On 30/06/2014, 4:44 AM, Milan Bouchet-Valat wrote: > On Thu Jan 9 2014 03:47 Henrik Bengtsson wrote: >> This is is an issue that bugged me for a while. I encountered a year >> ago (April 2012) when I first tried to build R from source on Windows. >> I never figured out what the solution is or if I'm doing something >> wrong myself (but I have found a tedious workaround). I'm still on >> the same Windows 7 Ultimate machine with NTFS, but I now made sure I >> started from scratch so I have a completely fresh setup (see details >> at the end). >> >> PROBLEM: >> At the very first step I do: >> >> C:\R\src\gnuwin32>make all >> [... Waiting. No errors until ...] >> cp R.dll ../../bin/i386 >> -------- Building ../../../bin/i386/Rblas.dll -------- >> gcc -std=gnu99 -shared -o ../../../bin/i386/Rblas.dll blas.o >> cmplxblas.o ../../gnuwin32/dllversion.o Rblas.def -L../../../bin/i386 >> -lR -lgfortran >> c:/rtools/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: >> cannot find -lR >> collect2: ld returned 1 exit status >> make[2]: *** [../../../bin/i386/Rblas.dll] Error 1 >> make[1]: *** [Rblas] Error 2 >> make: *** [rbuild] Error 2 >> >> However: >> >> C:\R\src\gnuwin32>dir ..\..\bin\i386\ >> Volume in drive C is Windows7_OS >> Volume Serial Number is E038-51CC >> >> Directory of C:\R\bin\i386 >> >> 01/08/2014 06:18 PM <DIR> . >> 01/08/2014 06:18 PM <DIR> .. >> 01/08/2014 06:18 PM 3,059,712 R.dll >> 01/08/2014 06:18 PM 348,995 Rgraphapp.dll >> 01/08/2014 06:18 PM 102,975 Riconv.dll >> 01/08/2014 06:18 PM 154,917 Rzlib.dll >> 4 File(s) 3,666,599 bytes >> 2 Dir(s) 22,424,739,840 bytes free >> >> What's weird is that these files have **read permission disabled**: >> >> C:\R\src\gnuwin32>file ..\..\bin\i386\*.dll >> ..\..\bin\i386\R.dll: writable, executable, regular file, no >> read permission >> ..\..\bin\i386\Rgraphapp.dll: writable, executable, regular file, no >> read permission >> ..\..\bin\i386\Riconv.dll: writable, executable, regular file, no >> read permission >> ..\..\bin\i386\Rzlib.dll: writable, executable, regular file, no >> read permission >> >> What is going on? Have anyone else seen this? I've also tried >> running as Administrator - no difference. > Hi Henrik, > > Old thread, but I think I'm experiencing exactly the same problem. I > tried running as administrator and as a normal user, and no luck. I > noticed, though, that resetting permissions on the build tree makes the > error go away, and replaces it with another one stating that headers in > include/ could not be created due to permission issues. > > This is on a machine where I was able to build R 3.0.1 successfully, > though I also remember having permission issues I eventually fixed by > resetting permissions on the build tree. Not sure what's changed since > then... > > To add bit of information to the debugging you've already done: I > noticed that when opening the directory/file property dialog, a user > with a very long name including letters and numbers appears in the > permissions list for a second, and then disappears. This user reappears > every time I run 'make'. So maybe 'mkdir' or other tools use wrong user > IDs, creating bogus users. Just a guess. > > Have you found a solution or workaround since January? I really need to > build an R installer and I seem to be stuck...
I have seen this, but I don't see it on every machine. One one where I do see it is the Windows builder machine in Dortmund. The following is inserted into the script after building the 32 bit build cacls %name32% /T /E /G VORDEFINIERT\Benutzer:R > NUL and similar after the 64 bit build. (I don't remember whether VORDEFINIERT\Benutzer is the current user name, or is some generic thing saying "current user". I think Uwe Ligges came up with this...) Duncan Murdoch > > Thanks for your help > > >> TROUBLESHOOTING / WORKAROUND: >> It appears that 'mkdir' (of Rtools) causes this problem, because if I >> manually pre-create 'C:\R\src\gnuwin32\bin\i386' using Windows' mkdir >> it works, e.g. >> >> C:\R\src\gnuwin32>rm -fR ..\..\bin\ >> C:\R\src\gnuwin32>cmd /C mkdir ..\..\bin\i386 >> C:\R\src\gnuwin32>make rbuild >> [...] >> -------- Building ../../../bin/i386/Rblas.dll -------- >> gcc -std=gnu99 -shared -o ../../../bin/i386/Rblas.dll blas.o >> cmplxblas.o ../../gnuwin32/dllversion.o Rblas.def -L../../../bin/i386 >> -lR -lgfortran >> make --no-print-directory -C front-ends >> mkdir -p ../../../bin/i386 >> cp Rgui.exe ../../../bin/i386/Rgui.exe >> mkdir -p ../../../bin/i386 >> cp Rterm.exe ../../../bin/i386/Rterm.exe >> mkdir -p ../../../bin/i386 >> cp Rcmd.exe ../../../bin/i386/Rcmd.exe >> mkdir -p ../../../bin/i386 >> cp RSetReg.exe ../../../bin/i386/RSetReg.exe >> mkdir -p ../../../bin/i386 >> cp R.exe ../../../bin/i386/R.exe >> mkdir -p ../../../bin/i386 >> cp Rscript.exe ../../../bin/i386/Rscript.exe >> mkdir -p ../../../bin/i386 >> cp open.exe ../../../bin/i386/open.exe >> mkdir -p ../../../bin >> cp Rfe.exe ../../../bin/R.exe >> mkdir -p ../../../bin >> cp Rfe.exe ../../../bin/Rscript.exe >> make[1]: `COPYRIGHTS' is up to date. >> make --no-print-directory -C ../modules -f Makefile.win \ >> CFLAGS='-O3 -Wall -pedantic -mtune=core2' FFLAGS='-O3 -mtune=core2' >> gcc -std=gnu99 -shared -s -o ../../../bin/i386/Rlapack.dll dlamch.o >> dlapack.o cmplx.o init_win.o Rlapackrc.o -L../../../bin/i386 -lR >> -lRblas -lgfortran >> cp lapack.dll ../../../modules/i386/lapack.dll >> >> and there is (obviously) read permissions on those files: >> >> C:\R\src\gnuwin32>file ..\..\bin\i386\*.dll >> ..\..\bin\i386\R.dll: PE32 executable for MS Windows (DLL) >> (GUI) Intel 80386 32-bit >> ..\..\bin\i386\Rblas.dll: PE32 executable for MS Windows (DLL) >> (console) Intel 80386 32-bit >> ..\..\bin\i386\Rgraphapp.dll: PE32 executable for MS Windows (DLL) >> (GUI) Intel 80386 32-bit >> ..\..\bin\i386\Riconv.dll: PE32 executable for MS Windows (DLL) >> (console) Intel 80386 32-bit >> ..\..\bin\i386\Rlapack.dll: PE32 executable for MS Windows (DLL) >> (console) Intel 80386 32-bit >> ..\..\bin\i386\Rzlib.dll: PE32 executable for MS Windows (DLL) >> (console) Intel 80386 32-bit >> >> Pre-creating the proper directories is tedious and only works up to >> the point of 'make distribution', where I haven't found a similar >> workaround (without modifying the Makefiles). Note, I can get to the >> point where I have build and check everything (including recommended >> packages). >> >> >> Just to convince you that mkdir is the problem, I can reproduce the >> problem from this point, by removing the bin/ directory again and >> relying on Rtools mkdir again; >> >> C:\R\src\gnuwin32>rm -fR ..\..\bin >> C:\R\src\gnuwin32>make rbuild >> make[3]: Nothing to be done for `svnonly'. >> installing C headers >> make[1]: `libRblas.dll.a' is up to date. >> make[4]: Nothing to be done for `svnonly'. >> installing C headers >> make --no-print-directory -C ../extra/intl CFLAGS='-O3 -Wall -pedantic >> -mtune=core2' -f Makefile.win >> make --no-print-directory -C ../appl CFLAGS='-O3 -Wall -pedantic >> -mtune=core2' FFLAGS='-O3 -mtune=core2' -f Makefile.win >> make --no-print-directory -C ../nmath CFLAGS='-O3 -Wall -pedantic >> -mtune=core2' FFLAGS='-O3 -mtune=core2' -f Makefile.win >> make --no-print-directory -C ../main CFLAGS='-O3 -Wall -pedantic >> -mtune=core2' FFLAGS='-O3 -mtune=core2' malloc-DEFS='-DLEA_MALLOC' -f >> Makefile.win >> make --no-print-directory -C ./getline CFLAGS='-O3 -Wall -pedantic >> -mtune=core2' >> >> make[3]: `gl.a' is up to date. >> make -f Makefile.win makeMakedeps >> make -f Makefile.win libpcre.a >> make[4]: `libpcre.a' is up to date. >> make[3]: Nothing to be done for `all'. >> make -f Makefile.win makeMakedeps >> make -f Makefile.win libtre.a >> make[4]: `libtre.a' is up to date. >> make[3]: Nothing to be done for `all'. >> make[4]: `stamp' is up to date. >> make[4]: `liblzma.a' is up to date. >> make[2]: `R.dll' is up to date. >> cp R.dll ../../bin/i386 >> -------- Building ../../../bin/i386/Rblas.dll -------- >> gcc -std=gnu99 -shared -o ../../../bin/i386/Rblas.dll blas.o >> cmplxblas.o ../../gnuwin32/dllversion.o Rblas.def -L../../../bin/i386 >> -lR -lgfortran >> c:/rtools/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: >> cannot find -lR >> collect2: ld returned 1 exit status >> make[2]: *** [../../../bin/i386/Rblas.dll] Error 1 >> make[1]: *** [Rblas] Error 2 >> make: *** [rbuild] Error 2 >> >> >> MORE TROUBLESHOOTING: >> The MD5 checksum when it fails (reproducible): >> C:\R\src\gnuwin32>md5sum ../../bin/i386/*.dll >> 75b2e64d3847e768631681922df5a81d *../../bin/i386/R.dll >> 12a35b63a28ad0e0fee8cae04f76e907 *../../bin/i386/Rgraphapp.dll >> e2c40ae15d13dc17af33c1367f78817d *../../bin/i386/Riconv.dll >> c5ea5a5cd2b7d3c07970f5314ce7296a *../../bin/i386/Rzlib.dll >> >> The MD5 checksum when it works (reproducible): >> C:\R\src\gnuwin32>md5sum ../../bin/i386/*.dll >> 75b2e64d3847e768631681922df5a81d *../../bin/i386/R.dll >> 12a35b63a28ad0e0fee8cae04f76e907 *../../bin/i386/Rgraphapp.dll >> e2c40ae15d13dc17af33c1367f78817d *../../bin/i386/Riconv.dll >> c5ea5a5cd2b7d3c07970f5314ce7296a *../../bin/i386/Rzlib.dll >> + >> c81b3399027ec9c24ca80ba92199327c *../../bin/i386/Rblas.dll >> 20d32cee2e561d1826af1a538844472b *../../bin/i386/Rlapack.dll >> >> >> Thanks for any help, >> >> Henrik >> >> >> SETUP: >> 1. Downloaded/svn checkout the R source to C:\R\. >> 2. Installed most recent Rtools to C:\Rtools (completely removed previously) >> (3. Modifying the MkRules.* files has no impact for reproducing this >> problem. Same with 'make rsync-recommended') >> >> C:\R\src\gnuwin32>path >> PATH=;C:\Rtools\bin;C:\Rtools\gcc-4.6.3\bin;C:\Windows;C:\Windows\system32 >> >> C:\R\src\gnuwin32>cat C:\Rtools\VERSION.txt >> Rtools version 3.1.0.1939 >> >> C:\R\src\gnuwin32>ls ../.. >> COPYING Makefile.fw VERSION configure.ac po tmp >> ChangeLog Makefile.in VERSION-NICK doc share tools >> INSTALL README config.site etc src >> Makeconf.in Tcl configure m4 tests > > ______________________________________________ > R-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel > ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
