Failure to install package on OSX
Ic3fr0g opened this issue · 8 comments
Here's what I tried
> install_github("jmp75/rClr", build_vignettes=TRUE)
Downloading GitHub repo jmp75/rClr@master
from URL https://api.github.com/repos/jmp75/rClr/zipball/master
Installing rClr
'/Library/Frameworks/R.framework/Resources/bin/R' --no-site-file --no-environ --no-save \
--no-restore --quiet CMD INSTALL \
'/private/var/folders/ln/b1l94dln6776jvygly8tsqdh0000gn/T/RtmpkOU5ZK/devtools1d9061e6736e/jmp75-rClr-fa41e2a' \
--library='/Library/Frameworks/R.framework/Versions/3.4/Resources/library' --install-tests
* installing *source* package ‘rClr’ ...
./configure: line 43: pkg-config: command not found
./configure: line 44: pkg-config: command not found
MONO_CFLAGS=
GLIB_CFLAGS=
error: mono-2 not found
ERROR: configuration failed for package ‘rClr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rClr’
Installation failed: Command failed (1)
Here is the sessionInfo()
R version 3.4.1 (2017-06-30)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Sierra 10.12.6
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
Ok. So here's how far I got -
brew install mono
Might have linking errors, in which case I Super-Usered it based on reading several different links.
sudo chown -R (username-here) /usr/local/share/man/man5
Similarly,brew install pkg-configandbrew install glib
However reinstalling in R still threw an error -
Time Elapsed 00:00:28.1337040
if [ -e symbols.rds ] ; then cp -u -p symbols.rds ../inst/libs ; fi
# using rm -f to prevent the following, which seems to occur even when these should not be write-protected
# cp: cannot create regular file `../inst/libs/ClrFacade.dll': Permission denied
rm -f ../inst/libs/*.*
cp -u -p ./Release/*.dll* ../inst/libs
cp: illegal option -- u
usage: cp [-R [-H | -L | -P]] [-fi | -n] [-apvX] source_file target_file
cp [-R [-H | -L | -P]] [-fi | -n] [-apvX] source_file ... target_directory
make: [rClrLib] Error 64 (ignored)
installing to /Library/Frameworks/R.framework/Versions/3.4/Resources/library/rClr/libs
** R
** inst
** tests
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Error: package or namespace load failed for ‘rClr’:
.onLoad failed in loadNamespace() for 'rClr', details:
call: NULL
error: file.exists(f) is not TRUE
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rClr’
Installation failed: Command failed (1)
Oh btw Mono JIT compiler version 5.0.1.1 (2017-02/5077205 Wed May 31 14:47:04 BST 2017)
Thanks for the information, this is comprehensive. I do not have access to MacOS so not sure, but what seems to be likely is that the .Net assembly ClrFacade.dll is not present in the 'inst' folder, so probably a compilation failure.
I have been trying to refresh rClr on a branch, after a lull due to changing daytime job tech stack. I should be in a position to merge to master soon, but I need to do a few more checks.
@jmp75 that ClrFacade.dll line isn't doing anything as it's commented out. It's from Makevars.in
The error is actually
cp: illegal option -- u
which is valid on Linux but not macOS.
@Ic3fr0g I'd also try installing Mono 3.12 as this was the most recent version that I could get working
Removing -u from Makevars.in produces the following build failure:
** testing if installed package can be loaded
Assembly '/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rClr/libs/ClrFacade.dll' doesn't have an entry point.
Error : .onLoad failed in loadNamespace() for 'rClr', details:
call: clrCallStatic("Rclr.RDotNetDataConverter", "SetRDotNet", setit)
error: Type: System.DllNotFoundException
Message: libdl
Method:
Stack trace:
at (wrapper managed-to-native) DynamicInterop.UnixLibraryLoader:dlopen (string,int)
at DynamicInterop.UnixLibraryLoader.InternalLoadLibrary (System.String filename) [0x00000] in <2f38952616d44b6ea2a3d9d6785e37f8>:0
at DynamicInterop.UnixLibraryLoader.LoadLibrary (System.String filename) [0x00000] in <2f38952616d44b6ea2a3d9d6785e37f8>:0
at DynamicInterop.SafeHandleUnmanagedDll..ctor (System.String dllName) [0x0003f] in <2f38952616d44b6ea2a3d9d6785e37f8>:0
at DynamicInterop.UnmanagedDll..ctor (System.String dllName) [0x00041] in <2f38952616d44b6ea2a3d9d6785e37f8>:0
at Rclr.RclrUnmanagedDll..ctor (System.String dllName) [0x00015] in <a526d4fc81d049258245753e6204f325>:0
at Rclr.RDotNetDataConverter..ctor (System.String pathToNativeSharedObj) [0x0006e] in <a526d4fc81d049258245753e6204f325>:0
at Rclr.RDotNetDataConverter.GetInstance (System.String pathToNativeSharedObj) [0x00007] in <a526d4fc81d
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rClr’
Exited with status 1.
$ mono --version
Mono JIT compiler version 5.4.1.6 (tarball Mon Dec 11 14:59:42 GMT 2017)
Copyright (C) 2002-2014 Novell, Inc, Xamarin Inc and Contributors. www.mono-project.com
TLS: normal
SIGSEGV: altstack
Notification: kqueue
Architecture: amd64
Disabled: none
Misc: softdebug
LLVM: supported, not enabled.
GC: sgen (concurrent by default)
Additionally:
/bin/sh: -c: line 0: syntax error near unexpected token `('
/bin/sh: -c: line 0: `echo **Variable (information only for diagnosis purposes)**'
(Makevars.in needs to quote strings with parens in them)
Additionally:
>>>> xbuild tool is deprecated and will be removed in future updates, use msbuild instead <<<<
(Changing xbuild to msbuild in Makevars.in doesn't change the outcome)
Hi @scottmmjackson!
** testing if installed package can be loaded Assembly '/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rClr/libs/ClrFacade.dll' doesn't have an entry point. Error : .onLoad failed in loadNamespace() for 'rClr', details: call: clrCallStatic("Rclr.RDotNetDataConverter", "SetRDotNet", setit) error: Type: System.DllNotFoundException
Stuck at the same place with Mono v6.12.0.18 and R v4.2.2. Did you manage to make it work somehow?
Sadly no
Looks very similar to #49.