# R package JuliaCall does not work with Julia v1.9.1

**URL:** <https://discourse.julialang.org/t/r-package-juliacall-does-not-work-with-julia-v1-9-1/101134>\
**Category:** General Usage\
**Tags:** r\
**Created:** [July 3, 2023, 3:26pm UTC](https://discourse.julialang.org/t/r-package-juliacall-does-not-work-with-julia-v1-9-1/101134 "2023-07-03T15:26:10Z")\
**Posts on this page:** 4\
**Page:** 1

<div class="post-metadata">

**Author:** ![\_stla](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/_stla/32/35613_2.png) [@\_stla](https://discourse.julialang.org/u/_stla)\
**Post date:** [July 3, 2023, 3:26pm UTC](https://discourse.julialang.org/t/r-package-juliacall-does-not-work-with-julia-v1-9-1/101134/1 "2023-07-03T15:26:10Z")

</div>

Hello,

In order to use the R package **JuliaCall** , one firstly had to run the command `julia_setup()` in R. This command executes some Julia scripts. But it does not work. We get this error:

```julia
julia> ENV["R_HOME"] = "C:/Users/sdl96354/AppData/Local/Programs/R/R-4.3.1"
"C:/Users/sdl96354/AppData/Local/Programs/R/R-4.3.1"

julia> Base.include(Main,"C:/Users/sdl96354/AppData/Local/Programs/R/R-4.3.1/library/JuliaCall/julia/setup.jl")
[Info: Precompiling RCall [6f49c342-dc21-5d91-9882-a32aef131414]
ERROR: LoadError: syntax: Global method definition around C:\Users\sdl96354\AppData\Local\Programs\R\R-4.3.1\library\JuliaCall\julia\JuliaObject.jl:77 needs to be placed at the top level, or use "eval".
Stacktrace:
 [1] top-level scope
   @ C:\Users\sdl96354\AppData\Local\Programs\R\R-4.3.1\library\JuliaCall\julia\JuliaObject.jl:75
 [2] include(mod::Module, _path::String)
   @ Base .\Base.jl:457
 [3] include(x::String)
   @ Main.JuliaCall C:\Users\sdl96354\AppData\Local\Programs\R\R-4.3.1\library\JuliaCall\julia\setup.jl:16
 [4] top-level scope
   @ C:\Users\sdl96354\AppData\Local\Programs\R\R-4.3.1\library\JuliaCall\julia\setup.jl:99
 [5] include(mod::Module, _path::String)
   @ Base .\Base.jl:457
 [6] top-level scope
   @ REPL[2]:1
in expression starting at C:\Users\sdl96354\AppData\Local\Programs\R\R-4.3.1\library\JuliaCall\julia\JuliaObject.jl:75
in expression starting at C:\Users\sdl96354\AppData\Local\Programs\R\R-4.3.1\library\JuliaCall\julia\setup.jl:16

```

Would you know what does that mean? Here is **JuliaObject.jl** :

```julia
import RCall.sexp

struct JuliaObject
    id :: Ptr{RCall.ExtPtrSxp}
    typ :: String
    JuliaObject(id :: Ptr{RCall.ExtPtrSxp}, typ = "Regular") = new(id, typ)
end

function getID(x :: JuliaObject)
    x.id
end

function getType(x :: JuliaObject)
    x.typ
end

function new_obj(obj, typ = "Regular")
    # wrap in a `Ref`
    refj = Ref(obj)
    jptr = pointer_from_objref(refj)
    s = RCall.makeExternalPtr(jptr)
    RCall.jtypExtPtrs[s] = refj
    RCall.registerCFinalizerEx(s)

    JuliaObject(s, typ)
end

## debugging for freeing
# function rm_obj(id)
# RCall.decref_extptr(RCall.sexp(x))
# end

JuliaObject(x :: JuliaObject, typ = "Regular") = x
JuliaObject(x :: RObject, typ = "Regular") = new_obj(rcopy(x), typ)
JuliaObject(x :: RCall.Sxp, typ = "Regular") = new_obj(rcopy(x), typ)
JuliaObject(x, typ = "Regular") = new_obj(x, typ)

## Conversion related to JuliaObject

const makeJuliaObjectInR = reval("JuliaCall:::juliaobjectnew")

function sexp(x :: JuliaObject)
    RCall.rcall_p(makeJuliaObjectInR, getID(x), getType(x))
end

import RCall.rcopy

function rcopy(::Type{JuliaObject}, x::Ptr{EnvSxp})
    try
        # get(julia_object_stack, rcopy(Int32, RObject(x)[:getID]()))
        # get(julia_object_stack, rcopy(Int32, RObject(x)[:id]))
        RCall.jtypExtPtrs[RCall.sexp(x[:id])].x
    catch e
        nothing
    end
end

import RCall: RClass, rcopytype

rcopytype(::Type{RClass{:JuliaObject}}, x::Ptr{EnvSxp}) = JuliaObject

## Fallback conversions

@static if julia07
    import RCall.sexpclass
    sexpclass(x) = RClass{:JuliaObject}
    sexp(::Type{RClass{:JuliaObject}}, x) = sexp(JuliaObject(x))
else
    sexp(x) = sexp(JuliaObject(x))
end

## Regarding to issue #12, #13 and #16,
## we should use JuliaObject for general AbstractArray
@static if julia07
    @suppress_err begin
        JuliaCall.sexpclass(x :: AbstractArray{T}) where {T} = RClass{:JuliaObject}
    end

    ## AbstractArray{Any} should be converted to R List
    sexpclass(x :: AbstractArray{Any}) = RClass{:list}
else
    @suppress_err begin
        JuliaCall.sexp(x :: AbstractArray{T}) where {T} = sexp(JuliaObject(x))
    end

    ## AbstractArray{Any} should be converted to R List
    sexp(x :: AbstractArray{Any}) = sexp(VecSxp, x)
end

## Preserve BigFloat precision,
## as the design decision in issue #16
# sexp(x::AbstractArray{BigFloat}) = sexp(JuliaObject(x))
# sexp(x::BigFloat) = sexp(JuliaObject(x))

function setfield1!(object, name, value1)
    value = fieldtype(typeof(object), name)(value1)
    setfield!(object, name, value)
end

```

---

<div class="post-metadata">

**Author:** ![nilshg](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/nilshg/32/2283_2.png) [@nilshg](https://discourse.julialang.org/u/nilshg)\
**Post date:** [July 3, 2023, 3:34pm UTC](https://discourse.julialang.org/t/r-package-juliacall-does-not-work-with-julia-v1-9-1/101134/2 "2023-07-03T15:34:11Z")

</div>

As you have seen on GitHub already, it appears JuliaCall is broken:

> <https://github.com/Non-Contradiction/JuliaCall/issues/201>
>
> I am not able to run Julia in R 4.3 and Julia is 1.9. Julia on PATH but their sy…natxs are not running. The same error appear after runing syntax i.e. julia\_setup(), JuliaCall::julia\_command("a= 1+1"). Please find error in detail below
> Julia version 1.9.1 at location C:\\Users\\PC\\AppData\\Local\\Programs\\JULIA-~1.1\\bin will be used.
> Loading setup script for JuliaCall...
> Error in .julia$cmd(paste0(Rhomeset, "Base.include(Main,\\"", system.file("julia/setup.jl", : 
> Error happens when you try to execute command ENV\["R\_HOME"\] = "C:/PROGRA~1/R/R-43~1.1";Base.include(Main,"C:/Users/PC/AppData/Local/R/win-library/4.3/JuliaCall/julia/setup.jl") in Julia.
> To have more helpful error messages,
> you could considering running the command in Julia directly
> 
> Plz suggest me a \[solution.\](url)
> !\[JuliaCall\](https://github.com/Non-Contradiction/JuliaCall/assets/116310732/5fec5705-303f-4266-b706-48d8e596a538)

> <https://github.com/Non-Contradiction/JuliaCall/issues/202>
>
> My problem in R is the next:
> 
> \> library(JuliaCall)
> \> julia\_setup()
> Julia ver…sion 1.9.1 at location C:\\Users\\mictl\\AppData\\Local\\Programs\\JULIA-~1.1\\bin will be used.
> Loading setup script for JuliaCall...
> Error in .julia$cmd(paste0(Rhomeset, "Base.include(Main,\\"", system.file("julia/setup.jl", : 
> Error happens when you try to execute command ENV\["R\_HOME"\] = "C:/Program Files/R/R-4.3.1
> ";Base.include(Main,"C:/Users/mictl/AppData/Local/R/win-library/4.3/JuliaCall/julia/setup.jl") in Julia.
> To have more helpful error messages,
> you could considering running the command in Julia directly
> 
> I change the PATH of JULIA\_HOME= "C:/Users/mictl/AppData/Local/Programs/Julia-1.9.1/bin"
> But, the program say:
> 
> library("JuliaCall")
> \> julia\_setup()
> Error in julia\_setup() : Julia is not found.
> 
> I don't understand what happend. Please I need your help!

> <https://github.com/Non-Contradiction/JuliaCall/issues/203>
>
> Hi I am updating julia path in terminal. As Julia\_Setup is not working in my sys…tem.  
> I follow the following setup.
> ENV\["R\_HOME"\]="C:/Environment/R-4.3.1"
> "C:/Environment/R-4.3.1"
> \*\*But the following syntax creat error. Please write suggestion for this error\*\*
> Base.include(Main,"C:/Users/PC/AppData/Local/R/win-library/4.3/JuliaCall/julia/setup.jl")
> ERROR: LoadError: syntax: Global method definition around C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\JuliaObject.jl:77 needs to be placed at the top level, or use "eval".
> Stacktrace:
> \[1\] top-level scope
> @ C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\JuliaObject.jl:75
> \[2\] include(mod::Module, \_path::String)
> @ Base .\\Base.jl:457
> \[3\] include(x::String)
> @ Main.JuliaCall C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\setup.jl:16
> \[4\] top-level scope
> @ C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\setup.jl:99
> \[5\] include(mod::Module, \_path::String)
> @ Base .\\Base.jl:457
> \[6\] top-level scope
> @ REPL\[7\]:1
> in expression starting at C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\JuliaObject.jl:75
> in expression starting at C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\setup.jl:16
> 
> julia\> "C:/Environment/R-4.3.1";Base.include(Main,"C:/Users/PC/AppData/Local/R/win-library/4.3/JuliaCall/julia/setup.jl")ulia/setup.jl")
> WARNING: replacing module JuliaCall. liaObject.jl:77 needs to be placed at the top level, or use "ev
> ERROR: LoadError: syntax: Global method definition around C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\JuaCall\\julia\\JuliaObject.jl:77 needs to be placed at the top level, or use "eval".
> Stacktrace:
> \[1\] top-level scope
> @ C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\JuliaObject.jl:75
> \[2\] include(mod::Module, \_path::String)
> @ Base .\\Base.jl:457
> \[3\] include(x::String)
> @ Main.JuliaCall C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\setup.jl:16
> \[4\] top-level scope
> @ C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\setup.jl:99
> \[5\] include(mod::Module, \_path::String)
> @ Base .\\Base.jl:457
> \[6\] top-level scope
> @ REPL\[8\]:1
> in expression starting at C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\JuliaObject.jl:75
> in expression starting at C:\\Users\\PC\\AppData\\Local\\R\\win-library\\4.3\\JuliaCall\\julia\\setup.jl:16

---

<div class="post-metadata">

**Author:** ![\_stla](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/_stla/32/35613_2.png) [@\_stla](https://discourse.julialang.org/u/_stla)\
**Post date:** [July 3, 2023, 3:38pm UTC](https://discourse.julialang.org/t/r-package-juliacall-does-not-work-with-julia-v1-9-1/101134/3 "2023-07-03T15:38:22Z")

</div>

I use **JuliaConnectoR** usually but I tried it with v1.9.1 and it was incredibly slow. Is it broken too? Will take a look at the Github repo…

---

<div class="post-metadata">

**Author:** ![\_stla](https://sea2.discourse-cdn.com/julialang/user_avatar/discourse.julialang.org/_stla/32/35613_2.png) [@\_stla](https://discourse.julialang.org/u/_stla)\
**Post date:** [July 3, 2023, 3:44pm UTC](https://discourse.julialang.org/t/r-package-juliacall-does-not-work-with-julia-v1-9-1/101134/4 "2023-07-03T15:44:32Z")

</div>

Or is it due to Windows? (my Linux laptop is broken). If somebody want to try that, the inversion of a 1000x1000 matrix, it is incredibly slow:

```r
library(JuliaConnectoR)

juliaModule <- "
module myJuliaModule
export mySolveJulia
export myProdJulia

function mySolveJulia(m)
  return inv(m)
end

function myProdJulia(m1, m2)
  return m1 * m2
end

end
"

. <- juliaEval(juliaModule)
myJuliaModule <- juliaImport(".myJuliaModule", all = FALSE)
mySolveJulia <- myJuliaModule$mySolveJulia

mySolveR <- function(x) solve(x)
set.seed(9392927)
N <- 1e3L
x1 <- matrix(rpois(N^2L, lambda = 10), N)

reps <- 2L
microbenchmark::microbenchmark(
  mySolveR(x1), 
  mySolveJulia(x1),
  times = reps
)

stopJulia()

```