Precompile times

[jpfairbanks]

I think we can use the techniques in this post to bring down Decapodes precompile times

https://sciml.ai/news/2022/09/21/compile_time/#starting_the_process_profiling_why_ordinarydiffeq_first_solve_time_was_30_second_compilation

SnoopCompile should also help find type inference failures, which were the cause of the major performance problems in ACSets.jl that were biting Decapodes.

[GeorgeR227]

I'm running some benchmarks and I think Decapodes by itself precompiles fairly quickly, only 7.2ms. Overall compilation time is a it over 2 seconds. The initial loading time should have also been heavily improved by #216. However I'm still looking at compilation times for our larger functions like gensim.

julia> @time_imports using Decapodes
      0.5 ms  Reexport
      0.6 ms  Compat
      0.4 ms  Compat → CompatLinearAlgebraExt
      0.4 ms  StructEquality
      6.3 ms  Preferences
      0.5 ms  PrecompileTools
      0.8 ms  StaticArraysCore
    115.2 ms  StaticArrays
     49.6 ms  MLStyle
      0.6 ms  AlgebraicInterfaces
      0.4 ms  DataValueInterfaces
      0.7 ms  DataAPI
      0.4 ms  IteratorInterfaceExtensions
      0.4 ms  TableTraits
      6.5 ms  Tables
      4.9 ms  StringManipulation
      8.1 ms  Crayons
      0.9 ms  LaTeXStrings
     60.8 ms  PrettyTables
      5.4 ms  MacroTools
      0.6 ms  CompTime
      3.5 ms  StructTypes
               ┌ 0.0 ms Parsers.__init__() 
     28.7 ms  Parsers 41.74% compilation time
     21.7 ms  JSON3
     18.5 ms  DataStructures
      1.5 ms  Combinatorics
      1.0 ms  Permutations
     28.8 ms  ACSets
               ┌ 14.6 ms SuiteSparse_jll.__init__() 
     15.4 ms  SuiteSparse_jll
               ┌ 6.2 ms SparseArrays.CHOLMOD.__init__() 52.06% compilation time
    112.0 ms  SparseArrays 2.87% compilation time
      0.8 ms  Statistics
      0.4 ms  StaticArrays → StaticArraysStatisticsExt
     12.5 ms  FixedPointNumbers
               ┌ 9.5 ms ColorTypes.__init__() 99.89% compilation time (100% recompilation)
     27.4 ms  ColorTypes 34.63% compilation time (100% recompilation)
     25.2 ms  Colors
    153.6 ms  GATlab
      0.8 ms  JLLWrappers
               ┌ 5.4 ms Zlib_jll.__init__() 
      6.1 ms  Zlib_jll
               ┌ 4.5 ms Libiconv_jll.__init__() 
      5.4 ms  Libiconv_jll
               ┌ 2.0 ms XML2_jll.__init__() 
      2.8 ms  XML2_jll
      2.2 ms  LightXML
     14.1 ms  IterTools
      2.1 ms  Measures
               ┌ 0.0 ms Requires.__init__() 
      0.8 ms  Requires
      6.3 ms  JSON
               ┌ 0.0 ms Compose.__init__() 
      7.8 ms  Compose
      0.8 ms  PrettyPrint
      0.7 ms  NameResolution
      2.5 ms  JuliaVariables
      6.9 ms  GeneralizedGenerated
     66.0 ms  Catlab
     10.8 ms  DiagrammaticEquations
     43.6 ms  FillArrays
      2.5 ms  FillArrays → FillArraysSparseArraysExt
      0.8 ms  FillArrays → FillArraysStatisticsExt
    136.0 ms  ArrayLayouts
      1.0 ms  ArrayLayouts → ArrayLayoutsSparseArraysExt
     47.0 ms  LazyArrays
      0.8 ms  LazyArrays → LazyArraysStaticArraysExt
      0.8 ms  ConstructionBase
      0.7 ms  ConstructionBase → ConstructionBaseStaticArraysExt
     16.7 ms  StructArrays
      1.0 ms  StructArrays → StructArraysStaticArraysExt
      0.9 ms  StructArrays → StructArraysSparseArraysExt
      1.9 ms  Extents
      5.1 ms  GeoInterface
               ┌ 134.2 ms EarCut_jll.__init__() 97.00% compilation time (100% recompilation)
    135.2 ms  EarCut_jll 96.30% compilation time (100% recompilation)
     95.8 ms  GeometryBasics
     12.7 ms  DataMigrations
               ┌ 0.0 ms FileIO.__init__() 
     28.2 ms  FileIO
      5.1 ms  MeshIO
     10.3 ms  CombinatorialSpaces
      5.7 ms  Krylov
     12.5 ms  ChainRulesCore
      0.9 ms  StaticArrays → StaticArraysChainRulesCoreExt
      0.8 ms  ChainRulesCore → ChainRulesCoreSparseArraysExt
      0.7 ms  SuiteSparse
      1.5 ms  ArrayInterface
      0.9 ms  ArrayInterface → ArrayInterfaceStaticArraysCoreExt
      0.7 ms  IfElse
     12.3 ms  Static
     29.0 ms  StaticArrayInterface
      1.5 ms  StaticArrayInterface → StaticArrayInterfaceStaticArraysExt
      2.3 ms  Functors
      0.8 ms  PackageExtensionCompat
               ┌ 0.0 ms ComponentArrays.__init__() 
     42.8 ms  ComponentArrays
      0.9 ms  ComponentArrays → ComponentArraysConstructionBaseExt
      4.4 ms  IrrationalConstants
      1.0 ms  DiffRules
      1.2 ms  DiffResults
               ┌ 10.5 ms OpenLibm_jll.__init__() 
     11.4 ms  OpenLibm_jll
      0.9 ms  NaNMath
               ┌ 0.0 ms DocStringExtensions.__init__() 
      1.9 ms  DocStringExtensions
      0.8 ms  LogExpFunctions
      0.8 ms  LogExpFunctions → LogExpFunctionsChainRulesCoreExt
               ┌ 23.1 ms CompilerSupportLibraries_jll.__init__() 12.03% compilation time
     24.0 ms  CompilerSupportLibraries_jll 11.60% compilation time
               ┌ 1.8 ms OpenSpecFun_jll.__init__() 
      2.9 ms  OpenSpecFun_jll
      4.9 ms  SpecialFunctions
      1.0 ms  SpecialFunctions → SpecialFunctionsChainRulesCoreExt
      0.7 ms  CommonSubexpressions
     28.9 ms  ForwardDiff
      1.1 ms  ForwardDiff → ForwardDiffStaticArraysExt
      0.8 ms  Adapt
      0.7 ms  StructArrays → StructArraysAdaptExt
      0.7 ms  ComponentArrays → ComponentArraysAdaptExt
      0.8 ms  Adapt → AdaptStaticArraysExt
      1.6 ms  PreallocationTools
      7.3 ms  Decapodes