Re: Compiling R from source
Just in case Richard Thornton is still listening, on OpenBSD 5.0 (i386) I managed to compile R properly using the aforementioned patch to the tre sources and passing '--with-cairo=no' as configure option. If you don't drop Cairo, R will be built all the same, but the first time you try to plot something R will crash due to some mess with libgthread. Passing -pthread as a CFLAG or LDFLAG will break configure's detection of jpeg and tiff capabilities and on top of that make will fail altogether. As for the rest of the list, I'll try to find out who's behind the R port and openbsd-wip on githup and offer the information I was able to gather. I don't have the skills or the understanding of OpenBSD's libs and such to be able to properly fix this... If anyone has any pointers on the gthr / pthread stuff in general though, I'll be glad to help.
Re: Compiling R from source
Thats a great tip. Thanks. On Feb 8, 2012 5:32 AM, Zi Loff zel...@zeloff.org wrote: Just in case Richard Thornton is still listening, on OpenBSD 5.0 (i386) I managed to compile R properly using the aforementioned patch to the tre sources and passing '--with-cairo=no' as configure option. If you don't drop Cairo, R will be built all the same, but the first time you try to plot something R will crash due to some mess with libgthread. Passing -pthread as a CFLAG or LDFLAG will break configure's detection of jpeg and tiff capabilities and on top of that make will fail altogether. As for the rest of the list, I'll try to find out who's behind the R port and openbsd-wip on githup and offer the information I was able to gather. I don't have the skills or the understanding of OpenBSD's libs and such to be able to properly fix this... If anyone has any pointers on the gthr / pthread stuff in general though, I'll be glad to help.
Re: Compiling R from source
On 2012-02-08, ZC) Loff zel...@zeloff.org wrote: Just in case Richard Thornton is still listening, on OpenBSD 5.0 (i386) I managed to compile R properly using the aforementioned patch to the tre sources and passing '--with-cairo=no' as configure option. If you don't drop Cairo, R will be built all the same, but the first time you try to plot something R will crash due to some mess with libgthread. just run it with LD_PRELOAD=/usr/lib/libpthread.so in the environment
Re: Compiling R from source
That's it, all works fine now. Some patches have been submitted to the ports CVS a few days ago, addressing these same issues: http://permalink.gmane.org/gmane.os.openbsd.ports.cvs/61543 I'll take a look into those, Richard probably should do the same, too. Many thanks to Stuart for all the help! On Feb 8, 2012, at 2:23 PM, Stuart Henderson wrote: On 2012-02-08, ZC) Loff zel...@zeloff.org wrote: Just in case Richard Thornton is still listening, on OpenBSD 5.0 (i386) I managed to compile R properly using the aforementioned patch to the tre sources and passing '--with-cairo=no' as configure option. If you don't drop Cairo, R will be built all the same, but the first time you try to plot something R will crash due to some mess with libgthread. just run it with LD_PRELOAD=/usr/lib/libpthread.so in the environment
Re: Compiling R from source
I managed to compile R-2.14.0 and .1 from source on OpenBSD 5.0 (i386). Make failed because that two of the tre source files require stdint.h (for WCHAR_MAX definition) but don't include it. I managed to build R by inserting #include stdint.h on src/extra/tre/tre-compile.c and src/extra/tre/tre-parse.c I know this is an ugly hack, and fiddling with the sources seldom is a good idea, but it got the job done... There are some additional issues with the Cairo graphics device, -pthread as a LDFLAG and some of the tests that configure runs, but I'm still working on that. I'll share my findings when I have more concrete answers (later today, hopefully). On 02/03/12 12:02, Richard Thornton wrote: Using OpenBSD 5 on an old sparc 64 sun blade, I am trying to compile R from source, downloaded from the cran-r website; The ./configure works, but make always fails. I realize that there is a R package available already but it is a 2008 version, and it has terrible graphics, anyone have a more recent port for sparc64?
Re: Compiling R from source
Including missing headers is completely the correct fix, please submit the patches to the upstream author. On 2012 Feb 06 (Mon) at 10:01:49 + (+), Zi Loff wrote: :I managed to compile R-2.14.0 and .1 from source on OpenBSD 5.0 (i386). : :Make failed because that two of the tre source files require stdint.h :(for WCHAR_MAX definition) but don't include it. I managed to build R by :inserting :#include stdint.h :on src/extra/tre/tre-compile.c and src/extra/tre/tre-parse.c : :I know this is an ugly hack, and fiddling with the sources seldom is a :good idea, but it got the job done... : :There are some additional issues with the Cairo graphics device, :-pthread as a LDFLAG and some of the tests that configure runs, but I'm :still working on that. I'll share my findings when I have more concrete :answers (later today, hopefully). : : : :On 02/03/12 12:02, Richard Thornton wrote: : Using OpenBSD 5 on an old sparc 64 sun blade, I am trying to compile R from : source, downloaded from the cran-r website; : The ./configure works, but make always fails. I realize that there is a R : package available already but it is a 2008 version, and it has terrible : graphics, anyone have a more recent port for sparc64? : -- One planet is all you get.
Re: Compiling R from source
On 06/02/12 5:08 AM, Peter Hessler wrote: Including missing headers is completely the correct fix, please submit the patches to the upstream author. As long as the patches are right. The hack mentioned below is wrong. The broken header file in question has been fixed. Update to -current or what will be 5.1. On 2012 Feb 06 (Mon) at 10:01:49 + (+), Zi Loff wrote: :I managed to compile R-2.14.0 and .1 from source on OpenBSD 5.0 (i386). : :Make failed because that two of the tre source files require stdint.h :(for WCHAR_MAX definition) but don't include it. I managed to build R by :inserting :#includestdint.h :on src/extra/tre/tre-compile.c and src/extra/tre/tre-parse.c : :I know this is an ugly hack, and fiddling with the sources seldom is a :good idea, but it got the job done... : :There are some additional issues with the Cairo graphics device, :-pthread as a LDFLAG and some of the tests that configure runs, but I'm :still working on that. I'll share my findings when I have more concrete :answers (later today, hopefully). : : : :On 02/03/12 12:02, Richard Thornton wrote: : Using OpenBSD 5 on an old sparc 64 sun blade, I am trying to compile R from : source, downloaded from the cran-r website; : The ./configure works, but make always fails. I realize that there is a R : package available already but it is a 2008 version, and it has terrible : graphics, anyone have a more recent port for sparc64? : -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean.
Re: Compiling R from source
On 03/02/12 07:02 -0500, Richard Thornton wrote: Using OpenBSD 5 on an old sparc 64 sun blade, I am trying to compile R from source, downloaded from the cran-r website; The ./configure works, but make always fails. I realize that there is a R package available already but it is a 2008 version, and it has terrible graphics, anyone have a more recent port for sparc64? What is the error when make fails? What have you done to solve the issue? -- richo || Today's excuse: Root nameservers are out of sync http://blog.psych0tik.net [demime 1.01d removed an attachment of type application/pgp-signature which had a name of signature.asc]
Re: Compiling R from source
On 2012-02-05, richo ri...@psych0tik.net wrote: On 03/02/12 07:02 -0500, Richard Thornton wrote: Using OpenBSD 5 on an old sparc 64 sun blade, I am trying to compile R from source, downloaded from the cran-r website; The ./configure works, but make always fails. I realize that there is a R package available already but it is a 2008 version, and it has terrible graphics, anyone have a more recent port for sparc64? What is the error when make fails? What have you done to solve the issue? An updated port is being worked on in openbsd-wip on github.
Compiling R from source
Using OpenBSD 5 on an old sparc 64 sun blade, I am trying to compile R from source, downloaded from the cran-r website; The ./configure works, but make always fails. I realize that there is a R package available already but it is a 2008 version, and it has terrible graphics, anyone have a more recent port for sparc64?
