Package evaluation of Diversity on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T11:09:35.696 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.1s ################################################################################ # Installation # Installing Diversity... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [d3d5718d] + Diversity v0.5.15 Updating `~/.julia/environments/v1.11/Manifest.toml` [34da2185] + Compat v4.16.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [d3d5718d] + Diversity v0.5.15 [a58aae7d] + EcoBase v0.1.7 [842dd82b] + InlineStrings v1.4.3 [41ab1584] + InvertedIndices v1.3.1 [82899510] + IteratorInterfaceExtensions v1.0.0 [b964fa9f] + LaTeXStrings v1.4.0 [e1d29d7a] + Missings v1.2.0 [bac558e1] + OrderedCollections v1.8.0 [2dfb63ee] + PooledArrays v1.4.3 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [3cdcf5f2] + RecipesBase v1.3.4 [189a3867] + Reexport v1.2.2 [91c51154] + SentinelArrays v1.4.8 [a2af1166] + SortingAlgorithms v1.2.1 [10745b16] + Statistics v1.11.1 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [d6f4376e] + Markdown v1.11.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [fa267f1f] + TOML v1.0.3 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [4536629a] + OpenBLAS_jll v0.3.27+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 4.1s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 507.22s ################################################################################ # Testing # Testing Diversity Status `/tmp/jl_pdXZrb/Project.toml` [39de3d68] AxisArrays v0.4.7 [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.7.0 [b4f34e82] Distances v0.10.12 [d3d5718d] Diversity v0.5.15 [a58aae7d] EcoBase v0.1.7 [d7ba0133] Git v1.3.1 ⌅ [98e50ef6] JuliaFormatter v1.0.62 [e1d29d7a] Missings v1.2.0 [aea672f4] Phylo v0.5.4 [6f49c342] RCall v0.14.6 [3cdcf5f2] RecipesBase v1.3.4 [58378933] ResearchSoftwareMetadata v0.1.5 [348f2d5d] SpatialEcology v0.9.16 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.4 [b77e0a4c] InteractiveUtils v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [44cfe95a] Pkg v1.11.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_pdXZrb/Manifest.toml` [66dad0bd] AliasTables v1.1.3 [ec485272] ArnoldiMethod v0.4.0 [15f4f7f2] AutoHashEquals v2.2.0 [39de3d68] AxisArrays v0.4.7 [d1d4a3ce] BitFlags v0.1.9 [00ebfdb7] CSTParser v3.4.3 [336ed68f] CSV v0.10.15 [324d7699] CategoricalArrays v0.10.8 ⌅ [8be319e6] Chain v0.5.0 [944b1d66] CodecZlib v0.7.8 ⌅ [a80b9123] CommonMark v0.8.16 [34da2185] Compat v4.16.0 [f0e56b4a] ConcurrentUtilities v2.5.0 [8f4d0f93] Conda v1.10.2 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 ⌅ [1313f7d8] DataFramesMeta v0.14.1 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [e7dc6d0d] DataValues v0.4.13 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.118 [d3d5718d] Diversity v0.5.15 [ffbed154] DocStringExtensions v0.9.4 [a58aae7d] EcoBase v0.1.7 [460bff9d] ExceptionUnwrapping v0.1.11 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [d7ba0133] Git v1.3.1 [c27321d9] Glob v1.3.1 [86223c79] Graphs v1.12.1 [cd3eb016] HTTP v1.10.15 [34004b35] HypergeometricFunctions v0.3.28 [d25df0c9] Inflate v0.1.5 [842dd82b] InlineStrings v1.4.3 [8197267c] IntervalSets v0.7.10 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [c8e1da08] IterTools v1.10.0 [1c8ee90f] IterableTables v1.0.0 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 ⌅ [98e50ef6] JuliaFormatter v1.0.62 [b964fa9f] LaTeXStrings v1.4.0 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [1914dd2f] MacroTools v0.5.15 [739be429] MbedTLS v1.1.9 [e1d29d7a] Missings v1.2.0 [4d8831e6] OpenSSL v1.4.3 [bac558e1] OrderedCollections v1.8.0 [90014a1f] PDMats v0.11.33 [fae87a5f] ParserCombinator v2.2.1 [69de0a69] Parsers v2.8.1 [aea672f4] Phylo v0.5.4 [2dfb63ee] PooledArrays v1.4.3 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [6f49c342] RCall v0.14.6 [9ae346a0] RandomBooleanMatrices v0.1.2 [e6cf234a] RandomNumbers v1.6.0 [b3c3ace0] RangeArrays v0.3.2 [3cdcf5f2] RecipesBase v1.3.4 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [58378933] ResearchSoftwareMetadata v0.1.5 [79098fc4] Rmath v0.8.0 [91c51154] SentinelArrays v1.4.8 [1277b4bf] ShiftedArrays v2.0.0 [777ac1f9] SimpleBufferStream v1.2.0 [699a6c99] SimpleTraits v0.9.4 [a2af1166] SortingAlgorithms v1.2.1 [348f2d5d] SpatialEcology v0.9.16 [276daf66] SpecialFunctions v2.5.0 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.0 [2913bbd2] StatsBase v0.34.4 [4c63d2b9] StatsFuns v1.4.0 [3eaba693] StatsModels v0.7.4 [69024149] StringEncodings v0.3.7 [892a3eda] StringManipulation v0.4.1 [3783bdb8] TableTraits v1.0.1 [382cd787] TableTraitsUtils v1.0.2 [bd369af6] Tables v1.12.0 [0796e94c] Tokenize v0.5.29 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.5.2 [1986cc42] Unitful v1.22.0 [81def892] VersionParsing v1.3.0 [ea10d353] WeakRefStrings v1.4.2 [1b915085] WinReg v1.0.0 [76eceee3] WorkerUtilities v1.6.1 [ddb6d928] YAML v0.4.13 [2e619515] Expat_jll v2.6.5+0 [f8c6e375] Git_jll v2.49.0+0 [94ce4f54] Libiconv_jll v1.18.0+0 [458c3c95] OpenSSL_jll v3.0.16+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.11.0 [de0858da] Printf v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.11.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [efcefdf7] PCRE2_jll v10.42.0+1 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... [ Info: Running tests for files: = API.jl = Diversity.jl = DiversityMeasure.jl = EcoBase.jl = Ecology.jl = EffectiveNumbers.jl = GeneralisedDiversities.jl = Hill.jl = Interface.jl = Iterators.jl = Jost.jl = Metacommunity.jl = Partition.jl = Types.jl [ Info: Running tests... * Testing API.jl ... * Testing Diversity.jl ... * Testing DiversityMeasure.jl ... * Testing EcoBase.jl ... Precompiling SpatialEcology... 2036.7 ms ✓ RandomBooleanMatrices 4912.3 ms ✓ DataFramesMeta Info Given SpatialEcology was explicitly requested, output will be shown live  WARNING: could not import DataFrames.aggregate into SpatialEcology 6416.0 ms ✓ SpatialEcology 3 dependencies successfully precompiled in 14 seconds. 51 already precompiled. 1 dependency had output during precompilation: ┌ SpatialEcology │ [Output was shown above] └ Precompiling CSV... 1066.8 ms ✓ InlineStrings → ParsersExt 1602.9 ms ✓ WeakRefStrings 20628.9 ms ✓ CSV 3 dependencies successfully precompiled in 24 seconds. 27 already precompiled. Matrix data assumed to be presence-absence Matrix data assumed to be presence-absence * Testing Ecology.jl ... * Testing EffectiveNumbers.jl ... * Testing GeneralisedDiversities.jl ... * Testing Hill.jl ... ┌ Warning: Abundances not normalised to 1, correcting... └ @ Diversity ~/.julia/packages/Diversity/trAoz/src/Metacommunity.jl:124 * Testing Interface.jl ... * Testing Iterators.jl ... Precompiling Phylo... 9398.7 ms ✓ Graphs 18744.0 ms ✓ Phylo 2 dependencies successfully precompiled in 30 seconds. 89 already precompiled. Precompiling DiversityAxisArraysExt... 3932.1 ms ✓ Diversity → DiversityAxisArraysExt 1 dependency successfully precompiled in 4 seconds. 43 already precompiled. Precompiling DistributionsTestExt... 3290.8 ms ✓ Distributions → DistributionsTestExt 1 dependency successfully precompiled in 4 seconds. 48 already precompiled. Precompiling DiversityPhyloExt... 8994.4 ms ✓ Diversity → DiversityPhyloExt 1 dependency successfully precompiled in 10 seconds. 94 already precompiled. * Testing Jost.jl ... * Testing Metacommunity.jl ... ┌ Warning: Abundances not normalised to 1, correcting... └ @ Diversity ~/.julia/packages/Diversity/trAoz/src/Metacommunity.jl:74 * Testing Partition.jl ... * Testing Types.jl ... [ Info: Running tests for extensions: = DiversityAxisArraysExt.jl = DiversityPhyloExt.jl [ Info: Running extension tests... * Testing DiversityAxisArraysExt.jl extension... * Testing DiversityPhyloExt.jl extension... Test Summary: | Pass Broken Total Time Diversity.jl | 288 2 290 8m24.2s [ Info: Cross validation packages: = Distances = RCall = StatsBase * Validating Distances.jl ... * Validating RCall.jl ... Precompiling CategoricalArraysRecipesBaseExt... 1682.3 ms ✓ CategoricalArrays → CategoricalArraysRecipesBaseExt 1 dependency successfully precompiled in 2 seconds. 14 already precompiled. Precompiling PhyloRCallExt... 977.5 ms ✓ CategoricalArrays → CategoricalArraysJSONExt 12863.9 ms ✓ Phylo → PhyloRCallExt 2 dependencies successfully precompiled in 15 seconds. 114 already precompiled. ┌ Warning: RCall.jl: Loading required package: ape │ Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : │ there is no package called ‘ape’ └ @ RCall ~/.julia/packages/RCall/0ggIQ/src/io.jl:172 * installing *source* package ‘lattice’ ... ** package ‘lattice’ successfully unpacked and MD5 sums checked ** using staged installation ** libs sh: 1: x86_64-conda-linux-gnu-cc: not found x86_64-conda-linux-gnu-cc -I"/home/pkgeval/.julia/conda/3/x86_64/lib/R/include" -DNDEBUG -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem /home/pkgeval/.julia/conda/3/x86_64/include -I/home/pkgeval/.julia/conda/3/x86_64/include -Wl,-rpath-link,/home/pkgeval/.julia/conda/3/x86_64/lib -fpic -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /home/pkgeval/.julia/conda/3/x86_64/include -fdebug-prefix-map=/workspace/croot/r-base_1695428141831/work=/usr/local/src/conda/r-base-4.3.1 -fdebug-prefix-map=/home/pkgeval/.julia/conda/3/x86_64=/usr/local/src/conda-prefix -c init.c -o init.o /bin/sh: 1: x86_64-conda-linux-gnu-cc: not found make: *** [/home/pkgeval/.julia/conda/3/x86_64/lib/R/etc/Makeconf:193: init.o] Error 127 ERROR: compilation failed for package ‘lattice’ * removing ‘/tmp/jl_yOGSDp/lattice’ * installing *source* package ‘Rcpp’ ... ** package ‘Rcpp’ successfully unpacked and MD5 sums checked ** using staged installation ** libs sh: 1: x86_64-conda-linux-gnu-c++: not found x86_64-conda-linux-gnu-c++ -std=gnu++17 -I"/home/pkgeval/.julia/conda/3/x86_64/lib/R/include" -DNDEBUG -I../inst/include/ -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem /home/pkgeval/.julia/conda/3/x86_64/include -I/home/pkgeval/.julia/conda/3/x86_64/include -Wl,-rpath-link,/home/pkgeval/.julia/conda/3/x86_64/lib -fpic -fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /home/pkgeval/.julia/conda/3/x86_64/include -fdebug-prefix-map=/workspace/croot/r-base_1695428141831/work=/usr/local/src/conda/r-base-4.3.1 -fdebug-prefix-map=/home/pkgeval/.julia/conda/3/x86_64=/usr/local/src/conda-prefix -c api.cpp -o api.o /bin/sh: 1: x86_64-conda-linux-gnu-c++: not found make: *** [/home/pkgeval/.julia/conda/3/x86_64/lib/R/etc/Makeconf:200: api.o] Error 127 ERROR: compilation failed for package ‘Rcpp’ * removing ‘/tmp/jl_yOGSDp/Rcpp’ * installing *source* package ‘digest’ ... ** package ‘digest’ successfully unpacked and MD5 sums checked ** using staged installation ** libs sh: 1: x86_64-conda-linux-gnu-cc: not found sh: 1: x86_64-conda-linux-gnu-c++: not found x86_64-conda-linux-gnu-c++ -std=gnu++17 -I"/home/pkgeval/.julia/conda/3/x86_64/lib/R/include" -DNDEBUG -I. -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem /home/pkgeval/.julia/conda/3/x86_64/include -I/home/pkgeval/.julia/conda/3/x86_64/include -Wl,-rpath-link,/home/pkgeval/.julia/conda/3/x86_64/lib -fpic -fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /home/pkgeval/.julia/conda/3/x86_64/include -fdebug-prefix-map=/workspace/croot/r-base_1695428141831/work=/usr/local/src/conda/r-base-4.3.1 -fdebug-prefix-map=/home/pkgeval/.julia/conda/3/x86_64=/usr/local/src/conda-prefix -c SpookyV2.cpp -o SpookyV2.o /bin/sh: 1: x86_64-conda-linux-gnu-c++: not found make: *** [/home/pkgeval/.julia/conda/3/x86_64/lib/R/etc/Makeconf:200: SpookyV2.o] Error 127 ERROR: compilation failed for package ‘digest’ * removing ‘/tmp/jl_yOGSDp/digest’ ERROR: dependency ‘lattice’ is not available for package ‘nlme’ * removing ‘/tmp/jl_yOGSDp/nlme’ ERROR: dependencies ‘nlme’, ‘lattice’, ‘Rcpp’, ‘digest’ are not available for package ‘ape’ * removing ‘/tmp/jl_yOGSDp/ape’ ┌ Warning: RCall.jl: also installing the dependencies ‘nlme’, ‘lattice’, ‘Rcpp’, ‘digest’ │ │ trying URL 'http://cran.r-project.org/src/contrib/nlme_3.1-168.tar.gz' │ Content type 'application/x-gzip' length 860576 bytes (840 KB) │ ================================================== │ downloaded 840 KB │ │ trying URL 'http://cran.r-project.org/src/contrib/lattice_0.22-7.tar.gz' │ Content type 'application/x-gzip' length 598622 bytes (584 KB) │ ================================================== │ downloaded 584 KB │ │ trying URL 'http://cran.r-project.org/src/contrib/Rcpp_1.0.14.tar.gz' │ Content type 'application/x-gzip' length 3013288 bytes (2.9 MB) │ ================================================== │ downloaded 2.9 MB │ │ trying URL 'http://cran.r-project.org/src/contrib/digest_0.6.37.tar.gz' │ Content type 'application/x-gzip' length 232306 bytes (226 KB) │ ================================================== │ downloaded 226 KB │ │ trying URL 'http://cran.r-project.org/src/contrib/ape_5.8-1.tar.gz' │ Content type 'application/x-gzip' length 1424541 bytes (1.4 MB) │ ================================================== │ downloaded 1.4 MB │ │ Warning in install.packages("ape", lib = "/tmp/jl_yOGSDp", repos = "http://cran.r-project.org") : │ installation of package ‘lattice’ had non-zero exit status │ Warning in install.packages("ape", lib = "/tmp/jl_yOGSDp", repos = "http://cran.r-project.org") : │ installation of package ‘Rcpp’ had non-zero exit status │ Warning in install.packages("ape", lib = "/tmp/jl_yOGSDp", repos = "http://cran.r-project.org") : │ installation of package ‘digest’ had non-zero exit status │ Warning in install.packages("ape", lib = "/tmp/jl_yOGSDp", repos = "http://cran.r-project.org") : │ installation of package ‘nlme’ had non-zero exit status │ Warning in install.packages("ape", lib = "/tmp/jl_yOGSDp", repos = "http://cran.r-project.org") : │ installation of package ‘ape’ had non-zero exit status │ │ The downloaded source packages are in │ ‘/tmp/RtmpkGgomy/downloaded_packages’ └ @ RCall ~/.julia/packages/RCall/0ggIQ/src/io.jl:172 ┌ Warning: RCall.jl: Loading required package: ape │ Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : │ there is no package called ‘ape’ └ @ RCall ~/.julia/packages/RCall/0ggIQ/src/io.jl:172 ┌ Warning: ape R package not installed and would not install, skipping R crossvalidation └ @ Main.ValidateRCall.ValidateRCall_rdiversity ~/.julia/packages/Diversity/trAoz/test/run_rcall.jl:28 * Validating StatsBase.jl ... Test Summary: | Pass Total Time test set | 900 900 4m32.8s [ Info: Crosswalk and clean testing: = JuliaFormatter = ResearchSoftwareMetadata * Verifying JuliaFormatter.jl ... Precompiling Git... 1018.9 ms ✓ Expat_jll 1235.2 ms ✓ Git_jll 993.4 ms ✓ Git 3 dependencies successfully precompiled in 3 seconds. 14 already precompiled. Precompiling JuliaFormatter... 41965.4 ms ✓ JuliaFormatter 1 dependency successfully precompiled in 42 seconds. 19 already precompiled. fatal: not a git repository (or any parent up to mount point /home/pkgeval/.julia) Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). JuliaFormatter: Error During Test at /home/pkgeval/.julia/packages/Diversity/trAoz/test/clean_JuliaFormatter.jl:32 Got exception outside of a @test failed process: Process(setenv(`/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/bin/git rev-parse --show-toplevel`,["PATH=/home/pkgeval/.julia/artifacts/96bc7b9ddb319d1a051535c85184aa2bf42dbd8b/bin:/home/pkgeval/.julia/artifacts/8be4b2d49ed77db4f9607e5f8a7b09cc105be2ee/bin:/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/bin:/usr/local/bin:/usr/local/sbin:/usr/bin:/usr/sbin:/bin:/sbin", "EDITOR=vi", "R_LIBS_USER=/home/pkgeval/R/x86_64-conda-linux-gnu-library/4.3", "R_PDFVIEWER=", "LD_LIBRARY_PATH=/opt/julia/bin/../lib/julia:/home/pkgeval/.julia/artifacts/96bc7b9ddb319d1a051535c85184aa2bf42dbd8b/lib:/home/pkgeval/.julia/artifacts/8be4b2d49ed77db4f9607e5f8a7b09cc105be2ee/lib:/home/pkgeval/.julia/artifacts/5acd766faaca59c3c1f3cfa67e2bf6dcf1e3e883/lib:/opt/julia/bin/../lib/julia:/opt/julia/bin/../lib", "R_INCLUDE_DIR=/home/pkgeval/.julia/conda/3/x86_64/lib/R/include", "R_TEXI2DVICMD=/workspace/croot/r-base_1695428141831/_build_env/bin/texi2dvi", "R_HOME=/home/pkgeval/.julia/conda/3/x86_64/lib/R", "R_BZIPCMD=/home/pkgeval/.julia/conda/3/x86_64/bin/bzip2", "SED=/usr/bin/sed", "GIT_TEMPLATE_DIR=/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/share/git-core/templates", "PKGEVAL=true", "JULIA_DEPOT_PATH=/home/pkgeval/.julia:/usr/local/share/julia:", "TAR=tar", "R_PLATFORM=x86_64-conda-linux-gnu", "R_STRIP_SHARED_LIB=x86_64-conda-linux-gnu-strip --strip-unneeded", "HOME=/home/pkgeval", "R_STRIP_STATIC_LIB=x86_64-conda-linux-gnu-strip --strip-debug", "JULIA_PKGEVAL=true", "PYTHON=", "R_GZIPCMD=gzip", "GIT_EXEC_PATH=/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/libexec/git-core", "MAKE=make", "R_SESSION_TMPDIR=/tmp/RtmpkGgomy", "R_PAPERSIZE=a4", "LANG=C.UTF-8", "JULIA_CPU_THREADS=1", "PAGER=less", "R_RD4PDF=times,inconsolata,hyper", "JULIA_PKG_PRECOMPILE_AUTO=0", "JULIA_NUM_THREADS=1", "R_SYSTEM_ABI=linux,gcc,gxx,gfortran,gfortran", "R_LIBS_SITE=/home/pkgeval/.julia/conda/3/x86_64/lib/R/site-library", "DISPLAY=:1", "R_ZIPCMD=", "OPENBLAS_NUM_THREADS=1", "CI=true", "JULIA_NUM_PRECOMPILE_TASKS=1", "R_UNZIPCMD=", "R_BROWSER=", "JULIA_LOAD_PATH=@:/tmp/jl_pdXZrb", "R_PRINTCMD=", "R_SHARE_DIR=/home/pkgeval/.julia/conda/3/x86_64/lib/R/share", "GIT_SSL_CAINFO=/opt/julia/share/julia/cert.pem", "R_DOC_DIR=/home/pkgeval/.julia/conda/3/x86_64/lib/R/doc", "OPENBLAS_MAIN_FREE=1", "LN_S=ln -s"]), ProcessExited(128)) [128] Stacktrace: [1] pipeline_error @ ./process.jl:598 [inlined] [2] read(cmd::Cmd) @ Base ./process.jl:482 [3] read @ ./process.jl:491 [inlined] [4] readchomp(x::Cmd) @ Base ./io.jl:1136 [5] macro expansion @ ~/.julia/packages/Diversity/trAoz/test/clean_JuliaFormatter.jl:33 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [7] top-level scope @ ~/.julia/packages/Diversity/trAoz/test/clean_JuliaFormatter.jl:33 [8] include(fname::String) @ Main ./sysimg.jl:38 [9] macro expansion @ ~/.julia/packages/Diversity/trAoz/test/runtests.jl:158 [inlined] [10] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1793 [inlined] [11] macro expansion @ ~/.julia/packages/Diversity/trAoz/test/runtests.jl:155 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [13] top-level scope @ ~/.julia/packages/Diversity/trAoz/test/runtests.jl:150 [14] include(fname::String) @ Main ./sysimg.jl:38 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:430 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:531 * Verifying ResearchSoftwareMetadata.jl ... Precompiling ResearchSoftwareMetadata... HTTP Waiting for background task / IO / timer. [pid 1937] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1937] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1937] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1937] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1937] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1937] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1937] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. 158465.2 ms ✓ HTTP 2627.4 ms ✓ ResearchSoftwareMetadata 2 dependencies successfully precompiled in 161 seconds. 46 already precompiled. 1 dependency had output during precompilation: ┌ HTTP │ ┌ Info: Ignoring an error that occurred during the precompilation workload │ │ exception = │ │ HTTP.ConnectError for url = `https://localhost:57813`: TimeoutException: try_with_timeout timed out after 30.0 seconds │ │ Stacktrace: │ │ [1] (::HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}})(req::HTTP.Messages.Request; proxy::Nothing, socket_type::Type, socket_type_tls::Nothing, readtimeout::Int64, connect_timeout::Int64, logerrors::Bool, logtag::Nothing, closeimmediately::Bool, kw::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ HTTP.ConnectionRequest ~/.julia/packages/HTTP/4AUPl/src/clientlayers/ConnectionRequest.jl:88 │ │ [2] connections │ │ @ ~/.julia/packages/HTTP/4AUPl/src/clientlayers/ConnectionRequest.jl:60 [inlined] │ │ [3] (::Base.var"#106#108"{Base.var"#106#107#109"{ExponentialBackOff, HTTP.RetryRequest.var"#2#5"{Int64, typeof(HTTP.RetryRequest.FALSE), HTTP.Messages.Request, Base.RefValue{Int64}}, HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}})(args::HTTP.Messages.Request; kwargs::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ Base ./error.jl:300 │ │ [4] (::HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}})(req::HTTP.Messages.Request; retry::Bool, retries::Int64, retry_delays::ExponentialBackOff, retry_check::Function, retry_non_idempotent::Bool, kw::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ HTTP.RetryRequest ~/.julia/packages/HTTP/4AUPl/src/clientlayers/RetryRequest.jl:75 │ │ [5] manageretries │ │ @ ~/.julia/packages/HTTP/4AUPl/src/clientlayers/RetryRequest.jl:30 [inlined] │ │ [6] (::HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}})(req::HTTP.Messages.Request; cookies::Bool, cookiejar::HTTP.Cookies.CookieJar, kw::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ HTTP.CookieRequest ~/.julia/packages/HTTP/4AUPl/src/clientlayers/CookieRequest.jl:42 │ │ [7] managecookies │ │ @ ~/.julia/packages/HTTP/4AUPl/src/clientlayers/CookieRequest.jl:19 [inlined] │ │ [8] (::HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}})(req::HTTP.Messages.Request; iofunction::Nothing, decompress::Nothing, basicauth::Bool, detect_content_type::Bool, canonicalize_headers::Bool, kw::@Kwargs{verbose::Int64}) │ │ @ HTTP.HeadersRequest ~/.julia/packages/HTTP/4AUPl/src/clientlayers/HeadersRequest.jl:71 │ │ [9] defaultheaders │ │ @ ~/.julia/packages/HTTP/4AUPl/src/clientlayers/HeadersRequest.jl:14 [inlined] │ │ [10] (::HTTP.RedirectRequest.var"#redirects#3"{HTTP.RedirectRequest.var"#redirects#1#4"{HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}}}})(req::HTTP.Messages.Request; redirect::Bool, redirect_limit::Int64, redirect_method::Nothing, forwardheaders::Bool, response_stream::Nothing, kw::@Kwargs{verbose::Int64}) │ │ @ HTTP.RedirectRequest ~/.julia/packages/HTTP/4AUPl/src/clientlayers/RedirectRequest.jl:25 │ │ [11] redirects │ │ @ ~/.julia/packages/HTTP/4AUPl/src/clientlayers/RedirectRequest.jl:14 [inlined] │ │ [12] (::HTTP.MessageRequest.var"#makerequest#3"{HTTP.MessageRequest.var"#makerequest#1#4"{HTTP.RedirectRequest.var"#redirects#3"{HTTP.RedirectRequest.var"#redirects#1#4"{HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}}}}}})(method::String, url::URIs.URI, headers::Nothing, body::Vector{UInt8}; copyheaders::Bool, response_stream::Nothing, http_version::HTTP.Strings.HTTPVersion, verbose::Int64, kw::@Kwargs{}) │ │ @ HTTP.MessageRequest ~/.julia/packages/HTTP/4AUPl/src/clientlayers/MessageRequest.jl:35 │ │ [13] makerequest │ │ @ ~/.julia/packages/HTTP/4AUPl/src/clientlayers/MessageRequest.jl:24 [inlined] │ │ [14] request(stack::HTTP.MessageRequest.var"#makerequest#3"{HTTP.MessageRequest.var"#makerequest#1#4"{HTTP.RedirectRequest.var"#redirects#3"{HTTP.RedirectRequest.var"#redirects#1#4"{HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}}}}}}, method::String, url::String, h::Nothing, b::Vector{UInt8}, q::Nothing; headers::Nothing, body::Vector{UInt8}, query::Nothing, kw::@Kwargs{}) │ │ @ HTTP ~/.julia/packages/HTTP/4AUPl/src/HTTP.jl:457 │ │ [15] request(stack::Function, method::String, url::String, h::Nothing, b::Vector{UInt8}, q::Nothing) │ │ @ HTTP ~/.julia/packages/HTTP/4AUPl/src/HTTP.jl:455 │ │ [16] #request#20 │ │ @ ~/.julia/packages/HTTP/4AUPl/src/HTTP.jl:315 [inlined] │ │ [17] request (repeats 2 times) │ │ @ ~/.julia/packages/HTTP/4AUPl/src/HTTP.jl:313 [inlined] │ │ [18] get │ │ @ ~/.julia/packages/HTTP/4AUPl/src/HTTP.jl:518 [inlined] │ │ [19] macro expansion │ │ @ ~/.julia/packages/HTTP/4AUPl/src/precompile.jl:36 [inlined] │ │ [20] macro expansion │ │ @ ~/.julia/packages/PrecompileTools/L8A3n/src/workloads.jl:78 [inlined] │ │ [21] (::HTTP.var"#51#54"{String})() │ │ @ HTTP ~/.julia/packages/HTTP/4AUPl/src/precompile.jl:35 │ │ [22] withenv(::HTTP.var"#51#54"{String}, ::Pair{String, Union{Nothing, String}}, ::Vararg{Pair{String, Union{Nothing, String}}}) │ │ @ Base ./env.jl:265 │ │ [23] macro expansion │ │ @ ~/.julia/packages/HTTP/4AUPl/src/precompile.jl:34 [inlined] │ │ [24] macro expansion │ │ @ ~/.julia/packages/PrecompileTools/L8A3n/src/workloads.jl:140 [inlined] │ │ [25] top-level scope │ │ @ ~/.julia/packages/HTTP/4AUPl/src/precompile.jl:4 │ │ [26] include(mod::Module, _path::String) │ │ @ Base ./Base.jl:557 │ │ [27] include │ │ @ ~/.julia/packages/HTTP/4AUPl/src/HTTP.jl:1 [inlined] │ │ [28] top-level scope │ │ @ ~/.julia/packages/HTTP/4AUPl/src/HTTP.jl:636 │ │ [29] include │ │ @ ./Base.jl:557 [inlined] │ │ [30] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) │ │ @ Base ./loading.jl:2881 │ │ [31] top-level scope │ │ @ stdin:6 │ │ [32] eval │ │ @ ./boot.jl:430 [inlined] │ │ [33] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) │ │ @ Base ./loading.jl:2734 │ │ [34] include_string │ │ @ ./loading.jl:2744 [inlined] │ │ [35] exec_options(opts::Base.JLOptions) │ │ @ Base ./client.jl:321 │ │ [36] _start() │ └ @ Base ./client.jl:531 │ │ [pid 1937] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1937] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1937] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1937] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1937] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1937] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1937] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. └ fatal: not a git repository (or any parent up to mount point /home/pkgeval/.julia) Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). RSMD: Error During Test at /home/pkgeval/.julia/packages/Diversity/trAoz/test/clean_ResearchSoftwareMetadata.jl:32 Got exception outside of a @test failed process: Process(setenv(`/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/bin/git rev-parse --show-toplevel`,["PATH=/home/pkgeval/.julia/artifacts/96bc7b9ddb319d1a051535c85184aa2bf42dbd8b/bin:/home/pkgeval/.julia/artifacts/8be4b2d49ed77db4f9607e5f8a7b09cc105be2ee/bin:/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/bin:/usr/local/bin:/usr/local/sbin:/usr/bin:/usr/sbin:/bin:/sbin", "EDITOR=vi", "R_LIBS_USER=/home/pkgeval/R/x86_64-conda-linux-gnu-library/4.3", "R_PDFVIEWER=", "LD_LIBRARY_PATH=/opt/julia/bin/../lib/julia:/home/pkgeval/.julia/artifacts/96bc7b9ddb319d1a051535c85184aa2bf42dbd8b/lib:/home/pkgeval/.julia/artifacts/8be4b2d49ed77db4f9607e5f8a7b09cc105be2ee/lib:/home/pkgeval/.julia/artifacts/5acd766faaca59c3c1f3cfa67e2bf6dcf1e3e883/lib:/opt/julia/bin/../lib/julia:/opt/julia/bin/../lib", "R_INCLUDE_DIR=/home/pkgeval/.julia/conda/3/x86_64/lib/R/include", "R_TEXI2DVICMD=/workspace/croot/r-base_1695428141831/_build_env/bin/texi2dvi", "R_HOME=/home/pkgeval/.julia/conda/3/x86_64/lib/R", "R_BZIPCMD=/home/pkgeval/.julia/conda/3/x86_64/bin/bzip2", "SED=/usr/bin/sed", "GIT_TEMPLATE_DIR=/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/share/git-core/templates", "PKGEVAL=true", "JULIA_DEPOT_PATH=/home/pkgeval/.julia:/usr/local/share/julia:", "TAR=tar", "R_PLATFORM=x86_64-conda-linux-gnu", "R_STRIP_SHARED_LIB=x86_64-conda-linux-gnu-strip --strip-unneeded", "HOME=/home/pkgeval", "R_STRIP_STATIC_LIB=x86_64-conda-linux-gnu-strip --strip-debug", "JULIA_PKGEVAL=true", "PYTHON=", "R_GZIPCMD=gzip", "GIT_EXEC_PATH=/home/pkgeval/.julia/artifacts/9bfc066f45d9299c72b5f6928c8618c066904c83/libexec/git-core", "MAKE=make", "R_SESSION_TMPDIR=/tmp/RtmpkGgomy", "R_PAPERSIZE=a4", "LANG=C.UTF-8", "JULIA_CPU_THREADS=1", "PAGER=less", "R_RD4PDF=times,inconsolata,hyper", "JULIA_PKG_PRECOMPILE_AUTO=0", "JULIA_NUM_THREADS=1", "R_SYSTEM_ABI=linux,gcc,gxx,gfortran,gfortran", "R_LIBS_SITE=/home/pkgeval/.julia/conda/3/x86_64/lib/R/site-library", "DISPLAY=:1", "R_ZIPCMD=", "OPENBLAS_NUM_THREADS=1", "CI=true", "JULIA_NUM_PRECOMPILE_TASKS=1", "R_UNZIPCMD=", "R_BROWSER=", "JULIA_LOAD_PATH=@:/tmp/jl_pdXZrb", "R_PRINTCMD=", "R_SHARE_DIR=/home/pkgeval/.julia/conda/3/x86_64/lib/R/share", "GIT_SSL_CAINFO=/opt/julia/share/julia/cert.pem", "R_DOC_DIR=/home/pkgeval/.julia/conda/3/x86_64/lib/R/doc", "OPENBLAS_MAIN_FREE=1", "LN_S=ln -s"]), ProcessExited(128)) [128] Stacktrace: [1] pipeline_error @ ./process.jl:598 [inlined] [2] read(cmd::Cmd) @ Base ./process.jl:482 [3] read @ ./process.jl:491 [inlined] [4] readchomp(x::Cmd) @ Base ./io.jl:1136 [5] macro expansion @ ~/.julia/packages/Diversity/trAoz/test/clean_ResearchSoftwareMetadata.jl:33 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [7] top-level scope @ ~/.julia/packages/Diversity/trAoz/test/clean_ResearchSoftwareMetadata.jl:33 [8] include(fname::String) @ Main ./sysimg.jl:38 [9] macro expansion @ ~/.julia/packages/Diversity/trAoz/test/runtests.jl:158 [inlined] [10] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1793 [inlined] [11] macro expansion @ ~/.julia/packages/Diversity/trAoz/test/runtests.jl:155 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [13] top-level scope @ ~/.julia/packages/Diversity/trAoz/test/runtests.jl:150 [14] include(fname::String) @ Main ./sysimg.jl:38 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:430 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:531 Test Summary: | Error Total Time test set | 2 2 3m37.8s c = JuliaFormatter | 1 1 54.1s JuliaFormatter | 1 1 5.9s c = ResearchSoftwareMetadata | 1 1 2m43.7s RSMD | 1 1 0.2s ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 2 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/Diversity/trAoz/test/runtests.jl:139 Testing failed after 870.5s ERROR: LoadError: Package Diversity errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2124 [3] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2007 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:481 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1568.91s: package tests unexpectedly errored