Package evaluation of EMIRT on Julia 1.13.0-DEV.791 (d5209bd37d*) started at 2025-07-04T12:42:43.930


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 5.86s


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# Installation
#

Installing EMIRT...
   Resolving package versions...
   Installed HDF5 ─ v0.13.6
    Updating `~/.julia/environments/v1.13/Project.toml`
  [8acf8dda] + EMIRT v0.7.0
    Updating `~/.julia/environments/v1.13/Manifest.toml`
  [a74b3585] + Blosc v0.7.3
⌅ [3da002f7] + ColorTypes v0.7.5
⌅ [5ae59095] + Colors v0.9.5
  [8acf8dda] + EMIRT v0.7.0
  [5789e2e9] + FileIO v1.17.0
⌅ [53c48c17] + FixedPointNumbers v0.5.3
⌅ [f67ccb44] + HDF5 v0.13.6
  [692b3bcd] + JLLWrappers v1.7.0
  [3da0fdf6] + MPIPreferences v0.1.11
  [21216c6a] + Preferences v1.4.3
⌅ [189a3867] + Reexport v0.2.0
  [ae029012] + Requires v1.3.1
  [0b7ba130] + Blosc_jll v1.21.7+0
  [0234f1f7] + HDF5_jll v1.14.6+0
  [e33a78d0] + Hwloc_jll v2.12.1+0
  [5ced341a] + Lz4_jll v1.10.1+0
  [7cb0a576] + MPICH_jll v4.3.1+0
  [f1f71cc9] + MPItrampoline_jll v5.5.4+0
  [9237b28f] + MicrosoftMPI_jll v10.1.4+3
  [fe0851c0] + OpenMPI_jll v5.0.8+0
  [477f73a3] + libaec_jll v1.1.3+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 v1.7.0
  [7b1f6079] + FileWatching v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [4af54fe1] + LazyArtifacts v1.11.0
  [b27032c2] + LibCURL v0.6.4
  [76f85450] + LibGit2 v1.11.0
  [8f399da3] + Libdl v1.11.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [ca575930] + NetworkOptions v1.3.0
  [44cfe95a] + Pkg v1.13.0
  [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
  [a4e569a6] + Tar v1.10.0
  [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 v8.14.1+1
  [e37daf67] + LibGit2_jll v1.9.1+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [14a3606d] + MozillaCACerts_jll v2025.5.20
  [458c3c95] + OpenSSL_jll v3.5.0+0
  [efcefdf7] + PCRE2_jll v10.45.0+0
  [83775a58] + Zlib_jll v1.3.1+2
  [3161d3a3] + Zstd_jll v1.5.7+1
  [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`
    Building HDF5 → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0713cbabdf855852dfab3ce6447c87145f3d9ea8/build.log`

Installation completed after 11.76s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 30.15s


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# Testing
#

     Testing EMIRT
      Status `/tmp/jl_cfNcBW/Project.toml`
⌅ [5ae59095] Colors v0.9.5
  [8acf8dda] EMIRT v0.7.0
  [5789e2e9] FileIO v1.17.0
⌅ [53c48c17] FixedPointNumbers v0.5.3
⌅ [f67ccb44] HDF5 v0.13.6
  [8ba89e20] Distributed v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_cfNcBW/Manifest.toml`
  [a74b3585] Blosc v0.7.3
⌅ [3da002f7] ColorTypes v0.7.5
⌅ [5ae59095] Colors v0.9.5
  [8acf8dda] EMIRT v0.7.0
  [5789e2e9] FileIO v1.17.0
⌅ [53c48c17] FixedPointNumbers v0.5.3
⌅ [f67ccb44] HDF5 v0.13.6
  [692b3bcd] JLLWrappers v1.7.0
  [3da0fdf6] MPIPreferences v0.1.11
  [21216c6a] Preferences v1.4.3
⌅ [189a3867] Reexport v0.2.0
  [ae029012] Requires v1.3.1
  [0b7ba130] Blosc_jll v1.21.7+0
  [0234f1f7] HDF5_jll v1.14.6+0
  [e33a78d0] Hwloc_jll v2.12.1+0
  [5ced341a] Lz4_jll v1.10.1+0
  [7cb0a576] MPICH_jll v4.3.1+0
  [f1f71cc9] MPItrampoline_jll v5.5.4+0
  [9237b28f] MicrosoftMPI_jll v10.1.4+3
  [fe0851c0] OpenMPI_jll v5.0.8+0
  [477f73a3] libaec_jll v1.1.3+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 v1.7.0
  [7b1f6079] FileWatching v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0
  [4af54fe1] LazyArtifacts v1.11.0
  [b27032c2] LibCURL v0.6.4
  [76f85450] LibGit2 v1.11.0
  [8f399da3] Libdl v1.11.0
  [56ddb016] Logging v1.11.0
  [d6f4376e] Markdown v1.11.0
  [a63ad114] Mmap v1.11.0
  [ca575930] NetworkOptions v1.3.0
  [44cfe95a] Pkg v1.13.0
  [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
  [a4e569a6] Tar v1.10.0
  [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 v8.14.1+1
  [e37daf67] LibGit2_jll v1.9.1+0
  [29816b5a] LibSSH2_jll v1.11.3+1
  [14a3606d] MozillaCACerts_jll v2025.5.20
  [458c3c95] OpenSSL_jll v3.5.0+0
  [efcefdf7] PCRE2_jll v10.45.0+0
  [83775a58] Zlib_jll v1.3.1+2
  [3161d3a3] Zstd_jll v1.5.7+1
  [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...
Test Summary: | Pass  Total   Time
test IO       |    6      6  23.4s
reading file: /home/pkgeval/.julia/packages/EMIRT/C3RK2/test/../assets/aff.h5 ......done :)
reading file: /home/pkgeval/.julia/packages/EMIRT/C3RK2/test/../assets/lbl.h5 ......done :)
judec = Dict{Symbol, Float32}(:VIFSs => 0.652092, :ri => 0.9090549, :VIm => 0.013707907, :VIFS => 0.7800202, :rem => 0.00040644547, :VI => 0.2534154, :res => 0.09053864, :rfm => 0.99934626, :rf => 0.9318043, :VIS => -0.2534154, :VIFSm => 0.9703931, :re => 0.09094509, :rfs => 0.8728142, :ris => 0.2877324, :VIs => 0.2397075, :rim => 0.6213225)
  0.002972 seconds (25.70 k allocations: 414.266 KiB)
ecd = Dict{Symbol, Float32}(:VIFSs => 1.0000002, :ri => 1.0, :VIm => 0.0, :VIFS => 1.0000002, :rem => 0.0, :VI => -1.7881393f-7, :res => 0.0, :rfm => 1.0, :rf => 1.0, :VIS => 1.7881393f-7, :VIFSm => 1.0000002, :re => 0.0, :rfs => 1.0, :ris => 0.28813884, :VIs => 0.0, :rim => 0.71186113)
  0.215232 seconds (1.06 M allocations: 22.347 MiB)
ecd = Dict{Symbol, Float32}(:VIFSs => 0.045671962, :ri => 0.28817847, :VIm => 0.0, :VIFS => 0.08735356, :rem => 0.0, :VI => 9.672697, :res => 0.7118215, :rfm => 1.0, :rf => 0.00011138609, :VIS => -9.672697, :VIFSm => 0.9998097, :re => 0.7118215, :rfs => 5.569615f-5, :ris => 0.28813884, :VIs => 9.672761, :rim => 3.9647926f-5)
Test Summary: | Pass  Total  Time
test evaluate |    2      2  7.3s
test segmentation downsampling
create random segmentation for tests
test creating fake mst ...
test relabel_seg ....
  1.641149 seconds (212.17 k allocations: 141.174 MiB, 0.81% gc time, 41.80% compilation time)
test segid1N! ...
test modified serial version ...
  4.584665 seconds (69.83 k allocations: 561.739 MiB, 7.84% gc time, 4.72% compilation time)
test modified serial version ...
  4.117498 seconds (43 allocations: 558.024 MiB, 8.06% gc time)
test mask singletons ...
test removing singletons by masking ...
  1.264644 seconds (17.10 M allocations: 328.077 MiB, 29.71% gc time, 15.78% compilation time)
  0.656888 seconds (17.05 M allocations: 325.314 MiB, 3.00% gc time, 4.60% compilation time)
Test Summary:      | Pass  Total   Time
test segmentations |    2      2  15.2s
transform affinitymap to edge list...
  0.141027 seconds (3 allocations: 8.766 MiB)
  1.242021 seconds (766.60 k allocations: 72.297 MiB, 87.76% compilation time)
segment affinity map using connectivity analysis ...
  0.041151 seconds (35 allocations: 6.033 MiB, 34.22% gc time)
transform to uniform distribution ...
map to uniform distribution...get the permutation by sorting......  0.137972 seconds (6 allocations: 9.000 MiB)
done :)
done!
  1.240059 seconds (785.77 k allocations: 71.875 MiB, 87.94% compilation time)
exchange x and z axis of affinity map...
exchange x and z of affinity map
  0.323237 seconds (287.25 k allocations: 19.130 MiB, 98.79% compilation time)
Test Summary:    | Total  Time
test affinitymap |     0  2.9s
     Testing EMIRT tests passed 

Testing completed after 52.19s

PkgEval succeeded after 125.08s