v1.5/BioMedQuery/I7mWp_VZKL6.ji.
Stacktrace:
[1] error(::String) at ./error.jl:33
[2] compilecache(::Base.PkgId, ::String) at ./loading.jl:1288
[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:441
[7] top-level scope at none:6
in expression starting at /home/pkgeval/.julia/packages/BioMedQuery/HCDqv/test/runtests.jl:12
ERROR: Package BioMedQuery 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:53
[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:1503
[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:316
[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:303
[5] #test#68 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:297 [inlined]
[6] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:297 [inlined]
[7] #test#67 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:296 [inlined]
[8] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:296 [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:295
[10] test(::String) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:295
[11] top-level scope at none:13