Failed to precompile DifferentialEquations v1.6.2

General Usage
,
1

Hi
I am trying to replicate the example from Turing. But I am struggling to understand why DifferentialEquations fails to precompile. I am using Julia v1.6.2 on Jupyter notebook. Here is the error msg:

Failed to precompile DifferentialEquations [0c46a032-eb83-5123-abaf-570d42b7fbaa] to /Users/.../.julia/compiled/v1.6/DifferentialEquations/jl_0pNC7y.

Stacktrace:
 [1] error(s::String)
   @ Base ./error.jl:33
 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IJulia.IJuliaStdio{Base.PipeEndpoint}, internal_stdout::IJulia.IJuliaStdio{Base.PipeEndpoint}, ignore_loaded_modules::Bool)
   @ Base ./loading.jl:1385
 [3] compilecache(pkg::Base.PkgId, path::String)
   @ Base ./loading.jl:1329
 [4] _require(pkg::Base.PkgId)
   @ Base ./loading.jl:1043
 [5] require(uuidkey::Base.PkgId)
   @ Base ./loading.jl:936
 [6] require(into::Module, mod::Symbol)
   @ Base ./loading.jl:923
 [7] eval
   @ ./boot.jl:360 [inlined]
 [8] include_string(mapexpr::typeof(REPL.softscope), mod::Module, code::String, filename::String)
   @ Base ./loading.jl:1116

Any help is appreciated.

2

Can you show the rest of the error message?

3

hi Chris,
here is the complete error (repeated warning similar, very long ). So couldn’t paste all warnings.

Info: Precompiling DifferentialEquations [0c46a032-eb83-5123-abaf-570d42b7fbaa]
└ @ Base loading.jl:1342
WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:sqrt3}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:sqrtπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:quartπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:twoπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:sqrthalfπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:sqrt2}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:inv2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:invsqrt2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:twoinvπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:fourinvπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:logπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:log4π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:fourπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:sqrt2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:invπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:halfπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:logtwo}) in module IrrationalConstants at irrationals.jl:173 overwritten in module StatsFuns at irrationals.jl:180.
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:log2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:invsqrt2}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:sqrt4π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:loghalf}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition Type##kw(Any, Type{Base.MPFR.BigFloat}, Base.Irrational{:inv4π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:sqrt3}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:sqrtπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:twoπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:quartπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:sqrthalfπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:sqrt2}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:inv2π}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:invsqrt2π}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:twoinvπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:fourinvπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:sqrt2π}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:fourπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:logπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:invπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:halfπ}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:logtwo}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:log2π}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:log4π}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:invsqrt2}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:sqrt4π}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:loghalf}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float32})(Base.Irrational{:inv4π}) in module IrrationalConstants at irrationals.jl:190 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:sqrt3}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:sqrtπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:quartπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:twoπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:sqrthalfπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:sqrt2}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:inv2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:invsqrt2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:twoinvπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:fourinvπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:logπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:log4π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:fourπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:sqrt2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:invπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:halfπ}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:logtwo}) in module IrrationalConstants at irrationals.jl:173 overwritten in module StatsFuns at irrationals.jl:180.
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:log2π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:invsqrt2}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:sqrt4π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:loghalf}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Base.MPFR.BigFloat})(Base.Irrational{:inv4π}) in module IrrationalConstants at irrationals.jl:180 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:sqrt3}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:sqrtπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:twoπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:quartπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:sqrthalfπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:sqrt2}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:inv2π}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:invsqrt2π}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:fourinvπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:twoinvπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:sqrt2π}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:fourπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:logπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

WARNING: Method definition (::Type{Float64})(Base.Irrational{:invπ}) in module IrrationalConstants at irrationals.jl:189 overwritten in module StatsFuns on the same line (check for duplicate calls to `include`).
  ** incremental compilation may be fatally broken for this module **

Thanks

4

Can you show ]st? When was the last time you ]uped?

5

Here is the output from ]st:

[336ed68f] CSV v0.10.4
  [a93c6f00] DataFrames v0.22.7
  [0c46a032] DifferentialEquations v6.20.0
  [31c24e10] Distributions v0.25.14
  [5789e2e9] FileIO v1.13.0
  [587475ba] Flux v0.12.8
  [38e38edf] GLM v1.7.0
  [8d5ece8b] GLMNet v0.7.0
  [c27321d9] Glob v1.3.0
  [cd3eb016] HTTP v0.9.17
  [033835bb] JLD2 v0.4.3
  [b964fa9f] LaTeXStrings v1.3.0
  [b4fcebef] Lasso v0.6.2
  [21d151f5] LassoPlot v1.1.1
  [2fda8390] LsqFit v0.12.1
  [c7f686f2] MCMCChains v5.1.0
  [f0e99cf1] MLBase v0.8.0
  [442fdcdd] Measures v0.3.1
  [6f286f6a] MultivariateStats v0.8.0
  [429524aa] Optim v1.6.2
  [91a5bcdd] Plots v1.25.5
  [f27b6e38] Polynomials v3.0.0
  [d330b81b] PyPlot v2.10.0
  [ce6b1742] RDatasets v0.7.7
  [37e2e3b7] ReverseDiff v1.9.0
  [f3b207a7] StatsPlots v0.14.30
  [fce5fe82] Turing v0.21.1
  [ade2ca70] Dates
  [8ba89e20] Distributed
  [37e2e46d] LinearAlgebra
  [9a3f8284] Random
  [10745b16] Statistics

I may have last updated Julia some times last year.

6

What about ]st -m? StatsFuns is kept back for some reason

7

Here is the output from ]st -m:

621f4979] AbstractFFTs v1.0.1
  [80f14c24] AbstractMCMC v4.0.0
  [7a57a42e] AbstractPPL v0.5.2
  [1520ce14] AbstractTrees v0.3.4
  [79e6a3ab] Adapt v3.3.3
  [0bf59076] AdvancedHMC v0.3.5
  [5b7e9947] AdvancedMH v0.6.7
  [576499cb] AdvancedPS v0.3.8
  [b5ca4192] AdvancedVI v0.1.5
  [dce04be8] ArgCheck v2.3.0
  [ec485272] ArnoldiMethod v0.1.0
  [7d9fca2a] Arpack v0.4.0
  [4fba245c] ArrayInterface v3.2.2
  [4c555306] ArrayLayouts v0.7.5
  [13072b0f] AxisAlgorithms v1.0.1
  [39de3d68] AxisArrays v0.4.5
  [ab4f0b2a] BFloat16s v0.2.0
  [aae01518] BandedMatrices v0.16.13
  [198e06fe] BangBang v0.3.36
  [9718e550] Baselet v0.1.1
  [76274a88] Bijectors v0.9.7
  [62783981] BitTwiddlingConvenienceFunctions v0.1.3
  [764a87c0] BoundaryValueDiffEq v2.7.1
  [fa961155] CEnum v0.4.2
  [2a0fbf3d] CPUSummary v0.1.22
  [00ebfdb7] CSTParser v3.3.3
  [336ed68f] CSV v0.10.4
  [052768ef] CUDA v3.10.0
  [324d7699] CategoricalArrays v0.9.7
  [082447d4] ChainRules v0.8.25
  [d360d2e6] ChainRulesCore v0.10.13
  [fb6a15b2] CloseOpenIntervals v0.1.6
  [aaaa29a8] Clustering v0.14.2
  [944b1d66] CodecZlib v0.7.0
  [35d6a980] ColorSchemes v3.18.0
  [3da002f7] ColorTypes v0.11.2
  [c3611d14] ColorVectorSpace v0.9.8
  [5ae59095] Colors v0.12.8
  [861a8166] Combinatorics v1.0.2
  [a80b9123] CommonMark v0.8.6
  [38540f10] CommonSolve v0.2.0
  [bbf7d656] CommonSubexpressions v0.3.0
  [34da2185] Compat v3.43.0
  [b152e2b5] CompositeTypes v0.1.2
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  [82ae8749] StatsAPI v1.3.0
  [2913bbd2] StatsBase v0.33.16
  [4c63d2b9] StatsFuns v0.9.7
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  [9672c7b4] SteadyStateDiffEq v1.6.6
  [789caeaf] StochasticDiffEq v6.42.0
  [7792a7ef] StrideArraysCore v0.2.19
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  [c3572dad] Sundials v4.9.4
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  [ab02a1b2] TableOperations v1.2.0
  [3783bdb8] TableTraits v1.0.1
  [bd369af6] Tables v1.7.0
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  [9f7883ad] Tracker v0.2.20
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  [1986cc42] Unitful v1.11.0
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  [6e34b625] Bzip2_jll v1.0.8+0
  [83423d85] Cairo_jll v1.16.1+1
  [5ae413db] EarCut_jll v2.2.3+0
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  [b22a6f82] FFMPEG_jll v4.4.0+0
  [f5851436] FFTW_jll v3.3.10+0
  [a3f928ae] Fontconfig_jll v2.13.93+0
  [d7e528f0] FreeType2_jll v2.10.4+0
  [559328eb] FriBidi_jll v1.0.10+0
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  [1d5cc7b8] IntelOpenMP_jll v2018.0.3+2
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  [c1c5ebd0] LAME_jll v3.100.1+0
  [88015f11] LERC_jll v3.0.0+1
  [dad2f222] LLVMExtra_jll v0.0.16+0
  [dd4b983a] LZO_jll v2.10.1+0
  [e9f186c6] Libffi_jll v3.2.2+1
  [d4300ac3] Libgcrypt_jll v1.8.7+0
  [7e76a0d4] Libglvnd_jll v1.3.0+3
  [7add5ba3] Libgpg_error_jll v1.42.0+0
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  [89763e89] Libtiff_jll v4.3.0+1
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  [856f044c] MKL_jll v2022.0.0+0
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  [458c3c95] OpenSSL_jll v1.1.14+0
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  [91d4177d] Opus_jll v1.3.2+0
  [2f80f16e] PCRE_jll v8.44.0+0
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  [f50d1b31] Rmath_jll v0.3.0+0
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  [a2964d1f] Wayland_jll v1.19.0+0
  [2381bf8a] Wayland_protocols_jll v1.25.0+0
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  [4f6342f7] Xorg_libX11_jll v1.6.9+4
  [0c0b7dd1] Xorg_libXau_jll v1.0.9+4
  [935fb764] Xorg_libXcursor_jll v1.2.0+4
  [a3789734] Xorg_libXdmcp_jll v1.1.3+4
  [1082639a] Xorg_libXext_jll v1.3.4+4
  [d091e8ba] Xorg_libXfixes_jll v5.0.3+4
  [a51aa0fd] Xorg_libXi_jll v1.7.10+4
  [d1454406] Xorg_libXinerama_jll v1.1.4+4
  [ec84b674] Xorg_libXrandr_jll v1.5.2+4
  [ea2f1a96] Xorg_libXrender_jll v0.9.10+4
  [14d82f49] Xorg_libpthread_stubs_jll v0.1.0+3
  [c7cfdc94] Xorg_libxcb_jll v1.13.0+3
  [cc61e674] Xorg_libxkbfile_jll v1.1.0+4
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  [2def613f] Xorg_xcb_util_jll v0.4.0+1
  [975044d2] Xorg_xcb_util_keysyms_jll v0.4.0+1
  [0d47668e] Xorg_xcb_util_renderutil_jll v0.3.9+1
  [c22f9ab0] Xorg_xcb_util_wm_jll v0.4.1+1
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  [33bec58e] Xorg_xkeyboard_config_jll v2.27.0+4
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  [78c6b45d] glmnet_jll v5.0.0+0
  [0ac62f75] libass_jll v0.15.1+0
  [8e850b90] libblastrampoline_jll v3.1.0+2
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  [0dad84c5] ArgTools
  [56f22d72] Artifacts
  [2a0f44e3] Base64
  [ade2ca70] Dates
  [8bb1440f] DelimitedFiles
  [8ba89e20] Distributed
  [f43a241f] Downloads
  [9fa8497b] Future
  [b77e0a4c] InteractiveUtils
  [4af54fe1] LazyArtifacts
  [b27032c2] LibCURL
  [76f85450] LibGit2
  [8f399da3] Libdl
  [37e2e46d] LinearAlgebra
  [56ddb016] Logging
  [d6f4376e] Markdown
  [a63ad114] Mmap
  [ca575930] NetworkOptions
  [44cfe95a] Pkg
  [de0858da] Printf
  [9abbd945] Profile
  [3fa0cd96] REPL
  [9a3f8284] Random
  [ea8e919c] SHA
  [9e88b42a] Serialization
  [1a1011a3] SharedArrays
  [6462fe0b] Sockets
  [2f01184e] SparseArrays
  [10745b16] Statistics
  [4607b0f0] SuiteSparse
  [fa267f1f] TOML
  [a4e569a6] Tar
  [8dfed614] Test
  [cf7118a7] UUIDs
  [4ec0a83e] Unicode
  [e66e0078] CompilerSupportLibraries_jll
  [deac9b47] LibCURL_jll
  [29816b5a] LibSSH2_jll
  [c8ffd9c3] MbedTLS_jll
  [14a3606d] MozillaCACerts_jll
  [4536629a] OpenBLAS_jll
  [05823500] OpenLibm_jll
  [bea87d4a] SuiteSparse_jll
  [83775a58] Zlib_jll
  [8e850ede] nghttp2_jll
  [3f19e933] p7zip_jll

I didn’t understand when your said StatsFuns is kept back for some reason. Which Stats functions did you refer?

Thanks

8

Try ]add StatsFuns@1. What’s keeping it back? Post the result of that.

9

Here is the out put:

Unsatisfiable requirements detected for package MLBase [f0e99cf1]:
 MLBase [f0e99cf1] log:
 ├─possible versions are: 0.8.0-0.9.0 or uninstalled
 ├─restricted to versions * by an explicit requirement, leaving only versions 0.8.0-0.9.0
 ├─restricted by compatibility requirements with LassoPlot [21d151f5] to versions: 0.8.0
 │ └─LassoPlot [21d151f5] log:
 │   ├─possible versions are: 1.0.0-1.1.1 or uninstalled
 │   └─restricted to versions * by an explicit requirement, leaving only versions 1.0.0-1.1.1
 └─restricted by compatibility requirements with Reexport [189a3867] to versions: 0.9.0 or uninstalled — no versions left
   └─Reexport [189a3867] log:
     ├─possible versions are: 0.2.0-1.2.2 or uninstalled
     ├─restricted by compatibility requirements with MLBase [f0e99cf1] to versions: 0.2.0-1.2.2
     │ └─MLBase [f0e99cf1] log: see above
     └─restricted by compatibility requirements with StatsFuns [4c63d2b9] to versions: 1.0.0-1.2.2
       └─StatsFuns [4c63d2b9] log:
         ├─possible versions are: 0.7.0-1.0.1 or uninstalled
         └─restricted to versions 1 by an explicit requirement, leaving only versions 1.0.0-1.0.1
10

And some more:

Stacktrace:
  [1] propagate_constraints!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; log_events::Bool)
    @ Pkg.Resolve /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Resolve/graphtype.jl:1048
  [2] propagate_constraints! (repeats 2 times)
    @ /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Resolve/graphtype.jl:989 [inlined]
  [3] simplify_graph!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; clean_graph::Bool)
    @ Pkg.Resolve /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Resolve/graphtype.jl:1503
  [4] simplify_graph! (repeats 2 times)
    @ /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Resolve/graphtype.jl:1503 [inlined]
  [5] resolve_versions!(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec})
    @ Pkg.Operations /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:408
  [6] targeted_resolve(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}, preserve::Pkg.Types.PreserveLevel)
    @ Pkg.Operations /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1214
  [7] tiered_resolve(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec})
    @ Pkg.Operations /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1200
  [8] _resolve
    @ /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1220 [inlined]
  [9] add(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}, new_git::Vector{Base.UUID}; preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform)
    @ Pkg.Operations /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1235
 [10] add(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; preserve::Pkg.Types.PreserveLevel, platform::Base.BinaryPlatforms.Platform, kwargs::Base.Iterators.Pairs{Symbol, IJulia.IJuliaStdio{Base.PipeEndpoint}, Tuple{Symbol}, NamedTuple{(:io,), Tuple{IJulia.IJuliaStdio{Base.PipeEndpoint}}}})
    @ Pkg.API /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:204
 [11] add(pkgs::Vector{Pkg.Types.PackageSpec}; io::IJulia.IJuliaStdio{Base.PipeEndpoint}, kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
    @ Pkg.API /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:80
 [12] add(pkgs::Vector{Pkg.Types.PackageSpec})
    @ Pkg.API /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:78
 [13] do_cmd!(command::Pkg.REPLMode.Command, repl::IJulia.MiniREPL)
    @ Pkg.REPLMode /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/REPLMode/REPLMode.jl:408
 [14] do_cmd(repl::IJulia.MiniREPL, input::String; do_rethrow::Bool)
    @ Pkg.REPLMode /Users/julia/buildbot/worker/package_macos64/build/usr/share/julia/stdlib/v1.6/Pkg/src/REPLMode/REPLMode.jl:386
 [15] top-level scope
    @ In[5]:1
 [16] eval
    @ ./boot.jl:360 [inlined]
 [17] include_string(mapexpr::typeof(REPL.softscope), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:1116
11

LassoPlot.jl hasn’t been updated in a long time and is holding back all of your other packages and giving you weirdly pre-1.3 package versions. Get rid of it and you should be good.

12

How do I get rid of it? Delete LassoPlot.jl from
~/.julia/registries/General ??

13

No, ]rm LassoPlot

14

Sorry, but after removing the LassoPlot, and restarting the Kernel, re-running the code, I am still getting the dame errors:

Failed to precompile DifferentialEquations [0c46a032-eb83-5123-abaf-570d42b7fbaa] to /Users/../.julia/compiled/v1.6/DifferentialEquations/jl_NPUgyK.

Stacktrace:
 [1] error(s::String)
   @ Base ./error.jl:33
 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IJulia.IJuliaStdio{Base.PipeEndpoint}, internal_stdout::IJulia.IJuliaStdio{Base.PipeEndpoint}, ignore_loaded_modules::Bool)
   @ Base ./loading.jl:1385
 [3] compilecache(pkg::Base.PkgId, path::String)
   @ Base ./loading.jl:1329
 [4] _require(pkg::Base.PkgId)
   @ Base ./loading.jl:1043
 [5] require(uuidkey::Base.PkgId)
   @ Base ./loading.jl:936
 [6] require(into::Module, mod::Symbol)
   @ Base ./loading.jl:923
 [7] eval
   @ ./boot.jl:360 [inlined]
 [8] include_string(mapexpr::typeof(REPL.softscope), mod::Module, code::String, filename::String)
   @ Base ./loading.jl:1116
15

And getting lots of Warning msgs. Here are some of them:

ERROR: LoadError: UndefVarError: DEFAULT_LINSOLVE not defined
Stacktrace:
 [1] OrdinaryDiffEq.Rosenbrock23()
   @ OrdinaryDiffEq ~/.julia/packages/OrdinaryDiffEq/OBX2P/src/algorithms.jl:3627
 [2] top-level scope
   @ ~/.julia/packages/OrdinaryDiffEq/OBX2P/src/OrdinaryDiffEq.jl:193
 [3] include
   @ ./Base.jl:386 [inlined]
 [4] 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, UInt64}}, source::String)
   @ Base ./loading.jl:1235
 [5] top-level scope
   @ none:1
 [6] eval
   @ ./boot.jl:360 [inlined]
 [7] eval(x::Expr)
   @ Base.MainInclude ./client.jl:446
 [8] top-level scope
   @ none:1
in expression starting at /Users/.../.julia/packages/OrdinaryDiffEq/OBX2P/src/OrdinaryDiffEq.jl:1
ERROR: LoadError: Failed to precompile OrdinaryDiffEq [1dea7af3-3e70-54e6-95c3-0bf5283fa5ed] to /Users/.../.julia/compiled/v1.6/OrdinaryDiffEq/jl_ff4swt.
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:33
  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IOContext{Base.PipeEndpoint}, internal_stdout::IOContext{Base.PipeEndpoint}, ignore_loaded_modules::Bool)
    @ Base ./loading.jl:1385
  [3] compilecache(pkg::Base.PkgId, path::String)
    @ Base ./loading.jl:1329
  [4] _require(pkg::Base.PkgId)
    @ Base ./loading.jl:1043
  [5] require(uuidkey::Base.PkgId)
    @ Base ./loading.jl:936
  [6] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:923
  [7] include
    @ ./Base.jl:386 [inlined]
  [8] 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, UInt64}}, source::String)
    @ Base ./loading.jl:1235
  [9] top-level scope
    @ none:1
 [10] eval
16

Did you do ]up afterwards?

2 Likes
17

I did ]up and restarted the kernel. And it worked.
Thanks heaps Chris

1 Like