R devel - May 2005 - Buidling R on Linux (Itanium) fails (PR#7897)

Full_Name: Reinhold Bader
Version: 2.1.0
OS: SLES 9
Submission from: (NULL) (129.187.48.1)


I tried to build R using the Intel compilers (icc, ifort) and the Math Kernel
Libraries
for BLAS/LAPACK

Optimizations used were -O3, and the 
FPICFLAGS="-fpic"
was exported.

The build failed with the following error message:
...
dumping R code in package 'methods'
Saving namespace image ...
initializing class and method definitions now ...Error in
makePrototypeFromClassDef(properties, ClassDef, immediate, where) :
        in making the prototype for class "SClassExtension" elements
of the
prototype failed to match the corresponding slot class: coerce (class
?character? ), test (class ?character? ), replace (class ?character? ), simple
(class ?character? ), dataPart (class ?character? )
Error: .onLoad failed in 'loadNamespace' for 'methods'
Execution halted

I am not a R specialist; how do I continue from here?
make[4]: *** [../..

Hi,

here is the "configure" command line I used for an Intel PIV processor
with icc, ifort and the intel mkl:

./configure CC=icc CFLAGS="-O2 -mp -prec_div" F77=ifort CXX=icc 
CXXFLAGS="-O2 -mp -prec_div" FFLAGS="-C90 -w90 -w95 -mp
-prec_div"
CPICFLAGS=-shared CXXPICFLAGS=-shared FPICFLAGS=-shared 
SHLIB_LDFLAGS=-shared SHLIB_CXXLDFLAGS=-shared --with-blas="-lmkl_lapack 
-lmkl -lguide -lpthread"

In my experience using "FPICFLAGS=-shared" is mendatory to get the 
compilation working. The other options are mainly there to pass almost 
all the tests (except one) of "make check".

Xtof.

Bader@lrz.de wrote:
>Full_Name: Reinhold Bader
>Version: 2.1.0
>OS: SLES 9
>Submission from: (NULL) (129.187.48.1)
>
>
>I tried to build R using the Intel compilers (icc, ifort) and the Math
Kernel
>Libraries
>for BLAS/LAPACK
>
>Optimizations used were -O3, and the 
>FPICFLAGS="-fpic"
>was exported.
>
>The build failed with the following error message:
>...
>dumping R code in package 'methods'
>Saving namespace image ...
>initializing class and method definitions now ...Error in
>makePrototypeFromClassDef(properties, ClassDef, immediate, where) :
>        in making the prototype for class "SClassExtension"
elements of the
>prototype failed to match the corresponding slot class: coerce (class
>?character? ), test (class ?character? ), replace (class ?character? ),
simple
>(class ?character? ), dataPart (class ?character? )
>Error: .onLoad failed in 'loadNamespace' for 'methods'
>Execution halted
>
>I am not a R specialist; how do I continue from here?
>make[4]: *** [../..
>
>______________________________________________
>R-devel@stat.math.ethz.ch mailing list
>https://stat.ethz.ch/mailman/listinfo/r-devel
>
>  
>

-- 
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only know how to use a hammer, every problem starts to look like a nail.
Stay away from that trap.
Richard B Johnson.
--

Christophe Pouzat
Laboratoire de Physiologie Cerebrale
CNRS UMR 8118
UFR biomedicale de l'Universite Paris V
45, rue des Saints Peres
75006 PARIS
France

tel: +33 (0)1 42 86 38 28
fax: +33 (0)1 42 86 38 30
web: www.biomedicale.univ-paris5.fr/physcerv/C_Pouzat.html

> I tried to build R using the Intel compilers (icc, ifort) and the Math
Kernel
> Libraries
> for BLAS/LAPACK
> 
> Optimizations used were -O3, and the 
> FPICFLAGS="-fpic"
> was exported.
> 
> The build failed with the following error message:
I did not use MKL, but there was a problem to Intel compiler. 
An as follows memo at that time. 
Because there is not yet an option restraining an exception in C++ of
IA64, icpc is not usable.

http://www.nakama.ne.jp/memo/ia64_linux/

--
e-mail : EIJI Nakama <nakama@ki.rim.or.jp>

Thu, 26 May 2005 12:09:23 +0200
Christophe Pouzat <christophe.pouzat at univ-paris5.fr>
wrote.
> Hi,
> 
> here is the "configure" command line I used for an Intel PIV
processor
> with icc, ifort and the intel mkl:
(snip)
> In my experience using "FPICFLAGS=-shared" is mendatory to get
the
> compilation working. The other options are mainly there to pass almost 
> all the tests (except one) of "make check".
Is not a cause to fail in a problem of FTZ,DAZ?
If there was time because I put
  http://www.nakama.ne.jp/memo/ia32_linux/
     R-2.1.1.iccftzdaz.patch.txt
please try to test it.

--
http://www.nakama.ne.jp, http://r.nakama.ne.jp
e-mail : EIJI Nakama <nakama at ki.rim.or.jp>