Package evaluation of TreeKnit on Julia 1.10.8 (92f03a4775*) started at 2025-02-25T11:33:15.550 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 5.1s ################################################################################ # Installation # Installing TreeKnit... Resolving package versions... Installed TreeKnit ─ v0.5.8 Updating `~/.julia/environments/v1.10/Project.toml` [03f602be] + TreeKnit v0.5.8 Updating `~/.julia/environments/v1.10/Manifest.toml` ⌅ [3da002f7] + ColorTypes v0.11.5 ⌅ [5ae59095] + Colors v0.12.11 [863f3e99] + Comonicon v1.0.8 [34da2185] + Compat v4.16.0 [5060bff5] + ConcurrentCollections v0.1.1 [5218b696] + Configurations v0.17.6 [6add18c4] + ContextVariablesX v0.1.3 ⌅ [d58978e5] + Dagger v0.16.3 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.20 [fab6aee4] + DistributedNext v1.0.0 [ffbed154] + DocStringExtensions v0.9.3 [55351af7] + ExproniconLite v0.10.14 [53c48c17] + FixedPointNumbers v0.8.5 [c27321d9] + Glob v1.3.1 [076d061b] + HashArrayMappedTries v0.2.0 [92d709cd] + IrrationalConstants v0.2.4 [0f8b85d8] + JSON3 v1.14.1 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.1.0 [1914dd2f] + MacroTools v0.5.15 [f9f48841] + MemPool v0.4.12 [e1d29d7a] + Missings v1.2.0 [bac558e1] + OrderedCollections v1.8.0 [9b87118b] + PackageCompiler v2.2.0 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.1 [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [92933f4c] + ProgressMeter v1.10.2 [189a3867] + Reexport v1.2.2 [05181044] + RelocatableFolders v1.0.1 [ae029012] + Requires v1.3.0 [7e506255] + ScopedValues v1.3.0 [6c6a2e73] + Scratch v1.2.1 [a2af1166] + SortingAlgorithms v1.2.1 [82ae8749] + StatsAPI v1.7.0 ⌅ [2913bbd2] + StatsBase v0.33.21 [856f2bd8] + StructTypes v1.11.0 [a526e669] + TimespanLogging v0.1.0 [03f602be] + TreeKnit v0.5.8 ⌅ [62f0eae3] + TreeTools v0.6.14 [3a884ed6] + UnPack v1.0.2 [0dad84c5] + ArgTools v1.1.1 [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8ba89e20] + Distributed [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching [b77e0a4c] + InteractiveUtils [4af54fe1] + LazyArtifacts [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.10.0 [de0858da] + Printf [9abbd945] + Profile [3fa0cd96] + REPL [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [1a1011a3] + SharedArrays [6462fe0b] + Sockets [2f01184e] + SparseArrays v1.10.0 [10745b16] + Statistics v1.10.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] + LibCURL_jll v8.4.0+0 [e37daf67] + LibGit2_jll v1.6.4+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.2+1 [14a3606d] + MozillaCACerts_jll v2023.1.10 [4536629a] + OpenBLAS_jll v0.3.23+4 [bea87d4a] + SuiteSparse_jll v7.2.1+1 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.52.0+1 [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` Building TreeKnit → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/4a8ed025862a8e04919848474ecd4a1a22c48dd3/build.log` Installation completed after 1026.52s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 11.36s ################################################################################ # Testing # Testing TreeKnit Status `/tmp/jl_V1oRNl/Project.toml` [861a8166] Combinatorics v1.0.2 ⌅ [d58978e5] Dagger v0.16.3 [0f8b85d8] JSON3 v1.14.1 [e6f89c97] LoggingExtras v1.1.0 [03f602be] TreeKnit v0.5.8 ⌅ [62f0eae3] TreeTools v0.6.14 [56ddb016] Logging [44cfe95a] Pkg v1.10.0 [8dfed614] Test Status `/tmp/jl_V1oRNl/Manifest.toml` ⌅ [3da002f7] ColorTypes v0.11.5 ⌅ [5ae59095] Colors v0.12.11 [861a8166] Combinatorics v1.0.2 [863f3e99] Comonicon v1.0.8 [34da2185] Compat v4.16.0 [5060bff5] ConcurrentCollections v0.1.1 [5218b696] Configurations v0.17.6 [6add18c4] ContextVariablesX v0.1.3 ⌅ [d58978e5] Dagger v0.16.3 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.18.20 [fab6aee4] DistributedNext v1.0.0 [ffbed154] DocStringExtensions v0.9.3 [55351af7] ExproniconLite v0.10.14 [53c48c17] FixedPointNumbers v0.8.5 [c27321d9] Glob v1.3.1 [076d061b] HashArrayMappedTries v0.2.0 [92d709cd] IrrationalConstants v0.2.4 [0f8b85d8] JSON3 v1.14.1 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [1914dd2f] MacroTools v0.5.15 [f9f48841] MemPool v0.4.12 [e1d29d7a] Missings v1.2.0 [bac558e1] OrderedCollections v1.8.0 [9b87118b] PackageCompiler v2.2.0 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.1 [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [92933f4c] ProgressMeter v1.10.2 [189a3867] Reexport v1.2.2 [05181044] RelocatableFolders v1.0.1 [ae029012] Requires v1.3.0 [7e506255] ScopedValues v1.3.0 [6c6a2e73] Scratch v1.2.1 [a2af1166] SortingAlgorithms v1.2.1 [82ae8749] StatsAPI v1.7.0 ⌅ [2913bbd2] StatsBase v0.33.21 [856f2bd8] StructTypes v1.11.0 [a526e669] TimespanLogging v0.1.0 [03f602be] TreeKnit v0.5.8 ⌅ [62f0eae3] TreeTools v0.6.14 [3a884ed6] UnPack v1.0.2 [0dad84c5] ArgTools v1.1.1 [56f22d72] Artifacts [2a0f44e3] Base64 [ade2ca70] Dates [8ba89e20] Distributed [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching [b77e0a4c] InteractiveUtils [4af54fe1] LazyArtifacts [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 [8f399da3] Libdl [37e2e46d] LinearAlgebra [56ddb016] Logging [d6f4376e] Markdown [a63ad114] Mmap [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.10.0 [de0858da] Printf [9abbd945] Profile [3fa0cd96] REPL [9a3f8284] Random [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization [1a1011a3] SharedArrays [6462fe0b] Sockets [2f01184e] SparseArrays v1.10.0 [10745b16] Statistics v1.10.0 [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test [cf7118a7] UUIDs [4ec0a83e] Unicode [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.4.0+0 [e37daf67] LibGit2_jll v1.6.4+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.2+1 [14a3606d] MozillaCACerts_jll v2023.1.10 [4536629a] OpenBLAS_jll v0.3.23+4 [bea87d4a] SuiteSparse_jll v7.2.1+1 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.52.0+1 [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... # NY data # Resolving ### Basic resolving ##### Resolve Multiple Trees at once ##### ### Resolve using pre-inferred MCCs ### Strict resolving # SplitGraph # Main ##### run_treeknit!() ##### ##### testing MultiTreeKnit: get_infered_MCC_pairs! ##### #### test parallelized recursive TreeKnit ### # MCC tools ##### mcc_tools.jl ##### -- Error correctly thrown below -- ┌ Error: `map_mccs!` is only for trees with data attached to nodes, *i.e.* `Tree{TreeTools.MiscData}`. │ Try `map_mccs` to get a map from nodes to mcc. │ └ @ TreeKnit ~/.julia/packages/TreeKnit/jnNdG/src/mcc_tools.jl:53 # SimpleReassortmentGraph Test Summary: | Pass Total Time TreeKnit | 237 237 1m56.3s NY data | 8 8 1m16.3s Resolving | 45 45 8.3s SplitGraph | 38 38 7.1s src/main.jl | 38 38 18.7s src/mcc_tools.jl | 86 86 2.4s SimpleReassortmentGraph | 22 22 3.3s Testing TreeKnit tests passed Testing completed after 122.63s PkgEval succeeded after 1189.37s