Question

GMM/DEP Package lib/libgomp.1.dylib: mach-o, but wrong architecture

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Tomaž • 0

@Tomaž-24553

Last seen 3.3 years ago

Hi,

after installing bioconductor (as on webpage), I get into a problem with DEP and GMM. When I try to run library(DEP) or library(GMM) the following error occurs:

Ony these two packages seem to have a problem.

library(gmm) Loading required package: sandwich Error: package or namespace load failed for ‘gmm’ in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/gmm/libs/gmm.so': dlopen(/Library/Frameworks/R.framework/Versions/4.0/Resources/library/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib Referenced from: /Library/Frameworks/R.framework/Versions/4.0/Resources/library/gmm/libs/gmm.so Reason: no suitable image found. Did find: /usr/local/gfortran/lib/libgomp.1.dylib: mach-o, but wrong architecture /usr/local/gfortran/lib/libgomp.1.dylib: mach-o, but wrong architecture

or

library(DEP) Error: package or namespace load failed for ‘DEP’ in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/gmm/libs/gmm.so': dlopen(/Library/Frameworks/R.framework/Versions/4.0/Resources/library/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib Referenced from: /Library/Frameworks/R.framework/Versions/4.0/Resources/library/gmm/libs/gmm.so Reason: no suitable image found. Did find: /usr/local/gfortran/lib/libgomp.1.dylib: mach-o, but wrong architecture /usr/local/gfortran/lib/libgomp.1.dylib: mach-o, but wrong architecture

Latest XCode is installed.

ProblemloadingDEP/GMMpackageinRStudio DEP • 4.1k views

ADD COMMENT • link updated 3.1 years ago by daniela.fuller • 0 • written 3.3 years ago by Tomaž • 0

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Hi Tomaz,

Did you resolve this issue? I have the same problem.

Here's hoping someone will answer.

-Maibritt

ADD REPLY • link 3.3 years ago maibritt • 0

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Hi,

I had the same problem. All I had to do was install gfortran.

Pick the right release here https://github.com/fxcoudert/gfortran-for-macOS/releases

ADD REPLY • link 3.1 years ago daniela.fuller • 0

score 0 · Answer 1 · 2021-03-17

so i solved this by linking the gomp library of my conda build to the path required by R

locate the dylib

mdfind -name libgomp.1.dylib

/Users/paul/opt/anaconda3/lib/libgomp.1.dylib

(i found the same one in the brew directory .../Cellar/...)

create the path required by R and link the dylib inside

sudo mkdir -p /usr/local/gfortran/lib/

sudo ln -s /Users/paul/opt/anaconda3/lib/libgomp.1.dylib /usr/local/gfortran/lib/

and it works for me (: