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madsjulia / Mads.jl

MADS: Model Analysis & Decision Support
http://mads.gitlab.io
GNU General Public License v3.0
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Precompile hangs in Julia 1.10.2 #63

Closed sonofwatt84 closed 6 months ago

sonofwatt84 commented 6 months ago

I'm having trouble getting precompilation of Mads.jl to complete in a fresh install of Julia 1.10.2 on Ubuntu.

After several minutes of precompilation, CPU usage goes to down to minimal levels, but the process doesn't complete and appears to continue indefinitely. Any advise or insight would be appreciated.

montyvesselinov commented 6 months ago

I have not tested it on Ubuntu recently. I will check it out tomorrow.

https://envitrace.com/

Velimir “monty” Vesselinov

Co-Founder & CTO - Envitrace

+1 505-473-4150

@.***> https://calendly.com/montyv https://github.com/montyvesselinov https://www.linkedin.com/in/montyvesselinov https://montyv.github.io/

On Fri, Mar 8, 2024 at 9:46 AM Peter Watson @.***> wrote:

I'm having trouble getting precompilation of Mads.jl to complete in a fresh install of Julia 1.10.2 on Ubuntu.

After several minutes of precompilation, CPU usage goes to down to minimal levels, but the process doesn't complete and appears to continue indefinitely. Any advise or insight would be appreciated.

— Reply to this email directly, view it on GitHub https://github.com/madsjulia/Mads.jl/issues/63, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABK7C6EFGAOHGFRBW5HFNVDYXHTOVAVCNFSM6AAAAABENDQXZOVHI2DSMVQWIX3LMV43ASLTON2WKOZSGE3TMNBQGA3DCNQ . You are receiving this because you are subscribed to this thread.Message ID: @.***>

sonofwatt84 commented 6 months ago

Thanks! It's Ubuntu 22.04.4 LTS running a 5.15 kernel if that's helpful.

montyvesselinov commented 6 months ago

I pushed changes. try the #master and let me know if works. I will commit if all good. thank you! You may also try to run ] build Mads

https://envitrace.com/

Velimir “monty” Vesselinov

Co-Founder & CTO - Envitrace

+1 505-473-4150

@.***> https://calendly.com/montyv https://github.com/montyvesselinov https://www.linkedin.com/in/montyvesselinov https://montyv.github.io/

On Fri, Mar 8, 2024 at 10:32 AM Peter Watson @.***> wrote:

Thanks! It's Ubuntu 22.04.4 LTS running a 5.15 kernel if that's helpful.

— Reply to this email directly, view it on GitHub https://github.com/madsjulia/Mads.jl/issues/63#issuecomment-1986118134, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABK7C6HZGX7UYHEWRM3UCWLYXHYY7AVCNFSM6AAAAABENDQXZOVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSOBWGEYTQMJTGQ . You are receiving this because you commented.Message ID: <madsjulia/Mads. @.***>

sonofwatt84 commented 6 months ago

Unfortunately, I haven't seen much a change on my end with these changes...

montyvesselinov commented 6 months ago

If you try ] build Mads what do you get?

-monty

Velimir V Vesselinov Co-Founder | CTO | CSO @ EnviTrace +1 (505) 473 4150 | @.*** | calendly | boomerang

On Fri, Mar 8, 2024, 15:25 Peter Watson @.***> wrote:

Unfortunately, I haven't seen much a change on my end with these changes...

— Reply to this email directly, view it on GitHub https://github.com/madsjulia/Mads.jl/issues/63#issuecomment-1986510546, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABK7C6GF6FIJPXC56CLKSL3YXI3GTAVCNFSM6AAAAABENDQXZOVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSOBWGUYTANJUGY . You are receiving this because you commented.Message ID: <madsjulia/Mads. @.***>

sonofwatt84 commented 6 months ago

Actually, that worked! I get a library the precompiles and loads without issue! Thank you so much!

montyvesselinov commented 6 months ago

Great!

https://envitrace.com/

Velimir “monty” Vesselinov

Co-Founder & CTO - Envitrace

+1 505-473-4150

@.***> https://calendly.com/montyv https://github.com/montyvesselinov https://www.linkedin.com/in/montyvesselinov https://montyv.github.io/

On Fri, Mar 8, 2024 at 6:06 PM Peter Watson @.***> wrote:

Actually, that worked! I get a library the precompiles and loads without issue! Thank you so much!

— Reply to this email directly, view it on GitHub https://github.com/madsjulia/Mads.jl/issues/63#issuecomment-1986667460, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABK7C6HP62PPIEV4IGSUWWDYXJOBFAVCNFSM6AAAAABENDQXZOVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSOBWGY3DONBWGA . You are receiving this because you commented.Message ID: <madsjulia/Mads. @.***>

orenbenkiki commented 5 months ago

Running into the same problem. build works but the precompile hangs w/o consuming CPU. This happens even if I install the master revision. Running on MacOS 14.4.1 23E224 and Julia 1.10.2.

Side issue is that when trying to install the master revision I run into the "file too long" issue, even though I did sudo git config --system core.longpaths true. This happens in a symlink so I worked around it by sudo git config --system core.symlinks false. I hope I won't regret this later. Also, perhaps not using a symlink may have something to do with the precompile hanging? Since I also got the hanging when installing the published revision before I modified the git config, probably not?

Just having build work doesn't work around the problem - use Mads triggers the precompile which hangs :-(

Is there a workaround?

EDIT: A clean install of julia followed by add Mads, and then interrupting the hung pre-compile, gives the following, if that helps pinpointing the problem - somewhere in Optim? (BTW, >400 dependencies!):

(@v1.10) pkg> add Mads
  Installing known registries into `~/.julia`
    Updating registry at `~/.julia/registries/General.toml`
   Resolving package versions...
   Installed AxisArrays ─────────────────────── v0.4.7
   Installed GeostatInversion ───────────────── v1.1.0
   Installed Calculus ───────────────────────── v0.5.1
   Installed JpegTurbo_jll ──────────────────── v3.0.2+0
   Installed ImageIO ────────────────────────── v0.6.7
   Installed MutableArithmetics ─────────────── v1.4.2
   Installed SVR ────────────────────────────── v1.4.0
   Installed TiledIteration ─────────────────── v0.5.0
   Installed OffsetArrays ───────────────────── v1.13.0
   Installed TiffImages ─────────────────────── v0.6.8
   Installed Libmount_jll ───────────────────── v2.39.3+0
   Installed ImageSegmentation ──────────────── v1.8.1
   Installed LERC_jll ───────────────────────── v3.0.0+1
   Installed HypergeometricFunctions ────────── v0.3.23
   Installed JpegTurbo ──────────────────────── v0.1.5
   Installed Preferences ────────────────────── v1.4.3
   Installed PNGFiles ───────────────────────── v0.4.3
   Installed StatsFuns ──────────────────────── v1.3.1
   Installed FFTW ───────────────────────────── v1.8.0
   Installed HistogramThresholding ──────────── v0.3.1
   Installed Accessors ──────────────────────── v0.1.36
   Installed ImageMagick ────────────────────── v1.2.1
   Installed PDMats ─────────────────────────── v0.11.31
   Installed NonlinearSolve ─────────────────── v3.9.0
   Installed Sixel ──────────────────────────── v0.1.3
   Installed InlineStrings ──────────────────── v1.4.0
   Installed RegionTrees ────────────────────── v0.3.2
   Installed TimerOutputs ───────────────────── v0.5.23
   Installed Measures ───────────────────────── v0.3.2
   Installed ZipFile ────────────────────────── v0.10.1
   Installed Contour ────────────────────────── v0.6.2
   Installed ProgressMeter ──────────────────── v1.10.0
   Installed Polyester ──────────────────────── v0.7.11
   Installed StaticArrays ───────────────────── v1.9.3
   Installed Grisu ──────────────────────────── v1.0.2
   Installed OpenEXR ────────────────────────── v0.3.2
   Installed EnumX ──────────────────────────── v1.0.4
   Installed Images ─────────────────────────── v0.26.0
   Installed prrte_jll ──────────────────────── v3.0.2+0
   Installed NearestNeighbors ───────────────── v0.4.16
   Installed RecursiveArrayTools ────────────── v3.13.0
   Installed MaybeInplace ───────────────────── v0.1.2
   Installed Xorg_libpthread_stubs_jll ──────── v0.1.1+0
   Installed CEnum ──────────────────────────── v0.5.0
   Installed DelimitedFiles ─────────────────── v1.9.1
   Installed InvertedIndices ────────────────── v1.3.0
   Installed FunctionWrappers ───────────────── v1.1.3
   Installed libsodium_jll ──────────────────── v1.0.20+0
   Installed Cairo_jll ──────────────────────── v1.18.0+1
   Installed FileIO ─────────────────────────── v1.16.3
   Installed OpenBLAS32_jll ─────────────────── v0.3.24+0
   Installed TriangularSolve ────────────────── v0.1.21
   Installed Media ──────────────────────────── v0.5.0
   Installed Fontconfig_jll ─────────────────── v2.13.93+0
   Installed Libgpg_error_jll ───────────────── v1.42.0+0
   Installed DataFrames ─────────────────────── v1.6.1
   Installed IntelOpenMP_jll ────────────────── v2024.0.2+0
   Installed MetaGraphs ─────────────────────── v0.7.2
   Installed Polynomials ────────────────────── v3.2.13
   Installed RandomizedLinAlg ───────────────── v0.1.0
   Installed Netpbm ─────────────────────────── v1.1.1
   Installed Static ─────────────────────────── v0.8.10
   Installed SLEEFPirates ───────────────────── v0.6.42
   Installed Xorg_libXau_jll ────────────────── v1.0.11+0
   Installed Distances ──────────────────────── v0.10.11
   Installed RobustPmap ─────────────────────── v1.0.2
   Installed DocumenterMarkdown ─────────────── v0.2.2
   Installed Missings ───────────────────────── v1.1.0
   Installed Fontconfig ─────────────────────── v0.4.1
   Installed CPUTime ────────────────────────── v1.0.0
   Installed FiniteDiff ─────────────────────── v2.23.0
   Installed Tricks ─────────────────────────── v0.1.8
   Installed JLD2 ───────────────────────────── v0.4.46
   Installed RealDot ────────────────────────── v0.1.0
   Installed MuladdMacro ────────────────────── v0.2.4
   Installed SIMDTypes ──────────────────────── v0.1.0
   Installed IrrationalConstants ────────────── v0.2.2
   Installed EzXML ──────────────────────────── v1.2.0
   Installed MathOptInterface ───────────────── v1.27.1
   Installed Showoff ────────────────────────── v1.0.3
   Installed ArnoldiMethod ──────────────────── v0.2.0
   Installed DiffEqBase ─────────────────────── v6.149.0
   Installed JSON ───────────────────────────── v0.21.4
   Installed SciMLBase ──────────────────────── v2.31.0
   Installed Pango_jll ──────────────────────── v1.52.1+0
   Installed CpuId ──────────────────────────── v0.3.1
   Installed SimpleUnPack ───────────────────── v1.1.0
   Installed MUMPS_seq_jll ──────────────────── v500.600.201+0
   Installed LinearSolve ────────────────────── v2.28.0
   Installed BIGUQ ──────────────────────────── v1.1.1
   Installed BlackBoxOptim ──────────────────── v0.6.3
   Installed H5Zblosc ───────────────────────── v0.1.2
   Installed Hwloc_jll ──────────────────────── v2.10.0+0
   Installed ADTypes ────────────────────────── v0.2.7
   Installed libsvm_jll ─────────────────────── v3.25.0+0
   Installed BenchmarkTools ─────────────────── v1.5.0
   Installed OrdinaryDiffEq ─────────────────── v6.74.1
   Installed SpecialFunctions ───────────────── v2.3.1
   Installed Clustering ─────────────────────── v0.15.7
┌ Warning: failed to extract archive downloaded from https://pkg.julialang.org/package/d6bdc55b-bd94-5012-933c-1f73fc2ee992/820fa681578a3729dba06f175a9163ed9eac2dfd
└ @ Pkg.Operations ~/.julia/juliaup/julia-1.10.2+0.aarch64.apple.darwin14/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:628
   Installed Bzip2_jll ──────────────────────── v1.0.8+1
   Installed CodecBzip2 ─────────────────────── v0.8.2
   Installed QOI ────────────────────────────── v1.0.0
   Installed SentinelArrays ─────────────────── v1.4.1
   Installed IJulia ─────────────────────────── v1.24.2
   Installed HarfBuzz_jll ───────────────────── v2.8.1+1
   Installed SimpleNonlinearSolve ───────────── v1.6.0
   Installed IfElse ─────────────────────────── v0.1.1
   Installed MicrosoftMPI_jll ───────────────── v10.1.4+2
   Installed XZ_jll ─────────────────────────── v5.4.6+0
   Installed PkgVersion ─────────────────────── v0.3.3
   Installed StringEncodings ────────────────── v0.3.7
   Installed StaticArraysCore ───────────────── v1.4.2
   Installed NaNMath ────────────────────────── v1.0.2
   Installed Gadfly ─────────────────────────── v1.4.0
   Installed ImageContrastAdjustment ────────── v0.3.12
   Installed LIBLINEAR ──────────────────────── v0.6.0
   Installed JuMP ───────────────────────────── v1.21.0
   Installed LZO_jll ────────────────────────── v2.10.1+0
   Installed PyPlot ─────────────────────────── v2.11.2
   Installed WorkerUtilities ────────────────── v1.6.1
   Installed ThreadingUtilities ─────────────── v0.5.2
   Installed TranscodingStreams ─────────────── v0.10.7
   Installed PMIx_jll ───────────────────────── v4.2.7+0
   Installed SoftGlobalScope ────────────────── v1.1.0
   Installed Graphs ─────────────────────────── v1.9.0
   Installed ColorSchemes ───────────────────── v3.24.0
   Installed FriBidi_jll ────────────────────── v1.0.10+0
   Installed ManualMemory ───────────────────── v0.1.8
   Installed Ipopt_jll ──────────────────────── v300.1400.1400+0
   Installed NLSolversBase ──────────────────── v7.8.3
   Installed Loess ──────────────────────────── v0.6.3
   Installed CustomUnitRanges ───────────────── v1.0.2
   Installed ZeroMQ_jll ─────────────────────── v4.3.5+0
   Installed MPIPreferences ─────────────────── v0.1.10
   Installed libevent_jll ───────────────────── v2.1.13+1
   Installed Rmath_jll ──────────────────────── v0.4.0+0
   Installed Graphics ───────────────────────── v1.1.2
   Installed MbedTLS ────────────────────────── v1.1.9
   Installed LazyArrays ─────────────────────── v1.8.3
   Installed Lz4_jll ────────────────────────── v1.9.4+0
   Installed ImageMetadata ──────────────────── v0.9.9
   Installed Ratios ─────────────────────────── v0.4.5
   Installed NonNegLeastSquares ─────────────── v0.4.0
   Installed WeakRefStrings ─────────────────── v1.4.2
   Installed Colors ─────────────────────────── v0.12.10
   Installed DataStructures ─────────────────── v0.18.18
   Installed CatIndices ─────────────────────── v0.2.2
   Installed ComputationalResources ─────────── v0.3.2
   Installed CommonSubexpressions ───────────── v0.3.0
   Installed FreeType2_jll ──────────────────── v2.13.1+0
   Installed ImageMagick_jll ────────────────── v6.9.13+0
   Installed MappedArrays ───────────────────── v0.4.2
   Installed StatsAPI ───────────────────────── v1.7.0
   Installed PaddedViews ────────────────────── v0.5.12
   Installed ExprTools ──────────────────────── v0.1.10
   Installed Compat ─────────────────────────── v4.14.0
   Installed METIS_jll ──────────────────────── v5.1.2+0
   Installed LsqFit ─────────────────────────── v0.15.0
   Installed StaticArrayInterface ───────────── v1.5.0
   Installed HDF5_jll ───────────────────────── v1.14.2+1
   Installed CodecZlib ──────────────────────── v0.7.4
   Installed LazyModules ────────────────────── v0.3.1
   Installed ImageTransformations ───────────── v0.10.1
   Installed StatsBase ──────────────────────── v0.33.21
   Installed ImageFiltering ─────────────────── v0.7.6
   Installed MosaicViews ────────────────────── v0.3.4
   Installed Xorg_libxcb_jll ────────────────── v1.15.0+0
   Installed libpng_jll ─────────────────────── v1.6.43+1
   Installed ANSIColoredPrinters ────────────── v0.0.1
   Installed ArrayLayouts ───────────────────── v1.8.0
   Installed ImageCore ──────────────────────── v0.9.4
   Installed MatrixFactorizations ───────────── v2.1.0
   Installed MPICH_jll ──────────────────────── v4.2.0+0
   Installed ColorTypes ─────────────────────── v0.11.4
   Installed ImageCorners ───────────────────── v0.1.3
   Installed SciMLStructures ────────────────── v1.1.0
   Installed BitTwiddlingConvenienceFunctions ─ v0.1.5
┌ Warning: failed to extract archive downloaded from https://api.github.com/repos/madsjulia/Mads.jl/tarball/820fa681578a3729dba06f175a9163ed9eac2dfd
└ @ Pkg.Operations ~/.julia/juliaup/julia-1.10.2+0.aarch64.apple.darwin14/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:628
   Installed Xorg_libXext_jll ───────────────── v1.3.4+4
   Installed DiffRules ──────────────────────── v1.15.1
   Installed FunctionWrappersWrappers ───────── v0.1.3
   Installed LayoutPointers ─────────────────── v0.1.15
   Installed GenericSchur ───────────────────── v0.5.4
   Installed Kriging ────────────────────────── v1.2.1
   Installed CSV ────────────────────────────── v0.10.13
   Installed SPRAL_jll ──────────────────────── v2024.1.18+0
   Installed Zstd_jll ───────────────────────── v1.5.6+0
   Installed NMF ────────────────────────────── v1.0.2
   Installed Conda ──────────────────────────── v1.10.0
   Installed TensorCore ─────────────────────── v0.1.1
   Installed TableTraits ────────────────────── v1.0.1
   Installed PrettyTables ───────────────────── v2.3.1
   Installed ZMQ ────────────────────────────── v1.2.2
   Installed PositiveFactorizations ─────────── v0.2.4
   Installed DiffResults ────────────────────── v1.1.0
   Installed Expat_jll ──────────────────────── v2.5.0+0
   Installed Inflate ────────────────────────── v0.1.4
   Installed SciMLOperators ─────────────────── v0.3.8
   Installed Parsers ────────────────────────── v2.8.1
   Installed PyCall ─────────────────────────── v1.96.4
   Installed CategoricalArrays ──────────────── v0.10.8
   Installed ImageShow ──────────────────────── v0.3.8
   Installed ImageQualityIndexes ────────────── v0.3.7
   Installed Imath_jll ──────────────────────── v3.1.7+0
   Installed IntegralArrays ─────────────────── v0.1.5
   Installed LoopVectorization ──────────────── v0.12.166
   Installed Setfield ───────────────────────── v1.1.1
   Installed Hexagons ───────────────────────── v0.2.0
   Installed OpenMPI_jll ────────────────────── v5.0.2+0
   Installed MKL_jll ────────────────────────── v2024.0.0+0
   Installed PooledArrays ───────────────────── v1.4.3
   Installed Libtiff_jll ────────────────────── v4.5.1+1
   Installed AbstractFFTs ───────────────────── v1.5.0
   Installed JLLWrappers ────────────────────── v1.5.0
   Installed ConstructionBase ───────────────── v1.5.5
   Installed EnzymeCore ─────────────────────── v0.6.6
   Installed ColorVectorSpace ───────────────── v0.9.10
   Installed Libffi_jll ─────────────────────── v3.2.2+1
   Installed DataValueInterfaces ────────────── v1.0.0
   Installed CoordinateTransformations ──────── v0.6.3
   Installed OrderedCollections ─────────────── v1.6.3
   Installed Xorg_libXrender_jll ────────────── v0.9.10+4
   Installed ChainRulesCore ─────────────────── v1.23.0
   Installed HDF5 ───────────────────────────── v0.17.1
   Installed FastClosures ───────────────────── v0.3.2
   Installed XSLT_jll ───────────────────────── v1.1.34+0
   Installed KernelDensity ──────────────────── v0.6.8
   Installed PolyesterWeave ─────────────────── v0.2.1
   Installed ArrayInterface ─────────────────── v7.9.0
   Installed Interpolations ─────────────────── v0.14.0
   Installed Ghostscript_jll ────────────────── v9.55.0+4
   Installed Reexport ───────────────────────── v1.2.2
   Installed LineSearches ───────────────────── v7.2.0
   Installed FastLapackInterface ────────────── v2.0.2
   Installed AffineInvariantMCMC ────────────── v1.2.4
   Installed PreallocationTools ─────────────── v0.4.20
   Installed LogExpFunctions ────────────────── v0.3.27
   Installed Krylov ─────────────────────────── v0.9.5
   Installed Quaternions ────────────────────── v0.7.6
   Installed LittleCMS_jll ──────────────────── v2.15.0+0
   Installed StackViews ─────────────────────── v0.1.1
   Installed CloseOpenIntervals ─────────────── v0.1.12
   Installed KLU ────────────────────────────── v0.6.0
   Installed Rotations ──────────────────────── v1.7.0
   Installed MacroTools ─────────────────────── v0.5.13
   Installed PackageExtensionCompat ─────────── v1.0.2
   Installed RangeArrays ────────────────────── v0.3.2
   Installed FFTW_jll ───────────────────────── v3.3.10+0
   Installed ASL_jll ────────────────────────── v0.1.3+0
   Installed OpenSpecFun_jll ────────────────── v0.5.5+0
   Installed CompositionsBase ───────────────── v0.1.2
   Installed CoupledFields ──────────────────── v0.2.0
   Installed UnPack ─────────────────────────── v1.0.2
   Installed Compose ────────────────────────── v0.9.5
   Installed InverseFunctions ───────────────── v0.1.13
   Installed CommonSolve ────────────────────── v0.2.4
   Installed Libuuid_jll ────────────────────── v2.39.3+1
   Installed SimpleTraits ───────────────────── v0.9.4
   Installed YAML ───────────────────────────── v0.4.9
   Installed DocStringExtensions ────────────── v0.9.3
   Installed OpenEXR_jll ────────────────────── v3.1.4+0
   Installed Blosc_jll ──────────────────────── v1.21.5+0
   Installed ExponentialUtilities ───────────── v1.26.1
   Installed GPUArraysCore ──────────────────── v0.1.6
   Installed libaec_jll ─────────────────────── v1.1.2+0
   Installed Crayons ────────────────────────── v4.1.1
   Installed Adapt ──────────────────────────── v4.0.4
   Installed Graphite2_jll ──────────────────── v1.3.14+0
   Installed Documenter ─────────────────────── v0.27.25
   Installed Pixman_jll ─────────────────────── v0.42.2+0
   Installed StrideArraysCore ───────────────── v0.5.2
   Installed VectorizationBase ──────────────── v0.21.65
   Installed XML2_jll ───────────────────────── v2.12.6+0
   Installed Rmath ──────────────────────────── v0.7.1
   Installed ImageBinarization ──────────────── v0.3.0
   Installed DualNumbers ────────────────────── v0.6.8
   Installed ImageBase ──────────────────────── v0.1.5
   Installed IntervalSets ───────────────────── v0.7.10
   Installed Gettext_jll ────────────────────── v0.21.0+0
   Installed Xorg_xtrans_jll ────────────────── v1.5.0+0
   Installed OpenSSL_jll ────────────────────── v3.0.13+1
   Installed IndirectArrays ─────────────────── v1.0.0
   Installed OpenJpeg_jll ───────────────────── v2.5.0+0
   Installed Suppressor ─────────────────────── v0.2.7
   Installed IterTools ──────────────────────── v1.10.0
   Installed RuntimeGeneratedFunctions ──────── v0.5.12
   Installed Cairo ──────────────────────────── v1.0.5
   Installed Libgcrypt_jll ──────────────────── v1.8.7+0
   Installed IOCapture ──────────────────────── v0.2.4
   Installed CPUSummary ─────────────────────── v0.2.4
   Installed SimpleWeightedGraphs ───────────── v1.4.0
   Installed DocumentFunction ───────────────── v1.3.0
   Installed Ipopt ──────────────────────────── v1.6.2
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   Installed Optim ──────────────────────────── v1.9.3
   Installed VertexSafeGraphs ───────────────── v0.2.0
   Installed LLVMOpenMP_jll ─────────────────── v15.0.7+0
   Installed DataAPI ────────────────────────── v1.16.0
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   Installed ConcreteStructs ────────────────── v0.2.3
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   Installed IteratorInterfaceExtensions ────── v1.0.0
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   Installed LaTeXStrings ───────────────────── v1.3.1
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   Installed SpatialIndexing ────────────────── v0.1.6
   Installed MPItrampoline_jll ──────────────── v5.3.2+0
   Installed QuadGK ─────────────────────────── v2.9.4
   Installed liblinear_jll ──────────────────── v2.47.0+0
   Installed AxisAlgorithms ─────────────────── v1.0.1
   Installed ImageAxes ──────────────────────── v0.6.11
   Installed Requires ───────────────────────── v1.3.0
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   Installed Xorg_libX11_jll ────────────────── v1.8.6+0
   Installed FFTViews ───────────────────────── v0.3.2
   Installed Xorg_libXdmcp_jll ──────────────── v1.1.4+0
   Installed Juno ───────────────────────────── v0.8.4
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   Installed ImageMorphology ────────────────── v0.4.5
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   Installed XLSX ───────────────────────────── v0.10.1
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   Installed MetaProgTools ──────────────────── v1.0.0
   Installed SortingAlgorithms ──────────────── v1.2.1
   Installed WoodburyMatrices ───────────────── v0.5.6
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   Installed SparseDiffTools ────────────────── v2.17.0
   Installed Blosc ──────────────────────────── v0.7.3
   Installed ReusableFunctions ──────────────── v1.0.2
   Installed Sparspak ───────────────────────── v0.3.9
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   Installed Mads ───────────────────────────── v1.5.18
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    Updating `~/.julia/environments/v1.10/Project.toml`
  [d6bdc55b] + Mads v1.5.18
    Updating `~/.julia/environments/v1.10/Manifest.toml`
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  [f1f71cc9] + MPItrampoline_jll v5.3.2+0
  [d7ed1dd3] + MUMPS_seq_jll v500.600.201+0
  [9237b28f] + MicrosoftMPI_jll v10.1.4+2
⌅ [656ef2d0] + OpenBLAS32_jll v0.3.24+0
  [18a262bb] + OpenEXR_jll v3.1.4+0
  [643b3616] + OpenJpeg_jll v2.5.0+0
  [fe0851c0] + OpenMPI_jll v5.0.2+0
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  [c5fb5394] + Xorg_xtrans_jll v1.5.0+0
  [8f1865be] + ZeroMQ_jll v4.3.5+0
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  [477f73a3] + libaec_jll v1.1.2+0
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  [275f1f90] + liblinear_jll v2.47.0+0
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  [56f22d72] + Artifacts
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  [9fa8497b] + Future
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  [76f85450] + LibGit2
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  [a63ad114] + Mmap
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  [4607b0f0] + SuiteSparse
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  [8dfed614] + Test
  [cf7118a7] + UUIDs
  [4ec0a83e] + Unicode
  [e66e0078] + CompilerSupportLibraries_jll v1.1.0+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
  [05823500] + OpenLibm_jll v0.8.1+2
  [efcefdf7] + PCRE2_jll v10.42.0+1
  [bea87d4a] + SuiteSparse_jll v7.2.1+1
  [83775a58] + Zlib_jll v1.2.13+1
  [8e850b90] + libblastrampoline_jll v5.8.0+1
  [8e850ede] + nghttp2_jll v1.52.0+1
  [3f19e933] + p7zip_jll v17.4.0+2
        Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m`
    Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/51cab8e982c5b598eea9c8ceaced4b58d9dd37c9/build.log`
    Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/9816a3826b0ebf49ab4926e2b18842ad8b5c8f04/build.log`
    Building IJulia → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/47ac8cc196b81001a711f4b2c12c97372338f00c/build.log`
    Building Mads ──→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/820fa681578a3729dba06f175a9163ed9eac2dfd/build.log`
Precompiling project...
^C Interrupted: Exiting precompilation...===========>]  406/407
  ◒ Mads
  2 dependencies had output during precompilation:
┌ Mads
│  ┌ Error: Error during loading of extension OptimMOIExt of Optim, use `Base.retry_load_extensions()` to retry.
│  │   exception =
│  │    1-element ExceptionStack:
│  │    InitError: Evaluation into the closed module `Optim` breaks incremental compilation because the side effects will not be permanent. This is likely due to some other module mutating `Optim` with `eval` during precompilation - don't do this.
│  │    Stacktrace:
│  │      [1] eval
│  │        @ ./boot.jl:385 [inlined]
│  │      [2] __init__()
│  │        @ OptimMOIExt ~/.julia/packages/Optim/DV9Sq/ext/OptimMOIExt.jl:9
│  │      [3] run_module_init(mod::Module, i::Int64)
│  │        @ Base ./loading.jl:1134
│  │      [4] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
│  │        @ Base ./loading.jl:1122
│  │      [5] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::String, depmods::Vector{Any})
│  │        @ Base ./loading.jl:1067
│  │      [6] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128)
│  │        @ Base ./loading.jl:1581
│  │      [7] _require(pkg::Base.PkgId, env::Nothing)
│  │        @ Base ./loading.jl:1938
│  │      [8] __require_prelocked(uuidkey::Base.PkgId, env::Nothing)
│  │        @ Base ./loading.jl:1812
│  │      [9] #invoke_in_world#3
│  │        @ ./essentials.jl:926 [inlined]
│  │     [10] invoke_in_world
│  │        @ ./essentials.jl:923 [inlined]
│  │     [11] _require_prelocked
│  │        @ ./loading.jl:1803 [inlined]
│  │     [12] _require_prelocked
│  │        @ ./loading.jl:1802 [inlined]
│  │     [13] run_extension_callbacks(extid::Base.ExtensionId)
│  │        @ Base ./loading.jl:1295
│  │     [14] run_extension_callbacks(pkgid::Base.PkgId)
│  │        @ Base ./loading.jl:1330
│  │     [15] run_package_callbacks(modkey::Base.PkgId)
│  │        @ Base ./loading.jl:1164
│  │     [16] __require_prelocked(uuidkey::Base.PkgId, env::String)
│  │        @ Base ./loading.jl:1819
│  │     [17] #invoke_in_world#3
│  │        @ ./essentials.jl:926 [inlined]
│  │     [18] invoke_in_world
│  │        @ ./essentials.jl:923 [inlined]
│  │     [19] _require_prelocked(uuidkey::Base.PkgId, env::String)
│  │        @ Base ./loading.jl:1803
│  │     [20] macro expansion
│  │        @ ./loading.jl:1790 [inlined]
│  │     [21] macro expansion
│  │        @ ./lock.jl:267 [inlined]
│  │     [22] __require(into::Module, mod::Symbol)
│  │        @ Base ./loading.jl:1753
│  │     [23] #invoke_in_world#3
│  │        @ ./essentials.jl:926 [inlined]
│  │     [24] invoke_in_world
│  │        @ ./essentials.jl:923 [inlined]
│  │     [25] require(into::Module, mod::Symbol)
│  │        @ Base ./loading.jl:1746
│  │     [26] include(mod::Module, _path::String)
│  │        @ Base ./Base.jl:495
│  │     [27] include(x::String)
│  │        @ Mads ~/.julia/packages/Mads/k47kX/src/Mads.jl:8
│  │     [28] top-level scope
│  │        @ ~/.julia/packages/Mads/k47kX/src/Mads.jl:119
│  │     [29] include
│  │        @ ./Base.jl:495 [inlined]
│  │     [30] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
│  │        @ Base ./loading.jl:2222
│  │     [31] top-level scope
│  │        @ stdin:3
│  │     [32] eval
│  │        @ ./boot.jl:385 [inlined]
│  │     [33] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
│  │        @ Base ./loading.jl:2076
│  │     [34] include_string
│  │        @ ./loading.jl:2086 [inlined]
│  │     [35] exec_options(opts::Base.JLOptions)
│  │        @ Base ./client.jl:316
│  │     [36] _start()
│  │        @ Base ./client.jl:552
│  │    during initialization of module OptimMOIExt
│  └ @ Base loading.jl:1301
│      Updating registry at `~/.julia/registries/General.toml`
│     Resolving package versions...
│      Updating `~/.julia/environments/v1.10/Project.toml`
│    [c91e804a] + Gadfly v1.4.0
│    No Changes to `~/.julia/environments/v1.10/Manifest.toml`
│  Precompiling project...
│    ✓ LinearSolve → LinearSolveIterativeSolversExt
│      Mads Being precompiled by another process (pid: 11469, pidfile: /Users/obk/.julia/compiled/v1.10/Mads/P7IWT_q7fFK.ji.pidfile)
│  
│  [13495] signal (2): Interrupt: 2
│  in expression starting at /Users/obk/.julia/packages/Mads/k47kX/src/Mads.jl:143
│  kevent at /usr/lib/system/libsystem_kernel.dylib (unknown line)
│  unknown function (ip: 0x0)
│  Allocations: 36036723 (Pool: 35988750; Big: 47973); GC: 50
└  
┌ Interpolations
│  WARNING: method definition for checkbounds at /Users/obk/.julia/packages/Interpolations/USkTk/src/Interpolations.jl:454 declares type variable N but does not use it.
│  WARNING: method definition for checkbounds at /Users/obk/.julia/packages/Interpolations/USkTk/src/Interpolations.jl:457 declares type variable N but does not use it.
│  WARNING: method definition for GriddedInterpolation at /Users/obk/.julia/packages/Interpolations/USkTk/src/gridded/gridded.jl:37 declares type variable pad but does not use it.
│  WARNING: method definition for GriddedInterpolation at /Users/obk/.julia/packages/Interpolations/USkTk/src/gridded/gridded.jl:60 declares type variable pad but does not use it.
│  WARNING: method definition for interpolate! at /Users/obk/.julia/packages/Interpolations/USkTk/src/deprecations.jl:30 declares type variable TWeights but does not use it.
└  

(@v1.10) pkg>
montyvesselinov commented 5 months ago

Optim fails. It is not our code. So we cannot do much about it. We may consider dropping it not fixed soon.

However, Optim errors do not prevent Mads from being executed and working with.

orenbenkiki commented 5 months ago

Optim fails. It is not our code. So we cannot do much about it.

FWIW, add Optim works fine. This is something about an extension OptimMOIExt which is loaded in some fancy way (which seems to be recommended against)?

We may consider dropping it not fixed soon.

If it is optional, the sooner the better - right now this makes it impossible for me to develop my computational pipeline.

However, Optim errors do not prevent Mads from being executed and working with.

Great! Is there a way that Optim errors will not prevent installing Mads? Some way I can work around the pre-compile phase error?

montyvesselinov commented 5 months ago

Optim has been removed

orenbenkiki commented 5 months ago

Many thanks for the quick resolution!

EDIT: I managed to add Mads now, though I had to set a bunch of MADS_NO_... environment flags first. Specifically, it isn't enough to set MAD_NO_PLOT as MadsInfoGap.jl line 6 requires explicit MADS_NO_GADFLY to avoid bringing in Gadfly (which, mysteriously, also caused things to hang, but I don't use Mads plotting, so at least for now I don't care :-). You may want to consider changing the test there to disable on MAD_NO_PLOT as well. With this caveat, it works. Thanks!

oktab1 commented 5 months ago

I could never get Mads to install on julia 1.10.2 on a fresh Ubuntu 22. What OS is recommended or what steps can I take to install it. I'm trying to install GeoThermalCloud but I keep getting stuck on Mads.

montyvesselinov commented 5 months ago

If you press Crtl-C, do you see an error message trail? Can you send it to us?

Numerous users of Mads use it, and so far, there have not been issues with the installation. We recently removed Optim, which was causing issues. I guess, in your case, there might be issues related to some Python dependencies that we are planning to remove. We are going to streamline the code, remove many dependencies, and split it into several independent packages.

Sorry about that.

https://envitrace.com/

Velimir “monty” Vesselinov

Co-Founder & CTO - Envitrace

+1 505-473-4150

@.***> https://calendly.com/montyv https://github.com/montyvesselinov https://www.linkedin.com/in/montyvesselinov https://montyv.github.io/

On Sun, Apr 14, 2024 at 6:26 AM Tolu Okuboyejo @.***> wrote:

I could never get Mads to install on julia 1.10.2 on a fresh Ubuntu 22. What OS is recommended or what steps can I take to install it. I'm trying to install GeoThermalCloud https://github.com/SmartTensors/GeoThermalCloud.jl but I keep getting stuck on Mads.

— Reply to this email directly, view it on GitHub https://github.com/madsjulia/Mads.jl/issues/63#issuecomment-2054032703, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABK7C6CDHMCN2FADT2ULC6LY5JYWZAVCNFSM6AAAAABENDQXZOVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDANJUGAZTENZQGM . You are receiving this because you modified the open/close state.Message ID: @.***>

oktab1 commented 5 months ago

@montyvesselinov, thanks for responding. On a fresh Ubuntu 20, below is the message trail after I pressed Ctrl-C.

        Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m`
    Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/51cab8e982c5b598eea9c8ceaced4b58d9dd37c9/build.log`
    Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/9816a3826b0ebf49ab4926e2b18842ad8b5c8f04/build.log`
    Building IJulia → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/47ac8cc196b81001a711f4b2c12c97372338f00c/build.log`
    Building Mads ──→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/ed907d655dd6b436c5fba73bedd53c4a261d7c60/build.log`
Precompiling project...
^C Interrupted: Exiting precompilation...===========>]  403/404
  ◑ Mads
  3 dependencies had output during precompilation:
┌ Mads
│      Updating registry at `~/.julia/registries/General.toml`
│     Resolving package versions...
│      Updating `~/.julia/environments/v1.10/Project.toml`
│    [c91e804a] + Gadfly v1.4.0
│    No Changes to `~/.julia/environments/v1.10/Manifest.toml`
│  Precompiling project...
│    ✓ LinearSolve → LinearSolveIterativeSolversExt
│      Mads Being precompiled by another process (pid: 4326, pidfile: /home/ubuntu/.julia/compiled/v1.10/Mads/P7IWT_LciJ0.ji.pidfile)
│  
│  [10694] signal (2): Interrupt
│  in expression starting at /home/ubuntu/.julia/packages/Mads/JBuSx/src/Mads.jl:143
│  epoll_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line)
│  uv__io_poll at /workspace/srcdir/libuv/src/unix/epoll.c:236
│  uv_run at /workspace/srcdir/libuv/src/unix/core.c:400
│  ijl_task_get_next at /cache/build/builder-amdci5-1/julialang/julia-release-1-dot-10/src/partr.c:470
└  
┌ MKL_jll
│   Downloading artifact: MKL
│  
│  [pid 7590] waiting for IO to finish:
│   Handle type        uv_handle_t->data
│   timer              0xf0e700->0x7fb11574e7d0
│  This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help.
│  
│  [pid 7590] waiting for IO to finish:
│   Handle type        uv_handle_t->data
│   timer              0xf0e700->0x7fb11574e7d0
│  This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help.
└  
┌ Interpolations
│  WARNING: method definition for checkbounds at /home/ubuntu/.julia/packages/Interpolations/USkTk/src/Interpolations.jl:454 declares type variable N but does not use it.
│  WARNING: method definition for checkbounds at /home/ubuntu/.julia/packages/Interpolations/USkTk/src/Interpolations.jl:457 declares type variable N but does not use it.
│  WARNING: method definition for GriddedInterpolation at /home/ubuntu/.julia/packages/Interpolations/USkTk/src/gridded/gridded.jl:37 declares type variable pad but does not use it.
│  WARNING: method definition for GriddedInterpolation at /home/ubuntu/.julia/packages/Interpolations/USkTk/src/gridded/gridded.jl:60 declares type variable pad but does not use it.
│  WARNING: method definition for interpolate! at /home/ubuntu/.julia/packages/Interpolations/USkTk/src/deprecations.jl:30 declares type variable TWeights but does not use it.
└  

(@v1.10) pkg>
oktab1 commented 5 months ago

@montyvesselinov, did the message trail provide any insight into why I'm running into issues? Thanks!