[Gmsh] Singular value decomposition requires LAPACK
Vadivelan C
vc at tetrahedrix.com
Tue Jun 2 11:32:32 CEST 2009
Hi Dave,
Thank you very much for helping me. It works well now :D.
- Ranjith
On Tue, Jun 2, 2009 at 2:41 PM, David Colignon <David.Colignon at ulg.ac.be>wrote:
>
> configure is not able to compile a test program with the blas library :
>
>
>
> configure:5544: checking for dgemm_ in -lblas
>
> configure:5579: g++ -o conftest -g -O2 -L/usr/lib/ -L/usr/lib//lib
> conftest.cpp -lblas -lgfortran -lm >&5
>
> /usr/bin/ld: cannot find -lgfortran
>
> collect2: ld returned 1 exit status
>
> configure:5585: $? = 1
> configure: failed program was:
> | /* confdefs.h. */
> | #define PACKAGE_NAME ""
> | #define PACKAGE_TARNAME ""
> | #define PACKAGE_VERSION ""
> | #define PACKAGE_STRING ""
> | #define PACKAGE_BUGREPORT ""
> | #define HAVE_FLTK 1
> | #define HAVE_TREE_BROWSER 1
> | #define HAVE_LIBJPEG 1
> | #define HAVE_LIBPNG 1
> | #define HAVE_LIBM 1
> | #define HAVE_ANN 1
> | #define HAVE_GMM 1
> | #define HAVE_CHACO 1
> | #define HAVE_METIS 1
> | #define HAVE_NETGEN 1
> | #define HAVE_MATH_EVAL 1
> | #define HAVE_LIBZ 1
> | /* end confdefs.h. */
> |
> | /* Override any GCC internal prototype to avoid an error.
> | Use char because int might match the return type of a GCC
> | builtin and then its argument prototype would still apply. */
> | #ifdef __cplusplus
> | extern "C"
> | #endif
> | char dgemm_ ();
> | int
> | main ()
> | {
> | return dgemm_ ();
> | ;
> | return 0;
> | }
> configure:5603: result: no
>
>
>
> the problem may perhaps comes from the ordrering of the directories in your
> $PATH. Configure detects GCC in
> /home/velan/OpenFOAM/ThirdParty/gcc-4.3.1/platforms/linux/bin/gcc , which is
> GCC version 4.3.1 , but detects gfortran in /usr/bin/gfortran , which is
> version 4.3.2
>
> can you try to configure Gmsh with :
>
> ./configure --prefix=/home/soft/gmsh-2.3.1
> --with-blas-lapack-prefix=/usr/lib/ CC=/usr/bin/gcc CXX=/usr/bin/g++
> FC=/usr/bin/gfortran
>
> Cheers,
>
> Dave
>
>
> --
> David Colignon, Ph.D.
> Collaborateur Logistique du F.R.S.-FNRS
> CÉCI - Consortium des Équipements de Calcul Intensif
> ACE - Applied & Computational Electromagnetics
> Sart-Tilman B28
> Université de Liège
> 4000 Liège - BELGIQUE
> Tél: +32 (0)4 366 37 32
> Fax: +32 (0)4 366 29 10
> WWW: http://hpc.montefiore.ulg.ac.be/
> Agenda:
> http://www.google.com/calendar/embed?src=david.colignon%40gmail.com
>
>
>
> Vadivelan C wrote:
>
>> I have attached the config.log file.
>>
>> - Ranjith
>>
>> On Tue, Jun 2, 2009 at 1:44 PM, David Colignon <David.Colignon at ulg.ac.be<mailto:
>> David.Colignon at ulg.ac.be>> wrote:
>>
>> Can you send us your config.log file ?
>>
>>
>> Dave
>>
>> -- David Colignon, Ph.D.
>> Collaborateur Logistique du F.R.S.-FNRS
>> CÉCI - Consortium des Équipements de Calcul Intensif
>> ACE - Applied & Computational Electromagnetics
>> Sart-Tilman B28
>> Université de Liège
>> 4000 Liège - BELGIQUE
>> Tél: +32 (0)4 366 37 32
>> Fax: +32 (0)4 366 29 10
>> WWW: http://hpc.montefiore.ulg.ac.be/
>> Agenda:
>> http://www.google.com/calendar/embed?src=david.colignon%40gmail.com
>>
>>
>>
>> Vadivelan C wrote:
>>
>> Hi Dave,
>>
>> Thanks for your quick reply. BTW, i have installed lapack, blas
>> libraries using yum. I have checked
>>
>> [velan at scram ~]$ ls /usr/lib/{*lapack*,*blas.*}
>> -rw-r--r-- 1 root root 5.6M 2008-07-08 22:58 /usr/lib/liblapack.a
>> -rw-r--r-- 1 root root 483K 2008-07-08 22:58 /usr/lib/libblas.a
>> -rwxr-xr-x 1 root root 4.0M 2008-07-08 22:58
>> /usr/lib/liblapack.so.3.1.1
>> -rw-r--r-- 1 root root 6.1M 2008-07-08 22:58
>> /usr/lib/liblapack_pic.a
>> -rwxr-xr-x 1 root root 354K 2008-07-08 22:58
>> /usr/lib/libblas.so.3.1.1
>> -rwxr-xr-x 1 root root 221K 2008-09-16 13:25
>> /usr/lib/libgslcblas.so.0.0.0
>> lrwxrwxrwx 1 root root 20 2009-05-31 19:51
>> /usr/lib/libgslcblas.so.0 -> libgslcblas.so.0.0.0
>> lrwxrwxrwx 1 root root 16 2009-06-02 11:21
>> /usr/lib/libblas.so.3.1 -> libblas.so.3.1.1
>> lrwxrwxrwx 1 root root 16 2009-06-02 11:21
>> /usr/lib/libblas.so.3 -> libblas.so.3.1.1
>> lrwxrwxrwx 1 root root 18 2009-06-02 11:21
>> /usr/lib/liblapack.so.3.1 -> liblapack.so.3.1.1
>> lrwxrwxrwx 1 root root 18 2009-06-02 11:21
>> /usr/lib/liblapack.so.3 -> liblapack.so.3.1.1
>> lrwxrwxrwx 1 root root 18 2009-06-02 11:21
>> /usr/lib/liblapack.so -> liblapack.so.3.1.1
>> lrwxrwxrwx 1 root root 16 2009-06-02 11:21 /usr/lib/libblas.so
>> -> libblas.so.3.1.1
>>
>> Which shows, lapack library was installed. During gmsh
>> installation i have done following steps
>>
>> ./configure --prefix=/home/soft/gmsh-2.3.1
>> --with-blas-lapack-prefix=/usr/lib/
>>
>> But still i am getting those errors. Can you tell me how to find
>> whether lapack/blas libraries was configured during gmsh
>> installation. I couldnt find anything on config.status files.
>>
>> Thanks
>> - Ranjith
>>
>> On Tue, Jun 2, 2009 at 12:56 PM, David Colignon
>> <David.Colignon at ulg.ac.be <mailto:David.Colignon at ulg.ac.be>
>> <mailto:David.Colignon at ulg.ac.be
>> <mailto:David.Colignon at ulg.ac.be>>> wrote:
>>
>> Hi,
>>
>> it just means that you have to install the lapack library or
>> that
>> the library was not found at the ./configure step when you
>> compiled
>> gmsh.
>>
>> Cheers,
>>
>> Dave
>>
>> -- David Colignon, Ph.D.
>> Collaborateur Logistique du F.R.S.-FNRS
>> CÉCI - Consortium des Équipements de Calcul Intensif
>> ACE - Applied & Computational Electromagnetics
>> Sart-Tilman B28
>> Université de Liège
>> 4000 Liège - BELGIQUE
>> Tél: +32 (0)4 366 37 32
>> Fax: +32 (0)4 366 29 10
>> WWW: http://hpc.montefiore.ulg.ac.be/
>> Agenda:
>>
>> http://www.google.com/calendar/embed?src=david.colignon%40gmail.com
>>
>>
>>
>> Vadivelan C wrote:
>>
>> Hi
>>
>> I'm newbie to gmsh package. I installed gmsh without any
>> problem. I tried to work on tutorials. I got the error
>> message
>> when i load tutorial/t5.geo
>>
>>
>> Info :
>> -------------------------------------------------------
>> Info : Gmsh version : 2.3.1
>> Info : Build OS : Linux
>> Info : Build options : Fltk TreeBrowser Jpeg Png Ann Gmm
>> Chaco Metis Netgen MathEval Libz
>> Info : Build date : Tue Jun 2 11:23:42 IST 2009
>> Info : Build host : scram
>> Info : Packager : root
>> Info : Home directory : /home/velan/
>> Info : Launch date : Tue Jun 2 11:33:18 2009
>> Info : Command line : gmsh
>> Info :
>> -------------------------------------------------------
>> Info : Reading
>> '/home/velan/Download/PACKAGE/gmsh-2.3.1/tutorial/t5.geo'
>> Hole 1 (center = {0.166,0.75,0.166}, radius = 0.09) has
>> number 69!
>> Hole 2 (center = {0.332,0.75,0.332}, radius = 0.09) has
>> number 99!
>> Hole 3 (center = {0.498,0.75,0.498}, radius = 0.09) has
>> number 129!
>> Hole 4 (center = {0.664,0.75,0.664}, radius = 0.09) has
>> number 159!
>> Hole 5 (center = {0.83,0.75,0.83}, radius = 0.09) has
>> number 189!
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>> Error : Singular value decomposition requires LAPACK
>>
>>
>> Please let me know if you have any idea about this error
>> message.
>>
>> - Ranjith
>>
>>
>>
>> ------------------------------------------------------------------------
>>
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>>
>>
>>
>>
>>
>>
>
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