[petsc-users] PetSc + MATLAB installation problem on Debian Squeeze

[Oren Livne]

Dear All,

I'm trying to install PetSc with the MATLAB interface on Debian Squeeze 
6.26. "make all test" fails on an ld error due to a MATLAB library. 
Running the MATLAB library seems to cause a seg fault even though matlab 
runs fine (7.13 / R2011b).

Could you kindly help? Output attached below.

Thanks so much,
Oren

------------------------------------------------------------------------------
$ uname -a
Linux vm-debian 2.6.32-5-amd64 #1 SMP Mon Oct 3 03:59:20 UTC 2011 x86_64 
GNU/Linux

$ ./configure --with-shared-libraries --with-matlab-engine --with-matlab 
--download-f2cblaslapack --with-mpi=0
... OK

$ make all test
...
libfast in: /home/oren/petsc-3.2-p5/tutorials/multiphysics
Completed building libraries
=========================================
making shared libraries in /home/oren/petsc-3.2-p5/arch-linux2-c-debug/lib
building libpetsc.so
/usr/bin/ld: cannot find -licudata
collect2: ld returned 1 exit status
=========================================
Now to check if the libraries are working do:
make PETSC_DIR=/home/oren/petsc-3.2-p5 PETSC_ARCH=arch-linux2-c-debug test
=========================================
Running test examples to verify correct installation
Using PETSC_DIR=/home/oren/petsc-3.2-p5 and PETSC_ARCH=arch-linux2-c-debug
--------------Error detected during compile or link!-----------------------
See http://www.mcs.anl.gov/petsc/petsc-2/documentation/faq.html
gcc -o ex19.o -c -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing 
-Wno-unknown-pragmas -g3 -I/home/oren/petsc-3.2-p5/include 
-I/home/oren/petsc-3.2-p5/arch-linux2-c-debug/include 
-I/opt/MATLAB/R2011b/extern/include 
-I/home/oren/petsc-3.2-p5/include/mpiuni 
-D__INSDIR__=src/snes/examples/tutorials/ ex19.c
gcc -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing 
-Wno-unknown-pragmas -g3  -o ex19  ex19.o 
-Wl,-rpath,/home/oren/petsc-3.2-p5/arch-linux2-c-debug/lib 
-L/home/oren/petsc-3.2-p5/arch-linux2-c-debug/lib  -lpetsc -lX11 
-lpthread 
-Wl,-rpath,/opt/MATLAB/R2011b/sys/os/glnxa64:/opt/MATLAB/R2011b/bin/glnxa64:/opt/MATLAB/R2011b/extern/lib/glnxa64 
-L/opt/MATLAB/R2011b/bin/glnxa64 -L/opt/MATLAB/R2011b/extern/lib/glnxa64 
-leng -lmex -lmx -lmat -lut -licudata -licui18n -licuuc 
-Wl,-rpath,/home/oren/petsc-3.2-p5/arch-linux2-c-debug/lib -lf2clapack 
-lf2cblas -lm -lm -ldl
/usr/bin/ld: cannot find -licudata
collect2: ld returned 1 exit status
make[3]: [ex19] Error 1 (ignored)
/bin/rm -f ex19.o
Completed test examples

$ /opt/MATLAB/R2011b/bin/glnxa64/libicudata.so.44
Segmentation fault

$ /opt/MATLAB/R2011b/bin/glnxa64/libicudata.so.44.2
Segmentation fault