[Rd] Problem building R with Sun Studio Compiler

[Len Zaifman]

I would like to Build R-2.5.1 on OpenSUSE 10.2 using the SunStudio 12
compilers(http://developers.sun.com/sunstudio/index.jsp)

R builds and passes make check fine without optimising. However, when I try to 
compile with optimisation turned on
(-fast) the build gets stuck in an infinite loop  at the following point:

Sun_Studio/sunstudio12/bin/cc -m64 -shared -Kpic   -m64 -fPIC  -o grDevices.so 
chull.o devNull.o devPicTeX.o devPS.o
devQuartz.o init.o
mkdir -p -- ../../../../library/grDevices/libs
make[5]: Leaving directory 
`/export/home/leonardz/ccb/HPF/support/R-2.5.1/ss12/R-2.5.1/src/library/grDevices/src'
make[4]: Leaving directory 
`/export/home/leonardz/ccb/HPF/support/R-2.5.1/ss12/R-2.5.1/src/library/grDevices/src'

R is running at this point and will run for as long as I do not kill it. If I 
compile without-fast the next line
in the make is:



make[3]: Entering directory 
`/export/home/leonardz/ccb/HPF/support/R-2.5.1/ss12/R-2.5.1/src/library/graphics'

and the entire package builds and make check verifies correctly. Any ideas on 
why this is happening?

The build works fine for gcc as well.

-- 
Len Zaifman
Systems Manager, Supercomputing Systems
Centre for Computational Biology
Hospital for Sick Children
Toronto, Ont. M5G 1X8
[EMAIL PROTECTED]
(416)813-5513

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Re: [Rd] Problem building R with Sun Studio Compiler

[Len Zaifman]

Thanks for all the replies:

Dr. Ripley gets it right:

I want -fast which turns on nofstore which caused the infinite loop and also 
pointed out non-IEEE arithmetic.

On SUSE 10.2  I used -fast -fstore -fsimple=1 which fixed both problems and 
still optimised:

make check passed and I get for gcc4.1 vs SunStudio 12:
186 vs 149 seconds, with all tests passed in both cases.

Prof Brian Ripley said:
> On Mon, 16 Jul 2007, Prof Brian Ripley wrote:
>
>> The R-admin manual did tell you not to do that!
>>
>>  When using the Sun compilers do @emph{not} specify @option{-fast}, as
>>  this disables @acronym{IEEE} arithmetic and @command{make check} will
>>  fail.
>>
>> That was for Solaris and SunStudio 11, but I presume these are basically the
>> same compilers.  (--fast has been a no-no for as long as I have been using R
>> on Solaris, ca 10 years.)
>
> There is another problem with -fast on x86 that is probably the cause of
> your problem.  It implies -nofstore, and we needed to force storage on
> some Fortran routines under g77/gfortran to avoid an infinite loop.
>
> However, even if you set SAFE_FFLAGS, the likely problems with IEC60559
> compliance remain.
>
>>
>> On Mon, 16 Jul 2007, Len Zaifman wrote:
>>
>>> I would like to Build R-2.5.1 on OpenSUSE 10.2 using the SunStudio 12
>>> compilers(http://developers.sun.com/sunstudio/index.jsp)
>>>
>>> R builds and passes make check fine without optimising. However, when I try
>>> to compile with optimisation turned on
>>> (-fast) the build gets stuck in an infinite loop  at the following point:
>>>
>>> Sun_Studio/sunstudio12/bin/cc -m64 -shared -Kpic   -m64 -fPIC  -o
>>> grDevices.so chull.o devNull.o devPicTeX.o devPS.o
>>> devQuartz.o init.o
>>> mkdir -p -- ../../../../library/grDevices/libs
>>> make[5]: Leaving directory
>>> `/export/home/leonardz/ccb/HPF/support/R-2.5.1/ss12/R-2.5.1/src/library/grDevices/src'
>>> make[4]: Leaving directory
>>> `/export/home/leonardz/ccb/HPF/support/R-2.5.1/ss12/R-2.5.1/src/library/grDevices/src'
>>>
>>> R is running at this point and will run for as long as I do not kill it. If
>>> I compile without -fast the next line in the make is:
>>>
>>> make[3]: Entering directory
>>> `/export/home/leonardz/ccb/HPF/support/R-2.5.1/ss12/R-2.5.1/src/library/graphics'
>>>
>>> and the entire package builds and make check verifies correctly. Any ideas
>>> on why this is happening?
>>>
>>> The build works fine for gcc as well.
>>>
>>>
>>
>>
>
> --
> Brian D. Ripley,  [EMAIL PROTECTED]
> Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
> University of Oxford, Tel:  +44 1865 272861 (self)
> 1 South Parks Road, +44 1865 272866 (PA)
> Oxford OX1 3TG, UKFax:  +44 1865 272595
>


-- 
Len Zaifman
Systems Manager, Supercomputing Systems
Centre for Computational Biology
Hospital for Sick Children
Toronto, Ont. M5G 1X8
[EMAIL PROTECTED]
(416)813-5513

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R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel

[Rd] Problem building R with Sun Studio Compiler on SLES 9 SP3

[Len Zaifman]

In a previous thread I had problems on openSuse 10.2 building R with 
optimisation and discovered that if I wanted
optimisation I need to turn on

-fstore -fsimple1 (the first is to force storage on some Fortran routines , the 
second is to ensure IEEE arithmetic,
with some optimisation).

That worked for my desktop. The real problem is to work on our servers 
(Opterons running SLES9SP3)

Make works fine but make check fails in

base-Ex.R  on IO, specifically from base-Ex.Rout.fail:

>
> if(capabilities("fifo")) {
+   zz <- fifo("foo", "w+")
+   writeLines("abc", zz)
+   print(readLines(zz))
+   close(zz)
+   unlink("foo")
+ }
Warning in fifo("foo", "w+") : cannot create fifo 'foo', reason 'Input/output 
error'
Error in fifo("foo", "w+") : unable to open connection
Execution halted


Does anybody know what I need to do to get this fifo capability turned on?



-- 
Len Zaifman
Systems Manager, Supercomputing Systems
Centre for Computational Biology
Hospital for Sick Children
Toronto, Ont. M5G 1X8
[EMAIL PROTECTED]
(416)813-5513

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R-devel@r-project.org mailing list
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