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Commit cdb9e4ad authored by Thomas Witkowski's avatar Thomas Witkowski
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Fixed incorrect MPI usage in parmetis partitioner.

parent 2a0239ea
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Showing with 90 additions and 81 deletions
AMDiS/libtool
View file @ cdb9e4ad
......@@ -44,7 +44,7 @@ available_tags=" CXX F77"
# ### BEGIN LIBTOOL CONFIG
# Libtool was configured on host deimos103:
# Libtool was configured on host mars:
# Shell to use when invoking shell scripts.
SHELL="/bin/sh"
......@@ -66,12 +66,12 @@ fast_install=yes
# The host system.
host_alias=
host=x86_64-unknown-linux-gnu
host=ia64-unknown-linux-gnu
host_os=linux-gnu
# The build system.
build_alias=
build=x86_64-unknown-linux-gnu
build=ia64-unknown-linux-gnu
build_os=linux-gnu
# An echo program that does not interpret backslashes.
......@@ -82,13 +82,13 @@ AR="ar"
AR_FLAGS="cru"
# A C compiler.
LTCC="/licsoft/libraries/openmpi/1.2.6/64bit/bin/mpicc"
LTCC="gcc"
# LTCC compiler flags.
LTCFLAGS="-g -O2"
# A language-specific compiler.
CC="/licsoft/libraries/openmpi/1.2.6/64bit/bin/mpicc"
CC="gcc"
# Is the compiler the GNU C compiler?
with_gcc=yes
......@@ -97,7 +97,7 @@ with_gcc=yes
EGREP="grep -E"
# The linker used to build libraries.
LD="/usr/x86_64-suse-linux/bin/ld -m elf_x86_64"
LD="/usr/ia64-suse-linux/bin/ld"
# Whether we need hard or soft links.
LN_S="ln -s"
......@@ -147,7 +147,7 @@ pic_flag=" -fPIC -DPIC"
pic_mode=default
# What is the maximum length of a command?
max_cmd_len=32768
max_cmd_len=131072
# Does compiler simultaneously support -c and -o options?
compiler_c_o="yes"
......@@ -171,7 +171,7 @@ dlopen_self=unknown
dlopen_self_static=unknown
# Compiler flag to prevent dynamic linking.
link_static_flag=""
link_static_flag="-static"
# Compiler flag to turn off builtin functions.
no_builtin_flag=" -fno-builtin"
......@@ -269,10 +269,10 @@ finish_eval=""
global_symbol_pipe="sed -n -e 's/^.*[ ]\\([ABCDGIRSTW][ABCDGIRSTW]*\\)[ ][ ]*\\([_A-Za-z][_A-Za-z0-9]*\\)\$/\\1 \\2 \\2/p'"
# Transform the output of nm in a proper C declaration
global_symbol_to_cdecl="sed -n -e 's/^. .* \\(.*\\)\$/extern int \\1;/p'"
global_symbol_to_cdecl="sed -n -e 's/^T .* \\(.*\\)\$/extern int \\1();/p' -e 's/^[ABCDGIRSTW]* .* \\(.*\\)\$/extern char \\1;/p'"
# Transform the output of nm in a C name address pair
global_symbol_to_c_name_address="sed -n -e 's/^: \\([^ ]*\\) \$/ {\\\"\\1\\\", (lt_ptr) 0},/p' -e 's/^[BCDEGRST] \\([^ ]*\\) \\([^ ]*\\)\$/ {\"\\2\", (lt_ptr) \\&\\2},/p'"
global_symbol_to_c_name_address="sed -n -e 's/^: \\([^ ]*\\) \$/ {\\\"\\1\\\", (lt_ptr) 0},/p' -e 's/^[ABCDGIRSTW]* \\([^ ]*\\) \\([^ ]*\\)\$/ {\"\\2\", (lt_ptr) \\&\\2},/p'"
# This is the shared library runtime path variable.
runpath_var=LD_RUN_PATH
......@@ -325,10 +325,10 @@ variables_saved_for_relink="PATH LD_LIBRARY_PATH LD_RUN_PATH GCC_EXEC_PREFIX COM
link_all_deplibs=unknown
# Compile-time system search path for libraries
sys_lib_search_path_spec=" /usr/lib64/gcc/x86_64-suse-linux/4.1.2/ /usr/lib/gcc/x86_64-suse-linux/4.1.2/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../x86_64-suse-linux/lib/x86_64-suse-linux/4.1.2/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../x86_64-suse-linux/lib/../lib64/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../x86_64-suse-linux/4.1.2/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../lib64/ /lib/x86_64-suse-linux/4.1.2/ /lib/../lib64/ /usr/lib/x86_64-suse-linux/4.1.2/ /usr/lib/../lib64/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../x86_64-suse-linux/lib/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../ /lib/ /usr/lib/"
sys_lib_search_path_spec=" /usr/lib/gcc/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../../ia64-suse-linux/lib/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../../ia64-suse-linux/lib/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../ /lib/ia64-suse-linux/4.1.2/ /lib/ /usr/lib/ia64-suse-linux/4.1.2/ /usr/lib/"
# Run-time system search path for libraries
sys_lib_dlsearch_path_spec="/lib /usr/lib /usr/X11R6/lib64/Xaw3d /usr/X11R6/lib64 /usr/X11R6/lib/Xaw3d /usr/X11R6/lib /usr/x86_64-suse-linux/lib /usr/local/lib64 /usr/local/lib /opt/kde3/lib64 /opt/kde3/lib /opt/gnome/lib64 /opt/gnome/lib /lib64 /lib /usr/lib64 /usr/lib /opt/cluster/intel/cce/9.1.042/lib /opt/cluster/intel/fce/9.1.036/lib /opt/cluster/Pathscale3.0/lib/2.9.99 /opt/cluster/Pathscale3.0/lib/2.9.99/32 /work/licsoft/compilers/pgi/linux86-64/6.2/lib /work/licsoft/compilers/pgi/linux86-64/6.2/libso "
sys_lib_dlsearch_path_spec="/lib /usr/lib /usr/X11R6/lib/Xaw3d /usr/X11R6/lib /usr/ia64-suse-linux/lib /usr/local/lib /opt/kde3/lib /opt/gnome/lib /work/licsoft/lsf/6.2/linux2.6-glibc2.4-sn-ipf/lib /opt/sgi-dapl/lib /opt/tivoli/tsm/client/api/bin /usr/lib/sgi/intel9/ /usr/lib/sgi/intel8/ /usr/lib/sgi/intel7/ /usr/lib/sysadm/lib "
# Fix the shell variable $srcfile for the compiler.
fix_srcfile_path=""
......@@ -6760,7 +6760,7 @@ build_old_libs=`case $build_libtool_libs in yes) $echo no;; *) $echo yes;; esac`
# End:
# ### BEGIN LIBTOOL TAG CONFIG: CXX
# Libtool was configured on host deimos103:
# Libtool was configured on host mars:
# Shell to use when invoking shell scripts.
SHELL="/bin/sh"
......@@ -6782,12 +6782,12 @@ fast_install=yes
# The host system.
host_alias=
host=x86_64-unknown-linux-gnu
host=ia64-unknown-linux-gnu
host_os=linux-gnu
# The build system.
build_alias=
build=x86_64-unknown-linux-gnu
build=ia64-unknown-linux-gnu
build_os=linux-gnu
# An echo program that does not interpret backslashes.
......@@ -6798,13 +6798,13 @@ AR="ar"
AR_FLAGS="cru"
# A C compiler.
LTCC="/licsoft/libraries/openmpi/1.2.6/64bit/bin/mpicc"
LTCC="gcc"
# LTCC compiler flags.
LTCFLAGS="-g -O2"
# A language-specific compiler.
CC="/licsoft/libraries/openmpi/1.2.6/64bit/bin/mpiCC"
CC="g++"
# Is the compiler the GNU C compiler?
with_gcc=yes
......@@ -6813,7 +6813,7 @@ with_gcc=yes
EGREP="grep -E"
# The linker used to build libraries.
LD="/usr/x86_64-suse-linux/bin/ld -m elf_x86_64"
LD="/usr/ia64-suse-linux/bin/ld"
# Whether we need hard or soft links.
LN_S="ln -s"
......@@ -6863,7 +6863,7 @@ pic_flag=" -fPIC -DPIC"
pic_mode=default
# What is the maximum length of a command?
max_cmd_len=32768
max_cmd_len=131072
# Does compiler simultaneously support -c and -o options?
compiler_c_o="yes"
......@@ -6887,7 +6887,7 @@ dlopen_self=unknown
dlopen_self_static=unknown
# Compiler flag to prevent dynamic linking.
link_static_flag=""
link_static_flag="-static"
# Compiler flag to turn off builtin functions.
no_builtin_flag=" -fno-builtin"
......@@ -6942,11 +6942,11 @@ striplib="strip --strip-unneeded"
# Dependencies to place before the objects being linked to create a
# shared library.
predep_objects="/usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../lib64/crti.o /usr/lib64/gcc/x86_64-suse-linux/4.1.2/crtbeginS.o"
predep_objects="/usr/lib/gcc/ia64-suse-linux/4.1.2/../../../crti.o /usr/lib/gcc/ia64-suse-linux/4.1.2/crtbeginS.o"
# Dependencies to place after the objects being linked to create a
# shared library.
postdep_objects="/usr/lib64/gcc/x86_64-suse-linux/4.1.2/crtendS.o /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../lib64/crtn.o"
postdep_objects="/usr/lib/gcc/ia64-suse-linux/4.1.2/crtendS.o /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../crtn.o"
# Dependencies to place before the objects being linked to create a
# shared library.
......@@ -6954,11 +6954,11 @@ predeps=""
# Dependencies to place after the objects being linked to create a
# shared library.
postdeps="-lmpi_cxx -lmpi -lopen-rte -lopen-pal -libverbs -lrt -lnuma -ldl -lnsl -lutil -ldl -lstdc++ -lm -lgcc_s -lpthread -lc -lgcc_s"
postdeps="-lstdc++ -lm -lgcc_s -lunwind -lc -lgcc_s -lunwind"
# The library search path used internally by the compiler when linking
# a shared library.
compiler_lib_search_path="-L/usr/lib64 -L/licsoft/libraries/openmpi/1.2.6/64bit/lib -L/usr/lib64/gcc/x86_64-suse-linux/4.1.2 -L/usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../x86_64-suse-linux/lib -L/usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../.."
compiler_lib_search_path="-L/usr/lib/gcc/ia64-suse-linux/4.1.2 -L/usr/lib/gcc/ia64-suse-linux/4.1.2 -L/usr/lib/gcc/ia64-suse-linux/4.1.2/../../../../ia64-suse-linux/lib -L/usr/lib/gcc/ia64-suse-linux/4.1.2/../../.."
# Method to check whether dependent libraries are shared objects.
deplibs_check_method="pass_all"
......@@ -6982,10 +6982,10 @@ finish_eval=""
global_symbol_pipe="sed -n -e 's/^.*[ ]\\([ABCDGIRSTW][ABCDGIRSTW]*\\)[ ][ ]*\\([_A-Za-z][_A-Za-z0-9]*\\)\$/\\1 \\2 \\2/p'"
# Transform the output of nm in a proper C declaration
global_symbol_to_cdecl="sed -n -e 's/^. .* \\(.*\\)\$/extern int \\1;/p'"
global_symbol_to_cdecl="sed -n -e 's/^T .* \\(.*\\)\$/extern int \\1();/p' -e 's/^[ABCDGIRSTW]* .* \\(.*\\)\$/extern char \\1;/p'"
# Transform the output of nm in a C name address pair
global_symbol_to_c_name_address="sed -n -e 's/^: \\([^ ]*\\) \$/ {\\\"\\1\\\", (lt_ptr) 0},/p' -e 's/^[BCDEGRST] \\([^ ]*\\) \\([^ ]*\\)\$/ {\"\\2\", (lt_ptr) \\&\\2},/p'"
global_symbol_to_c_name_address="sed -n -e 's/^: \\([^ ]*\\) \$/ {\\\"\\1\\\", (lt_ptr) 0},/p' -e 's/^[ABCDGIRSTW]* \\([^ ]*\\) \\([^ ]*\\)\$/ {\"\\2\", (lt_ptr) \\&\\2},/p'"
# This is the shared library runtime path variable.
runpath_var=LD_RUN_PATH
......@@ -7038,10 +7038,10 @@ variables_saved_for_relink="PATH LD_LIBRARY_PATH LD_RUN_PATH GCC_EXEC_PREFIX COM
link_all_deplibs=unknown
# Compile-time system search path for libraries
sys_lib_search_path_spec=" /usr/lib64/gcc/x86_64-suse-linux/4.1.2/ /usr/lib/gcc/x86_64-suse-linux/4.1.2/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../x86_64-suse-linux/lib/x86_64-suse-linux/4.1.2/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../x86_64-suse-linux/lib/../lib64/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../x86_64-suse-linux/4.1.2/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../lib64/ /lib/x86_64-suse-linux/4.1.2/ /lib/../lib64/ /usr/lib/x86_64-suse-linux/4.1.2/ /usr/lib/../lib64/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../../x86_64-suse-linux/lib/ /usr/lib64/gcc/x86_64-suse-linux/4.1.2/../../../ /lib/ /usr/lib/"
sys_lib_search_path_spec=" /usr/lib/gcc/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../../ia64-suse-linux/lib/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../../ia64-suse-linux/lib/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../ /lib/ia64-suse-linux/4.1.2/ /lib/ /usr/lib/ia64-suse-linux/4.1.2/ /usr/lib/"
# Run-time system search path for libraries
sys_lib_dlsearch_path_spec="/lib /usr/lib /usr/X11R6/lib64/Xaw3d /usr/X11R6/lib64 /usr/X11R6/lib/Xaw3d /usr/X11R6/lib /usr/x86_64-suse-linux/lib /usr/local/lib64 /usr/local/lib /opt/kde3/lib64 /opt/kde3/lib /opt/gnome/lib64 /opt/gnome/lib /lib64 /lib /usr/lib64 /usr/lib /opt/cluster/intel/cce/9.1.042/lib /opt/cluster/intel/fce/9.1.036/lib /opt/cluster/Pathscale3.0/lib/2.9.99 /opt/cluster/Pathscale3.0/lib/2.9.99/32 /work/licsoft/compilers/pgi/linux86-64/6.2/lib /work/licsoft/compilers/pgi/linux86-64/6.2/libso "
sys_lib_dlsearch_path_spec="/lib /usr/lib /usr/X11R6/lib/Xaw3d /usr/X11R6/lib /usr/ia64-suse-linux/lib /usr/local/lib /opt/kde3/lib /opt/gnome/lib /work/licsoft/lsf/6.2/linux2.6-glibc2.4-sn-ipf/lib /opt/sgi-dapl/lib /opt/tivoli/tsm/client/api/bin /usr/lib/sgi/intel9/ /usr/lib/sgi/intel8/ /usr/lib/sgi/intel7/ /usr/lib/sysadm/lib "
# Fix the shell variable $srcfile for the compiler.
fix_srcfile_path=""
......@@ -7065,7 +7065,7 @@ include_expsyms=""
# ### BEGIN LIBTOOL TAG CONFIG: F77
# Libtool was configured on host deimos103:
# Libtool was configured on host mars:
# Shell to use when invoking shell scripts.
SHELL="/bin/sh"
......@@ -7087,12 +7087,12 @@ fast_install=yes
# The host system.
host_alias=
host=x86_64-unknown-linux-gnu
host=ia64-unknown-linux-gnu
host_os=linux-gnu
# The build system.
build_alias=
build=x86_64-unknown-linux-gnu
build=ia64-unknown-linux-gnu
build_os=linux-gnu
# An echo program that does not interpret backslashes.
......@@ -7103,22 +7103,22 @@ AR="ar"
AR_FLAGS="cru"
# A C compiler.
LTCC="/licsoft/libraries/openmpi/1.2.6/64bit/bin/mpicc"
LTCC="gcc"
# LTCC compiler flags.
LTCFLAGS="-g -O2"
# A language-specific compiler.
CC="g77"
CC="gfortran"
# Is the compiler the GNU C compiler?
with_gcc=
with_gcc=yes
# An ERE matcher.
EGREP="grep -E"
# The linker used to build libraries.
LD="/usr/x86_64-suse-linux/bin/ld -m elf_x86_64"
LD="/usr/ia64-suse-linux/bin/ld"
# Whether we need hard or soft links.
LN_S="ln -s"
......@@ -7168,7 +7168,7 @@ pic_flag=" -fPIC"
pic_mode=default
# What is the maximum length of a command?
max_cmd_len=32768
max_cmd_len=131072
# Does compiler simultaneously support -c and -o options?
compiler_c_o="yes"
......@@ -7290,10 +7290,10 @@ finish_eval=""
global_symbol_pipe="sed -n -e 's/^.*[ ]\\([ABCDGIRSTW][ABCDGIRSTW]*\\)[ ][ ]*\\([_A-Za-z][_A-Za-z0-9]*\\)\$/\\1 \\2 \\2/p'"
# Transform the output of nm in a proper C declaration
global_symbol_to_cdecl="sed -n -e 's/^. .* \\(.*\\)\$/extern int \\1;/p'"
global_symbol_to_cdecl="sed -n -e 's/^T .* \\(.*\\)\$/extern int \\1();/p' -e 's/^[ABCDGIRSTW]* .* \\(.*\\)\$/extern char \\1;/p'"
# Transform the output of nm in a C name address pair
global_symbol_to_c_name_address="sed -n -e 's/^: \\([^ ]*\\) \$/ {\\\"\\1\\\", (lt_ptr) 0},/p' -e 's/^[BCDEGRST] \\([^ ]*\\) \\([^ ]*\\)\$/ {\"\\2\", (lt_ptr) \\&\\2},/p'"
global_symbol_to_c_name_address="sed -n -e 's/^: \\([^ ]*\\) \$/ {\\\"\\1\\\", (lt_ptr) 0},/p' -e 's/^[ABCDGIRSTW]* \\([^ ]*\\) \\([^ ]*\\)\$/ {\"\\2\", (lt_ptr) \\&\\2},/p'"
# This is the shared library runtime path variable.
runpath_var=LD_RUN_PATH
......@@ -7346,10 +7346,10 @@ variables_saved_for_relink="PATH LD_LIBRARY_PATH LD_RUN_PATH GCC_EXEC_PREFIX COM
link_all_deplibs=unknown
# Compile-time system search path for libraries
sys_lib_search_path_spec=" /usr/lib64/gcc-lib/x86_64-suse-linux/3.3.5/ /usr/lib/gcc/x86_64-suse-linux/3.3.5/ /usr/lib64/gcc-lib/x86_64-suse-linux/3.3.5/../../../../x86_64-suse-linux/lib/x86_64-suse-linux/3.3.5/ /usr/lib64/gcc-lib/x86_64-suse-linux/3.3.5/../../../../x86_64-suse-linux/lib/ /usr/lib64/gcc-lib/x86_64-suse-linux/3.3.5/../../../x86_64-suse-linux/3.3.5/ /usr/lib64/gcc-lib/x86_64-suse-linux/3.3.5/../../../ /lib/x86_64-suse-linux/3.3.5/ /lib/ /usr/lib/x86_64-suse-linux/3.3.5/ /usr/lib/"
sys_lib_search_path_spec=" /usr/lib/gcc/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../../ia64-suse-linux/lib/ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../../ia64-suse-linux/lib/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../ia64-suse-linux/4.1.2/ /usr/lib/gcc/ia64-suse-linux/4.1.2/../../../ /lib/ia64-suse-linux/4.1.2/ /lib/ /usr/lib/ia64-suse-linux/4.1.2/ /usr/lib/"
# Run-time system search path for libraries
sys_lib_dlsearch_path_spec="/lib /usr/lib /usr/X11R6/lib64/Xaw3d /usr/X11R6/lib64 /usr/X11R6/lib/Xaw3d /usr/X11R6/lib /usr/x86_64-suse-linux/lib /usr/local/lib64 /usr/local/lib /opt/kde3/lib64 /opt/kde3/lib /opt/gnome/lib64 /opt/gnome/lib /lib64 /lib /usr/lib64 /usr/lib /opt/cluster/intel/cce/9.1.042/lib /opt/cluster/intel/fce/9.1.036/lib /opt/cluster/Pathscale3.0/lib/2.9.99 /opt/cluster/Pathscale3.0/lib/2.9.99/32 /work/licsoft/compilers/pgi/linux86-64/6.2/lib /work/licsoft/compilers/pgi/linux86-64/6.2/libso "
sys_lib_dlsearch_path_spec="/lib /usr/lib /usr/X11R6/lib/Xaw3d /usr/X11R6/lib /usr/ia64-suse-linux/lib /usr/local/lib /opt/kde3/lib /opt/gnome/lib /work/licsoft/lsf/6.2/linux2.6-glibc2.4-sn-ipf/lib /opt/sgi-dapl/lib /opt/tivoli/tsm/client/api/bin /usr/lib/sgi/intel9/ /usr/lib/sgi/intel8/ /usr/lib/sgi/intel7/ /usr/lib/sysadm/lib "
# Fix the shell variable $srcfile for the compiler.
fix_srcfile_path=""
......
AMDiS/src/ParMetisPartitioner.cc
View file @ cdb9e4ad
#include <queue>
#include "ParMetisPartitioner.h"
#include "Mesh.h"
#include "Traverse.h"
......@@ -8,11 +9,9 @@
#include "DOFVector.h"
#include "mpi.h"
#include <queue>
namespace AMDiS {
ParMetisMesh::ParMetisMesh(Mesh *mesh, MPI::Comm *comm)
ParMetisMesh::ParMetisMesh(Mesh *mesh, MPI::Intracomm *comm)
: dim(mesh->getDim()),
nElements(0),
mpiComm(comm)
......@@ -51,11 +50,10 @@ namespace AMDiS {
elmdist = new int[mpiSize + 1];
elem_p2a = new int[nElements];
if (dim == dow) {
if (dim == dow)
xyz = new float[nElements * dim];
} else {
xyz = NULL;
}
else
xyz = NULL;
eptr[0] = 0;
......@@ -67,9 +65,8 @@ namespace AMDiS {
mpiComm->Allgather(&nElements, 1, MPI_INT, elmdist + 1, 1, MPI_INT);
elmdist[0] = 0;
for (int i = 2; i < mpiSize + 1; i++) {
for (int i = 2; i < mpiSize + 1; i++)
elmdist[i] += elmdist[i - 1];
}
// traverse mesh and fill distributed ParMETIS data
DimVec<double> bary(dim, DEFAULT_VALUE, 1.0 / (dim + 1));
......@@ -141,7 +138,7 @@ namespace AMDiS {
}
ParMetisGraph::ParMetisGraph(ParMetisMesh *parMesh,
MPI::Comm *comm,
MPI::Intracomm *comm,
int ncommonnodes)
: parMetisMesh(parMesh)
{
......@@ -201,11 +198,11 @@ namespace AMDiS {
new PartitionElementData(element->getElementData());
element->setElementData(elData);
if (totalElementCounter % mpiSize == mpiRank) {
if (totalElementCounter % mpiSize == mpiRank)
elData->setPartitionStatus(IN);
} else {
else
elData->setPartitionStatus(UNDEFINED);
}
totalElementCounter++;
elInfo = stack.traverseNext(elInfo);
......@@ -475,9 +472,8 @@ namespace AMDiS {
for (int i = 0; i < mpiSize; i++) {
int *rankStart = rankElements + recvBufferOffset[i];
int *rankEnd = rankStart + nRankElements[i];
for (int *rankPtr = rankStart; rankPtr < rankEnd; ++rankPtr) {
for (int *rankPtr = rankStart; rankPtr < rankEnd; ++rankPtr)
elementInPartition[*rankPtr] = true;
}
}
TraverseStack stack;
......@@ -491,11 +487,11 @@ namespace AMDiS {
if (partitionData && partitionData->getLevel() == 0) {
int amdisIndex = element->getIndex();
if (elementInPartition[amdisIndex]) {
if (elementInPartition[amdisIndex])
partitionData->setPartitionStatus(IN);
} else {
else
partitionData->setPartitionStatus(OUT);
}
descendPartitionData(element);
}
......@@ -551,12 +547,10 @@ namespace AMDiS {
PartitionElementData *partitionData = dynamic_cast<PartitionElementData*>
(element->getElementData(PARTITION_ED));
if (partitionData) {
if (partitionData->getLevel() == 0) {
if (partitionData->getLevel() == 0)
partition = (*(coarseVec))[element->getIndex()];
}
if(element->isLeaf()) {
if (element->isLeaf())
(*(fineVec))[element->getIndex()] = partition;
}
}
elInfo = stack.traverseNext(elInfo);
}
......
AMDiS/src/ParMetisPartitioner.h
View file @ cdb9e4ad
......@@ -25,7 +25,9 @@
#include <map>
#include <set>
#include "parmetis.h"
#include <Global.h>
#include "Global.h"
#include "mpi.h"
namespace AMDiS {
class FiniteElemSpace;
......@@ -43,53 +45,64 @@ namespace AMDiS {
class ParMetisMesh
{
public:
ParMetisMesh(Mesh *mesh, MPI::Comm *comm);
ParMetisMesh(Mesh *mesh, MPI::Intracomm *comm);
~ParMetisMesh();
inline void setParMetisIndex(int amdisIndex, int parMetisIndex) {
inline void setParMetisIndex(int amdisIndex, int parMetisIndex)
{
elem_a2p[amdisIndex] = parMetisIndex + 1;
}
inline int getParMetisIndex(int amdisIndex) {
inline int getParMetisIndex(int amdisIndex)
{
int result = elem_a2p[amdisIndex];
TEST_EXIT(result > 0)("invalid index\n");
return result - 1;
}
inline void setAMDiSIndex(int parMetisIndex, int amdisIndex) {
inline void setAMDiSIndex(int parMetisIndex, int amdisIndex)
{
elem_p2a[parMetisIndex] = amdisIndex;
}
inline int getAMDiSIndex(int parMetisIndex) {
inline int getAMDiSIndex(int parMetisIndex)
{
return elem_p2a[parMetisIndex];
}
inline int *getAMDiSIndices() {
inline int *getAMDiSIndices()
{
return elem_p2a;
}
inline int *getElementPtr() {
inline int *getElementPtr()
{
return eptr;
}
inline int *getElementInd() {
inline int *getElementInd()
{
return eind;
}
inline int *getElementDist() {
inline int *getElementDist()
{
return elmdist;
}
inline int getDim() {
inline int getDim()
{
return dim;
}
inline float *getXYZ() {
inline float *getXYZ()
{
return xyz;
}
inline int getNumElements() {
inline int getNumElements()
{
return nElements;
}
......@@ -119,7 +132,7 @@ namespace AMDiS {
int *elem_p2a;
/// The MPI communicator that should be used for mesh partition.
MPI::Comm *mpiComm;
MPI::Intracomm *mpiComm;
};
......@@ -127,16 +140,18 @@ namespace AMDiS {
{
public:
ParMetisGraph(ParMetisMesh *parMetisMesh,
MPI::Comm *comm,
MPI::Intracomm *comm,
int ncommonnodes = -1);
~ParMetisGraph();
inline int *getXAdj() {
inline int *getXAdj()
{
return xadj;
}
inline int *getAdjncy() {
inline int *getAdjncy()
{
return adjncy;
}
......@@ -152,7 +167,7 @@ namespace AMDiS {
class ParMetisPartitioner
{
public:
ParMetisPartitioner(Mesh *mesh, MPI::Comm *comm)
ParMetisPartitioner(Mesh *mesh, MPI::Intracomm *comm)
: mesh_(mesh),
mpiComm(comm),
parMetisMesh(NULL)
......@@ -187,7 +202,7 @@ namespace AMDiS {
protected:
Mesh *mesh_;
MPI::Comm *mpiComm;
MPI::Intracomm *mpiComm;
ParMetisMesh *parMetisMesh;
};
......
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