rjulia on Windows/RStudio

[dgromer]

Building rjulia on Windows 7 64-bit with R 3.2.0 and Julia 0.3.9 (using devtools::install_github("armgong/RJulia", args = "--no-multiarch") fails with the following error:

* installing *source* package 'rjulia' ...
** libs
gcc -m64 -I"C:/R/R-32~1.0/include" -DNDEBUG -I"C:\\Julia-0.3.9\\bin"/../../src -I"C:\\Julia-0.3.9\\bin"/../../src/support -I"C:\\Julia-0.3.9\\bin"/../include -I"C:\\Julia-0.3.9\\bin"/../include/julia    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c Julia_R.c -o Julia_R.o
In file included from C:\Julia-0.3.9\bin/../include/julia/uv.h:59:0,
                 from C:\Julia-0.3.9\bin/../include/julia/ios.h:5,
                 from C:\Julia-0.3.9\bin/../include/julia/libsupport.h:11,
                 from C:\Julia-0.3.9\bin/../include/julia/julia.h:10,
                 from Julia_R.c:11:
C:\Julia-0.3.9\bin/../include/julia/uv-win.h:241:3: error: unknown type name 'SRWLOCK'
make: *** [Julia_R.o] Error 1
Warning: Ausführung von Kommando 'make -f "Makevars" -f "C:/R/R-32~1.0/etc/x64/Makeconf" -f "C:/R/R-32~1.0/share/make/winshlib.mk" SHLIB="rjulia.dll" WIN=64 TCLBIN=64 OBJECTS="Julia_R.o R_Julia.o dataframe.o embedding.o"' ergab Status 2
ERROR: compilation failed for package 'rjulia'
* removing 'C:/R/R-3.2.0/library/rjulia'
* restoring previous 'C:/R/R-3.2.0/library/rjulia'
Error: Command failed (1)

However, after adding a Makevars.win with the contents of the Makevars plus PKG_CPPFLAGS+= -D_WIN32_WINNT=0x0600 (see https://github.com/JuliaLang/julia/issues/9973) solved this problem.

Now when loading the package from within RStudio, the R session crashes. When loading rjulia in a R session in cmd.exe everything works fine. Any ideas?

[armgong]

could you enable RStudio log (https://support.rstudio.com/hc/en-us/articles/200554756-RStudio-Application-Logs ) and see what happend? recently I am not test on windows , so didn't konw SRWLOCK problem, you can create pull request, I will merge it.

[dgromer]

RStudio writes neither to rdesktop.log nor rsession-USER.log upon crash. Maybe that's due to the fact that RStudio does currently not support crash reports on Windows (https://support.rstudio.com/hc/en-us/articles/200488518).

I guess I will write an issue to RStudio Support.

[armgong]

tested on my PC, found these
1 SRWLOCK issue is caused by Rtools have too old winnt.h (I use msys2+mingwbuild gcc 4.9.2 which have the define)

2 julia 0.39 and rjulia crash RStudio 0.99.442 (but run ok on RStudio-0.98.1103 ). this is RStudio 0.99.442 bug, to verify this just run following code ,it will crash rsession

  dyn.load('e:/julia/64/bin/libjulia.dll')

3 julia 0.4 and rjulia run on rstudio

[armgong]

to solve this problem,there two way 1 when use julia 0.39 and rjulia stay at RStudio-0.98.1103 2 when use RStudio 0.99.442 , need julia 0.4 and rjulia 0.4 branch

[dgromer]

RStudio 0.99.442 still crashes on my machine when using Julia 0.4 nightly build and rjulia 0.4 branch atdyn.load of libjulia.dll

[armgong]

Don't load rjulia just run dyn.load('e:/julia/64/bin/libjulia.dll') on rstudio see what happens ,or try rstudio nightly build 99.591

[dgromer]

dyn.load("C:/Julia-0.4.0-dev/bin/libjulia.dll") crashes on both RStudio 0.99.442 and 0.99.591.

[armgong]

on my PC both julia 0.3 and 0.4 run ok on RStudio-0.98.1103,so please stay on this version,don't use 0.99. or somebody can summit a issue to rstudio,wait rstudio to solve it.

[armgong]

btw your julia 0.4 is own build or download from julialang.org? mine is own build and it can run on rstudio 0.99.591

[dgromer]

I use a 0.4 nightly build from julialang.org.

It works in RStudio 0.98.1103, so it seems to be a problem with either RStudio 0.99 or the nightly build from julialang.org. I will file an issue to RStudio.

[armgong]

thanks a lot

[yanlinlin82]

I tried to install rjulia on Windows 7 64-bit with R-3.2.0 and julia-0.3.9. The latest version fixed the SRWLOCK issue. However, I am still stuck at the final linking step.

> devtools::install_github("armgong/RJulia")
Downloading github repo armgong/RJulia@master
Installing rjulia
"C:/PROGRA~1/R/R-32~1.0/bin/x64/R" --no-site-file --no-environ  \
  --no-save --no-restore CMD INSTALL  \
  "C:/Users/yanll/AppData/Local/Temp/RtmpsTNVnH/devtoolse8c6db6341d/armgong-RJulia-288964e"  \
  --library="C:/Users/yanll/Documents/R/win-library/3.2"  \
  --install-tests 

* installing *source* package 'rjulia' ...
** libs

*** arch - i386
gcc -m32 -I"C:/PROGRA~1/R/R-32~1.0/include" -DNDEBUG -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src/support -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include/julia -D_WIN32_WINNT=0x0600    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c Julia_R.c -o Julia_R.o
gcc -m32 -I"C:/PROGRA~1/R/R-32~1.0/include" -DNDEBUG -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src/support -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include/julia -D_WIN32_WINNT=0x0600    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_Julia.c -o R_Julia.o
R_Julia.c: In function 'R_Julia_MD':
R_Julia.c:120:11: warning: assignment from incompatible pointer type [enabled by default]
R_Julia.c:134:10: warning: assignment from incompatible pointer type [enabled by default]
gcc -m32 -I"C:/PROGRA~1/R/R-32~1.0/include" -DNDEBUG -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src/support -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include/julia -D_WIN32_WINNT=0x0600    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c dataframe.c -o dataframe.o
gcc -m32 -I"C:/PROGRA~1/R/R-32~1.0/include" -DNDEBUG -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../../src/support -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include -I"C:\\Users\\yanll\\AppData\\Local\\Julia-0.3.9\\bin"/../include/julia -D_WIN32_WINNT=0x0600    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c embedding.c -o embedding.o
gcc -m32 -shared -s -static-libgcc -o rjulia.dll tmp.def Julia_R.o R_Julia.o dataframe.o embedding.o -ljulia -LC:\Users\yanll\AppData\Local\Julia-0.3.9\bin -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -LC:/PROGRA~1/R/R-32~1.0/bin/i386 -lR
c:/rtools/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: skipping incompatible C:\Users\yanll\AppData\Local\Julia-0.3.9\bin/libjulia.dll when searching for -ljulia
c:/rtools/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: skipping incompatible C:\Users\yanll\AppData\Local\Julia-0.3.9\bin/libjulia.dll when searching for -ljulia
c:/rtools/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: cannot find -ljulia
collect2: ld returned 1 exit status
no DLL was created
ERROR: compilation failed for package 'rjulia'
* removing 'C:/Users/yanll/Documents/R/win-library/3.2/rjulia'
Error: Command failed (1)

I installed julia-0.3.9 with the (Windows Self-Extracting Archive (.exe)) binary package from http://julialang.org/downloads/. I wonder if it is necessary to build julia from scratch.

[armgong]

1 try add C:\Users\yanll\AppData\Local\Julia-0.3.9\bin to you system PATH if 1 don't work 2 try modify Makevar.win latest line: PKG_LIBS=-L$(libjuliapath) -ljulia

[yanlinlin82]

I had already added the directory to PATH, otherwise R won't be able to find the correct julia path. The second method does not help either.

I searched in my julia installation directory, and found that there is no any '.lib' or '.a' file. I tried also the Nightly build, but the same error exists.

Therefore, I guess it is necessary to build julia from scratch. I will try this way.

[armgong]

basically dynamic link on windows don't need .lib or .a file , just need libjulia.dll. build julia from scratch will not help.

according you compile output, it is R package compile problem,normally R try to compile both 32 and 64 bit package,but your julia in system path is only 32bit or 64 bit, so need use this like @dgromer to compile rjulia

devtools::install_github("armgong/RJulia", args = "--no-multiarch")

[yanlinlin82]

Thanks! It works now.