[R] Error when loading optimx package and a solution

[peter dalgaard]

I think the operative words here are "brew install". I.e., this is a homebrew installation, and thus nothing to do with CRAN.

Nothing wrong with homebrew as far as R Core and the CRAN team knows, we just don't support it, so you have to hope for response from other homebrew users.


- Peter D.


> On 5 Feb 2025, at 14:05 , J C Nash <profjcnash using gmail.com> wrote:
> 
> Hi,
> 
> That looks like the dependency on nlopt for nloptr (used by several of the
> solvers) was somehow missing. There is SUPPOSED to be a check of what is installed
> and a warning issued, but possibly one got missed. Even some base packages
> do sometimes need the external libraries manually installed, and I find I'm
> doing that after various OS updates or resets when the long term support
> runs out.
> 
> Some updates and minor extensions to optimx, mostly convenience features or
> checks that dependencies available, are on the github version, which is a bit
> ahead of CRAN (https://github.com/nashjc/optimx). I find doing all the checks
> and revdeps for the package now getting heavy enough that it is worth waiting
> a bit unless there's a critical bug, which I don't think there has been for
> a long while.
> 
> I don't have a Mac, and am currently away from home (actually in Nice, FR for
> a couple of weeks), but would be interested in knowing if the github version
> needs an independent install of nlopt on Mac, or indeed on any platform.
> 
> Cheers,
> 
> John Nash
> maintainer, optimx
> 
> 
> On 2025-02-05 04:46, Marc Girondot via R-help wrote:
>> Dear R-help members
>> Since this morning (5/2/2025), I get an error when I try to load optimx package. I solve it and I send my solution but if someone has a better idea or understand what's happened, I will be most happy to know.
>> MacOSX 15.3
>> R 4.4.2
>> nlopt installed using
>> brew install nlopt
>> Here are the steps to produce the error and a solution to solve it. Some parts are in French. I don't know how to "ask" to R to not use French for some system messages.
>> Marc
>> > library("optimx")
>> Erreur : le chargement du package ou de l'espace de noms a échoué pour ‘optimx’ in dyn.load(file, DLLpath = DLLpath, ...) :
>> impossible de charger l'objet partagé '/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/nloptr/libs/ nloptr.so' :
>> dlopen(/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/nloptr/libs/nloptr.so, 0x0006): Library not loaded: /opt/homebrew/opt/nlopt/lib/libnlopt.0.dylib
>>   Referenced from: <2A7DAFE2-8123-3555-9569-F28214328E47> /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/ library/nloptr/libs/nloptr.so
>>   Reason: tried: '/opt/homebrew/opt/nlopt/lib/libnlopt.0.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OS/ opt/homebrew/opt/nlopt/lib/libnlopt.0.dylib' (no such file), '/opt/homebrew/opt/nlopt/lib/libnlopt.0.dylib' (no such file), '/Library/Frameworks/R.framework/Resources/lib/libnlopt.0.dylib' (no such file), '/Library/Java/ JavaVirtualMachines/jdk-11.0.18+10/Contents/Home/lib/server/libnlopt.0.d
>> It seems that the file libnlopt.0.dylib is not find.
>> When I check in this folder, indeed it is not present:
>> √ lib % cd /opt/homebrew/opt/nlopt/lib
>> √ lib % ls
>> cmake            libnlopt.1.dylib    pkgconfig
>> libnlopt.1.0.0.dylib    libnlopt.dylib
>> I create a symlink:
>> √ lib % sudo ln -s libnlopt.1.dylib libnlopt.0.dylib
>> Password:
>> √ lib % ls -al
>> total 880
>> drwxr-xr-x   8 marcgirondot  admin     256  5 fév 10:28 .
>> drwxr-xr-x  15 marcgirondot  admin     480  5 fév 10:26 ..
>> drwxr-xr-x   3 marcgirondot  admin      96  4 fév 19:29 cmake
>> lrwxr-xr-x   1 root          admin      16  5 fév 10:28 libnlopt.0.dylib -> libnlopt.1.dylib
>> -r--r--r--   1 marcgirondot  admin  447936  5 fév 10:26 libnlopt.1.0.0.dylib
>> lrwxr-xr-x   1 marcgirondot  admin      20  4 fév 19:29 libnlopt.1.dylib -> libnlopt.1.0.0.dylib
>> lrwxr-xr-x   1 marcgirondot  admin      16  4 fév 19:29 libnlopt.dylib -> libnlopt.1.dylib
>> drwxr-xr-x   3 marcgirondot  admin      96  5 fév 10:26 pkgconfig
>> and I reinstall optimx from source
>> > remove.packages("optimx")
>> Elimination du package de ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’
>> (car ‘lib’ n'est pas spécifié)
>> > install.packages("optimx", type="source")
>> essai de l'URL 'https://cran.irsn.fr/src/contrib/optimx_2024-12.2.tar.gz'
>> Content type 'application/x-gzip' length 2259525 bytes (2.2 MB)
>> ==================================================
>> downloaded 2.2 MB
>> * installing *source* package ‘optimx’ ...
>> ** package ‘optimx’ correctement décompressé et sommes MD5 vérifiées
>> ** using staged installation
>> ** R
>> ** inst
>> ** byte-compile and prepare package for lazy loading
>> ** help
>> *** installing help indices
>> ** building package indices
>> ** installing vignettes
>> ** testing if installed package can be loaded from temporary location
>> ** testing if installed package can be loaded from final location
>> ** testing if installed package keeps a record of temporary installation path
>> * DONE (optimx)
>> Les packages source téléchargés sont dans
>>     ‘/private/tmp/Rtmpsb2lpE/downloaded_packages’
>> ______________________________________________
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>> and provide commented, minimal, self-contained, reproducible code.
> 
> ______________________________________________
> R-help using r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide https://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

-- 
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
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