[Trilinos-Users] [EXTERNAL] [TRILINOS-11.14.1 INSTALLATION ERROR PERSISTS]--UNDEFINED REFERENCE TO "CHOLMOD/ SUITESPARSE"--CONFIG STATEMENTS

Fri Apr 17 06:06:59 MDT 2015

Link that executable with VERBOSE=1 with:

   $ cd packages/amesos2/src/SuiteSparse/KLU2/Source
   $ make VERBOSE=1 Amesos2_klu2_simple

That will show you the exact link line and if the libraries are showing up correctly.

If the correct libraries are showing in the right order on the link line, then there must be a problem with the compatibility of the libraries.

-Ross

From: trilinos-users-bounces at software.sandia.gov [mailto:trilinos-users-bounces at software.sandia.gov] On Behalf Of Ofosu Ampadu Joseph
Sent: Thursday, April 16, 2015 11:56 PM
To: Bruno Turcksin
Cc: trilinos-users at software.sandia.gov
Subject: Re: [Trilinos-Users] [EXTERNAL] [TRILINOS-11.14.1 INSTALLATION ERROR PERSISTS]--UNDEFINED REFERENCE TO "CHOLMOD/ SUITESPARSE"--CONFIG STATEMENTS

Hello Bruno,

I did add the following as you advised:

-DTPL_UMFPACK_LIBRARIES="/usr/local/lib/libumfpack.5.7.1.a" \
-DTPL_CHOLMOD_LIBRARIES="/usr/local/lib/libcholmod.3.0.5.a" \
-DTPL_SUITESPARSE_LIBRARIES="/usr/local/lib/libsuitesparseconfig.4.4.4.a" \

AND AFTER

17% of built progress, I had the following errors:

Scanning dependencies of target Amesos2_klu2_simple
[ 17%] Building CXX object packages/amesos2/src/SuiteSparse/KLU2/Source/CMakeFiles/Amesos2_klu2_simple.dir/klu2_simple.cpp.o
Linking CXX executable Amesos2_klu2_simple.exe
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `amd_postorder'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `cholmod_start'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `cholmod_finish'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `cholmod_free_factor'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_free'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `cholmod_print_common'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_time'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `cholmod_free_sparse'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `amd_defaults'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `cholmod_transpose'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_config'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_malloc'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `amd_2'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `amd_valid'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `cholmod_analyze'
../../../../../amesos/src/libamesos.so.11.14.1: undefined reference to `amd_aat'
collect2: error: ld returned 1 exit status
make[2]: *** [packages/amesos2/src/SuiteSparse/KLU2/Source/Amesos2_klu2_simple.exe] Error 1
make[1]: *** [packages/amesos2/src/SuiteSparse/KLU2/Source/CMakeFiles/Amesos2_klu2_simple.dir/all] Error 2
make: *** [all] Error 2

Any specific reasons?

Thanks once again.

On 17/04/15 09:00, Bruno Turcksin wrote:
Joseph,
you probably want to add something like:
-DTPL_CHOLMOD_LIBRARIES=path/to/library \
-DTPL_SUITESPARSE_LIBRARIES=path/to/library \
The linker cannot find where these libraries are. Your configuration only says where the header files are not the compiled libraries.
Best,
Bruno

2015-04-16 17:58 GMT-05:00 Ofosu Ampadu Joseph <joseph at al.t.u-tokyo.ac.jp<mailto:joseph at al.t.u-tokyo.ac.jp>>:
Dear All,

In order to provide a broader picture to the installation errors, I have provided the configuration statements I used for configuring below:

sudo cmake -DTrilinos_ENABLE_Sacado=ON \
-DTrilinos_ENABLE_Stratimikos=ON \
-DCMAKE_BUILD_TYPE=RELEASE \
-DCMAKE_CXX_FLAGS="-g -O3" \
-DCMAKE_C_FLAGS="-g -O3" \
-DCMAKE_FORTRAN_FLAGS="-g -O5" \
-DTrilinos_EXTRA_LINK_FLAGS="-lgfortran" \
-DTrilinos_ENABLE_ALL_PACKAGES=ON \
-DCMAKE_VERBOSE_MAKEFILE=FALSE \
-DTrilinos_VERBOSE_CONFIGURE=FALSE \
-DTPL_ENABLE_MPI=ON \
-DBUILD_SHARED_LIBS=ON \
-DTPL_ENABLE_UMFPACK=ON \
-DTPL_ENABLE_CHOLMOD=ON \
-DTPL_ENABLE_SUITESPARSE=ON \
-DTPL_ENABLE_SuperLU=ON \
-DTPL_UMFPACK_INCLUDE_DIR="/usr/local/include" \
-DTPL_CHOLMOD_INCLUDE_DIR="/usr/local/include" \
-DTPL_SUITESPARSE_INCLUDE_DIR="/usr/local/include" \
-DSuperLU_INCLUDE_DIRS="/home/ofosu/SuperLU_4.3/SRC" \
-DTPL_SuperLU_LIBRARIES="/home/ofosu/SuperLU_4.3/lib/libsuperlu_4.3.a" \
-DTPL_ENABLE_MUMPS=ON \
-DTPL_ENABLE_SCALAPACK=ON \
-DTPL_MUMPS_INCLUDE_DIRS="/usr/lib/openmpi/include/openmpi" \
-DTPL_SCALAPACK_LIBRARIES="/home/ofosu/scalapack-2.0.2/libscalapack.a" \
-DTPL_SWIG_INCLUDE_DIRS="/usr/local/include/share/swig/3.0.5" \
-DCMAKE_INSTALL_PATH="/usr/local/include" \
 /home/ofosu/trilinos-11.14.1-Source

On 16/04/15 02:08, Siva Rajamanickam wrote:
Looks like you are configuring Trilinos with CHOLMOD, but the linker is not able to find the cholmod library.

-Siva

On 04/15/2015 10:12 AM, Ofosu Ampadu Joseph wrote:
Dear All,

I am new to Trilinos and would like to interface some of the libraries with Deal II.
I am building on Ubuntu 14.04 LTS OS.
I have been able to successfully configure Trilinos, however during installation via the command: 'sudo make install' , and after 27% of built target success, I get the following errors:

[ 27%] Built target Amesos_Amesos_TESTBASIC_COPY3
Linking CXX executable amesos_test.exe
../../src/libamesos.so.11.14.1: undefined reference to `cholmod_start'
../../src/libamesos.so.11.14.1: undefined reference to `cholmod_finish'
../../src/libamesos.so.11.14.1: undefined reference to `cholmod_free_factor'
../../src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_free'
../../src/libamesos.so.11.14.1: undefined reference to `cholmod_print_common'
../../src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_time'
../../src/libamesos.so.11.14.1: undefined reference to `cholmod_free_sparse'
../../src/libamesos.so.11.14.1: undefined reference to `cholmod_transpose'
../../src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_config'
../../src/libamesos.so.11.14.1: undefined reference to `SuiteSparse_malloc'
../../src/libamesos.so.11.14.1: undefined reference to `cholmod_analyze'
collect2: error: ld returned 1 exit status
make[2]: *** [packages/amesos/test/Test_Basic/amesos_test.exe] Error 1
make[1]: *** [packages/amesos/test/Test_Basic/CMakeFiles/amesos_test.dir/all] Error 2
make: *** [all] Error 2

I humbly ask if anyone could assist me with an advice of how to proceed. Thanks.

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--
====================================
Ofosu Joseph Ampadu
The University of Tokyo
Graduate Sch. of Frontier Sciences
Department of Advanced Energy
Komurasaki Laboratory
+81-4-7136-4030<tel:%2B81-4-7136-4030>
====================================

_______________________________________________
Trilinos-Users mailing list
Trilinos-Users at software.sandia.gov<mailto:Trilinos-Users at software.sandia.gov>
https://software.sandia.gov/mailman/listinfo/trilinos-users

--

====================================

Ofosu Joseph Ampadu

The University of Tokyo

Graduate Sch. of Frontier Sciences

Department of Advanced Energy

Komurasaki Laboratory

+81-4-7136-4030

====================================
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