Package evaluation of OMOPCDMCohortCreator on Julia 1.13.0-DEV.449 (8d6b63c3a6*) started at 2025-04-29T02:48:45.621 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.26s ################################################################################ # Installation # Installing OMOPCDMCohortCreator... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [f525a15e] + OMOPCDMCohortCreator v0.5.1 Updating `~/.julia/environments/v1.13/Manifest.toml` [34da2185] + Compat v4.16.0 [a8cc5b0e] + Crayons v4.1.1 [a10d1c49] + DBInterface v2.6.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [e2ba6199] + ExprTools v0.1.10 ⌅ [cf6cc811] + FunSQL v0.13.2 [842dd82b] + InlineStrings v1.4.3 [41ab1584] + InvertedIndices v1.3.1 [82899510] + IteratorInterfaceExtensions v1.0.0 [8ac3fa9e] + LRUCache v1.6.2 [b964fa9f] + LaTeXStrings v1.4.0 [e1d29d7a] + Missings v1.2.0 [78c3b35d] + Mocking v0.8.1 [f525a15e] + OMOPCDMCohortCreator v0.5.1 [bac558e1] + OrderedCollections v1.8.0 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.4.3 [54e16d92] + PrettyPrinting v0.4.2 [08abe8d2] + PrettyTables v2.4.0 [189a3867] + Reexport v1.2.2 [6c6a2e73] + Scratch v1.2.1 [91c51154] + SentinelArrays v1.4.8 [a2af1166] + SortingAlgorithms v1.2.1 [10745b16] + Statistics v1.11.1 [892a3eda] + StringManipulation v0.4.1 [dc5dba14] + TZJData v1.5.0+2025b [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [f269a46b] + TimeZones v1.21.3 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [b27032c2] + LibCURL v0.6.4 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [d6f4376e] + Markdown v1.11.0 [ca575930] + NetworkOptions v1.3.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.12.1+1 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2024.12.31 [4536629a] + OpenBLAS_jll v0.3.29+0 [458c3c95] + OpenSSL_jll v3.0.16+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.12.0+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+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 1.61s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ TestEnv ~/.julia/packages/TestEnv/tgnBf/src/julia-1.11/activate_set.jl:63 Precompiling package dependencies... Precompilation completed after 37.38s ################################################################################ # Testing # Testing OMOPCDMCohortCreator Test Could not use exact versions of packages in manifest. Re-resolving dependencies Updating `/tmp/jl_MOuKcy/Project.toml` ⌅ [cf6cc811] ↓ FunSQL v0.13.2 ⇒ v0.11.2 [b8464e9a] + HealthSampleData v0.0.1 [0f8b85d8] + JSON3 v1.14.2 ⌅ [b1469e29] + OHDSICohortExpressions v0.1.5 [0aa819cd] + SQLite v1.6.1 [8dfed614] ~ Test ⇒ v1.11.0 Updating `/tmp/jl_MOuKcy/Manifest.toml` [d1d4a3ce] + BitFlags v0.1.9 [944b1d66] + CodecZlib v0.7.8 [f0e56b4a] + ConcurrentUtilities v2.5.0 [124859b0] + DataDeps v0.7.13 [460bff9d] + ExceptionUnwrapping v0.1.11 ⌅ [cf6cc811] ↓ FunSQL v0.13.2 ⇒ v0.11.2 [cd3eb016] + HTTP v1.10.16 [b8464e9a] + HealthSampleData v0.0.1 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [0f8b85d8] + JSON3 v1.14.2 [e6f89c97] + LoggingExtras v1.1.0 [739be429] + MbedTLS v1.1.9 ⌅ [b1469e29] + OHDSICohortExpressions v0.1.5 [4d8831e6] + OpenSSL v1.4.3 [69de0a69] + Parsers v2.8.3 [0aa819cd] + SQLite v1.6.1 [777ac1f9] + SimpleBufferStream v1.2.0 [856f2bd8] + StructTypes v1.11.0 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.5.2 [ea10d353] + WeakRefStrings v1.4.2 [c8ffd9c3] + MbedTLS_jll v2.28.6+2 [76ed43ae] + SQLite_jll v3.48.0+0 [56ddb016] + Logging v1.11.0 [a63ad114] + Mmap v1.11.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [8dfed614] ~ Test ⇒ v1.11.0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Test Successfully re-resolved Status `/tmp/jl_MOuKcy/Project.toml` [a10d1c49] DBInterface v2.6.1 [a93c6f00] DataFrames v1.7.0 ⌅ [cf6cc811] FunSQL v0.11.2 [b8464e9a] HealthSampleData v0.0.1 [0f8b85d8] JSON3 v1.14.2 ⌅ [b1469e29] OHDSICohortExpressions v0.1.5 [f525a15e] OMOPCDMCohortCreator v0.5.1 [0aa819cd] SQLite v1.6.1 [f269a46b] TimeZones v1.21.3 [ade2ca70] Dates v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_MOuKcy/Manifest.toml` [d1d4a3ce] BitFlags v0.1.9 [944b1d66] CodecZlib v0.7.8 [34da2185] Compat v4.16.0 [f0e56b4a] ConcurrentUtilities v2.5.0 [a8cc5b0e] Crayons v4.1.1 [a10d1c49] DBInterface v2.6.1 [9a962f9c] DataAPI v1.16.0 [124859b0] DataDeps v0.7.13 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [460bff9d] ExceptionUnwrapping v0.1.11 [e2ba6199] ExprTools v0.1.10 ⌅ [cf6cc811] FunSQL v0.11.2 [cd3eb016] HTTP v1.10.16 [b8464e9a] HealthSampleData v0.0.1 [842dd82b] InlineStrings v1.4.3 [41ab1584] InvertedIndices v1.3.1 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 [0f8b85d8] JSON3 v1.14.2 [8ac3fa9e] LRUCache v1.6.2 [b964fa9f] LaTeXStrings v1.4.0 [e6f89c97] LoggingExtras v1.1.0 [739be429] MbedTLS v1.1.9 [e1d29d7a] Missings v1.2.0 [78c3b35d] Mocking v0.8.1 ⌅ [b1469e29] OHDSICohortExpressions v0.1.5 [f525a15e] OMOPCDMCohortCreator v0.5.1 [4d8831e6] OpenSSL v1.4.3 [bac558e1] OrderedCollections v1.8.0 [69de0a69] Parsers v2.8.3 [2dfb63ee] PooledArrays v1.4.3 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.4.3 [54e16d92] PrettyPrinting v0.4.2 [08abe8d2] PrettyTables v2.4.0 [189a3867] Reexport v1.2.2 [0aa819cd] SQLite v1.6.1 [6c6a2e73] Scratch v1.2.1 [91c51154] SentinelArrays v1.4.8 [777ac1f9] SimpleBufferStream v1.2.0 [a2af1166] SortingAlgorithms v1.2.1 [10745b16] Statistics v1.11.1 [892a3eda] StringManipulation v0.4.1 [856f2bd8] StructTypes v1.11.0 [dc5dba14] TZJData v1.5.0+2025b [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.0 [f269a46b] TimeZones v1.21.3 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.5.2 [ea10d353] WeakRefStrings v1.4.2 [c8ffd9c3] MbedTLS_jll v2.28.6+2 [76ed43ae] SQLite_jll v3.48.0+0 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [f43a241f] Downloads v1.7.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0 [b27032c2] LibCURL v0.6.4 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.12.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [f489334b] StyledStrings v1.11.0 [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.12.1+1 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2024.12.31 [4536629a] OpenBLAS_jll v0.3.29+0 [458c3c95] OpenSSL_jll v3.0.16+0 [83775a58] Zlib_jll v1.3.1+2 [8e850b90] libblastrampoline_jll v5.12.0+0 [8e850ede] nghttp2_jll v1.65.0+0 [3f19e933] p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling packages... 4768.2 ms ✓ HealthSampleData 1 dependency successfully precompiled in 5 seconds. 36 already precompiled. Precompiling packages... 5168.2 ms ✓ SQLite_jll 4276.0 ms ✓ SQLite 2 dependencies successfully precompiled in 10 seconds. 21 already precompiled. Precompiling packages... 3351.3 ms ✓ OHDSICohortExpressions 1 dependency successfully precompiled in 3 seconds. 20 already precompiled. [ Info: Eunomia data source is downloaded! [ Info: Global database dialect set to: sqlite [ Info: Global schema set to: main [ Info: cdm_source table generated internally [ Info: location table generated internally [ Info: care_site table generated internally [ Info: concept_ancestor table generated internally [ Info: concept table generated internally [ Info: concept_relationship table generated internally [ Info: condition_era table generated internally [ Info: cost table generated internally [ Info: dose_era table generated internally [ Info: drug_strength table generated internally [ Info: note table generated internally [ Info: cohort_attribute table generated internally [ Info: person table generated internally [ Info: provider table generated internally [ Info: source_to_concept_map table generated internally [ Info: cohort table generated internally [ Info: concept_synonym table generated internally [ Info: visit_occurrence table generated internally [ Info: vocabulary table generated internally [ Info: fact_relationship table generated internally [ Info: domain table generated internally [ Info: drug_era table generated internally [ Info: procedure_occurrence table generated internally [ Info: death table generated internally [ Info: note_nlp table generated internally [ Info: concept_class table generated internally [ Info: device_exposure table generated internally [ Info: payer_plan_period table generated internally [ Info: drug_exposure table generated internally [ Info: observation table generated internally [ Info: relationship table generated internally [ Info: specimen table generated internally [ Info: observation_period table generated internally [ Info: visit_detail table generated internally [ Info: condition_occurrence table generated internally [ Info: measurement table generated internally [ Info: metadata table generated internally Test Summary: | Pass Total Time OMOPCDMCohortCreator | 75 75 1m30.7s Testing OMOPCDMCohortCreator tests passed Testing completed after 218.0s PkgEval succeeded after 278.43s