Package evaluation of BioGraph on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T15:15:55.772


################################################################################
# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 8.64s


################################################################################
# Installation
#

Installing BioGraph...
   Resolving package versions...
    Updating `~/.julia/environments/v1.11/Project.toml`
  [bbceaa37] + BioGraph v0.1.2
    Updating `~/.julia/environments/v1.11/Manifest.toml`
  [ec485272] + ArnoldiMethod v0.4.0
  [15f4f7f2] + AutoHashEquals v2.2.0
  [6e4b80f9] + BenchmarkTools v1.6.0
  [bbceaa37] + BioGraph v0.1.2
  [7e6ae17a] + BioSequences v3.4.1
  [3c28c6f8] + BioSymbols v5.1.3
  [336ed68f] + CSV v0.10.15
  [49dc2e85] + Calculus v0.5.2
  [523fee87] + CodecBzip2 v0.8.5
  [944b1d66] + CodecZlib v0.7.8
  [bbf7d656] + CommonSubexpressions v0.3.1
  [34da2185] + Compat v4.16.0
  [9a962f9c] + DataAPI v1.16.0
  [864edb3b] + DataStructures v0.18.22
  [e2d170a0] + DataValueInterfaces v1.0.0
  [8bb1440f] + DelimitedFiles v1.9.1
  [163ba53b] + DiffResults v1.1.0
  [b552c78f] + DiffRules v1.15.1
  [ffbed154] + DocStringExtensions v0.9.4
  [48062228] + FilePathsBase v0.9.24
⌅ [f6369f11] + ForwardDiff v0.10.38
⌅ [aa1b3936] + GraphIO v0.6.0
  [86223c79] + Graphs v1.12.1
  [d25df0c9] + Inflate v0.1.5
  [842dd82b] + InlineStrings v1.4.3
  [92d709cd] + IrrationalConstants v0.2.4
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [692b3bcd] + JLLWrappers v1.7.0
  [682c06a0] + JSON v0.21.4
  [0f8b85d8] + JSON3 v1.14.2
⌅ [4076af6c] + JuMP v0.23.2
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [1914dd2f] + MacroTools v0.5.15
  [b8f27783] + MathOptInterface v1.38.1
  [d8a4904e] + MutableArithmetics v1.6.4
  [77ba4419] + NaNMath v1.1.3
  [bac558e1] + OrderedCollections v1.8.0
  [fae87a5f] + ParserCombinator v2.2.1
  [69de0a69] + Parsers v2.8.1
  [2dfb63ee] + PooledArrays v1.4.3
⌅ [aea7be01] + PrecompileTools v1.2.1
  [21216c6a] + Preferences v1.4.3
  [ae029012] + Requires v1.3.1
  [91c51154] + SentinelArrays v1.4.8
  [699a6c99] + SimpleTraits v0.9.4
  [276daf66] + SpecialFunctions v2.5.0
  [90137ffa] + StaticArrays v1.9.13
  [1e83bf80] + StaticArraysCore v1.4.3
  [10745b16] + Statistics v1.11.1
  [856f2bd8] + StructTypes v1.11.0
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.0
  [3bb67fe8] + TranscodingStreams v0.11.3
  [7200193e] + Twiddle v1.1.2
  [ea10d353] + WeakRefStrings v1.4.2
  [76eceee3] + WorkerUtilities v1.6.1
  [6e34b625] + Bzip2_jll v1.0.9+0
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [8ba89e20] + Distributed v1.11.0
  [9fa8497b] + Future v1.11.0
  [b77e0a4c] + InteractiveUtils 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
  [de0858da] + Printf v1.11.0
  [9abbd945] + Profile 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
  [fa267f1f] + TOML v1.0.3
  [8dfed614] + Test v1.11.0
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0
  [4536629a] + OpenBLAS_jll v0.3.27+1
  [05823500] + OpenLibm_jll v0.8.5+0
  [bea87d4a] + SuiteSparse_jll v7.7.0+0
  [83775a58] + Zlib_jll v1.2.13+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 4.55s


################################################################################
# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 238.21s


################################################################################
# Testing
#

     Testing BioGraph
      Status `/tmp/jl_ZR2i5m/Project.toml`
  [bbceaa37] BioGraph v0.1.2
  [9961bab8] Cbc v1.2.0
  [86223c79] Graphs v1.12.1
  [fd094767] Suppressor v0.2.8
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_ZR2i5m/Manifest.toml`
  [ec485272] ArnoldiMethod v0.4.0
  [15f4f7f2] AutoHashEquals v2.2.0
  [6e4b80f9] BenchmarkTools v1.6.0
  [bbceaa37] BioGraph v0.1.2
  [7e6ae17a] BioSequences v3.4.1
  [3c28c6f8] BioSymbols v5.1.3
  [336ed68f] CSV v0.10.15
  [49dc2e85] Calculus v0.5.2
  [9961bab8] Cbc v1.2.0
  [523fee87] CodecBzip2 v0.8.5
  [944b1d66] CodecZlib v0.7.8
  [bbf7d656] CommonSubexpressions v0.3.1
  [34da2185] Compat v4.16.0
  [9a962f9c] DataAPI v1.16.0
  [864edb3b] DataStructures v0.18.22
  [e2d170a0] DataValueInterfaces v1.0.0
  [8bb1440f] DelimitedFiles v1.9.1
  [163ba53b] DiffResults v1.1.0
  [b552c78f] DiffRules v1.15.1
  [ffbed154] DocStringExtensions v0.9.4
  [48062228] FilePathsBase v0.9.24
⌅ [f6369f11] ForwardDiff v0.10.38
⌅ [aa1b3936] GraphIO v0.6.0
  [86223c79] Graphs v1.12.1
  [d25df0c9] Inflate v0.1.5
  [842dd82b] InlineStrings v1.4.3
  [92d709cd] IrrationalConstants v0.2.4
  [82899510] IteratorInterfaceExtensions v1.0.0
  [692b3bcd] JLLWrappers v1.7.0
  [682c06a0] JSON v0.21.4
  [0f8b85d8] JSON3 v1.14.2
⌅ [4076af6c] JuMP v0.23.2
  [2ab3a3ac] LogExpFunctions v0.3.29
  [1914dd2f] MacroTools v0.5.15
  [b8f27783] MathOptInterface v1.38.1
  [d8a4904e] MutableArithmetics v1.6.4
  [77ba4419] NaNMath v1.1.3
  [bac558e1] OrderedCollections v1.8.0
  [fae87a5f] ParserCombinator v2.2.1
  [69de0a69] Parsers v2.8.1
  [2dfb63ee] PooledArrays v1.4.3
⌅ [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.4.3
  [ae029012] Requires v1.3.1
  [91c51154] SentinelArrays v1.4.8
  [699a6c99] SimpleTraits v0.9.4
  [276daf66] SpecialFunctions v2.5.0
  [90137ffa] StaticArrays v1.9.13
  [1e83bf80] StaticArraysCore v1.4.3
  [10745b16] Statistics v1.11.1
  [856f2bd8] StructTypes v1.11.0
  [fd094767] Suppressor v0.2.8
  [3783bdb8] TableTraits v1.0.1
  [bd369af6] Tables v1.12.0
  [3bb67fe8] TranscodingStreams v0.11.3
  [7200193e] Twiddle v1.1.2
  [ea10d353] WeakRefStrings v1.4.2
  [76eceee3] WorkerUtilities v1.6.1
  [ae81ac8f] ASL_jll v0.1.3+0
  [6e34b625] Bzip2_jll v1.0.9+0
  [38041ee0] Cbc_jll v200.1000.800+0
  [3830e938] Cgl_jll v0.6000.600+0
⌅ [06985876] Clp_jll v100.1700.700+1
⌅ [be027038] CoinUtils_jll v200.1100.600+0
  [d00139f3] METIS_jll v5.1.3+0
  [d7ed1dd3] MUMPS_seq_jll v500.700.301+0
  [656ef2d0] OpenBLAS32_jll v0.3.29+0
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
⌅ [7da25872] Osi_jll v0.10800.700+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
  [9abbd945] Profile 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
  [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
  [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...
Precompiling Cbc...
   1519.8 ms  ✓ CoinUtils_jll
   1465.4 ms  ✓ Osi_jll
   1473.1 ms  ✓ Clp_jll
   1421.5 ms  ✓ Cgl_jll
   1631.2 ms  ✓ Cbc_jll
   7872.9 ms  ✓ Cbc
  6 dependencies successfully precompiled in 17 seconds. 68 already precompiled.
Test Summary: | Pass  Total   Time
Read GFA      |    4      4  17.8s
Test Summary:        | Pass  Total   Time
Read GFA with weight |    1      1  33.2s
Test Summary: | Pass  Total  Time
Summary       |    4      4  8.4s
Making graph
Add constraint
Solving
inter: 1, objective: 78.0, num new cycle: 0
Making graph
Add constraint
Solving
inter: 1, objective: 7.0, num new cycle: 0
Making graph
Add constraint
Solving
inter: 1, objective: 7.0, num new cycle: 0
Test Summary: | Pass  Total     Time
Longest Path  |    9      9  1m07.9s
     Testing BioGraph tests passed 

Testing completed after 161.49s

PkgEval succeeded after 424.36s