Package evaluation of OMOPVocabMapper on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T16:58:09.480


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 9.01s


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# Installation
#

Installing OMOPVocabMapper...
   Resolving package versions...
    Updating `~/.julia/environments/v1.11/Project.toml`
  [fc9e345c] + OMOPVocabMapper v0.1.2
    Updating `~/.julia/environments/v1.11/Manifest.toml`
  [a4c015fc] + ANSIColoredPrinters v0.0.1
  [1520ce14] + AbstractTrees v0.4.5
  [66dad0bd] + AliasTables v1.1.3
  [336ed68f] + CSV v0.10.15
  [da1fd8a2] + CodeTracking v1.3.9
  [944b1d66] + CodecZlib v0.7.8
  [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
  [e7dc6d0d] + DataValues v0.4.13
  [ffbed154] + DocStringExtensions v0.9.4
  [e30172f5] + Documenter v1.10.1
  [48062228] + FilePathsBase v0.9.24
  [d7ba0133] + Git v1.3.1
  [b5f81e59] + IOCapture v0.2.5
  [842dd82b] + InlineStrings v1.4.3
  [41ab1584] + InvertedIndices v1.3.1
  [92d709cd] + IrrationalConstants v0.2.4
  [1c8ee90f] + IterableTables v1.0.0
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [692b3bcd] + JLLWrappers v1.7.0
  [682c06a0] + JSON v0.21.4
  [aa1ae85d] + JuliaInterpreter v0.9.42
  [b964fa9f] + LaTeXStrings v1.4.0
  [0e77f7df] + LazilyInitializedFields v1.3.0
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [6f1432cf] + LoweredCodeUtils v3.1.0
  [1914dd2f] + MacroTools v0.5.15
  [d0879d2d] + MarkdownAST v0.1.2
  [e1d29d7a] + Missings v1.2.0
  [fc9e345c] + OMOPVocabMapper v0.1.2
  [bac558e1] + OrderedCollections v1.8.0
  [69de0a69] + Parsers v2.8.1
  [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
  [1a8c2f83] + Query v1.0.0
  [2aef5ad7] + QueryOperators v0.9.3
  [189a3867] + Reexport v1.2.2
  [2792f1a3] + RegistryInstances v0.1.0
  [ae029012] + Requires v1.3.1
  [295af30f] + Revise v3.7.3
  [91c51154] + SentinelArrays v1.4.8
  [a2af1166] + SortingAlgorithms v1.2.1
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.7.0
  [2913bbd2] + StatsBase v0.34.4
  [892a3eda] + StringManipulation v0.4.1
  [5e66a065] + TableShowUtils v0.2.6
  [3783bdb8] + TableTraits v1.0.1
  [382cd787] + TableTraitsUtils v1.0.2
  [bd369af6] + Tables v1.12.0
  [3bb67fe8] + TranscodingStreams v0.11.3
  [ea10d353] + WeakRefStrings v1.4.2
  [76eceee3] + WorkerUtilities v1.6.1
  [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
  [0dad84c5] + ArgTools v1.1.2
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates 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
  [6462fe0b] + Sockets v1.11.0
  [2f01184e] + SparseArrays v1.11.0
  [f489334b] + StyledStrings v1.11.0
  [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
  [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. To see why use `status --outdated -m`

Installation completed after 2.2s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 20.95s


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# Testing
#

     Testing OMOPVocabMapper
      Status `/tmp/jl_oZAVON/Project.toml`
  [336ed68f] CSV v0.10.15
  [a93c6f00] DataFrames v1.7.0
  [e30172f5] Documenter v1.10.1
  [842dd82b] InlineStrings v1.4.3
  [fc9e345c] OMOPVocabMapper v0.1.2
  [1a8c2f83] Query v1.0.0
  [295af30f] Revise v3.7.3
  [2913bbd2] StatsBase v0.34.4
  [ade2ca70] Dates v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_oZAVON/Manifest.toml`
  [a4c015fc] ANSIColoredPrinters v0.0.1
  [1520ce14] AbstractTrees v0.4.5
  [66dad0bd] AliasTables v1.1.3
  [336ed68f] CSV v0.10.15
  [da1fd8a2] CodeTracking v1.3.9
  [944b1d66] CodecZlib v0.7.8
  [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
  [e7dc6d0d] DataValues v0.4.13
  [ffbed154] DocStringExtensions v0.9.4
  [e30172f5] Documenter v1.10.1
  [48062228] FilePathsBase v0.9.24
  [d7ba0133] Git v1.3.1
  [b5f81e59] IOCapture v0.2.5
  [842dd82b] InlineStrings v1.4.3
  [41ab1584] InvertedIndices v1.3.1
  [92d709cd] IrrationalConstants v0.2.4
  [1c8ee90f] IterableTables v1.0.0
  [82899510] IteratorInterfaceExtensions v1.0.0
  [692b3bcd] JLLWrappers v1.7.0
  [682c06a0] JSON v0.21.4
  [aa1ae85d] JuliaInterpreter v0.9.42
  [b964fa9f] LaTeXStrings v1.4.0
  [0e77f7df] LazilyInitializedFields v1.3.0
  [2ab3a3ac] LogExpFunctions v0.3.29
  [6f1432cf] LoweredCodeUtils v3.1.0
  [1914dd2f] MacroTools v0.5.15
  [d0879d2d] MarkdownAST v0.1.2
  [e1d29d7a] Missings v1.2.0
  [fc9e345c] OMOPVocabMapper v0.1.2
  [bac558e1] OrderedCollections v1.8.0
  [69de0a69] Parsers v2.8.1
  [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
  [1a8c2f83] Query v1.0.0
  [2aef5ad7] QueryOperators v0.9.3
  [189a3867] Reexport v1.2.2
  [2792f1a3] RegistryInstances v0.1.0
  [ae029012] Requires v1.3.1
  [295af30f] Revise v3.7.3
  [91c51154] SentinelArrays v1.4.8
  [a2af1166] SortingAlgorithms v1.2.1
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.7.0
  [2913bbd2] StatsBase v0.34.4
  [892a3eda] StringManipulation v0.4.1
  [5e66a065] TableShowUtils v0.2.6
  [3783bdb8] TableTraits v1.0.1
  [382cd787] TableTraitsUtils v1.0.2
  [bd369af6] Tables v1.12.0
  [3bb67fe8] TranscodingStreams v0.11.3
  [ea10d353] WeakRefStrings v1.4.2
  [76eceee3] WorkerUtilities v1.6.1
  [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
  [0dad84c5] ArgTools v1.1.2
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates 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
  [6462fe0b] Sockets v1.11.0
  [2f01184e] SparseArrays v1.11.0
  [f489334b] StyledStrings v1.11.0
  [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
  [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...
Starting mapping process...
Reading ICD codes file...
Reading concept file...
Reading concept relationship file...
Filtering concept relationship for 'Maps to' and 'Maps to value' relationships...
Unique ICD types found: ["ICD10CM", "ICD9CM"]
Processing ICD type: ICD9CM
Number of entries in ICD codes file for ICD9CM: 2
Processing ICD type: ICD10CM
Number of entries in ICD codes file for ICD10CM: 2
Adding multiple mapping indicator...
Error: SystemError("opening file \"/home/pkgeval/.julia/packages/OMOPVocabMapper/8AYli/test/data/output/omopmappedcodes.csv\"", 13, nothing)
Test Summary:     | Pass  Total     Time
My Function Tests |    3      3  2m01.2s
     Testing OMOPVocabMapper tests passed 

Testing completed after 133.82s

PkgEval succeeded after 175.18s