[petsc-users] Compiling PETSc 3.1-p3, gcc-4.4.4
Frantisek Fridrich
frafridr at gmail.com
Fri Jul 9 09:57:50 CDT 2010
Hello.
Please could anybody help me?
I compiled PETSc 3.1-p3 in Scientific Linux 5, gcc-4.4.4 with options:
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--prefix=${P_petsc_INSTALL} \
--with-external-packages-dir=${P_extpckg_INSTALL} \
--PETSC_ARCH=${PETSC_ARCH} \
--PETSC_DIR=${PETSC_DIR} \
--with-clanguage=c++ \
--with-c-support=yes \
--with-shared=yes \
--with-large-file-io=yes \
--CFLAGS=${CFLAGS} \
--CXXFLAGS=${CXXFLAGS} \
--FFLAGS=${FCFLAGS} \
--with-ar=ar \
--AR_FLAGS=cr \
--with-ranlib=ranlib \
--COPTFLAGS=${COPTFLAGS} \
--CXXOPTFLAGS=${CXXOPTFLAGS} \
--FOPTFLAGS=${FOPTFLAGS} \
--with-mpi-dir=${P_MPI_INSTALL} \
--with-mpi-shared=yes \
--with-spooles=yes \
--download-spooles=yes \
--with-blas-lapack-dir=${ATLAS} \
--with-blacs=yes \
--download-blacs=yes \
--with-parmetis=yes \
--with-parmetis-dir=${P_parmetis_INSTALL} \
--with-scalapack=yes \
--download-scalapack=yes \
--with-mumps=yes \
--download-mumps=yes \
--with-hypre=yes \
--with-hypre-dir=${P_hypre_INSTALL} \
--with-umfpack=yes \
--download-umfpack=yes \
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I got 1600 lines of the following warnings:
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../Source/umf_analyze.c: In function ‘umf_i_analyze’:
../Source/umf_analyze.c:94: warning: ignoring #pragma ivdep
../Source/umf_analyze.c:581: warning: ignoring #pragma novector
../Source/umf_analyze.c: In function ‘umf_l_analyze’:
../Source/umf_analyze.c:94: warning: ignoring #pragma ivdep
../Source/umf_blas3_update.c: In function ‘umfdi_blas3_update’:
../Source/umf_blas3_update.c:81: warning: ignoring #pragma ivdep
../Source/umf_blas3_update.c:100: warning: passing argument 1 of
‘dtrsm_’ discards qualifiers from pointer target type
../Source/cholmod_blas.h:243: note: expected ‘char *’ but argument is
of type ‘const char *’
../Source/umf_blas3_update.c:100: warning: passing argument 2 of
‘dtrsm_’ discards qualifiers from pointer target type
../Source/cholmod_blas.h:243: note: expected ‘char *’ but argument is
of type ‘const char *’
../Source/umfpack_report_info.c: In function ‘umfpack_di_report_info’:
../Source/umfpack_report_info.c:403: warning: passing argument 1 of
‘print_ratio’ discards qualifiers from pointer target type
../Source/umfpack_report_info.c:33: note: expected ‘char *’ but
argument is of type ‘const char *’
../Source/umfpack_report_info.c:403: warning: passing argument 2 of
‘print_ratio’ discards qualifiers from pointer target type
../Source/umfpack_report_info.c:33: note: expected ‘char *’ but
argument is of type ‘const char *’
../Source/umfpack_report_info.c:405: warning: passing argument 1 of
‘print_ratio’ discards qualifiers from pointer target type
../Source/umfpack_report_info.c:33: note: expected ‘char *’ but
argument is of type ‘const char *’
../Source/umf_blas3_update.c:152: warning: ignoring #pragma ivdep
../Source/umf_create_element.c: In function ‘copy_column’:
../Source/umf_create_element.c:31: warning: ignoring #pragma ivdep
../Source/umf_create_element.c: In function ‘umfdl_create_element’:
../Source/umfpack_report_info.c:403: warning: passing argument 1 of
‘print_ratio’ discards qualifiers from pointer target type
../Source/umfpack_report_info.c:33: note: expected ‘char *’ but
argument is of type ‘const char *’
../Source/umfpack_report_info.c:403: warning: passing argument 2 of
‘print_ratio’ discards qualifiers from pointer target type
../Source/umfpack_report_info.c:33: note: expected ‘char *’ but
argument is of type ‘const char *’
../Source/umfpack_report_info.c:405: warning: passing argument 1 of
‘print_ratio’ discards qualifiers from pointer target type
../Source/umfpack_report_info.c:33: note: expected ‘char *’ but
argument is of type ‘const char *’
umfpack_zl_demo.c:547: warning: format ‘%ld’ expects type ‘long int’,
but argument 2 has type ‘long long int’
umfpack_zl_demo.c:547: warning: format ‘%ld’ expects type ‘long int’,
but argument 3 has type ‘long long int’
umfpack_zl_demo.c:719: warning: passing argument 1 of ‘error’ discards
qualifiers from pointer target type
umfpack_zl_demo.c:75: note: expected ‘char *’ but argument is of type
‘const char *’
umfpack_zl_demo.c:728: warning: passing argument 1 of ‘error’ discards
qualifiers from pointer target type
umfpack_zl_demo.c:75: note: expected ‘char *’ but argument is of type
‘const char *’
make[1]: [run] Error 1 (ignored)
make[1]: [run] Error 1 (ignored)
make[1]: [run] Error 1 (ignored)
make[1]: [run] Error 1 (ignored)
********End of Output of running make on UMFPACK *******
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When running DOLFIN 0.9.8 demos I got error:
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Newton iteration 8: r (abs) = 1.509e-14 (tol = 1.000e-10) r (rel)
= 3.674e-15 (tol = 1.000e-09)
Newton solver finished in 8 iterations and 8 linear solver iterations.
Plot active, press 'q' to continue.
[0]PETSC ERROR:
------------------------------------------------------------------------
[0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,
probably memory access out of range
[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[0]PETSC ERROR: or see
http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[0]PETSC
ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to
find memory corruption errors
[0]PETSC ERROR: likely location of problem given in stack below
[0]PETSC ERROR: --------------------- Stack Frames
------------------------------------
[0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
[0]PETSC ERROR: INSTEAD the line number of the start of the function
[0]PETSC ERROR: is given.
[0]PETSC ERROR: --------------------- Error Message
------------------------------------
[0]PETSC ERROR: Signal received!
[0]PETSC ERROR:
------------------------------------------------------------------------
[0]PETSC ERROR: Petsc Release Version 3.1.0, Patch 3, Fri Jun 4
15:34:52 CDT 2010
[0]PETSC ERROR: See docs/changes/index.html for recent updates.
[0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
[0]PETSC ERROR: See docs/index.html for manual pages.
[0]PETSC ERROR:
------------------------------------------------------------------------
[0]PETSC ERROR: Unknown Name on a linux-gnu named juniper by fridrich
Fri Jul 9 11:27:30 2010
[0]PETSC ERROR: Libraries linked from
/home/rose/OpenMPI/openmpi-1.4.2/utils/petsc-3.1-p3/lib
[0]PETSC ERROR: Configure run at Thu Jul 8 19:49:50 2010
[0]PETSC ERROR: Configure options
--prefix=/home/rose/OpenMPI/openmpi-1.4.2/utils/petsc-3.1-p3
--with-external-packages-dir=/home/rose/OpenMPI/openmpi-1.4.2/utilsRepo/petsc-3.1-p3/petscUtilsRepo
--PETSC_ARCH=linux-gnu
--PETSC_DIR=/home/rose/OpenMPI/openmpi-1.4.2/utilsRepo/petsc-3.1-p3/petsc-3.1-p3
--with-clanguage=c++ --with-c-support=yes --with-shared=yes
--with-large-file-io=yes --CFLAGS= -Wall -march=opteron -m64 -O2
-fno-reorder-blocks -fno-reorder-functions -pipe -fPIC --CXXFLAGS=
-Wall -march=opteron -m64 -O2 -fno-reorder-blocks
-fno-reorder-functions -pipe -fPIC --FFLAGS= -Wall -march=opteron -m64
-O2 -fno-reorder-blocks -fno-reorder-functions -pipe -fPIC
--with-ar=ar --AR_FLAGS=cr --with-ranlib=ranlib --COPTFLAGS= -O2
-fno-reorder-blocks -fno-reorder-functions --CXXOPTFLAGS= -O2
-fno-reorder-blocks -fno-reorder-functions --FOPTFLAGS= -O2
-fno-reorder-blocks -fno-reorder-functions
--with-mpi-dir=/home/rose/OpenMPI/openmpi-1.4.2/install
--with-mpi-shared=yes --with-spooles=yes --download-spooles=yes
--with-blas-lapack-dir=/home/rose/OpenMPI/openmpi-1.4.2/utils/atlas-3.9.24/lib
--with-blacs=yes --download-blacs=yes --with-parmetis=yes
--with-parmetis-dir=/home/rose/OpenMPI/openmpi-1.4.2/utils/ParMetis-3.1.1
--with-scalapack=yes --download-scalapack=yes --with-mumps=yes
--download-mumps=yes --with-hypre=yes
--with-hypre-dir=/home/rose/OpenMPI/openmpi-1.4.2/utils/hypre-2.6.0b
--with-umfpack=yes --download-umfpack=yes
[0]PETSC ERROR:
------------------------------------------------------------------------
[0]PETSC ERROR: User provided function() line 0 in unknown directory
unknown file
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Thank you for response.
Frantisek
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