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Zoltan is added as thirdParty package

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Hamidreza
2025-05-15 21:58:43 +03:30
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.gitignore vendored
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*.out
*.app
# directories
# Exclude specific directories wherever they appear
build/**
include/**
bin/**
lib/**
**/build/
**/include/
**/bin/
**/lib/
test*/**
**/**notnow
doc/code-documentation/
@ -61,3 +65,5 @@ doc/DTAGS
**/[0-9]*.[0-9][0-9][0-9][0-9][0-9][0-9][0-9]
**/[0-9]*.[0-9][0-9][0-9][0-9][0-9][0-9][0-9][0-9]
**/VTK

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# Third-party packages used in PhasicFlow
This folder contains the third-party packages that are used by PhasicFlow. Since the source code is under the main directory of the project, they are downloaded with the source code. But this does not mean that these packages are maintained by PhasicFlow or they are a part of the project.
## [Zoltan](./Zoltan/)
This package is used for space-decomposition and load balancing for MPI execution of the code.
## Thrust
This package is a parallel library developed by NVIDIA. It is built for either CUDA or OpenMP depending of the type of build.

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#
# A) Define the package
#
TRIBITS_PACKAGE(Zoltan)
#
# B) Set up package-specific options
#
TRIBITS_ADD_OPTION_AND_DEFINE( ${PACKAGE_NAME}_ENABLE_UINT_IDS
UNSIGNED_INT_GLOBAL_IDS
"typedef unsigned int ZOLTAN_ID_TYPE"
OFF )
TRIBITS_ADD_OPTION_AND_DEFINE( ${PACKAGE_NAME}_ENABLE_ULONG_IDS
UNSIGNED_LONG_GLOBAL_IDS
"typedef unsigned long ZOLTAN_ID_TYPE"
OFF )
TRIBITS_ADD_OPTION_AND_DEFINE( ${PACKAGE_NAME}_ENABLE_ULLONG_IDS
UNSIGNED_LONG_LONG_GLOBAL_IDS
"typedef unsigned long long ZOLTAN_ID_TYPE"
OFF )
TRIBITS_ADD_OPTION_AND_DEFINE(${PACKAGE_NAME}_ENABLE_HUND
HAVE_ZOLTAN_HUND
"Enable support for HUND in ${PACKAGE_NAME}."
OFF )
TRIBITS_ADD_OPTION_AND_DEFINE(${PACKAGE_NAME}_ENABLE_KNUTH_HASH
HAVE_ZOLTAN_KNUTH_HASH
"Enable support for Knuth's hash function in ${PACKAGE_NAME}."
OFF )
TRIBITS_ADD_OPTION_AND_DEFINE(${PACKAGE_NAME}_ENABLE_F90INTERFACE
BUILD_ZOLTAN_F90_INTERFACE
"Enable build of F90 interface to ${PACKAGE_NAME}."
OFF )
TRIBITS_ADD_OPTION_AND_DEFINE(${PACKAGE_NAME}_ENABLE_PURIFY
HAVE_PURIFY
"Enable work-arounds to purify bugs."
OFF )
OPTION(${PACKAGE_NAME}_ENABLE_CPPDRIVER
"Enable C++ driver for ${PACKAGE_NAME}."
${${PROJECT_NAME}_ENABLE_CXX} )
IF (${PROJECT_NAME}_ENABLE_CXX)
SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -DMPICH_IGNORE_CXX_SEEK")
ENDIF()
IF(${PROJECT_NAME}_ENABLE_Fortran AND BUILD_ZOLTAN_F90_INTERFACE)
# Special Fortran compiler-specific flags
IF (${CMAKE_Fortran_COMPILER_ID} MATCHES "PGI")
SET(CMAKE_Fortran_FLAGS "${CMAKE_Fortran_FLAGS} -DPGI")
SET(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} -DPGI")
ENDIF()
IF (${CMAKE_Fortran_COMPILER_ID} MATCHES "LAHEY")
SET(CMAKE_Fortran_FLAGS "${CMAKE_Fortran_FLAGS} -DFUJITSU")
SET(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} -DFUJITSU")
ENDIF()
SET(ZOLTAN_BUILD_ZFDRIVE YES)
ENDIF()
#
# C) Add the libraries, tests, and examples
#
IF (NOT TPL_ENABLE_MPI)
ADD_SUBDIRECTORY(siMPI)
SET(ZOLTAN_BUILD_ZFDRIVE NO)
ENDIF()
ADD_SUBDIRECTORY(src)
TRIBITS_ADD_TEST_DIRECTORIES(src/driver)
IF(ZOLTAN_BUILD_ZFDRIVE)
# CMAKE version > 2.6.4 is needed; earlier versions use C++ compiler to link
# fdriver, while fdriver needs F90.
TRIBITS_ADD_TEST_DIRECTORIES(src/fdriver)
ENDIF()
TRIBITS_ADD_TEST_DIRECTORIES(test)
TRIBITS_ADD_EXAMPLE_DIRECTORIES(example)
TRIBITS_EXCLUDE_FILES(
test/ch_brack2_3
test/ch_bug
test/ch_degenerate
test/ch_degenerateAA
test/ch_drake
test/ch_grid20x19
test/ch_hammond
test/ch_hammond2
test/ch_hughes
test/ch_nograph
test/ch_onedbug
test/ch_random
test/ch_serial
test/ch_slac
test/hg_cage10
test/hg_diag500_4
test/hg_ewgt
test/hg_felix
test/hg_ibm03
test/hg_ml27
test/hg_nograph
test/hg_vwgt
test/nem_ti_20k
test/nem_ti_4k
test/misc_siefert
test/th
test/bin
doc/Zoltan_html/tu_html
src/ZoltanComponent
src/driver_old
src/fdriver_old
)
#
# D) Do standard postprocessing
#
TRIBITS_PACKAGE_POSTPROCESS()

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/*
* @HEADER
*
* ***********************************************************************
*
* Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
* Copyright 2012 Sandia Corporation
*
* Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
* the U.S. Government retains certain rights in this software.
*
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions are
* met:
*
* 1. Redistributions of source code must retain the above copyright
* notice, this list of conditions and the following disclaimer.
*
* 2. Redistributions in binary form must reproduce the above copyright
* notice, this list of conditions and the following disclaimer in the
* documentation and/or other materials provided with the distribution.
*
* 3. Neither the name of the Corporation nor the names of the
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
* EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
* IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
* PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
* SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
* Questions? Contact Karen Devine kddevin@sandia.gov
* Erik Boman egboman@sandia.gov
*
* ***********************************************************************
*
* @HEADER
*/

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Zoltan Library for Parallel Applications
Neither Sandia, the government, the DOE, nor any of their employees, makes
any warranty, express or implied, or assumes any legal liability or
responsibility for the accuracy, completeness, or usefulness of any
information, apparatus, product, or process disclosed, or represents that
its use would not infringe privately owned rights. This information is made
available on an "AS-IS" basis.
ALL WARRANTIES, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
EXCLUDED HEREUNDER.
Neither Sandia nor the Government, nor their agents, officers and employees
shall be liable for any loss, damage (including, incidental, consequential
and special), injury or other casualty of whatsoever kind, or by whomsoever
caused, to the person or property of anyone arising out of or resulting from
this information, or the accuracy and validity of this information.

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Problems existing in Zoltan.
This file was last updated on $Date$
-------------------------------------------------------------------------------
ERROR CONDITIONS IN ZOLTAN
When a processor returns from Zoltan to the application due to an error
condition, other processors do not necessarily return the same condition.
In fact, other processors may not know that the processor has quit Zoltan,
and may hang in a communication (waiting for a message that is not sent
due to the error condition). The parallel error-handling capabilities of
Zoltan will be improved in future releases.
-------------------------------------------------------------------------------
RCB/RIB ON ASCI RED
On ASCI Red, the number of context IDs (e.g., MPI Communicators) is limited
to 8192. The environment variable MPI_REUSE_CONTEXT_IDS must be set to
reuse the IDs; setting this variable, however, slows performance.
An alternative is to set Zoltan_Parameter TFLOPS_SPECIAL to "1". With
TFLOPS_SPECIAL set, communicators in RCB/RIB are not split and, thus, the
application is less likely to run out of context IDs. However, ASCI Red
also has a bug that is exposed by TFLOPS_SPECIAL; when messages that use
MPI_Send/MPI_Recv within RCB/RIB exceed the MPI_SHORT_MSG_SIZE, MPI_Recv
hangs. We do not expect these conditions to exist on future platforms and,
indeed, plan to make TFLOPS_SPECIAL obsolete in future versions of Zoltan
rather than re-work it with MPI_Irecv. -- KDD 10/5/2004
-------------------------------------------------------------------------------
ERROR CONDITIONS IN OCTREE, PARMETIS AND JOSTLE
On failure, OCTREE, ParMETIS and Jostle methods abort rather than return
error codes.
-------------------------------------------------------------------------------
ZOLTAN_INITIALIZE BUT NO ZOLTAN_FINALIZE
If Zoltan_Initialize calls MPI_Init, then MPI_Finalize
will never be called because there is no Zoltan_Finalize routine.
If the application uses MPI and calls MPI_Init and MPI_Finalize,
then there is no problem.
-------------------------------------------------------------------------------
HETEROGENEOUS ENVIRONMENTS
Some parts of Zoltan currently assume that basic data types like
integers and real numbers (floats) have identical representation
on all processors. This may not be true in a heterogeneous
environment. Specifically, the unstructured (irregular) communication
library is unsafe in a heterogeneous environment. This problem
will be corrected in a future release of Zoltan for heterogeneous
systems.
-------------------------------------------------------------------------------
F90 ISSUES
Pacific Sierra Research (PSR) Vastf90 is not currently supported due to bugs
in the compiler with no known workarounds. It is not known when or if this
compiler will be supported.
N.A.Software FortranPlus is not currently supported due to problems with the
query functions. We anticipate that this problem can be overcome, and support
will be added soon.
-------------------------------------------------------------------------------
PROBLEMS EXISTING IN PARMETIS
(Reported to the ParMETIS development team at the University of Minnesota,
metis@cs.umn.edu)
Name: Free-memory write in PartGeomKway
Version: ParMETIS 3.1.1
Symptom: Free-memory write reported by Purify and Valgrind for graphs with
no edges.
Description:
For input graphs with no (or, perhaps, few) edges, Purify and Valgrind
report writes to already freed memory as shown below.
FMW: Free memory write:
* This is occurring while in thread 22199:
SetUp(void) [setup.c:80]
PartitionSmallGraph(void) [weird.c:39]
ParMETIS_V3_PartGeomKway [gkmetis.c:214]
Zoltan_ParMetis [parmetis_interface.c:280]
Zoltan_LB [lb_balance.c:384]
Zoltan_LB_Partition [lb_balance.c:91]
run_zoltan [dr_loadbal.c:581]
main [dr_main.c:386]
__libc_start_main [libc.so.6]
_start [crt1.o]
* Writing 4 bytes to 0xfcd298 in the heap.
* Address 0xfcd298 is at the beginning of a freed block of 4 bytes.
* This block was allocated from thread -1781075296:
malloc [rtlib.o]
GKmalloc(void) [util.c:151]
idxmalloc(void) [util.c:100]
AllocateWSpace [memory.c:28]
ParMETIS_V3_PartGeomKway [gkmetis.c:123]
Zoltan_ParMetis [parmetis_interface.c:280]
Zoltan_LB [lb_balance.c:384]
Zoltan_LB_Partition [lb_balance.c:91]
run_zoltan [dr_loadbal.c:581]
main [dr_main.c:386]
__libc_start_main [libc.so.6]
_start [crt1.o]
* There have been 10 frees since this block was freed from thread 22199:
GKfree(void) [util.c:168]
Mc_MoveGraph(void) [move.c:92]
ParMETIS_V3_PartGeomKway [gkmetis.c:149]
Zoltan_ParMetis [parmetis_interface.c:280]
Zoltan_LB [lb_balance.c:384]
Zoltan_LB_Partition [lb_balance.c:91]
run_zoltan [dr_loadbal.c:581]
main [dr_main.c:386]
__libc_start_main [libc.so.6]
_start [crt1.o]
Reported: Reported 8/31/09 http://glaros.dtc.umn.edu/flyspray/task/50
Status: Reported 8/31/09
Name: PartGeom limitation
Version: ParMETIS 3.0, 3.1
Symptom: inaccurate number of partitions when # partitions != # processors
Description:
ParMETIS method PartGeom produces decompositions with #-processor
partitions only. Zoltan parameters NUM_GLOBAL_PARTITIONS and
NUM_LOCAL_PARTITIONS will be ignored.
Reported: Not yet reported.
Status: Not yet reported.
Name: vsize array freed in ParMetis
Version: ParMETIS 3.0 and 3.1
Symptom: seg. fault, core dump at runtime
Description:
When calling ParMETIS_V3_AdaptiveRepart with the vsize parameter,
ParMetis will try to free the vsize array even if it was
allocated in Zoltan. Zoltan will then try to free vsize again
later, resulting in a fatal error. As a temporary fix,
Zoltan will never call ParMetis with the vsize parameter.
Reported: 11/25/2003.
Status: Acknowledged by George Karypis.
Name: ParMETIS_V3_AdaptiveRepart and ParMETIS_V3_PartKWay crash
for zero-sized partitions.
Version: ParMETIS 3.1
Symptom: run-time error "killed by signal 8" on DEC. FPE, divide-by-zero.
Description:
Metis divides by partition size; thus, zero-sized partitions
cause a floating-point exception.
Reported: 9/9/2003.
Status: ?
Name: ParMETIS_V3_AdaptiveRepart dies for zero-sized partitions.
Version: ParMETIS 3.0
Symptom: run-time error "killed by signal 8" on DEC. FPE, divide-by-zero.
Description:
ParMETIS_V3_AdaptiveRepart divides by partition size; thus, zero-sized
partitions cause a floating-point exception. This problem is exhibited in
adaptive-partlocal3 tests. The tests actually run on Sun and Linux machines
(which don't seem to care about the divide-by-zero), but cause an FPE
signal on DEC (Compaq) machines.
Reported: 1/23/2003.
Status: Fixed in ParMetis 3.1, but new problem appeared (see above).
Name: ParMETIS_V3_AdaptiveRepart crashes when no edges.
Version: ParMETIS 3.0
Symptom: Floating point exception, divide-by-zero.
Description:
Divide-by-zero in ParMETISLib/adrivers.c, function Adaptive_Partition,
line 40.
Reported: 1/23/2003.
Status: Fixed in ParMetis 3.1.
Name: Uninitialized memory read in akwayfm.c.
Version: ParMETIS 3.0
Symptom: UMR warning.
Description:
UMR in ParMETISLib/akwayfm.c, function Moc_KWayAdaptiveRefine, near line 520.
Reported: 1/23/2003.
Status: Fixed in ParMetis 3.1.
Name: Memory leak in wave.c
Version: ParMETIS 3.0
Symptom: Some memory not freed.
Description:
Memory leak in ParMETISLib/wave.c, function WavefrontDiffusion;
memory for the following variables is not always freed:
solution, perm, workspace, cand
We believe the early return near line 111 causes the problem.
Reported: 1/23/2003.
Status: Fixed in ParMetis 3.1.
Name: tpwgts ignored for small graphs.
Version: ParMETIS 3.0
Symptom: incorrect output (partitioning)
Description:
When using ParMETIS_V3_PartKway to partition into partitions
of unequal sizes, the input array tpwgts is ignored and
uniform-sized partitions are computed. This bug shows up when
(a) the number of vertices is < 10000 and (b) only one weight
per vertex is given (ncon=1).
Reported: Reported to George Karypis and metis@cs.umn.edu on 2002/10/30.
Status: Fixed in ParMetis 3.1.
Name: AdaptiveRepart crashes on partless test.
Version: ParMETIS 3.0
Symptom: run-time segmentation violation.
Description:
ParMETIS_V3_AdaptiveRepart crashes with a SIGSEGV if
the input array _part_ contains any value greater then
the desired number of partitions, nparts. This shows up
in Zoltan's "partless" test cases.
Reported: Reported to George Karypis and metis@cs.umn.edu on 2002/12/02.
Status: Fixed in ParMetis 3.1.
Name: load imbalance tolerance
Version: ParMETIS 2.0
Symptom: missing feature
Description:
The load imbalance parameter UNBALANCE_FRACTION can
only be set at compile-time. With Zoltan it is
necessary to be able to set this parameter at run-time.
Reported: Reported to metis@cs.umn.edu on 19 Aug 1999.
Status: Fixed in version 3.0.
Name: no edges
Version: ParMETIS 2.0
Symptom: segmentation fault at run time
Description:
ParMETIS crashes if the input graph has no edges and
ParMETIS_PartKway is called. We suspect all the graph based
methods crash. From the documentation it is unclear if
a NULL pointer is a valid input for the adjncy array.
Apparently, the bug occurs both with NULL as input or
a valid pointer to an array.
Reported: Reported to metis@cs.umn.edu on 5 Oct 1999.
Status: Fixed in version 3.0.
Name: no vertices
Version: ParMETIS 2.0, 3.0, 3.1
Symptom: segmentation fault at run time
Description:
ParMETIS may crash if a processor owns no vertices.
The extent of this bug is not known (which methods are affected).
Again, it is unclear if NULL pointers are valid input.
Reported: Reported to metis@cs.umn.edu on 6 Oct 1999.
Status: Fixed in 3.0 and 3.1 for the graph methods, but not the geometric methods.
New bug report sent on 2003/08/20.
Name: partgeom bug
Version: ParMETIS 2.0
Symptom: floating point exception
Description:
For domains where the global delta_x, delta_y, or delta_z (in 3D)
is zero (e.g., all nodes lie along the y-axis), a floating point
exception can occur when the partgeom algorithm is used.
Reported: kirk@cs.umn.edu in Jan 2001.
Status: Fixed in version 3.0.
-------------------------------------------------------------------------------

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# @HEADER
#
########################################################################
#
# Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
# Copyright 2012 Sandia Corporation
#
# Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
# the U.S. Government retains certain rights in this software.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
#
# 2. Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
#
# 3. Neither the name of the Corporation nor the names of the
# contributors may be used to endorse or promote products derived from
# this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
# EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
# PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
# CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
# EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
# PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
# LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
# NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
#
# Questions? Contact Karen Devine kddevin@sandia.gov
# Erik Boman egboman@sandia.gov
#
########################################################################
#
# @HEADER
## #######################################################################
## Options to automake (rarely used - don't worry about it)
## #######################################################################
AUTOMAKE_OPTIONS = foreign
## #######################################################################
## Aclocal command (rarely used - don't worry about it)
## #######################################################################
ACLOCAL_AMFLAGS = -I config
## #######################################################################
## Additional files to be included in distribution for 'make dist'
## #######################################################################
ZOLTAN_TESTS = \
test/test_zoltan \
test/runtests \
test/ctest_zoltan.pl \
test/ch_simple \
test/hg_simple
ZOLTAN_DOCS = \
doc/Zoltan_html/Zoltan.html \
doc/Zoltan_html/Zoltan_FAQ.html \
doc/Zoltan_html/Zoltan_bugreport.html \
doc/Zoltan_html/Zoltan_cite.html \
doc/Zoltan_html/Zoltan_construction.html \
doc/Zoltan_html/Zoltan_phil.html \
doc/Zoltan_html/Zoltan_pubs.html \
doc/Zoltan_html/dev_html/brack3d.png \
doc/Zoltan_html/dev_html/dev.html \
doc/Zoltan_html/dev_html/dev_add.html \
doc/Zoltan_html/dev_html/dev_add_interface.html \
doc/Zoltan_html/dev_html/dev_add_lb.html \
doc/Zoltan_html/dev_html/dev_add_memory.html \
doc/Zoltan_html/dev_html/dev_add_params.html \
doc/Zoltan_html/dev_html/dev_add_remap.html \
doc/Zoltan_html/dev_html/dev_add_struct.html \
doc/Zoltan_html/dev_html/dev_cpp.html \
doc/Zoltan_html/dev_html/dev_degenerate.html \
doc/Zoltan_html/dev_html/dev_dist.html \
doc/Zoltan_html/dev_html/dev_dist_compile.html \
doc/Zoltan_html/dev_html/dev_dist_cvs.html \
doc/Zoltan_html/dev_html/dev_dist_dir.html \
doc/Zoltan_html/dev_html/dev_driver.html \
doc/Zoltan_html/dev_html/dev_fortran.html \
doc/Zoltan_html/dev_html/dev_hier.html \
doc/Zoltan_html/dev_html/dev_hsfc.html \
doc/Zoltan_html/dev_html/dev_intro.html \
doc/Zoltan_html/dev_html/dev_intro_coding.html \
doc/Zoltan_html/dev_html/dev_intro_philosophy.html \
doc/Zoltan_html/dev_html/dev_intro_sqe.html \
doc/Zoltan_html/dev_html/dev_lb.html \
doc/Zoltan_html/dev_html/dev_lb_interface.html \
doc/Zoltan_html/dev_html/dev_lb_structs.html \
doc/Zoltan_html/dev_html/dev_lb_types.html \
doc/Zoltan_html/dev_html/dev_mig.html \
doc/Zoltan_html/dev_html/dev_parmetis.html \
doc/Zoltan_html/dev_html/dev_phg.html \
doc/Zoltan_html/dev_html/dev_rcb.html \
doc/Zoltan_html/dev_html/dev_refs.html \
doc/Zoltan_html/dev_html/dev_reftree.html \
doc/Zoltan_html/dev_html/dev_rib.html \
doc/Zoltan_html/dev_html/dev_services.html \
doc/Zoltan_html/dev_html/dev_services_debug.html \
doc/Zoltan_html/dev_html/dev_services_hash.html \
doc/Zoltan_html/dev_html/dev_services_objlist.html \
doc/Zoltan_html/dev_html/dev_services_parallel.html \
doc/Zoltan_html/dev_html/dev_services_params.html \
doc/Zoltan_html/dev_html/dev_services_time.html \
doc/Zoltan_html/dev_html/dev_services_zoltantimer.html \
doc/Zoltan_html/dev_html/dev_test_script.html \
doc/Zoltan_html/dev_html/dev_view.html \
doc/Zoltan_html/dev_html/film2d.png \
doc/Zoltan_html/dev_html/hammondMesh.png \
doc/Zoltan_html/dev_html/hammondPoints.png \
doc/Zoltan_html/dev_html/zdrive.inp \
doc/Zoltan_html/ug_html/figures/arrow.gif \
doc/Zoltan_html/ug_html/figures/HGFigure.gif \
doc/Zoltan_html/ug_html/figures/hierexample.fig \
doc/Zoltan_html/ug_html/figures/hierexample.gif \
doc/Zoltan_html/ug_html/figures/Z.gif \
doc/Zoltan_html/ug_html/ug.html \
doc/Zoltan_html/ug_html/ug_alg.html \
doc/Zoltan_html/ug_html/ug_alg_block.html \
doc/Zoltan_html/ug_html/ug_alg_geom.html \
doc/Zoltan_html/ug_html/ug_alg_graph.html \
doc/Zoltan_html/ug_html/ug_alg_hier.html \
doc/Zoltan_html/ug_html/ug_alg_hsfc.html \
doc/Zoltan_html/ug_html/ug_alg_hypergraph.html \
doc/Zoltan_html/ug_html/ug_alg_jostle.html \
doc/Zoltan_html/ug_html/ug_alg_oct.html \
doc/Zoltan_html/ug_html/ug_alg_parkway.html \
doc/Zoltan_html/ug_html/ug_alg_parmetis.html \
doc/Zoltan_html/ug_html/ug_alg_patoh.html \
doc/Zoltan_html/ug_html/ug_alg_phg.html \
doc/Zoltan_html/ug_html/ug_alg_ptscotch.html \
doc/Zoltan_html/ug_html/ug_alg_random.html \
doc/Zoltan_html/ug_html/ug_alg_rcb.html \
doc/Zoltan_html/ug_html/ug_alg_reftree.html \
doc/Zoltan_html/ug_html/ug_alg_rib.html \
doc/Zoltan_html/ug_html/ug_alg_simple.html \
doc/Zoltan_html/ug_html/ug_backward.html \
doc/Zoltan_html/ug_html/ug_color.html \
doc/Zoltan_html/ug_html/ug_color_parallel.html \
doc/Zoltan_html/ug_html/ug_cpp.html \
doc/Zoltan_html/ug_html/ug_examples.html \
doc/Zoltan_html/ug_html/ug_examples_init.html \
doc/Zoltan_html/ug_html/ug_examples_lb.html \
doc/Zoltan_html/ug_html/ug_examples_mig.html \
doc/Zoltan_html/ug_html/ug_examples_query.html \
doc/Zoltan_html/ug_html/ug_fortran.html \
doc/Zoltan_html/ug_html/ug_graph_vs_hg.html \
doc/Zoltan_html/ug_html/ug_index.html \
doc/Zoltan_html/ug_html/ug_interface.html \
doc/Zoltan_html/ug_html/ug_interface_augment.html \
doc/Zoltan_html/ug_html/ug_interface_color.html \
doc/Zoltan_html/ug_html/ug_interface_init.html \
doc/Zoltan_html/ug_html/ug_interface_lb.html \
doc/Zoltan_html/ug_html/ug_interface_mig.html \
doc/Zoltan_html/ug_html/ug_interface_order.html \
doc/Zoltan_html/ug_html/ug_intro.html \
doc/Zoltan_html/ug_html/ug_order.html \
doc/Zoltan_html/ug_html/ug_order_parmetis.html \
doc/Zoltan_html/ug_html/ug_order_ptscotch.html \
doc/Zoltan_html/ug_html/ug_param.html \
doc/Zoltan_html/ug_html/ug_query.html \
doc/Zoltan_html/ug_html/ug_query_lb.html \
doc/Zoltan_html/ug_html/ug_query_mig.html \
doc/Zoltan_html/ug_html/ug_refs.html \
doc/Zoltan_html/ug_html/ug_release.html \
doc/Zoltan_html/ug_html/ug_usage.html \
doc/Zoltan_html/ug_html/ug_util.html \
doc/Zoltan_html/ug_html/ug_util_comm.html \
doc/Zoltan_html/ug_html/ug_util_dd.html \
doc/Zoltan_html/ug_html/ug_util_mem.html
ZOLTAN_SAMPLE = \
SampleConfigurationScripts/mac_osX_no_fortran \
SampleConfigurationScripts/linux_with_purify_zoltan_only \
SampleConfigurationScripts/mac_osX_zoltan_only \
SampleConfigurationScripts/linux_zoltan_only \
SampleConfigurationScripts/linux_trilinos_runtests \
SampleConfigurationScripts/linux_zoltan_dist \
SampleConfigurationScripts/mac_osX_zoltan_dist
ZOLTAN_CMAKE = \
CMakeLists.txt \
src/CMakeLists.txt \
src/driver/CMakeLists.txt \
src/fdriver/CMakeLists.txt \
test/CMakeLists.txt \
test/ch_simple/CMakeLists.txt \
test/hg_simple/CMakeLists.txt \
cmake/Dependencies.cmake \
cmake/Zoltan_config.h.in
EXTRA_DIST = config/generate-makeoptions.pl \
README.html README.txt \
config/strip_dup_incl_paths.pl config/strip_dup_libs.pl \
config/replace-install-prefix.pl config/string-replace.pl \
config/token-replace.pl \
Disclaimer GNU_Lesser_GPL.txt Known_Problems VERSION \
$(ZOLTAN_DOCS) $(ZOLTAN_SAMPLE) $(ZOLTAN_TESTS)
## #######################################################################
## Tools in the auxillary directory
## #######################################################################
AUX_DIST = config/install-sh config/missing config/mkinstalldirs
## #######################################################################
## Files to be deleted by 'make maintainer-clean'
## #######################################################################
MAINTAINERCLEANFILES = Makefile.in aclocal.m4 autom4te.cache/* \
configure config.status config.log \
src/common/config-h.in src/common/stamp-h.in \
$(AUX_DIST)
#The following line helps the test harness recover from build errors.
all-local:
@echo ""
@echo "Trilinos package zoltan built successfully."
@echo ""
## #######################################################################
## Subdirectories to be make'd recursively
## #######################################################################
#We now build tests and examples through separate make targets, rather than
#during "make". We still need to conditionally include the test and example
#in SUBDIRS, even though BUILD_TESTS and BUILD_EXAMPLES will never be
#defined, so that the tests and examples are included in the distribution
#tarball.
#Add this later
if SUB_TEST
TEST_SUBDIR=
endif
if SUB_EXAMPLE
EXAMPLE_SUBDIR=example
endif
if BUILD_TESTS
tests: examples
@echo ""
@echo "Now building zoltan tests."
@echo ""
@echo "Zoltan tests use drivers and input files; no compilation necessary."
@echo ""
@echo "Finished building zoltan tests."
@echo ""
else
tests:
@echo "zoltan tests were disabled at configure time"
endif
if BUILD_EXAMPLES
examples:
@echo ""
@echo "Now building zoltan examples."
@echo ""
cd $(top_builddir)/example && $(MAKE)
@echo ""
@echo "Finished building zoltan examples."
@echo ""
install-examples:
cd $(top_builddir)/example && $(MAKE) install
else
examples:
@echo "zoltan examples were disabled at configure time"
install-examples:
@echo "zoltan examples were disabled at configure time"
endif
clean-tests:
cd $(top_builddir)/test && $(MAKE) clean
clean-examples:
cd $(top_builddir)/example && $(MAKE) clean
everything:
$(MAKE) && $(MAKE) examples && $(MAKE) tests
clean-everything:
$(MAKE) clean-examples && $(MAKE) clean-tests && $(MAKE) clean
install-everything:
$(MAKE) install && $(MAKE) install-examples
if HAVE_MPI
SIMPI_SUBDIR=
else
SIMPI_SUBDIR=siMPI
endif
SUBDIRS = $(SIMPI_SUBDIR) src $(EXAMPLE_SUBDIR) $(TEST_SUBDIR)
## #######################################################################
## The below targets allow you to use the new
## testharness to run the test suite as make targets
## #######################################################################
TRILINOS_HOME_DIR=@abs_top_srcdir@/../..
TRILINOS_BUILD_DIR=@abs_top_builddir@/../..
TRILINOS_MPI_MAX_PROC=4
TRILINOS_TEST_CATEGORY=INSTALL
runtests-serial :
$(PERL_EXE) $(TRILINOS_HOME_DIR)/commonTools/test/utilities/runtests \
--trilinos-dir=$(TRILINOS_HOME_DIR) \
--comm=serial \
--build-dir=$(TRILINOS_BUILD_DIR) \
--category=$(TRILINOS_TEST_CATEGORY) \
--output-dir=@abs_top_builddir@/test/runtests-results \
--verbosity=1 \
--packages=zoltan
runtests-mpi :
$(PERL_EXE) $(TRILINOS_HOME_DIR)/commonTools/test/utilities/runtests \
--trilinos-dir=$(TRILINOS_HOME_DIR) \
--comm=mpi \
--mpi-go=$(TRILINOS_MPI_GO) \
--build-dir=$(TRILINOS_BUILD_DIR) \
--max-proc=$(TRILINOS_MPI_MAX_PROC) \
--category=$(TRILINOS_TEST_CATEGORY) \
--output-dir=@abs_top_builddir@/test/runtests-results \
--verbosity=1 \
--packages=zoltan
## #######################################################################
## Export makefile stuff
## #######################################################################
if USING_EXPORT_MAKEFILES
install-exec-hook:
mkdir -p $(DESTDIR)$(includedir)
cp $(top_builddir)/Makefile.export.zoltan $(DESTDIR)$(includedir)/.
$(PERL_EXE) $(top_srcdir)/config/replace-install-prefix.pl \
--exec-prefix=$(exec_prefix) \
--my-export-makefile=Makefile.export.zoltan \
--my-abs-top-srcdir=@abs_top_srcdir@ \
--my-abs-incl-dirs=@abs_top_builddir@/src:@abs_top_srcdir@/src \
--my-abs-lib-dirs=@abs_top_builddir@/src
$(PERL_EXE) $(top_srcdir)/config/generate-makeoptions.pl $(top_builddir)/src/Makefile ZOLTAN > $(DESTDIR)$(includedir)/Makefile.export.zoltan.macros
uninstall-hook:
rm -f $(includedir)/Makefile.export.zoltan
rm -f $(includedir)/Makefile.export.zoltan.macros
else
install-exec-hook:
uninstall-hook:
endif
## #######################################################################

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@HAVE_MPI_FALSE@SIMPI_INCDIR = -I@abs_top_srcdir@/siMPI/pyMPI/siMPI
@HAVE_MPI_FALSE@SIMPI_LIBS = -L@abs_top_builddir@/siMPI/pyMPI/siMPI -lsimpi
ZOLTAN_INCLUDES = -I@abs_top_builddir@/src/include -I@abs_top_srcdir@/src/include $(SIMPI_INCDIR)
#@BUILD_FORTRAN90DRIVER_TRUE@ZFORLIBS = @FCLIBS@
@USE_FORTRAN_TRUE@ZFLIBS = @FLIBS@
#The following line can be edited in the case that -lm is not available
@USE_FORTRAN_FALSE@ZFLIBS = -lm
#@BUILD_FORTRAN90DRIVER_FALSE@ZFORLIBS = $(ZFLIBS)
ZFORLIBS = $(ZFLIBS)
ZOLTAN_LIBS = @LDFLAGS@ -L@abs_top_builddir@/src -lzoltan @LIBS@ $(ZFORLIBS) $(SIMPI_LIBS)
ZOLTAN_LIBRARY_INCLUDES = -I@abs_top_builddir@/src/include -I@abs_top_srcdir@/src/include -I@abs_top_srcdir@/src/all -I@abs_top_srcdir@/src/coloring -I@abs_top_srcdir@/src/ha -I@abs_top_srcdir@/src/hier -I@abs_top_srcdir@/src/hsfc -I@abs_top_srcdir@/src/lb -I@abs_top_srcdir@/src/oct -I@abs_top_srcdir@/src/order -I@abs_top_srcdir@/src/par -I@abs_top_srcdir@/src/params -I@abs_top_srcdir@/src/tpls -I@abs_top_srcdir@/src/ccolamd -I@abs_top_srcdir@/src/phg -I@abs_top_srcdir@/src/rcb -I@abs_top_srcdir@/src/reftree -I@abs_top_srcdir@/src/timer -I@abs_top_srcdir@/src/Utilities/Communication -I@abs_top_srcdir@/src/Utilities/Timer -I@abs_top_srcdir@/src/Utilities/DDirectory -I@abs_top_srcdir@/src/Utilities/Memory -I@abs_top_srcdir@/src/Utilities/shared -I@abs_top_srcdir@/src/zz -I@abs_top_srcdir@/src/graph -I@abs_top_srcdir@/src/matrix -I@abs_top_srcdir@/src/simple $(SIMPI_INCDIR)
ZOLTAN_DEPS = @abs_top_builddir@/src/libzoltan.a
############################################################################
#
# Export MPI settings
#
############################################################################
# MPI libraries
ZOLTAN_MPI_LIBS = @MPI_LIBS@
# MPI include path
ZOLTAN_MPI_INC = @MPI_INC@
# Path to MPI libraries
ZOLTAN_MPI_LIBDIR = @MPI_LIBDIR@
# Path to MPI root
ZOLTAN_MPI_DIR = @MPI_DIR@
############################################################################
#
# Export Fortran libraries
#
############################################################################
# Fortran & standard math libs
#ZOLTAN_FCLIBS = @FCLIBS@
ZOLTAN_FLIBS = $(ZFLIBS)
# Extra libraries
ZOLTAN_EXTRA_LIBS = @LIBS@
############################################################################
#
# Export compiler settings
#
############################################################################
# Extra definitions
ZOLTAN_DEFS = @DEFS@
# Fortran compilation flags
@BUILD_FORTRAN90DRIVER_TRUE@ZOLTAN_FCFLAGS = @FCFLAGS@
@USE_FORTRAN_TRUE@ZOLTAN_FFLAGS = @FFLAGS@
# C compilation flags
ZOLTAN_CFLAGS = @CFLAGS@
# C++ compilation flags
ZOLTAN_CXXFLAGS = @CXXFLAGS@
# linker flags
ZOLTAN_LDFLAGS = @LDFLAGS@
############################################################################
#
# Export the ranlib and archiver to be used
#
############################################################################
ZOLTAN_RANLIB = @RANLIB@

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# @HEADER
#
########################################################################
#
# Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
# Copyright 2012 Sandia Corporation
#
# Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
# the U.S. Government retains certain rights in this software.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
#
# 2. Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
#
# 3. Neither the name of the Corporation nor the names of the
# contributors may be used to endorse or promote products derived from
# this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
# EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
# PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
# CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
# EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
# PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
# LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
# NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
#
# Questions? Contact Karen Devine kddevin@sandia.gov
# Erik Boman egboman@sandia.gov
#
########################################################################
#
# @HEADER
@HEADER
**********************************************************************
Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
Copyright 2012 Sandia Corporation
Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
the U.S. Government retains certain rights in this software.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are
met:
1. Redistributions of source code must retain the above copyright
notice, this list of conditions and the following disclaimer.
2. Redistributions in binary form must reproduce the above copyright
notice, this list of conditions and the following disclaimer in the
documentation and/or other materials provided with the distribution.
3. Neither the name of the Corporation nor the names of the
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.
THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
Questions? Contact Karen Devine kddevin@sandia.gov
Erik Boman egboman@sandia.gov
@HEADER
##############################################################################
INSTALLATION
------------
Instructions for building and installing Zoltan using CMAKE or Autotools
are at the following web site:
http://www.cs.sandia.gov/zoltan/ug_html/ug_usage.html

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# @HEADER
#
########################################################################
#
# Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
# Copyright 2012 Sandia Corporation
#
# Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
# the U.S. Government retains certain rights in this software.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
#
# 2. Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
#
# 3. Neither the name of the Corporation nor the names of the
# contributors may be used to endorse or promote products derived from
# this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
# EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
# PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
# CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
# EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
# PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
# LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
# NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
#
# Questions? Contact Karen Devine kddevin@sandia.gov
# Erik Boman egboman@sandia.gov
#
########################################################################
#
# @HEADER
lriesen@sandia.gov
November 29, 2010
Notes on typedefs that were just introduced in order to support 64-bit global counts and IDs:
ZOLTAN_ID_TYPE:
==============
A ZOLTAN_ID_TYPE is still the type that we use for global IDs passed in by the user. However now the ZOLTAN_ID_TYPE can be set at configuration time. It can be unsigned int, unsigned long, or unsigned long long. The default is unsigned int.
In CMake you can choose:
-D Zoltan_ENABLE_UINT_IDS:Bool=ON
-D Zoltan_ENABLE_ULONG_IDS:Bool=ON
-D Zoltan_ENABLE_ULLONG_IDS:Bool=ON
Using autoconf it's:
--with-id-type=uint
--with-id-type=ulong
--with-id-type=ullong
To print a ZOLTAN_ID_TYPE use ZOLTAN_ID_SPEC:
printf("GID: " ZOLTAN_ID_SPEC ", LID %d\n", my_gid, my_lid);
To send a ZOLTAN_ID_TYPE in an MPI message, use ZOLTAN_ID_MPI_TYPE:
MPI_Bcast(&gid, 1, ZOLTAN_ID_MPI_TYPE, 0, MPI_COMM_WORLD);
To silence compiler warnings, you can properly specify a constant of type ZOLTAN_ID_TYPE using ZOLTAN_ID_CONSTANT:
a = ZOLTAN_ID_CONSTANT(99)
ZOLTAN_GNO_TYPE:
===============
ZOLTAN_GNO_TYPE is a new typedef which Zoltan uses for global counts and for internal global IDs regardless of the definition of ZOLTAN_ID_TYPE. It is defined to be ssize_t, so it is signed and it will be 64 bits on a 64-bit architecture and 32 bits on a 32-bit architecture.
The MPI_Datatype for ZOLTAN_GNO_TYPE is returned by Zoltan_mpi_gno_type().
Any time that Zoltan creates a new problem from the application supplied problem it uses ZOLTAN_GNO_TYPE for the object IDs.
indextype and weighttype:
========================
At compile time, the Zoltan library defines indextype and weighttype to coincide with the third party graph libraries, if any, that it has been configured to work with.
The "indextype" will be the data type used by the third party library (TPL) for global IDs.
The "weighttype" will be the data type used by the TPL for weights.
Based on configure-time parameters, Zoltan will recognize and correcty set types for Metis, ParMetis, 32- or 64-bit Scotch or 32- or 64-bit PTScotch.
As a developer, it is important to know where the boundary is in the code for the use of Zoltan's types (ZOLTAN_ID_TYPE, ZOLTAN_GNO_TYPE, float) versus the types used by the TPL (indextype, weighttype). A simplified explanation is that indextype and weighttype are only used in source code that is in the "tpls" directory.
More specifically, it goes like this:
1. Zoltan calls the application query functions to obtain the graph using Zoltan's data types for IDs and weights.
2. Zoltan builds graph and matrix structures in Zoltan_ZG_Build using Zoltan's data types. (I suspect the "ZG" stands for "Zoltan Graph").
3. The graph is exported to the TPL data structures in Zoltan_ZG_Export. This is the point where arrays are converted if necessary to the data types used by the third party libraries. The C-structures with names like ZOLTAN_Third_* and others found in tpls/third_library.h use the indextype and weighttype data types.
4. Of course the TPL is called with indextype and weighttype objects.
5. Zoltan_Postprocess_Graph is called on the TPL structures and writes the ZOLTAN_Output_Part structure which uses Zoltan's data types.
6. Zoltan_Third_Export_User uses the ZOLTAN_Output_Part structure to write the part assignments to the structures returned to the user.
To print a indextype or weighttype use TPL_IDX_SPEC or TPL_WGT_SPEC respectively.
If the TPL weight type is a floating point type, then TPL_FLOAT_WEIGHT will be defined.
If the TPL weight type is an integral type, then TPL_INTEGRAL_WEIGHT will be defined.
Other useful TPL configuration macro definitions can be found in tpls/third_library_const.h.
Zoltan can be configured to use both Scotch and ParMetis as long as the 32-bit version of Scotch is used.
Assumptions:
===========
sizeof(ZOLTAN_GNO_TYPE) >= sizeof(ZOLTAN_ID_TYPE)
sizeof(ZOLTAN_ID_TYPE) >= sizeof(int)
Some changes to support 64-bit IDs:
==================================
Zoltan_Map_Create() used to assume it was handling keys that were multiples of ZOLTAN_ID_TYPEs. Now you supply the number of bytes in the key, not the number of ZOLTAN_ID_TYPEs.
Because testing of this branch involves running large memory problems, I added the function Zoltan_write_linux_meminfo() which will write out the contents of /proc/meminfo on a Linux machine. The new function Zoltan_Memory_Get_Debug() returns the debug level set in mem.c by Zoltan_Memory_Debug(). zdrive has a new input option
zoltan memory debug level = n
which will set the debug level. Then after partitioning, zdrive checks the debug level and if there was an error and it is running on a linux machine it will dump out /proc/meminfo.
I modified the configure script to define HOST_LINUX on a linux machine.
I wrote three tests in tests/Large_Data that test PHG, RCB and RIB with arbitrarily large numbers of objects. They have signal handlers that call Zoltan_write_linux_meminfo() on a Linux machine. One test can be configured to use 64-bit IDs when it has less than 2*10^9 IDs.
Limitations:
===========
The reftree and oct methods have not been converted to support 64-bit global IDs and global numbers.
INTERESTING CHART:
=================
32 and 64 bit data models (ILP - integer/long/pointer):
type LP32 ILP32 ILP64 LLP64 LP64
char 8 8 8 8 8
short 16 16 16 16 16
_int32 32
int 16 32 64 32 32
long 32 32 64 32 64
long long 64
pointer 32 32 64 64 64
ILP32 is most widely used.
LP64 is most widely used.
LLP64 is ILP32 with new 64 bit int added to it - used for Win64.

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# Zoltan
Zoltan Dynamic Load Balancing and Graph Algorithm Toolkit -- Distribution site
The most up-to-date version of Zoltan is in the Trilinos framework at https://github.com/trilinos/Trilinos.
This site provides stand-alone releases of Zoltan, separate from Trilinos: https://github.com/sandialabs/Zoltan/releases. Stand-alone releases of Zoltan may lag the Trilinos repo code.
You can download individual releases of Zoltan from this site, or clone the Trilinos repository
https://github.com/trilinos/Trilinos to get the most up-to-date version of Zoltan. Individual releases are tarballs that can be unzipped and built with autotools/make.
Trilinos clones include Zoltan in directory Trilinos/packages/zoltan. In this directory, you can
build Zoltan separately from Trilinos using autotools/make. Or in the Trilinos repository,
you can build Zoltan using Trilinos' cmake system.
The main Zoltan page is https://sandialabs.github.io/Zoltan/
See https://sandialabs.github.io/Zoltan/ug_html/ug_usage.html
for details on building Zoltan.
Release history: https://sandialabs.github.io/Zoltan/ug_html/ug_release.html
* Version 3.90 (4/08/21; as in Trilinos v13; d328e0e2a8a5c48a4e01d6541cd8c0eb7f364823)
* Version 3.83 (1/28/16; as in Trilinos v12.6; aaf328db7e43001ee2d3148f72f12147e51c3293)
* Version 3.82 (5/1/15; as in Trilinos v12)
* Version 3.81 (11/06/14; as in Trilinos v11.12.2)
* Version 3.8 (10/28/13; as in Trilinos v10.11)
* Version 3.6 (11/2/11; as in Trilinos v10.8)
* Version 3.501 (5/12/11; as in Trilinos v10.6 with additions)
* Version 3.3 (7/31/10; as in Trilinos v10.4)
* Version 3.2 (10/5/09)
* Version 3.1 (9/30/08)
* Version 3.0 (5/30/07)
* Version 2.1 (10/05/06)
* Version 2.0 (7/17/06)
* Version 1.5 (5/29/03)
* Version 1.4 (6/18/02)
* Version 1.3 (3/27/02) -- the Original
Questions? Email zoltan-dev@software.sandia.gov

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Zoltan release notes for Trilinos v12.8
Improved robustness of RCB partitioner for problems where many objects have
weight = 0 (e.g., PIC codes). Convergence is faster and the stopping
criteria are more robust.
Fixed bug that occurred when RETURN_LIST=PARTS and (Num_GID > 1 or Num_LID > 1);
GIDs and LIDs are now copied correctly into return lists.
Fixed a bug related to struct padding in the siMPI serial MPI interface.
-----------------------
Zoltan release notes for Trilinos v12.6
Minor code cleanup and bug fixes.
New Zoltan_Get_Fn interface returning pointers to callback functions.
See zoltan/src/include/zoltan.h for details.
Closest stand-alone Zoltan release is v3.83.
http://www.cs.sandia.gov/Zoltan
-----------------------
Zoltan release notes for Trilinos v11.8
Revised Scotch TPL specification in Trilinos' CMake environment to link
with all libraries needed by Scotch v6.
Fixed bug in interface to ParMETIS v4 when multiple vertex weights are used.
Fixed bug in interface to Scotch when some processor has no vertices.
-----------------------
Zoltan release notes for Trilinos v11.
Highlights are listed below; for more details, see
Trilinos/packages/zoltan/doc/Zoltan_html/ug_html/ug_release.html .
- Zoltan is now released under Trilinos' BSD license.
- The following Zoltan features are no longer supported in Trilinos v11:
+ Zoltan v1 interface (as described in Zoltan include file lbi_const.h)
+ Partitioning method OCTPART: use partitioning method HSFC instead.
- Hierarchical partitioning received several performance, interface and
testing improvements. An easier-to-use interface has been
added using simple parameters (HIER_ASSIST, PLATFORM_NAME, TOPOLOGY)
instead of callback functions; the callback function interface is still
supported.
- Memory usage in Zoltan Distributed Data Directories is improved, leading to
faster execution times for data directories and hierarchical partitioning.
- Compilation with gcc 4.7 is now supported.
- Zoltan supports PT-Scotch v5.1.12 and ParMETIS v4, as well as some older
versions of these TPLs.

31
thirdParty/Zoltan/SampleCmakeScripts/linux_zoltan_gid_64_only vendored Executable file
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#!/bin/csh
# Sample script for building using CMAKE on linux workstation octopi.
# 64-bit, Zoltan only.
# Clean up the mess from previous configurations.
/bin/rm -r cmake* CMake* CPack* CTest* Dart* Trilinos* Testing packages Makefile OUT*
cmake \
-D CMAKE_INSTALL_PREFIX:FILEPATH="/home/lriesen/projects/Trilinos/build" \
-D TPL_ENABLE_MPI:BOOL=ON \
-D CMAKE_C_FLAGS:STRING="-m64 -g -DZOLTAN_ID_TYPE_LONG -std=c99" \
-D CMAKE_CXX_FLAGS:STRING="-m64 -g" \
-D CMAKE_Fortran_FLAGS:STRING="-m64 -g" \
-D CMAKE_VERBOSE_MAKEFILE:BOOL=ON \
-D MPIEXEC_MAX_NUMPROCS:STRING=11 \
-D Trilinos_ENABLE_ALL_PACKAGES:BOOL=OFF \
-D Trilinos_ENABLE_EXAMPLES:BOOL=ON \
-D Trilinos_VERBOSE_CONFIGURE:BOOL=ON \
-D Trilinos_ENABLE_Zoltan:BOOL=ON \
-D Zoltan_ENABLE_EXAMPLES:BOOL=ON \
-D Zoltan_ENABLE_TESTS:BOOL=ON \
-D Zoltan_ENABLE_ParMETIS:BOOL=ON \
-D ParMETIS_INCLUDE_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/all/src/ParMETIS3_1" \
-D ParMETIS_LIBRARY_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/linux64/lib/openmpi/ParMETIS3_1" \
-D Zoltan_ENABLE_Scotch:BOOL=OFF \
-D Zoltan_ENABLE_PaToH:BOOL=OFF \
.. |& tee OUTPUT.CMAKE
make |& tee OUTPUT.MAKE
make install |& tee OUTPUT.INSTALL

36
thirdParty/Zoltan/SampleCmakeScripts/linux_zoltan_only vendored Executable file
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#!/bin/csh
# Sample script for building using CMAKE on linux workstation octopi.
# 64-bit, Zoltan only.
# Run in Trilinos/Obj_cmake.
# Clean up the mess from previous configurations.
/bin/rm -r cmake* CMake* CPack* CTest* Dart* Trilinos* Testing packages Makefile
cmake \
-D CMAKE_INSTALL_PREFIX:FILEPATH="/Net/local/homes/kddevin/code/trilinos/Obj_cmake" \
-D TPL_ENABLE_MPI:BOOL=ON \
-D CMAKE_C_FLAGS:STRING="-m64 -g" \
-D CMAKE_CXX_FLAGS:STRING="-m64 -g" \
-D CMAKE_Fortran_FLAGS:STRING="-m64 -g" \
-D CMAKE_VERBOSE_MAKEFILE:BOOL=ON \
-D MPI_EXEC_MAX_NUMPROCS:STRING=11 \
-D Trilinos_ENABLE_ALL_PACKAGES:BOOL=OFF \
-D Trilinos_ENABLE_EXAMPLES:BOOL=ON \
-D Trilinos_VERBOSE_CONFIGURE:BOOL=ON \
-D Trilinos_ENABLE_Zoltan:BOOL=ON \
-D Zoltan_ENABLE_EXAMPLES:BOOL=ON \
-D Zoltan_ENABLE_TESTS:BOOL=ON \
-D Zoltan_ENABLE_ParMETIS:BOOL=ON \
-D ParMETIS_INCLUDE_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/all/src/ParMETIS3_1" \
-D ParMETIS_LIBRARY_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/linux64/lib/openmpi/ParMETIS3_1" \
-D Zoltan_ENABLE_Scotch:BOOL=ON \
-D Scotch_INCLUDE_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/all/src/Scotch5" \
-D Scotch_LIBRARY_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/linux64/lib/openmpi/Scotch5" \
-D Zoltan_ENABLE_PaToH:BOOL=ON \
-D PaToH_LIBRARY_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/linux64/lib" \
-D PaToH_INCLUDE_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/linux64/PaToH" \
.. |& tee OUTPUT.CMAKE
make |& tee OUTPUT.MAKE
make install |& tee OUTPUT.INSTALL

42
thirdParty/Zoltan/SampleCmakeScripts/linux_zoltan_only_purify vendored Executable file
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#!/bin/csh
# Sample script for building using CMAKE, LAM, and purify on octopi.
# 64-bit, Zoltan only.
# Run in Trilinos/Obj_pure.
# Clean up the mess from previous configurations.
/bin/rm -r cmake* CMake* CPack* CTest* Dart* Trilinos* Testing packages Makefile OUTPUT* include lib install*
set MPICCEXTRACOMP="`/opt/lam714-gcc346-pure/bin/mpicc --showme:compile`"
set MPICXXEXTRACOMP="`/opt/lam714-gcc346-pure/bin/mpiCC --showme:compile`"
set MPIEXTRALINK="`/opt/lam714-gcc346-pure/bin/mpiCC --showme:link`"
set PURIFY="/usr/local/rational/releases/PurifyPlus.7.0/i386_linux2/bin/purify"
set GCC="/usr/bin/gcc346"
set GCXX="/usr/bin/g++346"
/home/kddevin/cmake/bin/cmake \
-D CMAKE_INSTALL_PREFIX:FILEPATH="/Net/local/homes/kddevin/code/Trilinos/Obj_pure" \
-D TPL_ENABLE_MPI:BOOL=ON \
-D MPI_USE_COMPILER_WRAPPERS:BOOL=OFF \
-D MPI_BIN_DIR:STRING="/opt/lam714-gcc346-pure/bin" \
-D CMAKE_C_COMPILER:STRING="$PURIFY" \
-D CMAKE_C_FLAGS:STRING="-best-effort -follow-child-processes=yes -cache-dir=/tmp/purify -chain-length=20 $GCC -m64 -g $MPICCEXTRACOMP" \
-D CMAKE_CXX_COMPILER:STRING="$PURIFY" \
-D CMAKE_CXX_FLAGS:STRING="-best-effort -follow-child-processes=yes -cache-dir=/tmp/purify -chain-length=20 $GCXX -m64 -g $MPICXXEXTRACOMP" \
-D Trilinos_EXTRA_LINK_FLAGS:STRING="$MPIEXTRALINK" \
-D CMAKE_VERBOSE_MAKEFILE:BOOL=ON \
-D MPI_EXEC_MAX_NUMPROCS:STRING=11 \
-D Trilinos_ENABLE_Fortran:BOOL=OFF \
-D Trilinos_ENABLE_ALL_PACKAGES:BOOL=OFF \
-D Trilinos_ENABLE_EXAMPLES:BOOL=ON \
-D Trilinos_VERBOSE_CONFIGURE:BOOL=ON \
-D Trilinos_ENABLE_Zoltan:BOOL=ON \
-D Zoltan_ENABLE_EXAMPLES:BOOL=OFF \
-D Zoltan_ENABLE_TESTS:BOOL=ON \
-D Zoltan_ENABLE_ParMETIS:BOOL=ON \
-D ParMETIS_LIBRARY_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/linux64/lib/lam/ParMETIS3" \
-D ParMETIS_INCLUDE_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/all/src/ParMETIS3" \
-D Zoltan_ENABLE_Scotch:BOOL=ON \
-D Scotch_LIBRARY_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/linux64/lib/lam/Scotch5" \
-D Scotch_INCLUDE_DIRS:FILEPATH="/Net/local/proj/zoltan/arch/all/src/Scotch5" \
.. |& tee OUTPUT.CMAKE
make |& tee OUTPUT.MAKE

29
thirdParty/Zoltan/SampleCmakeScripts/linux_zoltan_only_serial vendored Executable file
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#!/bin/csh
# Sample script for building in serial mode using CMAKE on linux machine godel.
# 64-bit, Zoltan only.
# Run in Trilinos/Obj_cmake.
# Clean up the mess from previous configurations.
/bin/rm -r cmake* CMake* CPack* CTest* Dart* Trilinos* Testing packages Makefile
cmake \
-D CMAKE_INSTALL_PREFIX:FILEPATH="/home/kddevin/code/Trilinos/Obj_cmake_serial" \
-D TPL_ENABLE_MPI:BOOL=OFF \
-D CMAKE_C_FLAGS:STRING="-m64 -g" \
-D CMAKE_CXX_FLAGS:STRING="-m64 -g" \
-D CMAKE_Fortran_FLAGS:STRING="-m64 -g" \
-D CMAKE_VERBOSE_MAKEFILE:BOOL=ON \
-D Trilinos_ENABLE_ALL_PACKAGES:BOOL=OFF \
-D Trilinos_ENABLE_EXAMPLES:BOOL=ON \
-D Trilinos_VERBOSE_CONFIGURE:BOOL=ON \
-D Trilinos_ENABLE_Zoltan:BOOL=ON \
-D Trilinos_EXTRA_LINK_FLAGS:STRING="-lsimpi" \
-D Zoltan_ENABLE_EXAMPLES:BOOL=ON \
-D Zoltan_ENABLE_TESTS:BOOL=ON \
-D Zoltan_ENABLE_ParMETIS:BOOL=ON \
-D ParMETIS_INCLUDE_DIRS:FILEPATH="/home/kddevin/code/ParMETIS3_1_siMPI" \
-D ParMETIS_LIBRARY_DIRS:FILEPATH="/home/kddevin/code/ParMETIS3_1_siMPI" \
.. |& tee OUTPUT.CMAKE
make |& tee OUTPUT.MAKE
make install |& tee OUTPUT.INSTALL

57
thirdParty/Zoltan/SampleCmakeScripts/mac_osX_zoltan_only vendored Executable file
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#!
# Sample script for building using CMAKE on Karen's Mac OS X system.
# 64-bit, Zoltan only.
# TPLs = ParMETIS, Scotch and PaToH.
# Run in Trilinos/Obj_cmake.
# Clean up the mess from previous configurations.
/bin/rm -r cmake* CMake* CPack* CTest* Dart* Trilinos* Testing packages Makefile
setenv F77 /Users/kddevin/code/lib-m64/lam-7.1.4/bin/mpif77
cmake \
-D CMAKE_INSTALL_PREFIX:FILEPATH="/Users/kddevin/code/trilinos/Obj_cmake" \
-D TPL_ENABLE_MPI:BOOL=ON \
-D CMAKE_C_FLAGS:STRING="-m64 -g" \
-D CMAKE_CXX_FLAGS:STRING="-m64 -g" \
-D CMAKE_Fortran_FLAGS:STRING="-m64 -g" \
-D CMAKE_VERBOSE_MAKEFILE:BOOL=ON \
-D MPI_EXEC_MAX_NUMPROCS:STRING=11 \
-D Trilinos_ENABLE_ALL_PACKAGES:BOOL=OFF \
-D Trilinos_ENABLE_EXAMPLES:BOOL=ON \
-D Trilinos_VERBOSE_CONFIGURE:BOOL=ON \
-D Trilinos_ENABLE_Zoltan:BOOL=ON \
-D Trilinos_EXTRA_LINK_FLAGS:STRING="-framework vecLib" \
-D Zoltan_ENABLE_EXAMPLES:BOOL=ON \
-D Zoltan_ENABLE_TESTS:BOOL=ON \
-D Zoltan_ENABLE_ParMETIS:BOOL=ON \
-D ParMETIS_INCLUDE_DIRS:FILEPATH="/Users/kddevin/code/lib-m64/ParMETIS3_1" \
-D ParMETIS_LIBRARY_DIRS:FILEPATH="/Users/kddevin/code/lib-m64/ParMETIS3_1" \
-D Zoltan_ENABLE_Scotch:BOOL=ON \
-D Scotch_INCLUDE_DIRS:FILEPATH="/Users/kddevin/code/lib-m64/scotch_5.1/include" \
-D Scotch_LIBRARY_DIRS:FILEPATH="/Users/kddevin/code/lib-m64/scotch_5.1/lib" \
-D Zoltan_ENABLE_PaToH:BOOL=ON \
-D PaToH_INCLUDE_DIRS:FILEPATH="/Users/kddevin/code/lib-m64/PaToH/dist" \
-D PaToH_LIBRARY_DIRS:FILEPATH="/Users/kddevin/code/lib-m64/PaToH/dist" \
.. |& tee OUTPUT.CMAKE
make |& tee OUTPUT.MAKE
make install |& tee OUTPUT.INSTALL
#Other useful flags.
#-D Trilinos_ENABLE_Epetra:BOOL=ON \
#-D Trilinos_ENABLE_Tpetra:BOOL=ON \
#-D Trilinos_ENABLE_Isorropia:BOOL=ON \
#-D Trilinos_ENABLE_EpetraExt:BOOL=ON \
#-D Trilinos_ENABLE_Fortran:BOOL=OFF \
#-D MPI_EXTRA_LIBRARY:FILEPATH="" \
#-D CMAKE_CXX_COMPILER:FILEPATH="mpic++" \
#-D CMAKE_C_COMPILER:FILEPATH="mpicc" \
# NOTE: I hacked my version of CMAKE, as it had errors trying to find
# install_name_tool. I changed the following file to check for
# CMAKE_INSTALL_NAME_TOOL before running FIND_PROGRAM to find it.
# I don't know why it had problems only with install_name_tool, as the
# linker, ranlib, etc., were found with no difficulty.
# /Applications/CMake\ 2.6-2.app/Contents/share/cmake-2.6/Modules/CMakeFindBinUtils.cmake

5
thirdParty/Zoltan/SampleConfigurationScripts/linux_trilinos_runtests vendored Executable file
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#!/bin/tcsh
which lamboot
lamboot
make runtests-mpi TRILINOS_MPI_GO="'mpirun -np '"

34
thirdParty/Zoltan/SampleConfigurationScripts/linux_with_purify_zoltan_only vendored Executable file
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# Script for building Zoltan with purify on linux workstation octopi
# with openmpi.
# This is a 64-bit installation.
/bin/rm -r Makefile Makefile.export.zoltan OUTPUT.C OUTPUT.I OUTPUT.M config.cache config.log config.status* example/ include/ lib/ siMPI/ src/
set path=(/usr/local/bin $path)
setenv PURE_CC "purify -best-effort -follow-child-processes=yes -cache-dir=/tmp/purify -chain-length=20"
setenv CC "$PURE_CC gcc34 -Wall -Werror-implicit-function-declaration"
setenv CXX "$PURE_CC g++34 -Wall -Werror-implicit-function-declaration"
setenv CFLAGS "-m64 -g"
setenv CXXFLAGS "-m64 -g"
setenv CPPFLAGS "-m64 -g"
setenv FCFLAGS "-m64 -g"
setenv MPIINC `mpicc --showme:compile`
setenv MPILIB `mpicc --showme:link`
../configure -C \
--prefix=/Net/local/homes/kddevin/code/zoltan_v3.2/Obj_pure \
--enable-mpi \
--with-mpi-compilers=no \
--disable-fortran \
--with-gnumake \
--disable-zoltan-cppdriver \
--with-libs="$MPILIB" \
--with-incdirs="$MPIINC" \
|& tee OUTPUT.C
make everything |& tee OUTPUT.M
make install |& tee OUTPUT.I
# --with-parmetis \
# --with-parmetis-incdir="/Net/local/proj/zoltan/arch/all/src/ParMETIS3" \
# --with-parmetis-libdir="/Net/local/proj/zoltan/arch/linux64/lib/openmpi/ParMETIS3_1" \

15
thirdParty/Zoltan/SampleConfigurationScripts/linux_zoltan_dist vendored Executable file
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#Script for building the Zoltan tarball on a 64-bit Linux workstation
#with OpenMPI.
#This script builds the Zoltan tarball from the Zoltan package directory.
#Assuming running script from
#/Net/local/homes/kddevin/code/zoltan_v3.1/Obj_DIST.
set path=(/usr/local/bin $path)
setenv CFLAGS -m64
setenv CXXFLAGS -m64
setenv CPPFLAGS -m64
setenv FCFLAGS -m64
../configure -C \
--prefix=/Net/local/homes/kddevin/code/zoltan_v3.1/OBJ_DIST \
--with-gnumake |& tee OUTPUT.C
make dist |& tee OUTPUT.D

22
thirdParty/Zoltan/SampleConfigurationScripts/linux_zoltan_only vendored Executable file
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@ -0,0 +1,22 @@
#Script for building Zoltan only on a 64-bit Linux workstation
#with OpenMPI.
#This script builds only Zoltan from the Zoltan package directory.
#Assuming running script from
#/Net/local/homes/kddevin/code/zoltan_v3.1/Obj_linux64.
set path=(/usr/local/bin $path)
setenv CFLAGS -m64
setenv CXXFLAGS -m64
setenv CPPFLAGS -m64
setenv FCFLAGS -m64
../configure -C \
--prefix=/Net/local/homes/kddevin/code/zoltan_v3.1/Obj_linux64 \
--with-parmetis \
--with-parmetis-incdir="/Net/local/proj/zoltan/arch/all/src/ParMETIS3_1" \
--with-parmetis-libdir="/Net/local/proj/zoltan/arch/linux64/lib/openmpi/ParMETIS3_1" \
--with-scotch \
--with-scotch-incdir="/Net/local/proj/zoltan/arch/all/src/Scotch5" \
--with-scotch-libdir="/Net/local/proj/zoltan/arch/linux64/lib/openmpi/Scotch5" \
--with-gnumake |& tee OUTPUT.C
make everything |& tee OUTPUT.M
make install |& tee OUTPUT.I

25
thirdParty/Zoltan/SampleConfigurationScripts/mac_osX_no_fortran vendored Executable file
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#Script for building Zoltan and Isorropia on a 64-bit Mac OS X
#with LAM MPI on a machine with NO FORTRAN COMPILER. Note the option
#--disable-fortran.
#This script builds only Zoltan but builds it from the top-level Trilinos
#directory.
#Assuming running script from /Users/kddevin/code/trilinos_v9.0/Obj_mac64.
set path=(/Users/kddevin/code/lib-m64/lam-7.1.4/bin $path)
setenv CC /Users/kddevin/code/lib-m64/lam-7.1.4/bin/mpicc
setenv CXX /Users/kddevin/code/lib-m64/lam-7.1.4/bin/mpic++
setenv FC /Users/kddevin/code/lib-m64/lam-7.1.4/bin/mpif77
setenv CFLAGS -m64
setenv CXXFLAGS -m64
setenv CPPFLAGS -m64
setenv FCFLAGS -m64
../configure -C \
--prefix=/Users/kddevin/code/trilinos_v9.0/Obj_mac64 \
--with-parmetis \
--with-parmetis-incdir="/Users/kddevin/code/lib-m64/ParMETIS3_1" \
--with-parmetis-libdir="/Users/kddevin/code/lib-m64/ParMETIS3_1" \
--with-libs="-framework vecLib" \
--with-gnumake \
--with-cxxflags="-DLAM_BUILDING" |& tee OUTPUT.C
make everything |& tee OUTPUT.M
make install |& tee OUTPUT.I

4
thirdParty/Zoltan/SampleConfigurationScripts/mac_osX_zoltan_dist vendored Executable file
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# Since Mac OS X is case-insensitive, autoconf produces a bad Makefile.in
# Don't use Mac OS X until this bug is fixed.
echo "Due to bug in autoconf Makefile.in, do not make dist on a case-insensitive system."

18
thirdParty/Zoltan/SampleConfigurationScripts/mac_osX_zoltan_only vendored Executable file
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#Script for building Zoltan only on a 64-bit Mac OS X with LAM mpi
#Assuming running this script from /Users/kddevin/code/zoltan_v3.1/OBJ_MAC64.
setenv CFLAGS -m64
setenv CXXFLAGS -m64
../configure \
--prefix=/Users/kddevin/code/zoltan_v3.1/OBJ_MAC64 \
--with-gnumake \
--with-parmetis \
--with-parmetis-incdir="/Users/kddevin/code/lib-m64/ParMETIS3_1" \
--with-parmetis-libdir="/Users/kddevin/code/lib-m64/ParMETIS3_1" \
--with-patoh \
--with-patoh-incdir="/Users/kddevin/code/lib-m64/PaToH/dist" \
--with-patoh-libdir="/Users/kddevin/code/lib-m64/PaToH/dist" \
|& tee OUTPUT.C
make everything |& tee OUTPUT.M
make install |& tee OUTPUT.I

2
thirdParty/Zoltan/VERSION vendored Normal file
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To determine the exact version number, type
grep ZOLTAN_VERSION_NUMBER src/include/zoltan.h

3
thirdParty/Zoltan/bootstrap-local vendored Executable file
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#! /bin/csh
setenv AUTOHEADER 'echo SkippingAutoHeader'
autoreconf -i -f -v

18
thirdParty/Zoltan/buildlib vendored Executable file
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#!/bin/bash
rm -rf build/ include/ lib/
mkdir build
cd build
../configure \
--prefix=$HOME/PhasicFlow/phasicFlow-v-1.0/thirdParty/Zoltan/ \
--with-gnumake \
--with-id-type=uint
--disable-tests
--disable-examples
make everything -j4
make install
cd ../

8
thirdParty/Zoltan/cmake/Dependencies.cmake vendored Normal file
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SET(LIB_REQUIRED_DEP_PACKAGES)
SET(LIB_OPTIONAL_DEP_PACKAGES)
SET(TEST_REQUIRED_DEP_PACKAGES)
SET(TEST_OPTIONAL_DEP_PACKAGES)
SET(LIB_REQUIRED_DEP_TPLS)
SET(LIB_OPTIONAL_DEP_TPLS MPI METIS ParMETIS PaToH Scotch Zlib CCOLAMD OVIS)
SET(TEST_REQUIRED_DEP_TPLS)
SET(TEST_OPTIONAL_DEP_TPLS)

74
thirdParty/Zoltan/cmake/Zoltan_config.h.in vendored Normal file
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/* src/include/Zoltan_config.h.in. Generated from configure.ac by autoheader. */
/* KDD Copied F77 macros from packages/epetra/cmake/Epetra_config.h.in. */
/* Define to dummy `main' function (if any) required to link to the Fortran
libraries. */
#cmakedefine F77_DUMMY_MAIN
/* Define to a macro mangling the given C identifier (in lower and upper
case), which must not contain underscores, for linking with Fortran. */
#ifndef FC_FUNC
#define FC_FUNC@F77_FUNC@
#endif
/* As FC_FUNC, but for C identifiers containing underscores. */
#ifndef FC_FUNC_
#define FC_FUNC_@F77_FUNC_@
#endif
/* Define if F77 and FC dummy `main' functions are identical. */
#cmakedefine FC_DUMMY_MAIN_EQ_F77
/* ZOLTAN_ID_TYPE is unsigned int */
#cmakedefine UNSIGNED_INT_GLOBAL_IDS
/* ZOLTAN_ID_TYPE is unsigned long */
#cmakedefine UNSIGNED_LONG_GLOBAL_IDS
/* ZOLTAN_ID_TYPE is unsigned long long */
#cmakedefine UNSIGNED_LONG_LONG_GLOBAL_IDS
/* define if we want to use MPI */
#cmakedefine HAVE_MPI
/* Define if want to build with nemesis_exodus enabled */
#cmakedefine HAVE_NEMESIS_EXODUS
/* Define if want to build with parmetis enabled */
#cmakedefine HAVE_METIS
/* Define if want to build with parmetis enabled */
#cmakedefine HAVE_PARMETIS
/* Define if want to build with patoh enabled */
#cmakedefine HAVE_PATOH
/* Define if want to build with scotch enabled */
#cmakedefine HAVE_SCOTCH
/* Define if want to build with OVIS enabled */
#cmakedefine HAVE_OVIS
/* Define if want to build with OVIS enabled */
#cmakedefine HAVE_PURIFY
/* Define if DON'T want support for MPI TPL */
#ifndef HAVE_MPI
#define NO_MPI_TPL
#endif
/* Define if want to build with zlib enabled */
#cmakedefine ZHAVE_GZIP
/* Use to have only filename when debugging memory */
#define SHORT_FILE
/* HUND support */
#cmakedefine HAVE_ZOLTAN_HUND
/* Revert to Old Hash function support */
#cmakedefine HAVE_ZOLTAN_KNUTH_HASH
#ifdef HAVE_ZOLTAN_HUND
#define CEDRIC_2D_PARTITIONS
#endif

50
thirdParty/Zoltan/config/ax_f90_module_case.m4 vendored Normal file
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dnl Check case (upper or lower) of F90 module files.
dnl Also checks module suffix, but we return only ax_cv_f90_modulecase.
AC_DEFUN([AX_F90_MODULE_CASE],[
AC_CACHE_CHECK([fortran 90 module file suffix and case],
ax_cv_f90_modulecase,
[
rm -f conftest*
cat >conftest.f <<EOF
module conftest
integer n
parameter (n=1)
end module conftest
EOF
# SGI and absoft compilers generates module name in upper case!
testname="conftest"
modcase="lower"
echo "KDDKDD CASE 1" ${FC}
if ${FC} -c conftest.f > conftest.out 2>&1 ; then
FCMODSUFFIX=`ls conftest* | grep -v conftest.f | grep -v conftest.o`
echo "KDDKDD CASE 2" ${FCMODSUFFIX}
FCMODSUFFIX=`echo "${FCMODSUFFIX}" | sed -e 's/conftest\.//g'`
if test -z "${FCMODSUFFIX}" ; then
FCMODSUFFIX=`ls CONFTEST* 2>/dev/null \
| grep -v CONFTEST.f | grep -v CONFTEST.o`
FCMODSUFFIX=`echo "${FCMODSUFFIX}" | sed -e 's/CONFTEST\.//g'`
if test -n "${FCMODSUFFIX}" ; then
testname="CONFTEST"
modcase="upper"
fi
fi
if test -z "${FCMODSUFFIX}" ; then
AC_MSG_RESULT(unknown)
# Use mod if we can't figure it out
FCMODSUFFIX="mod"
else
AC_MSG_RESULT(${FCMODSUFFIX})
fi
else
AC_MSG_RESULT(unknown)
fi
#AC_SUBST(FCMODSUFFIX)
AC_MSG_CHECKING(for case of module names)
if test "${modcase}" = "lower" ; then
AC_MSG_RESULT(lower)
ax_cv_f90_modulecase="lower"
else
AC_MSG_RESULT(upper)
ax_cv_f90_modulecase="upper"
fi
])])

67
thirdParty/Zoltan/config/ax_f90_module_flag.m4 vendored Normal file
View File

@ -0,0 +1,67 @@
# ===========================================================================
# http://www.nongnu.org/autoconf-archive/ax_f90_module_flag.html
# ===========================================================================
#
# SYNOPSIS
#
# AX_F90_MODULE_FLAG
#
# DESCRIPTION
#
# Find Fortran 90 modules inclusion flag. The module inclusion flag is
# stored in the cached variable ax_f90_modflag. An error is triggered if
# the flag cannot be found. Supported are the -I GNU compilers flag, the
# -M SUN compilers flag, and the -p Absoft Pro Fortran compiler flag.
#
# LICENSE
#
# Copyright (c) 2009 Luc Maisonobe <luc@spaceroots.org>
# Copyright (c) 2009 Julian C. Cummings <cummings@cacr.caltech.edu>
# Copyright (c) 2009 Alexander Pletzer <pletzer@txcorp.com>
#
# Copying and distribution of this file, with or without modification, are
# permitted in any medium without royalty provided the copyright notice
# and this notice are preserved.
AC_DEFUN([AX_F90_MODULE_FLAG],[
AC_CACHE_CHECK([fortran 90 modules inclusion flag],
ax_cv_f90_modflag,
[AC_LANG_PUSH(Fortran)
i=0
while test \( -f tmpdir_$i \) -o \( -d tmpdir_$i \) ; do
i=`expr $i + 1`
done
mkdir tmpdir_$i
cd tmpdir_$i
AC_COMPILE_IFELSE([
!234567
module conftest_module
contains
subroutine conftest_routine
write(*,'(a)') 'gotcha!'
end subroutine conftest_routine
end module conftest_module
],[],[])
cd ..
ax_cv_f90_modflag="not found"
for ax_flag in "-I " "-M" "-p"; do
if test "$ax_cv_f90_modflag" = "not found" ; then
ax_save_FCFLAGS="$FCFLAGS"
FCFLAGS="$ax_save_FCFLAGS ${ax_flag}tmpdir_$i"
AC_COMPILE_IFELSE([
!234567
program conftest_program
use conftest_module
call conftest_routine
end program conftest_program
],[ax_cv_f90_modflag="$ax_flag"],[])
FCFLAGS="$ax_save_FCFLAGS"
fi
done
rm -fr tmpdir_$i
if test "$ax_cv_f90_modflag" = "not found" ; then
AC_MSG_ERROR([unable to find compiler flag for modules inclusion])
fi
AC_LANG_POP(Fortran)
])])

310
thirdParty/Zoltan/config/compile vendored Executable file
View File

@ -0,0 +1,310 @@
#! /bin/sh
# Wrapper for compilers which do not understand '-c -o'.
scriptversion=2012-01-04.17; # UTC
# Copyright (C) 1999, 2000, 2003, 2004, 2005, 2009, 2010, 2012 Free
# Software Foundation, Inc.
# Written by Tom Tromey <tromey@cygnus.com>.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2, or (at your option)
# any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
# As a special exception to the GNU General Public License, if you
# distribute this file as part of a program that contains a
# configuration script generated by Autoconf, you may include it under
# the same distribution terms that you use for the rest of that program.
# This file is maintained in Automake, please report
# bugs to <bug-automake@gnu.org> or send patches to
# <automake-patches@gnu.org>.
nl='
'
# We need space, tab and new line, in precisely that order. Quoting is
# there to prevent tools from complaining about whitespace usage.
IFS=" "" $nl"
file_conv=
# func_file_conv build_file lazy
# Convert a $build file to $host form and store it in $file
# Currently only supports Windows hosts. If the determined conversion
# type is listed in (the comma separated) LAZY, no conversion will
# take place.
func_file_conv ()
{
file=$1
case $file in
/ | /[!/]*) # absolute file, and not a UNC file
if test -z "$file_conv"; then
# lazily determine how to convert abs files
case `uname -s` in
MINGW*)
file_conv=mingw
;;
CYGWIN*)
file_conv=cygwin
;;
*)
file_conv=wine
;;
esac
fi
case $file_conv/,$2, in
*,$file_conv,*)
;;
mingw/*)
file=`cmd //C echo "$file " | sed -e 's/"\(.*\) " *$/\1/'`
;;
cygwin/*)
file=`cygpath -m "$file" || echo "$file"`
;;
wine/*)
file=`winepath -w "$file" || echo "$file"`
;;
esac
;;
esac
}
# func_cl_wrapper cl arg...
# Adjust compile command to suit cl
func_cl_wrapper ()
{
# Assume a capable shell
lib_path=
shared=:
linker_opts=
for arg
do
if test -n "$eat"; then
eat=
else
case $1 in
-o)
# configure might choose to run compile as 'compile cc -o foo foo.c'.
eat=1
case $2 in
*.o | *.[oO][bB][jJ])
func_file_conv "$2"
set x "$@" -Fo"$file"
shift
;;
*)
func_file_conv "$2"
set x "$@" -Fe"$file"
shift
;;
esac
;;
-I*)
func_file_conv "${1#-I}" mingw
set x "$@" -I"$file"
shift
;;
-l*)
lib=${1#-l}
found=no
save_IFS=$IFS
IFS=';'
for dir in $lib_path $LIB
do
IFS=$save_IFS
if $shared && test -f "$dir/$lib.dll.lib"; then
found=yes
set x "$@" "$dir/$lib.dll.lib"
break
fi
if test -f "$dir/$lib.lib"; then
found=yes
set x "$@" "$dir/$lib.lib"
break
fi
done
IFS=$save_IFS
test "$found" != yes && set x "$@" "$lib.lib"
shift
;;
-L*)
func_file_conv "${1#-L}"
if test -z "$lib_path"; then
lib_path=$file
else
lib_path="$lib_path;$file"
fi
linker_opts="$linker_opts -LIBPATH:$file"
;;
-static)
shared=false
;;
-Wl,*)
arg=${1#-Wl,}
save_ifs="$IFS"; IFS=','
for flag in $arg; do
IFS="$save_ifs"
linker_opts="$linker_opts $flag"
done
IFS="$save_ifs"
;;
-Xlinker)
eat=1
linker_opts="$linker_opts $2"
;;
-*)
set x "$@" "$1"
shift
;;
*.cc | *.CC | *.cxx | *.CXX | *.[cC]++)
func_file_conv "$1"
set x "$@" -Tp"$file"
shift
;;
*.c | *.cpp | *.CPP | *.lib | *.LIB | *.Lib | *.OBJ | *.obj | *.[oO])
func_file_conv "$1" mingw
set x "$@" "$file"
shift
;;
*)
set x "$@" "$1"
shift
;;
esac
fi
shift
done
if test -n "$linker_opts"; then
linker_opts="-link$linker_opts"
fi
exec "$@" $linker_opts
exit 1
}
eat=
case $1 in
'')
echo "$0: No command. Try '$0 --help' for more information." 1>&2
exit 1;
;;
-h | --h*)
cat <<\EOF
Usage: compile [--help] [--version] PROGRAM [ARGS]
Wrapper for compilers which do not understand '-c -o'.
Remove '-o dest.o' from ARGS, run PROGRAM with the remaining
arguments, and rename the output as expected.
If you are trying to build a whole package this is not the
right script to run: please start by reading the file 'INSTALL'.
Report bugs to <bug-automake@gnu.org>.
EOF
exit $?
;;
-v | --v*)
echo "compile $scriptversion"
exit $?
;;
cl | *[/\\]cl | cl.exe | *[/\\]cl.exe )
func_cl_wrapper "$@" # Doesn't return...
;;
esac
ofile=
cfile=
for arg
do
if test -n "$eat"; then
eat=
else
case $1 in
-o)
# configure might choose to run compile as 'compile cc -o foo foo.c'.
# So we strip '-o arg' only if arg is an object.
eat=1
case $2 in
*.o | *.obj)
ofile=$2
;;
*)
set x "$@" -o "$2"
shift
;;
esac
;;
*.c)
cfile=$1
set x "$@" "$1"
shift
;;
*)
set x "$@" "$1"
shift
;;
esac
fi
shift
done
if test -z "$ofile" || test -z "$cfile"; then
# If no '-o' option was seen then we might have been invoked from a
# pattern rule where we don't need one. That is ok -- this is a
# normal compilation that the losing compiler can handle. If no
# '.c' file was seen then we are probably linking. That is also
# ok.
exec "$@"
fi
# Name of file we expect compiler to create.
cofile=`echo "$cfile" | sed 's|^.*[\\/]||; s|^[a-zA-Z]:||; s/\.c$/.o/'`
# Create the lock directory.
# Note: use '[/\\:.-]' here to ensure that we don't use the same name
# that we are using for the .o file. Also, base the name on the expected
# object file name, since that is what matters with a parallel build.
lockdir=`echo "$cofile" | sed -e 's|[/\\:.-]|_|g'`.d
while true; do
if mkdir "$lockdir" >/dev/null 2>&1; then
break
fi
sleep 1
done
# FIXME: race condition here if user kills between mkdir and trap.
trap "rmdir '$lockdir'; exit 1" 1 2 15
# Run the compile.
"$@"
ret=$?
if test -f "$cofile"; then
test "$cofile" = "$ofile" || mv "$cofile" "$ofile"
elif test -f "${cofile}bj"; then
test "${cofile}bj" = "$ofile" || mv "${cofile}bj" "$ofile"
fi
rmdir "$lockdir"
exit $ret
# Local Variables:
# mode: shell-script
# sh-indentation: 2
# eval: (add-hook 'write-file-hooks 'time-stamp)
# time-stamp-start: "scriptversion="
# time-stamp-format: "%:y-%02m-%02d.%02H"
# time-stamp-time-zone: "UTC"
# time-stamp-end: "; # UTC"
# End:

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thirdParty/Zoltan/config/config.guess vendored Executable file
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1766
thirdParty/Zoltan/config/config.sub vendored Executable file
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688
thirdParty/Zoltan/config/depcomp vendored Executable file
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@ -0,0 +1,688 @@
#! /bin/sh
# depcomp - compile a program generating dependencies as side-effects
scriptversion=2011-12-04.11; # UTC
# Copyright (C) 1999, 2000, 2003, 2004, 2005, 2006, 2007, 2009, 2010,
# 2011 Free Software Foundation, Inc.
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2, or (at your option)
# any later version.
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
# As a special exception to the GNU General Public License, if you
# distribute this file as part of a program that contains a
# configuration script generated by Autoconf, you may include it under
# the same distribution terms that you use for the rest of that program.
# Originally written by Alexandre Oliva <oliva@dcc.unicamp.br>.
case $1 in
'')
echo "$0: No command. Try \`$0 --help' for more information." 1>&2
exit 1;
;;
-h | --h*)
cat <<\EOF
Usage: depcomp [--help] [--version] PROGRAM [ARGS]
Run PROGRAMS ARGS to compile a file, generating dependencies
as side-effects.
Environment variables:
depmode Dependency tracking mode.
source Source file read by `PROGRAMS ARGS'.
object Object file output by `PROGRAMS ARGS'.
DEPDIR directory where to store dependencies.
depfile Dependency file to output.
tmpdepfile Temporary file to use when outputting dependencies.
libtool Whether libtool is used (yes/no).
Report bugs to <bug-automake@gnu.org>.
EOF
exit $?
;;
-v | --v*)
echo "depcomp $scriptversion"
exit $?
;;
esac
if test -z "$depmode" || test -z "$source" || test -z "$object"; then
echo "depcomp: Variables source, object and depmode must be set" 1>&2
exit 1
fi
# Dependencies for sub/bar.o or sub/bar.obj go into sub/.deps/bar.Po.
depfile=${depfile-`echo "$object" |
sed 's|[^\\/]*$|'${DEPDIR-.deps}'/&|;s|\.\([^.]*\)$|.P\1|;s|Pobj$|Po|'`}
tmpdepfile=${tmpdepfile-`echo "$depfile" | sed 's/\.\([^.]*\)$/.T\1/'`}
rm -f "$tmpdepfile"
# Some modes work just like other modes, but use different flags. We
# parameterize here, but still list the modes in the big case below,
# to make depend.m4 easier to write. Note that we *cannot* use a case
# here, because this file can only contain one case statement.
if test "$depmode" = hp; then
# HP compiler uses -M and no extra arg.
gccflag=-M
depmode=gcc
fi
if test "$depmode" = dashXmstdout; then
# This is just like dashmstdout with a different argument.
dashmflag=-xM
depmode=dashmstdout
fi
cygpath_u="cygpath -u -f -"
if test "$depmode" = msvcmsys; then
# This is just like msvisualcpp but w/o cygpath translation.
# Just convert the backslash-escaped backslashes to single forward
# slashes to satisfy depend.m4
cygpath_u='sed s,\\\\,/,g'
depmode=msvisualcpp
fi
if test "$depmode" = msvc7msys; then
# This is just like msvc7 but w/o cygpath translation.
# Just convert the backslash-escaped backslashes to single forward
# slashes to satisfy depend.m4
cygpath_u='sed s,\\\\,/,g'
depmode=msvc7
fi
case "$depmode" in
gcc3)
## gcc 3 implements dependency tracking that does exactly what
## we want. Yay! Note: for some reason libtool 1.4 doesn't like
## it if -MD -MP comes after the -MF stuff. Hmm.
## Unfortunately, FreeBSD c89 acceptance of flags depends upon
## the command line argument order; so add the flags where they
## appear in depend2.am. Note that the slowdown incurred here
## affects only configure: in makefiles, %FASTDEP% shortcuts this.
for arg
do
case $arg in
-c) set fnord "$@" -MT "$object" -MD -MP -MF "$tmpdepfile" "$arg" ;;
*) set fnord "$@" "$arg" ;;
esac
shift # fnord
shift # $arg
done
"$@"
stat=$?
if test $stat -eq 0; then :
else
rm -f "$tmpdepfile"
exit $stat
fi
mv "$tmpdepfile" "$depfile"
;;
gcc)
## There are various ways to get dependency output from gcc. Here's
## why we pick this rather obscure method:
## - Don't want to use -MD because we'd like the dependencies to end
## up in a subdir. Having to rename by hand is ugly.
## (We might end up doing this anyway to support other compilers.)
## - The DEPENDENCIES_OUTPUT environment variable makes gcc act like
## -MM, not -M (despite what the docs say).
## - Using -M directly means running the compiler twice (even worse
## than renaming).
if test -z "$gccflag"; then
gccflag=-MD,
fi
"$@" -Wp,"$gccflag$tmpdepfile"
stat=$?
if test $stat -eq 0; then :
else
rm -f "$tmpdepfile"
exit $stat
fi
rm -f "$depfile"
echo "$object : \\" > "$depfile"
alpha=ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz
## The second -e expression handles DOS-style file names with drive letters.
sed -e 's/^[^:]*: / /' \
-e 's/^['$alpha']:\/[^:]*: / /' < "$tmpdepfile" >> "$depfile"
## This next piece of magic avoids the `deleted header file' problem.
## The problem is that when a header file which appears in a .P file
## is deleted, the dependency causes make to die (because there is
## typically no way to rebuild the header). We avoid this by adding
## dummy dependencies for each header file. Too bad gcc doesn't do
## this for us directly.
tr ' ' '
' < "$tmpdepfile" |
## Some versions of gcc put a space before the `:'. On the theory
## that the space means something, we add a space to the output as
## well. hp depmode also adds that space, but also prefixes the VPATH
## to the object. Take care to not repeat it in the output.
## Some versions of the HPUX 10.20 sed can't process this invocation
## correctly. Breaking it into two sed invocations is a workaround.
sed -e 's/^\\$//' -e '/^$/d' -e "s|.*$object$||" -e '/:$/d' \
| sed -e 's/$/ :/' >> "$depfile"
rm -f "$tmpdepfile"
;;
hp)
# This case exists only to let depend.m4 do its work. It works by
# looking at the text of this script. This case will never be run,
# since it is checked for above.
exit 1
;;
sgi)
if test "$libtool" = yes; then
"$@" "-Wp,-MDupdate,$tmpdepfile"
else
"$@" -MDupdate "$tmpdepfile"
fi
stat=$?
if test $stat -eq 0; then :
else
rm -f "$tmpdepfile"
exit $stat
fi
rm -f "$depfile"
if test -f "$tmpdepfile"; then # yes, the sourcefile depend on other files
echo "$object : \\" > "$depfile"
# Clip off the initial element (the dependent). Don't try to be
# clever and replace this with sed code, as IRIX sed won't handle
# lines with more than a fixed number of characters (4096 in
# IRIX 6.2 sed, 8192 in IRIX 6.5). We also remove comment lines;
# the IRIX cc adds comments like `#:fec' to the end of the
# dependency line.
tr ' ' '
' < "$tmpdepfile" \
| sed -e 's/^.*\.o://' -e 's/#.*$//' -e '/^$/ d' | \
tr '
' ' ' >> "$depfile"
echo >> "$depfile"
# The second pass generates a dummy entry for each header file.
tr ' ' '
' < "$tmpdepfile" \
| sed -e 's/^.*\.o://' -e 's/#.*$//' -e '/^$/ d' -e 's/$/:/' \
>> "$depfile"
else
# The sourcefile does not contain any dependencies, so just
# store a dummy comment line, to avoid errors with the Makefile
# "include basename.Plo" scheme.
echo "#dummy" > "$depfile"
fi
rm -f "$tmpdepfile"
;;
aix)
# The C for AIX Compiler uses -M and outputs the dependencies
# in a .u file. In older versions, this file always lives in the
# current directory. Also, the AIX compiler puts `$object:' at the
# start of each line; $object doesn't have directory information.
# Version 6 uses the directory in both cases.
dir=`echo "$object" | sed -e 's|/[^/]*$|/|'`
test "x$dir" = "x$object" && dir=
base=`echo "$object" | sed -e 's|^.*/||' -e 's/\.o$//' -e 's/\.lo$//'`
if test "$libtool" = yes; then
tmpdepfile1=$dir$base.u
tmpdepfile2=$base.u
tmpdepfile3=$dir.libs/$base.u
"$@" -Wc,-M
else
tmpdepfile1=$dir$base.u
tmpdepfile2=$dir$base.u
tmpdepfile3=$dir$base.u
"$@" -M
fi
stat=$?
if test $stat -eq 0; then :
else
rm -f "$tmpdepfile1" "$tmpdepfile2" "$tmpdepfile3"
exit $stat
fi
for tmpdepfile in "$tmpdepfile1" "$tmpdepfile2" "$tmpdepfile3"
do
test -f "$tmpdepfile" && break
done
if test -f "$tmpdepfile"; then
# Each line is of the form `foo.o: dependent.h'.
# Do two passes, one to just change these to
# `$object: dependent.h' and one to simply `dependent.h:'.
sed -e "s,^.*\.[a-z]*:,$object:," < "$tmpdepfile" > "$depfile"
# That's a tab and a space in the [].
sed -e 's,^.*\.[a-z]*:[ ]*,,' -e 's,$,:,' < "$tmpdepfile" >> "$depfile"
else
# The sourcefile does not contain any dependencies, so just
# store a dummy comment line, to avoid errors with the Makefile
# "include basename.Plo" scheme.
echo "#dummy" > "$depfile"
fi
rm -f "$tmpdepfile"
;;
icc)
# Intel's C compiler understands `-MD -MF file'. However on
# icc -MD -MF foo.d -c -o sub/foo.o sub/foo.c
# ICC 7.0 will fill foo.d with something like
# foo.o: sub/foo.c
# foo.o: sub/foo.h
# which is wrong. We want:
# sub/foo.o: sub/foo.c
# sub/foo.o: sub/foo.h
# sub/foo.c:
# sub/foo.h:
# ICC 7.1 will output
# foo.o: sub/foo.c sub/foo.h
# and will wrap long lines using \ :
# foo.o: sub/foo.c ... \
# sub/foo.h ... \
# ...
"$@" -MD -MF "$tmpdepfile"
stat=$?
if test $stat -eq 0; then :
else
rm -f "$tmpdepfile"
exit $stat
fi
rm -f "$depfile"
# Each line is of the form `foo.o: dependent.h',
# or `foo.o: dep1.h dep2.h \', or ` dep3.h dep4.h \'.
# Do two passes, one to just change these to
# `$object: dependent.h' and one to simply `dependent.h:'.
sed "s,^[^:]*:,$object :," < "$tmpdepfile" > "$depfile"
# Some versions of the HPUX 10.20 sed can't process this invocation
# correctly. Breaking it into two sed invocations is a workaround.
sed 's,^[^:]*: \(.*\)$,\1,;s/^\\$//;/^$/d;/:$/d' < "$tmpdepfile" |
sed -e 's/$/ :/' >> "$depfile"
rm -f "$tmpdepfile"
;;
hp2)
# The "hp" stanza above does not work with aCC (C++) and HP's ia64
# compilers, which have integrated preprocessors. The correct option
# to use with these is +Maked; it writes dependencies to a file named
# 'foo.d', which lands next to the object file, wherever that
# happens to be.
# Much of this is similar to the tru64 case; see comments there.
dir=`echo "$object" | sed -e 's|/[^/]*$|/|'`
test "x$dir" = "x$object" && dir=
base=`echo "$object" | sed -e 's|^.*/||' -e 's/\.o$//' -e 's/\.lo$//'`
if test "$libtool" = yes; then
tmpdepfile1=$dir$base.d
tmpdepfile2=$dir.libs/$base.d
"$@" -Wc,+Maked
else
tmpdepfile1=$dir$base.d
tmpdepfile2=$dir$base.d
"$@" +Maked
fi
stat=$?
if test $stat -eq 0; then :
else
rm -f "$tmpdepfile1" "$tmpdepfile2"
exit $stat
fi
for tmpdepfile in "$tmpdepfile1" "$tmpdepfile2"
do
test -f "$tmpdepfile" && break
done
if test -f "$tmpdepfile"; then
sed -e "s,^.*\.[a-z]*:,$object:," "$tmpdepfile" > "$depfile"
# Add `dependent.h:' lines.
sed -ne '2,${
s/^ *//
s/ \\*$//
s/$/:/
p
}' "$tmpdepfile" >> "$depfile"
else
echo "#dummy" > "$depfile"
fi
rm -f "$tmpdepfile" "$tmpdepfile2"
;;
tru64)
# The Tru64 compiler uses -MD to generate dependencies as a side
# effect. `cc -MD -o foo.o ...' puts the dependencies into `foo.o.d'.
# At least on Alpha/Redhat 6.1, Compaq CCC V6.2-504 seems to put
# dependencies in `foo.d' instead, so we check for that too.
# Subdirectories are respected.
dir=`echo "$object" | sed -e 's|/[^/]*$|/|'`
test "x$dir" = "x$object" && dir=
base=`echo "$object" | sed -e 's|^.*/||' -e 's/\.o$//' -e 's/\.lo$//'`
if test "$libtool" = yes; then
# With Tru64 cc, shared objects can also be used to make a
# static library. This mechanism is used in libtool 1.4 series to
# handle both shared and static libraries in a single compilation.
# With libtool 1.4, dependencies were output in $dir.libs/$base.lo.d.
#
# With libtool 1.5 this exception was removed, and libtool now
# generates 2 separate objects for the 2 libraries. These two
# compilations output dependencies in $dir.libs/$base.o.d and
# in $dir$base.o.d. We have to check for both files, because
# one of the two compilations can be disabled. We should prefer
# $dir$base.o.d over $dir.libs/$base.o.d because the latter is
# automatically cleaned when .libs/ is deleted, while ignoring
# the former would cause a distcleancheck panic.
tmpdepfile1=$dir.libs/$base.lo.d # libtool 1.4
tmpdepfile2=$dir$base.o.d # libtool 1.5
tmpdepfile3=$dir.libs/$base.o.d # libtool 1.5
tmpdepfile4=$dir.libs/$base.d # Compaq CCC V6.2-504
"$@" -Wc,-MD
else
tmpdepfile1=$dir$base.o.d
tmpdepfile2=$dir$base.d
tmpdepfile3=$dir$base.d
tmpdepfile4=$dir$base.d
"$@" -MD
fi
stat=$?
if test $stat -eq 0; then :
else
rm -f "$tmpdepfile1" "$tmpdepfile2" "$tmpdepfile3" "$tmpdepfile4"
exit $stat
fi
for tmpdepfile in "$tmpdepfile1" "$tmpdepfile2" "$tmpdepfile3" "$tmpdepfile4"
do
test -f "$tmpdepfile" && break
done
if test -f "$tmpdepfile"; then
sed -e "s,^.*\.[a-z]*:,$object:," < "$tmpdepfile" > "$depfile"
# That's a tab and a space in the [].
sed -e 's,^.*\.[a-z]*:[ ]*,,' -e 's,$,:,' < "$tmpdepfile" >> "$depfile"
else
echo "#dummy" > "$depfile"
fi
rm -f "$tmpdepfile"
;;
msvc7)
if test "$libtool" = yes; then
showIncludes=-Wc,-showIncludes
else
showIncludes=-showIncludes
fi
"$@" $showIncludes > "$tmpdepfile"
stat=$?
grep -v '^Note: including file: ' "$tmpdepfile"
if test "$stat" = 0; then :
else
rm -f "$tmpdepfile"
exit $stat
fi
rm -f "$depfile"
echo "$object : \\" > "$depfile"
# The first sed program below extracts the file names and escapes
# backslashes for cygpath. The second sed program outputs the file
# name when reading, but also accumulates all include files in the
# hold buffer in order to output them again at the end. This only
# works with sed implementations that can handle large buffers.
sed < "$tmpdepfile" -n '
/^Note: including file: *\(.*\)/ {
s//\1/
s/\\/\\\\/g
p
}' | $cygpath_u | sort -u | sed -n '
s/ /\\ /g
s/\(.*\)/ \1 \\/p
s/.\(.*\) \\/\1:/
H
$ {
s/.*/ /
G
p
}' >> "$depfile"
rm -f "$tmpdepfile"
;;
msvc7msys)
# This case exists only to let depend.m4 do its work. It works by
# looking at the text of this script. This case will never be run,
# since it is checked for above.
exit 1
;;
#nosideeffect)
# This comment above is used by automake to tell side-effect
# dependency tracking mechanisms from slower ones.
dashmstdout)
# Important note: in order to support this mode, a compiler *must*
# always write the preprocessed file to stdout, regardless of -o.
"$@" || exit $?
# Remove the call to Libtool.
if test "$libtool" = yes; then
while test "X$1" != 'X--mode=compile'; do
shift
done
shift
fi
# Remove `-o $object'.
IFS=" "
for arg
do
case $arg in
-o)
shift
;;
$object)
shift
;;
*)
set fnord "$@" "$arg"
shift # fnord
shift # $arg
;;
esac
done
test -z "$dashmflag" && dashmflag=-M
# Require at least two characters before searching for `:'
# in the target name. This is to cope with DOS-style filenames:
# a dependency such as `c:/foo/bar' could be seen as target `c' otherwise.
"$@" $dashmflag |
sed 's:^[ ]*[^: ][^:][^:]*\:[ ]*:'"$object"'\: :' > "$tmpdepfile"
rm -f "$depfile"
cat < "$tmpdepfile" > "$depfile"
tr ' ' '
' < "$tmpdepfile" | \
## Some versions of the HPUX 10.20 sed can't process this invocation
## correctly. Breaking it into two sed invocations is a workaround.
sed -e 's/^\\$//' -e '/^$/d' -e '/:$/d' | sed -e 's/$/ :/' >> "$depfile"
rm -f "$tmpdepfile"
;;
dashXmstdout)
# This case only exists to satisfy depend.m4. It is never actually
# run, as this mode is specially recognized in the preamble.
exit 1
;;
makedepend)
"$@" || exit $?
# Remove any Libtool call
if test "$libtool" = yes; then
while test "X$1" != 'X--mode=compile'; do
shift
done
shift
fi
# X makedepend
shift
cleared=no eat=no
for arg
do
case $cleared in
no)
set ""; shift
cleared=yes ;;
esac
if test $eat = yes; then
eat=no
continue
fi
case "$arg" in
-D*|-I*)
set fnord "$@" "$arg"; shift ;;
# Strip any option that makedepend may not understand. Remove
# the object too, otherwise makedepend will parse it as a source file.
-arch)
eat=yes ;;
-*|$object)
;;
*)
set fnord "$@" "$arg"; shift ;;
esac
done
obj_suffix=`echo "$object" | sed 's/^.*\././'`
touch "$tmpdepfile"
${MAKEDEPEND-makedepend} -o"$obj_suffix" -f"$tmpdepfile" "$@"
rm -f "$depfile"
# makedepend may prepend the VPATH from the source file name to the object.
# No need to regex-escape $object, excess matching of '.' is harmless.
sed "s|^.*\($object *:\)|\1|" "$tmpdepfile" > "$depfile"
sed '1,2d' "$tmpdepfile" | tr ' ' '
' | \
## Some versions of the HPUX 10.20 sed can't process this invocation
## correctly. Breaking it into two sed invocations is a workaround.
sed -e 's/^\\$//' -e '/^$/d' -e '/:$/d' | sed -e 's/$/ :/' >> "$depfile"
rm -f "$tmpdepfile" "$tmpdepfile".bak
;;
cpp)
# Important note: in order to support this mode, a compiler *must*
# always write the preprocessed file to stdout.
"$@" || exit $?
# Remove the call to Libtool.
if test "$libtool" = yes; then
while test "X$1" != 'X--mode=compile'; do
shift
done
shift
fi
# Remove `-o $object'.
IFS=" "
for arg
do
case $arg in
-o)
shift
;;
$object)
shift
;;
*)
set fnord "$@" "$arg"
shift # fnord
shift # $arg
;;
esac
done
"$@" -E |
sed -n -e '/^# [0-9][0-9]* "\([^"]*\)".*/ s:: \1 \\:p' \
-e '/^#line [0-9][0-9]* "\([^"]*\)".*/ s:: \1 \\:p' |
sed '$ s: \\$::' > "$tmpdepfile"
rm -f "$depfile"
echo "$object : \\" > "$depfile"
cat < "$tmpdepfile" >> "$depfile"
sed < "$tmpdepfile" '/^$/d;s/^ //;s/ \\$//;s/$/ :/' >> "$depfile"
rm -f "$tmpdepfile"
;;
msvisualcpp)
# Important note: in order to support this mode, a compiler *must*
# always write the preprocessed file to stdout.
"$@" || exit $?
# Remove the call to Libtool.
if test "$libtool" = yes; then
while test "X$1" != 'X--mode=compile'; do
shift
done
shift
fi
IFS=" "
for arg
do
case "$arg" in
-o)
shift
;;
$object)
shift
;;
"-Gm"|"/Gm"|"-Gi"|"/Gi"|"-ZI"|"/ZI")
set fnord "$@"
shift
shift
;;
*)
set fnord "$@" "$arg"
shift
shift
;;
esac
done
"$@" -E 2>/dev/null |
sed -n '/^#line [0-9][0-9]* "\([^"]*\)"/ s::\1:p' | $cygpath_u | sort -u > "$tmpdepfile"
rm -f "$depfile"
echo "$object : \\" > "$depfile"
sed < "$tmpdepfile" -n -e 's% %\\ %g' -e '/^\(.*\)$/ s:: \1 \\:p' >> "$depfile"
echo " " >> "$depfile"
sed < "$tmpdepfile" -n -e 's% %\\ %g' -e '/^\(.*\)$/ s::\1\::p' >> "$depfile"
rm -f "$tmpdepfile"
;;
msvcmsys)
# This case exists only to let depend.m4 do its work. It works by
# looking at the text of this script. This case will never be run,
# since it is checked for above.
exit 1
;;
none)
exec "$@"
;;
*)
echo "Unknown depmode $depmode" 1>&2
exit 1
;;
esac
exit 0
# Local Variables:
# mode: shell-script
# sh-indentation: 2
# eval: (add-hook 'write-file-hooks 'time-stamp)
# time-stamp-start: "scriptversion="
# time-stamp-format: "%:y-%02m-%02d.%02H"
# time-stamp-time-zone: "UTC"
# time-stamp-end: "; # UTC"
# End:

88
thirdParty/Zoltan/config/generate-makeoptions.pl vendored Executable file
View File

@ -0,0 +1,88 @@
#!/usr/bin/perl -w
#
# This perl script graps a bunch of make macro definitions
# generated for Teuchos that can be used in other makefiles.
# This is dumped to stdout and can be redirected to build
# a makefile.
#
# Note, this script must be maintained to be current for
# the Teuchos makefile.
#
use strict;
if( !((@ARGV) && scalar(@ARGV)==2) ) {
die "Error, this script takes two and only two arguments (makefile_name package_name).!\n";
}
my $makefile_name = shift;
my $package_name = shift;
#
# List the macros you want to grep and include in the output
#
my @macros =
(
"CC"
,"CXX"
,"F77"
,"FC"
,"CXXLD"
,"DEFS"
,"CPPFLAGS"
,"CFLAGS"
,"CXXFLAGS"
,"FFLAGS"
,"FCFLAGS"
,"LDFLAGS"
,"FLIBS"
,"BLAS_LIBS"
,"LAPACK_LIBS"
,"prefix"
,"AR"
,"ALTERNATE_AR"
,"libteuchos_a_AR"
,"RANLIB"
);
open FILE_IN, "<$makefile_name" || die "The file $makefile_name could not be opended for input\n";
my @makefile_name_array = <FILE_IN>;
close FILE_IN;
#
# Find the above macros and append "${package_name}_" to the beginning.
#
my @new_macros;
my $add_next_line = 0;
foreach( @makefile_name_array ) {
my $line = $_;
if($add_next_line) {
push @new_macros, $line;
if( substr($line,-1,1) eq "\\" ) {
$add_next_line = 1;
}
else {
$add_next_line = 0;
}
next;
}
#print "Line = $line";
foreach( @macros ) {
my $macro_search = "^${_} ";
#print "Macro search = \'$macro_search\'\n";
if( $line=~/$macro_search/ ) {
#print "Adding Macro!\n";
my $find_str = '\(CXX\)';
my $replace_str = "(${package_name}_CXX)";
$line=~s/$find_str/$replace_str/;
push @new_macros, "${package_name}_${line}";
if( substr($line,-2,1) eq "\\" ) {
$add_next_line = 1;
}
else {
$add_next_line = 0;
}
}
}
}
print join("",@new_macros);

527
thirdParty/Zoltan/config/install-sh vendored Executable file
View File

@ -0,0 +1,527 @@
#!/bin/sh
# install - install a program, script, or datafile
scriptversion=2011-01-19.21; # UTC
# This originates from X11R5 (mit/util/scripts/install.sh), which was
# later released in X11R6 (xc/config/util/install.sh) with the
# following copyright and license.
#
# Copyright (C) 1994 X Consortium
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to
# deal in the Software without restriction, including without limitation the
# rights to use, copy, modify, merge, publish, distribute, sublicense, and/or
# sell copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# X CONSORTIUM BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN
# AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNEC-
# TION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
#
# Except as contained in this notice, the name of the X Consortium shall not
# be used in advertising or otherwise to promote the sale, use or other deal-
# ings in this Software without prior written authorization from the X Consor-
# tium.
#
#
# FSF changes to this file are in the public domain.
#
# Calling this script install-sh is preferred over install.sh, to prevent
# `make' implicit rules from creating a file called install from it
# when there is no Makefile.
#
# This script is compatible with the BSD install script, but was written
# from scratch.
nl='
'
IFS=" "" $nl"
# set DOITPROG to echo to test this script
# Don't use :- since 4.3BSD and earlier shells don't like it.
doit=${DOITPROG-}
if test -z "$doit"; then
doit_exec=exec
else
doit_exec=$doit
fi
# Put in absolute file names if you don't have them in your path;
# or use environment vars.
chgrpprog=${CHGRPPROG-chgrp}
chmodprog=${CHMODPROG-chmod}
chownprog=${CHOWNPROG-chown}
cmpprog=${CMPPROG-cmp}
cpprog=${CPPROG-cp}
mkdirprog=${MKDIRPROG-mkdir}
mvprog=${MVPROG-mv}
rmprog=${RMPROG-rm}
stripprog=${STRIPPROG-strip}
posix_glob='?'
initialize_posix_glob='
test "$posix_glob" != "?" || {
if (set -f) 2>/dev/null; then
posix_glob=
else
posix_glob=:
fi
}
'
posix_mkdir=
# Desired mode of installed file.
mode=0755
chgrpcmd=
chmodcmd=$chmodprog
chowncmd=
mvcmd=$mvprog
rmcmd="$rmprog -f"
stripcmd=
src=
dst=
dir_arg=
dst_arg=
copy_on_change=false
no_target_directory=
usage="\
Usage: $0 [OPTION]... [-T] SRCFILE DSTFILE
or: $0 [OPTION]... SRCFILES... DIRECTORY
or: $0 [OPTION]... -t DIRECTORY SRCFILES...
or: $0 [OPTION]... -d DIRECTORIES...
In the 1st form, copy SRCFILE to DSTFILE.
In the 2nd and 3rd, copy all SRCFILES to DIRECTORY.
In the 4th, create DIRECTORIES.
Options:
--help display this help and exit.
--version display version info and exit.
-c (ignored)
-C install only if different (preserve the last data modification time)
-d create directories instead of installing files.
-g GROUP $chgrpprog installed files to GROUP.
-m MODE $chmodprog installed files to MODE.
-o USER $chownprog installed files to USER.
-s $stripprog installed files.
-t DIRECTORY install into DIRECTORY.
-T report an error if DSTFILE is a directory.
Environment variables override the default commands:
CHGRPPROG CHMODPROG CHOWNPROG CMPPROG CPPROG MKDIRPROG MVPROG
RMPROG STRIPPROG
"
while test $# -ne 0; do
case $1 in
-c) ;;
-C) copy_on_change=true;;
-d) dir_arg=true;;
-g) chgrpcmd="$chgrpprog $2"
shift;;
--help) echo "$usage"; exit $?;;
-m) mode=$2
case $mode in
*' '* | *' '* | *'
'* | *'*'* | *'?'* | *'['*)
echo "$0: invalid mode: $mode" >&2
exit 1;;
esac
shift;;
-o) chowncmd="$chownprog $2"
shift;;
-s) stripcmd=$stripprog;;
-t) dst_arg=$2
# Protect names problematic for `test' and other utilities.
case $dst_arg in
-* | [=\(\)!]) dst_arg=./$dst_arg;;
esac
shift;;
-T) no_target_directory=true;;
--version) echo "$0 $scriptversion"; exit $?;;
--) shift
break;;
-*) echo "$0: invalid option: $1" >&2
exit 1;;
*) break;;
esac
shift
done
if test $# -ne 0 && test -z "$dir_arg$dst_arg"; then
# When -d is used, all remaining arguments are directories to create.
# When -t is used, the destination is already specified.
# Otherwise, the last argument is the destination. Remove it from $@.
for arg
do
if test -n "$dst_arg"; then
# $@ is not empty: it contains at least $arg.
set fnord "$@" "$dst_arg"
shift # fnord
fi
shift # arg
dst_arg=$arg
# Protect names problematic for `test' and other utilities.
case $dst_arg in
-* | [=\(\)!]) dst_arg=./$dst_arg;;
esac
done
fi
if test $# -eq 0; then
if test -z "$dir_arg"; then
echo "$0: no input file specified." >&2
exit 1
fi
# It's OK to call `install-sh -d' without argument.
# This can happen when creating conditional directories.
exit 0
fi
if test -z "$dir_arg"; then
do_exit='(exit $ret); exit $ret'
trap "ret=129; $do_exit" 1
trap "ret=130; $do_exit" 2
trap "ret=141; $do_exit" 13
trap "ret=143; $do_exit" 15
# Set umask so as not to create temps with too-generous modes.
# However, 'strip' requires both read and write access to temps.
case $mode in
# Optimize common cases.
*644) cp_umask=133;;
*755) cp_umask=22;;
*[0-7])
if test -z "$stripcmd"; then
u_plus_rw=
else
u_plus_rw='% 200'
fi
cp_umask=`expr '(' 777 - $mode % 1000 ')' $u_plus_rw`;;
*)
if test -z "$stripcmd"; then
u_plus_rw=
else
u_plus_rw=,u+rw
fi
cp_umask=$mode$u_plus_rw;;
esac
fi
for src
do
# Protect names problematic for `test' and other utilities.
case $src in
-* | [=\(\)!]) src=./$src;;
esac
if test -n "$dir_arg"; then
dst=$src
dstdir=$dst
test -d "$dstdir"
dstdir_status=$?
else
# Waiting for this to be detected by the "$cpprog $src $dsttmp" command
# might cause directories to be created, which would be especially bad
# if $src (and thus $dsttmp) contains '*'.
if test ! -f "$src" && test ! -d "$src"; then
echo "$0: $src does not exist." >&2
exit 1
fi
if test -z "$dst_arg"; then
echo "$0: no destination specified." >&2
exit 1
fi
dst=$dst_arg
# If destination is a directory, append the input filename; won't work
# if double slashes aren't ignored.
if test -d "$dst"; then
if test -n "$no_target_directory"; then
echo "$0: $dst_arg: Is a directory" >&2
exit 1
fi
dstdir=$dst
dst=$dstdir/`basename "$src"`
dstdir_status=0
else
# Prefer dirname, but fall back on a substitute if dirname fails.
dstdir=`
(dirname "$dst") 2>/dev/null ||
expr X"$dst" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
X"$dst" : 'X\(//\)[^/]' \| \
X"$dst" : 'X\(//\)$' \| \
X"$dst" : 'X\(/\)' \| . 2>/dev/null ||
echo X"$dst" |
sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{
s//\1/
q
}
/^X\(\/\/\)[^/].*/{
s//\1/
q
}
/^X\(\/\/\)$/{
s//\1/
q
}
/^X\(\/\).*/{
s//\1/
q
}
s/.*/./; q'
`
test -d "$dstdir"
dstdir_status=$?
fi
fi
obsolete_mkdir_used=false
if test $dstdir_status != 0; then
case $posix_mkdir in
'')
# Create intermediate dirs using mode 755 as modified by the umask.
# This is like FreeBSD 'install' as of 1997-10-28.
umask=`umask`
case $stripcmd.$umask in
# Optimize common cases.
*[2367][2367]) mkdir_umask=$umask;;
.*0[02][02] | .[02][02] | .[02]) mkdir_umask=22;;
*[0-7])
mkdir_umask=`expr $umask + 22 \
- $umask % 100 % 40 + $umask % 20 \
- $umask % 10 % 4 + $umask % 2
`;;
*) mkdir_umask=$umask,go-w;;
esac
# With -d, create the new directory with the user-specified mode.
# Otherwise, rely on $mkdir_umask.
if test -n "$dir_arg"; then
mkdir_mode=-m$mode
else
mkdir_mode=
fi
posix_mkdir=false
case $umask in
*[123567][0-7][0-7])
# POSIX mkdir -p sets u+wx bits regardless of umask, which
# is incompatible with FreeBSD 'install' when (umask & 300) != 0.
;;
*)
tmpdir=${TMPDIR-/tmp}/ins$RANDOM-$$
trap 'ret=$?; rmdir "$tmpdir/d" "$tmpdir" 2>/dev/null; exit $ret' 0
if (umask $mkdir_umask &&
exec $mkdirprog $mkdir_mode -p -- "$tmpdir/d") >/dev/null 2>&1
then
if test -z "$dir_arg" || {
# Check for POSIX incompatibilities with -m.
# HP-UX 11.23 and IRIX 6.5 mkdir -m -p sets group- or
# other-writeable bit of parent directory when it shouldn't.
# FreeBSD 6.1 mkdir -m -p sets mode of existing directory.
ls_ld_tmpdir=`ls -ld "$tmpdir"`
case $ls_ld_tmpdir in
d????-?r-*) different_mode=700;;
d????-?--*) different_mode=755;;
*) false;;
esac &&
$mkdirprog -m$different_mode -p -- "$tmpdir" && {
ls_ld_tmpdir_1=`ls -ld "$tmpdir"`
test "$ls_ld_tmpdir" = "$ls_ld_tmpdir_1"
}
}
then posix_mkdir=:
fi
rmdir "$tmpdir/d" "$tmpdir"
else
# Remove any dirs left behind by ancient mkdir implementations.
rmdir ./$mkdir_mode ./-p ./-- 2>/dev/null
fi
trap '' 0;;
esac;;
esac
if
$posix_mkdir && (
umask $mkdir_umask &&
$doit_exec $mkdirprog $mkdir_mode -p -- "$dstdir"
)
then :
else
# The umask is ridiculous, or mkdir does not conform to POSIX,
# or it failed possibly due to a race condition. Create the
# directory the slow way, step by step, checking for races as we go.
case $dstdir in
/*) prefix='/';;
[-=\(\)!]*) prefix='./';;
*) prefix='';;
esac
eval "$initialize_posix_glob"
oIFS=$IFS
IFS=/
$posix_glob set -f
set fnord $dstdir
shift
$posix_glob set +f
IFS=$oIFS
prefixes=
for d
do
test X"$d" = X && continue
prefix=$prefix$d
if test -d "$prefix"; then
prefixes=
else
if $posix_mkdir; then
(umask=$mkdir_umask &&
$doit_exec $mkdirprog $mkdir_mode -p -- "$dstdir") && break
# Don't fail if two instances are running concurrently.
test -d "$prefix" || exit 1
else
case $prefix in
*\'*) qprefix=`echo "$prefix" | sed "s/'/'\\\\\\\\''/g"`;;
*) qprefix=$prefix;;
esac
prefixes="$prefixes '$qprefix'"
fi
fi
prefix=$prefix/
done
if test -n "$prefixes"; then
# Don't fail if two instances are running concurrently.
(umask $mkdir_umask &&
eval "\$doit_exec \$mkdirprog $prefixes") ||
test -d "$dstdir" || exit 1
obsolete_mkdir_used=true
fi
fi
fi
if test -n "$dir_arg"; then
{ test -z "$chowncmd" || $doit $chowncmd "$dst"; } &&
{ test -z "$chgrpcmd" || $doit $chgrpcmd "$dst"; } &&
{ test "$obsolete_mkdir_used$chowncmd$chgrpcmd" = false ||
test -z "$chmodcmd" || $doit $chmodcmd $mode "$dst"; } || exit 1
else
# Make a couple of temp file names in the proper directory.
dsttmp=$dstdir/_inst.$$_
rmtmp=$dstdir/_rm.$$_
# Trap to clean up those temp files at exit.
trap 'ret=$?; rm -f "$dsttmp" "$rmtmp" && exit $ret' 0
# Copy the file name to the temp name.
(umask $cp_umask && $doit_exec $cpprog "$src" "$dsttmp") &&
# and set any options; do chmod last to preserve setuid bits.
#
# If any of these fail, we abort the whole thing. If we want to
# ignore errors from any of these, just make sure not to ignore
# errors from the above "$doit $cpprog $src $dsttmp" command.
#
{ test -z "$chowncmd" || $doit $chowncmd "$dsttmp"; } &&
{ test -z "$chgrpcmd" || $doit $chgrpcmd "$dsttmp"; } &&
{ test -z "$stripcmd" || $doit $stripcmd "$dsttmp"; } &&
{ test -z "$chmodcmd" || $doit $chmodcmd $mode "$dsttmp"; } &&
# If -C, don't bother to copy if it wouldn't change the file.
if $copy_on_change &&
old=`LC_ALL=C ls -dlL "$dst" 2>/dev/null` &&
new=`LC_ALL=C ls -dlL "$dsttmp" 2>/dev/null` &&
eval "$initialize_posix_glob" &&
$posix_glob set -f &&
set X $old && old=:$2:$4:$5:$6 &&
set X $new && new=:$2:$4:$5:$6 &&
$posix_glob set +f &&
test "$old" = "$new" &&
$cmpprog "$dst" "$dsttmp" >/dev/null 2>&1
then
rm -f "$dsttmp"
else
# Rename the file to the real destination.
$doit $mvcmd -f "$dsttmp" "$dst" 2>/dev/null ||
# The rename failed, perhaps because mv can't rename something else
# to itself, or perhaps because mv is so ancient that it does not
# support -f.
{
# Now remove or move aside any old file at destination location.
# We try this two ways since rm can't unlink itself on some
# systems and the destination file might be busy for other
# reasons. In this case, the final cleanup might fail but the new
# file should still install successfully.
{
test ! -f "$dst" ||
$doit $rmcmd -f "$dst" 2>/dev/null ||
{ $doit $mvcmd -f "$dst" "$rmtmp" 2>/dev/null &&
{ $doit $rmcmd -f "$rmtmp" 2>/dev/null; :; }
} ||
{ echo "$0: cannot unlink or rename $dst" >&2
(exit 1); exit 1
}
} &&
# Now rename the file to the real destination.
$doit $mvcmd "$dsttmp" "$dst"
}
fi || exit 1
trap '' 0
fi
done
# Local variables:
# eval: (add-hook 'write-file-hooks 'time-stamp)
# time-stamp-start: "scriptversion="
# time-stamp-format: "%:y-%02m-%02d.%02H"
# time-stamp-time-zone: "UTC"
# time-stamp-end: "; # UTC"
# End:

331
thirdParty/Zoltan/config/missing vendored Executable file
View File

@ -0,0 +1,331 @@
#! /bin/sh
# Common stub for a few missing GNU programs while installing.
scriptversion=2012-01-06.13; # UTC
# Copyright (C) 1996, 1997, 1999, 2000, 2002, 2003, 2004, 2005, 2006,
# 2008, 2009, 2010, 2011, 2012 Free Software Foundation, Inc.
# Originally by Fran,cois Pinard <pinard@iro.umontreal.ca>, 1996.
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2, or (at your option)
# any later version.
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
# As a special exception to the GNU General Public License, if you
# distribute this file as part of a program that contains a
# configuration script generated by Autoconf, you may include it under
# the same distribution terms that you use for the rest of that program.
if test $# -eq 0; then
echo 1>&2 "Try \`$0 --help' for more information"
exit 1
fi
run=:
sed_output='s/.* --output[ =]\([^ ]*\).*/\1/p'
sed_minuso='s/.* -o \([^ ]*\).*/\1/p'
# In the cases where this matters, `missing' is being run in the
# srcdir already.
if test -f configure.ac; then
configure_ac=configure.ac
else
configure_ac=configure.in
fi
msg="missing on your system"
case $1 in
--run)
# Try to run requested program, and just exit if it succeeds.
run=
shift
"$@" && exit 0
# Exit code 63 means version mismatch. This often happens
# when the user try to use an ancient version of a tool on
# a file that requires a minimum version. In this case we
# we should proceed has if the program had been absent, or
# if --run hadn't been passed.
if test $? = 63; then
run=:
msg="probably too old"
fi
;;
-h|--h|--he|--hel|--help)
echo "\
$0 [OPTION]... PROGRAM [ARGUMENT]...
Handle \`PROGRAM [ARGUMENT]...' for when PROGRAM is missing, or return an
error status if there is no known handling for PROGRAM.
Options:
-h, --help display this help and exit
-v, --version output version information and exit
--run try to run the given command, and emulate it if it fails
Supported PROGRAM values:
aclocal touch file \`aclocal.m4'
autoconf touch file \`configure'
autoheader touch file \`config.h.in'
autom4te touch the output file, or create a stub one
automake touch all \`Makefile.in' files
bison create \`y.tab.[ch]', if possible, from existing .[ch]
flex create \`lex.yy.c', if possible, from existing .c
help2man touch the output file
lex create \`lex.yy.c', if possible, from existing .c
makeinfo touch the output file
yacc create \`y.tab.[ch]', if possible, from existing .[ch]
Version suffixes to PROGRAM as well as the prefixes \`gnu-', \`gnu', and
\`g' are ignored when checking the name.
Send bug reports to <bug-automake@gnu.org>."
exit $?
;;
-v|--v|--ve|--ver|--vers|--versi|--versio|--version)
echo "missing $scriptversion (GNU Automake)"
exit $?
;;
-*)
echo 1>&2 "$0: Unknown \`$1' option"
echo 1>&2 "Try \`$0 --help' for more information"
exit 1
;;
esac
# normalize program name to check for.
program=`echo "$1" | sed '
s/^gnu-//; t
s/^gnu//; t
s/^g//; t'`
# Now exit if we have it, but it failed. Also exit now if we
# don't have it and --version was passed (most likely to detect
# the program). This is about non-GNU programs, so use $1 not
# $program.
case $1 in
lex*|yacc*)
# Not GNU programs, they don't have --version.
;;
*)
if test -z "$run" && ($1 --version) > /dev/null 2>&1; then
# We have it, but it failed.
exit 1
elif test "x$2" = "x--version" || test "x$2" = "x--help"; then
# Could not run --version or --help. This is probably someone
# running `$TOOL --version' or `$TOOL --help' to check whether
# $TOOL exists and not knowing $TOOL uses missing.
exit 1
fi
;;
esac
# If it does not exist, or fails to run (possibly an outdated version),
# try to emulate it.
case $program in
aclocal*)
echo 1>&2 "\
WARNING: \`$1' is $msg. You should only need it if
you modified \`acinclude.m4' or \`${configure_ac}'. You might want
to install the \`Automake' and \`Perl' packages. Grab them from
any GNU archive site."
touch aclocal.m4
;;
autoconf*)
echo 1>&2 "\
WARNING: \`$1' is $msg. You should only need it if
you modified \`${configure_ac}'. You might want to install the
\`Autoconf' and \`GNU m4' packages. Grab them from any GNU
archive site."
touch configure
;;
autoheader*)
echo 1>&2 "\
WARNING: \`$1' is $msg. You should only need it if
you modified \`acconfig.h' or \`${configure_ac}'. You might want
to install the \`Autoconf' and \`GNU m4' packages. Grab them
from any GNU archive site."
files=`sed -n 's/^[ ]*A[CM]_CONFIG_HEADER(\([^)]*\)).*/\1/p' ${configure_ac}`
test -z "$files" && files="config.h"
touch_files=
for f in $files; do
case $f in
*:*) touch_files="$touch_files "`echo "$f" |
sed -e 's/^[^:]*://' -e 's/:.*//'`;;
*) touch_files="$touch_files $f.in";;
esac
done
touch $touch_files
;;
automake*)
echo 1>&2 "\
WARNING: \`$1' is $msg. You should only need it if
you modified \`Makefile.am', \`acinclude.m4' or \`${configure_ac}'.
You might want to install the \`Automake' and \`Perl' packages.
Grab them from any GNU archive site."
find . -type f -name Makefile.am -print |
sed 's/\.am$/.in/' |
while read f; do touch "$f"; done
;;
autom4te*)
echo 1>&2 "\
WARNING: \`$1' is needed, but is $msg.
You might have modified some files without having the
proper tools for further handling them.
You can get \`$1' as part of \`Autoconf' from any GNU
archive site."
file=`echo "$*" | sed -n "$sed_output"`
test -z "$file" && file=`echo "$*" | sed -n "$sed_minuso"`
if test -f "$file"; then
touch $file
else
test -z "$file" || exec >$file
echo "#! /bin/sh"
echo "# Created by GNU Automake missing as a replacement of"
echo "# $ $@"
echo "exit 0"
chmod +x $file
exit 1
fi
;;
bison*|yacc*)
echo 1>&2 "\
WARNING: \`$1' $msg. You should only need it if
you modified a \`.y' file. You may need the \`Bison' package
in order for those modifications to take effect. You can get
\`Bison' from any GNU archive site."
rm -f y.tab.c y.tab.h
if test $# -ne 1; then
eval LASTARG=\${$#}
case $LASTARG in
*.y)
SRCFILE=`echo "$LASTARG" | sed 's/y$/c/'`
if test -f "$SRCFILE"; then
cp "$SRCFILE" y.tab.c
fi
SRCFILE=`echo "$LASTARG" | sed 's/y$/h/'`
if test -f "$SRCFILE"; then
cp "$SRCFILE" y.tab.h
fi
;;
esac
fi
if test ! -f y.tab.h; then
echo >y.tab.h
fi
if test ! -f y.tab.c; then
echo 'main() { return 0; }' >y.tab.c
fi
;;
lex*|flex*)
echo 1>&2 "\
WARNING: \`$1' is $msg. You should only need it if
you modified a \`.l' file. You may need the \`Flex' package
in order for those modifications to take effect. You can get
\`Flex' from any GNU archive site."
rm -f lex.yy.c
if test $# -ne 1; then
eval LASTARG=\${$#}
case $LASTARG in
*.l)
SRCFILE=`echo "$LASTARG" | sed 's/l$/c/'`
if test -f "$SRCFILE"; then
cp "$SRCFILE" lex.yy.c
fi
;;
esac
fi
if test ! -f lex.yy.c; then
echo 'main() { return 0; }' >lex.yy.c
fi
;;
help2man*)
echo 1>&2 "\
WARNING: \`$1' is $msg. You should only need it if
you modified a dependency of a manual page. You may need the
\`Help2man' package in order for those modifications to take
effect. You can get \`Help2man' from any GNU archive site."
file=`echo "$*" | sed -n "$sed_output"`
test -z "$file" && file=`echo "$*" | sed -n "$sed_minuso"`
if test -f "$file"; then
touch $file
else
test -z "$file" || exec >$file
echo ".ab help2man is required to generate this page"
exit $?
fi
;;
makeinfo*)
echo 1>&2 "\
WARNING: \`$1' is $msg. You should only need it if
you modified a \`.texi' or \`.texinfo' file, or any other file
indirectly affecting the aspect of the manual. The spurious
call might also be the consequence of using a buggy \`make' (AIX,
DU, IRIX). You might want to install the \`Texinfo' package or
the \`GNU make' package. Grab either from any GNU archive site."
# The file to touch is that specified with -o ...
file=`echo "$*" | sed -n "$sed_output"`
test -z "$file" && file=`echo "$*" | sed -n "$sed_minuso"`
if test -z "$file"; then
# ... or it is the one specified with @setfilename ...
infile=`echo "$*" | sed 's/.* \([^ ]*\) *$/\1/'`
file=`sed -n '
/^@setfilename/{
s/.* \([^ ]*\) *$/\1/
p
q
}' $infile`
# ... or it is derived from the source name (dir/f.texi becomes f.info)
test -z "$file" && file=`echo "$infile" | sed 's,.*/,,;s,.[^.]*$,,'`.info
fi
# If the file does not exist, the user really needs makeinfo;
# let's fail without touching anything.
test -f $file || exit 1
touch $file
;;
*)
echo 1>&2 "\
WARNING: \`$1' is needed, and is $msg.
You might have modified some files without having the
proper tools for further handling them. Check the \`README' file,
it often tells you about the needed prerequisites for installing
this package. You may also peek at any GNU archive site, in case
some other package would contain this missing \`$1' program."
exit 1
;;
esac
exit 0
# Local variables:
# eval: (add-hook 'write-file-hooks 'time-stamp)
# time-stamp-start: "scriptversion="
# time-stamp-format: "%:y-%02m-%02d.%02H"
# time-stamp-time-zone: "UTC"
# time-stamp-end: "; # UTC"
# End:

89
thirdParty/Zoltan/config/replace-install-prefix.pl vendored Executable file
View File

@ -0,0 +1,89 @@
#!/usr/bin/perl -w
use strict;
use Getopt::Long;
#
# This script is called to do a set of text replacements for installing
# a Makefile.export.package file so that external clients can use it.
#
# Read in commandline arguments
#
my $exec_prefix = ""; # [required] Abs path to base installation directory (i.e. --prefix=??? option passed to configure)
my $my_export_makefile = ""; # [required] Name only of installed Makefile.export.package file
my $my_top_srcdir = ""; # [required] Abs path to this package's top source directory
my $my_incl_dirs = ""; # [required] Abs path to this package's include directories
my $my_lib_dirs = ""; # [optional] Abs path to this package's library directories (if any exist)
my $dep_package_builddirs = ""; # [optional] Abs paths to other directly dependent framework package build directories (if any exist)
GetOptions(
"exec-prefix=s" => \$exec_prefix,
"my-export-makefile=s" => \$my_export_makefile,
"my-abs-top-srcdir=s" => \$my_top_srcdir,
"my-abs-incl-dirs=s" => \$my_incl_dirs,
"my-abs-lib-dirs=s" => \$my_lib_dirs,
"dep-package-abs-builddirs=s" => \$dep_package_builddirs
);
#
# Validate commandline arguments
#
scalar(@ARGV) == 0 || die;
$exec_prefix ne "" || die;
$my_export_makefile ne "" || die;
$my_top_srcdir ne "" || die;
$my_incl_dirs ne "" || die;
#
# Interpret commandline arguments
#
$exec_prefix = remove_rel_paths($exec_prefix);
my @my_incl_dirs = split(":",$my_incl_dirs);
my @my_lib_dirs = split(":",$my_lib_dirs);
my @dep_export_package_builddirs = split(":",$dep_package_builddirs);
#
# Do the replacements
#
my $my_abs_export_makefile = "${exec_prefix}/include/${my_export_makefile}";
my $cmnd_base = "${my_top_srcdir}/config/token-replace.pl ";
#
foreach(@dep_export_package_builddirs) {
if($_ ne "") {
run_cmnd($cmnd_base . "${_} ${exec_prefix}/include ${my_abs_export_makefile} ${my_abs_export_makefile}");
}
}
#
foreach(@my_incl_dirs) {
if($_ ne "") {
run_cmnd($cmnd_base . "-I${_} -I${exec_prefix}/include ${my_abs_export_makefile} ${my_abs_export_makefile}");
}
}
#
foreach(@my_lib_dirs) {
if($_ ne "") {
run_cmnd($cmnd_base . "-L${_} -L${exec_prefix}/lib ${my_abs_export_makefile} ${my_abs_export_makefile}");
}
}
#
run_cmnd($cmnd_base . "${my_top_srcdir}/config ${exec_prefix}/include ${my_abs_export_makefile} ${my_abs_export_makefile}");
#
# Subroutines
#
sub remove_rel_paths {
my $entry_in = shift;
if ($entry_in=~/-L\.\./) {
return $entry_in;
}
my @paths = split("/",$entry_in);
my @new_paths;
foreach( @paths ) {
if( !($_=~/\.\./) ) {
push @new_paths, $_;
}
else {
pop @new_paths
}
}
return join("/",@new_paths);
}
sub run_cmnd {
my $cmnd = shift;
#print "\n", $cmnd, "\n";
system($cmnd)==0 || die;
}

43
thirdParty/Zoltan/config/string-replace.pl vendored Executable file
View File

@ -0,0 +1,43 @@
#!/usr/bin/perl -w
#
# This perl script replaces a string with another string.
# Here it is allowd for file_in and file_out to be the
# same file.
#
use strict;
#
my $g_use_msg =
"Use: string-replace.pl find_string replacement_string file_in file_out\n";
if( scalar(@ARGV) < 4 ) {
print STDERR $g_use_msg;
exit(-1);
}
#
my $find_string = shift;
my $replacement_string = shift;
my $file_in_name = shift;
my $file_out_name = shift;
#
#
if($file_in_name=~/CVS/) {
# print "Do not replace in CVS\n";
exit;
}
#
open FILE_IN, "<$file_in_name" || die "The file $file_in_name could not be opended for input\n";
my @file_in_array = <FILE_IN>;
close FILE_IN;
#
my @file_out_array;
my $did_replacement = 0;
foreach(@file_in_array) {
#print $_;
$did_replacement = 1 if $_=~s/$find_string/$replacement_string/g;
#print $_;
push @file_out_array, $_;
}
if($did_replacement || $file_out_name ne $file_in_name) {
open FILE_OUT, ">$file_out_name" || die "The file $file_out_name could not be opended for output\n";
print FILE_OUT @file_out_array;
close FILE_OUT;
}

44
thirdParty/Zoltan/config/strip_dup_incl_paths.pl vendored Executable file
View File

@ -0,0 +1,44 @@
#!/usr/bin/perl -w
# This perl script removes duplicate include paths left to the right
use strict;
my @all_incl_paths = @ARGV;
my @cleaned_up_incl_paths;
foreach( @all_incl_paths ) {
$_ = remove_rel_paths($_);
if( !($_=~/-I/) ) {
push @cleaned_up_incl_paths, $_;
}
elsif( !entry_exists($_,\@cleaned_up_incl_paths) ) {
push @cleaned_up_incl_paths, $_;
}
}
print join( " ", @cleaned_up_incl_paths );
#
# Subroutines
#
sub entry_exists {
my $entry = shift; # String
my $list = shift; # Reference to an array
foreach( @$list ) {
if( $entry eq $_ ) { return 1; }
}
return 0;
}
#
sub remove_rel_paths {
my $entry_in = shift;
if ($entry_in=~/-I\.\./) {
return $entry_in;
}
my @paths = split("/",$entry_in);
my @new_paths;
foreach( @paths ) {
if( !($_=~/\.\./) ) {
push @new_paths, $_;
}
else {
pop @new_paths
}
}
return join("/",@new_paths);
}

69
thirdParty/Zoltan/config/strip_dup_libs.pl vendored Executable file
View File

@ -0,0 +1,69 @@
#!/usr/bin/perl -w
# This perl script removes duplicate libraries from the right to the left and
# removes duplicate -L library paths from the left to the right
use strict;
my @all_libs = @ARGV;
#
# Move from left to right and remove duplicate -l libraries
#
my @cleaned_up_libs_first;
foreach( reverse @all_libs ) {
$_ = remove_rel_paths($_);
if( $_=~/-L/ ) {
unshift @cleaned_up_libs_first, $_;
}
else {
if( !entry_exists($_,\@cleaned_up_libs_first) ) {
unshift @cleaned_up_libs_first, $_;
}
}
}
#
# Move from right to left and remove duplicate -L library paths
#
my @cleaned_up_libs;
foreach( @cleaned_up_libs_first ) {
$_ = remove_rel_paths($_);
if( !($_=~/-L/) ) {
push @cleaned_up_libs, $_;
}
elsif( !entry_exists($_,\@cleaned_up_libs) ) {
push @cleaned_up_libs, $_;
}
}
#
# Print the new list of libraries and paths
#
print join( " ", @cleaned_up_libs );
#
# Subroutines
#
sub entry_exists {
my $entry = shift; # String
my $list = shift; # Reference to an array
foreach( @$list ) {
if( $entry eq $_ ) { return 1; }
}
return 0;
}
#
sub remove_rel_paths {
my $entry_in = shift;
if ($entry_in=~/-L\.\./) {
return $entry_in;
}
my @paths = split("/",$entry_in);
my @new_paths;
foreach( @paths ) {
if( !($_=~/\.\./) ) {
push @new_paths, $_;
}
else {
pop @new_paths
}
}
return join("/",@new_paths);
}

67
thirdParty/Zoltan/config/tac_arg_check_mpi.m4 vendored Normal file
View File

@ -0,0 +1,67 @@
dnl @synopsis TAC_ARG_CHECK_MPI
dnl
dnl Check to make sure any definitions set in TAC_ARG_CONFIG_MPI
dnl are valid, set the MPI flags. Test MPI compile using C++ compiler.
dnl
dnl @author Mike Heroux <mheroux@cs.sandia.gov>
dnl
AC_DEFUN([TAC_ARG_CHECK_MPI],
[
if test "X${HAVE_PKG_MPI}" = "Xyes"; then
if test -n "${MPI_DIR}" && test -z "${MPI_INC}"; then
MPI_INC="${MPI_DIR}/include"
fi
if test -n "${MPI_INC}"; then
CPPFLAGS="${CPPFLAGS} -I${MPI_INC}"
fi
AC_LANG_CPLUSPLUS
AC_MSG_CHECKING(for mpi.h)
AC_TRY_CPP([#include "mpi.h"],
[AC_MSG_RESULT(yes)],
[
AC_MSG_RESULT(no)
echo "-----"
echo "Cannot link simple MPI program."
echo "Try --with-mpi-compilers to specify MPI compilers."
echo "Or try --with-mpi-libs, --with-mpi-incdir, --with-mpi-libdir"
echo "to specify all the specific MPI compile options."
echo "-----"
AC_MSG_ERROR(MPI cannot link)
])
if test -n "${MPI_DIR}" && test -z "${MPI_LIBDIR}"; then
MPI_LIBDIR="${MPI_DIR}/lib"
fi
if test -n "${MPI_LIBDIR}"; then
LDFLAGS="${LDFLAGS} -L${MPI_LIBDIR}"
fi
if test -z "${MPI_LIBS}" && test -n "${MPI_LIBDIR}"; then
MPI_LIBS="-lmpi"
fi
if test -n "${MPI_LIBS}"; then
LIBS="${MPI_LIBS} ${LIBS}"
fi
# AC_LANG_CPLUSPLUS
# AC_MSG_CHECKING(whether MPI will link using C++ compiler)
# AC_TRY_LINK([#include <mpi.h>],
# [int c; char** v; MPI_Init(&c,&v);],
# [AC_MSG_RESULT(yes)],
# [AC_MSG_RESULT(no)
# echo "-----"
# echo "Cannot link simple MPI program."
# echo "Or try --with-mpi-libs, --with-mpi-incdir, --with-mpi-libdir"
# echo "to specify all the specific MPI compile options."
# echo "-----"
# AC_MSG_ERROR(MPI cannot link)]
# )
fi
])

232
thirdParty/Zoltan/config/tac_arg_config_mpi.m4 vendored Normal file
View File

@ -0,0 +1,232 @@
dnl @synopsis TAC_ARG_CONFIG_MPI
dnl
dnl Test a variety of MPI options:
dnl --enable-mpi - Turns MPI compiling mode on
dnl --with-mpi - specify root directory of MPI
dnl --with-mpi-compilers - Turns on MPI compiling mode and sets the MPI C++
dnl compiler = mpicxx, mpic++ or mpiCC,
dnl the MPI C compiler = mpicc and
dnl the MPI Fortran compiler = mpif77
dnl --with-mpi-incdir - specify include directory for MPI
dnl --with-mpi-libs - specify MPI libraries
dnl --with-mpi-libdir - specify location of MPI libraries
dnl
dnl If any of these options are set, HAVE_MPI will be defined for both
dnl Autoconf and Automake, and HAVE_MPI will be defined in the
dnl generated config.h file
dnl
dnl
dnl @author Mike Heroux <maherou@sandia.gov>
dnl Modified 12/26/2007 by Jim Willenbring to skip the Fortran compiler
dnl check if Fortran is not enabled.
dnl
AC_DEFUN([TAC_ARG_CONFIG_MPI],
[
AC_ARG_ENABLE(mpi,
[AC_HELP_STRING([--enable-mpi],[MPI support])],
[HAVE_PKG_MPI=$enableval],
[HAVE_PKG_MPI=yes]
)
AC_ARG_WITH(mpi-compilers,
[AC_HELP_STRING([--with-mpi-compilers=PATH],
[use MPI compilers mpicc, mpif77, and mpicxx, mpic++ or mpiCC in the specified path or in the default path if no path is specified. Enables MPI])],
[
if test X${withval} != Xno; then
HAVE_PKG_MPI=yes
if test X${withval} = Xyes; then
# Check for mpicxx, if it does not exist, check for mpic++, if it does
# not exist, use mpiCC instead.
AC_CHECK_PROG(MPI_TEMP_CXX, mpicxx, mpicxx, no)
if test X${MPI_TEMP_CXX} = Xno; then
AC_CHECK_PROG(MPI_CXX, mpic++, mpic++, mpiCC)
else
MPI_CXX=${MPI_TEMP_CXX}
fi
MPI_CC=mpicc
MPI_F77=mpif77
MPI_F90=mpif90
else
if test -f ${withval}/mpicxx; then
MPI_CXX=${withval}/mpicxx
elif test -f ${withval}/mpic++; then
MPI_CXX=${withval}/mpic++
else
MPI_CXX=${withval}/mpiCC
fi
MPI_CC=${withval}/mpicc
MPI_F77=${withval}/mpif77
MPI_F90=${withval}/mpif90
fi
fi
],
[
HAVE_PKG_MPI=yes
# Check for mpicxx, if it does not exist, check for mpic++, if it does
# not exist, use mpiCC instead.
AC_CHECK_PROG(MPI_TEMP_CXX, mpicxx, mpicxx, no)
if test X${MPI_TEMP_CXX} = Xno; then
AC_CHECK_PROG(MPI_CXX, mpic++, mpic++, mpiCC)
else
MPI_CXX=${MPI_TEMP_CXX}
fi
MPI_CC=mpicc
MPI_F77=mpif77
MPI_F90=mpif90
]
)
AC_ARG_WITH(mpi,
[AC_HELP_STRING([--with-mpi=MPIROOT],[use MPI root directory (enables MPI)])],
[
HAVE_PKG_MPI=yes
MPI_DIR=${withval}
AC_MSG_CHECKING(MPI directory)
AC_MSG_RESULT([${MPI_DIR}])
]
)
#AC_ARG_WITH(mpi-include,
#[AC_HELP_STRING([--with-mpi-include],[Obsolete. Use --with-mpi-incdir=DIR instead. Do not prefix DIR with '-I'.])],
#[AC_MSG_ERROR([--with-mpi-include is an obsolte option. Use --with-mpi-incdir=DIR instead. Do not prefix DIR with '-I'. For example '--with-mpi-incdir=/usr/lam_path/include'.])]
#)
AC_ARG_WITH(mpi-libs,
[AC_HELP_STRING([--with-mpi-libs="LIBS"],[MPI libraries @<:@"-lmpi"@:>@])],
[
MPI_LIBS=${withval}
AC_MSG_CHECKING(user-defined MPI libraries)
AC_MSG_RESULT([${MPI_LIBS}])
]
)
AC_ARG_WITH(mpi-incdir,
[AC_HELP_STRING([--with-mpi-incdir=DIR],[MPI include directory @<:@MPIROOT/include@:>@ Do not use -I])],
[
MPI_INC=${withval}
AC_MSG_CHECKING(user-defined MPI includes)
AC_MSG_RESULT([${MPI_INC}])
]
)
AC_ARG_WITH(mpi-libdir,
[AC_HELP_STRING([--with-mpi-libdir=DIR],[MPI library directory @<:@MPIROOT/lib@:>@ Do not use -L])],
[
MPI_LIBDIR=${withval}
AC_MSG_CHECKING(user-defined MPI library directory)
AC_MSG_RESULT([${MPI_LIBDIR}])
]
)
AC_MSG_CHECKING(whether we are using MPI)
AC_MSG_RESULT([${HAVE_PKG_MPI}])
if test "X${HAVE_PKG_MPI}" = "Xyes"; then
AC_DEFINE(HAVE_MPI,,[define if we want to use MPI])
fi
dnl Define Automake version of HAVE_MPI if appropriate
AM_CONDITIONAL(HAVE_MPI, [test "X${HAVE_PKG_MPI}" = "Xyes"])
dnl
dnl --------------------------------------------------------------------
dnl Check for MPI compilers (must be done *before* AC_PROG_CXX,
dnl AC_PROG_CC and AC_PROG_F77)
dnl
dnl --------------------------------------------------------------------
if test "X$ac_cv_use_zoltan_cppdriver" = "Xyes"; then
if test -n "${MPI_CXX}"; then
if test -f ${MPI_CXX}; then
MPI_CXX_EXISTS=yes
else
AC_CHECK_PROG(MPI_CXX_EXISTS, ${MPI_CXX}, yes, no)
fi
if test "X${MPI_CXX_EXISTS}" = "Xyes"; then
CXX=${MPI_CXX}
else
echo "-----"
echo "Cannot find MPI C++ compiler ${MPI_CXX}."
echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH"
echo "or specify a C++ compiler using CXX=<compiler>"
echo "Do not use --with-mpi-compilers if using CXX=<compiler>"
echo "-----"
AC_MSG_ERROR([MPI C++ compiler (${MPI_CXX}) not found.])
fi
fi
fi dnl ac_cv_use_zoltan_cppdriver
if test -n "${MPI_CC}"; then
if test -f ${MPI_CC}; then
MPI_CC_EXISTS=yes
else
AC_CHECK_PROG(MPI_CC_EXISTS, ${MPI_CC}, yes, no)
fi
if test "X${MPI_CC_EXISTS}" = "Xyes"; then
CC=${MPI_CC}
else
echo "-----"
echo "Cannot find MPI C compiler ${MPI_CC}."
echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH"
echo "or specify a C compiler using CC=<compiler>"
echo "Do not use --with-mpi-compilers if using CC=<compiler>"
echo "-----"
AC_MSG_ERROR([MPI C compiler (${MPI_CC}) not found.])
fi
fi
if test "X$ac_cv_use_fortran" = "Xyes"; then
if test -n "${MPI_F77}"; then
if test -f ${MPI_F77}; then
MPI_F77_EXISTS=yes
else
AC_CHECK_PROG(MPI_F77_EXISTS, ${MPI_F77}, yes, no)
fi
if test "X${MPI_F77_EXISTS}" = "Xyes"; then
F77=${MPI_F77}
else
echo "-----"
echo "Cannot find MPI Fortran compiler ${MPI_F77}."
echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH"
echo "or specify a Fortran 77 compiler using F77=<compiler>"
echo "Do not use --with-mpi-compilers if using F77=<compiler>"
echo "-----"
AC_MSG_ERROR([MPI Fortran 77 compiler (${MPI_F77}) not found.])
fi
fi
if test "X$ac_cv_use_fortran90" = "Xyes"; then
if test -n "${MPI_F90}"; then
if test -f ${MPI_F90}; then
MPI_F90_EXISTS=yes
else
AC_CHECK_PROG(MPI_F90_EXISTS, ${MPI_F90}, yes, no)
fi
if test "X${MPI_F90_EXISTS}" = "Xyes"; then
FC=${MPI_F90}
else
echo "-----"
echo "Cannot find MPI Fortran compiler ${MPI_F90}."
echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH"
echo "or specify a Fortran compiler using FC=<compiler>"
echo "Do not use --with-mpi-compilers if using FC=<compiler>"
echo "-----"
AC_MSG_ERROR([MPI Fortran compiler (${MPI_F90}) not found.])
fi
fi
fi dnl ac_cv_use_fortran90
fi dnl ac_cv_use_fortran
])

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dnl Enables export makefile specific code
dnl
dnl The following AM_CONDITIONALS are set for makefiles to access:
dnl USING_EXPORT_MAKEFILES
dnl USING_PERL via TAC_ARG_WITH_PERL
dnl USING_GNUMAKE
dnl
dnl The following AC_DEFINES are set:
dnl HAVE_EXPORT_MAKEFILES
dnl
dnl the following variables are set:
dnl PERL_EXE for the perl executable via TAC_ARG_WITH_PERL
dnl
dnl This file was based on tac_arg_enable_feature.m4 by Mike Heroux
dnl @author Roger Pawlowski <rppawlo@sandia.gov>
dnl
AC_DEFUN([TAC_ARG_ENABLE_EXPORT_MAKEFILES],
[
AC_ARG_ENABLE(export-makefiles,
AC_HELP_STRING([--enable-export-makefiles],[Creates export makefiles in the install (prefix) directory. This option requires perl to be set in your path or defined with --with-perl=<perl executable>. Note that the export makefiles are always created and used in the build directory, but will not be installable without this option to change the paths. (default is $1)]),
ac_cv_use_export_makefiles=$enableval,
ac_cv_use_export_makefiles=$1)
AC_MSG_CHECKING(whether to build export makefiles)
if test "X$ac_cv_use_export_makefiles" != "Xno"; then
AC_MSG_RESULT(yes)
AC_DEFINE([HAVE_EXPORT_MAKEFILES],,[Define if you want to build export makefiles.])
else
AC_MSG_RESULT(no)
fi
AM_CONDITIONAL(USING_EXPORT_MAKEFILES, test X${ac_cv_use_export_makefiles} = Xyes)
# Check for perl to run scripts (Required dependency)
TAC_ARG_WITH_PERL
if test "X$HAVE_PERL" != "Xyes" &&
test "X$ac_cv_use_export_makefiles" != "Xno"; then
AC_MSG_RESULT(no)
AC_MSG_ERROR([Failed to find the perl executable. The flag --enable-export-makefiles requires perl to be either in your path or explicitly defined by the flag --with-perl=<executable>. If you do not require the export makefiles to be installed via 'make install', you can disable the export makefiles with --disable-export-makefiles.])
fi
# Check for using gnumake to clean up link lines via
# gnumake's "shell" command. Optional dependency.
AC_DEFUN([TAC_ARG_WITH_GNUMAKE],
[
AC_ARG_WITH(gnumake,
AC_HELP_STRING([--with-gnumake],[Gnu's make has special functions we can use to eliminate redundant paths in the build and link lines. Enable this if you use gnu-make to build Trilinos. This requires that perl is in your path or that you have specified the perl executable with --with-perl=<perl executable>. Configure will check for the existence of the perl executable and quit with an error if it is not found. (default is no)]),
ac_cv_use_gnumake=$withval, ac_cv_use_gnumake=no)
AC_MSG_CHECKING(whether gnumake specific code should be enabled)
if test "X$ac_cv_use_gnumake" != "Xno"; then
AC_MSG_RESULT(yes)
AC_DEFINE([HAVE_GNUMAKE],,[Define if you are using gnumake - this will shorten your link lines.])
else
AC_MSG_RESULT(no)
fi
AM_CONDITIONAL(USING_GNUMAKE, test "X$ac_cv_use_gnumake" = "Xyes")
])
TAC_ARG_WITH_GNUMAKE
if test "X$HAVE_PERL" != "Xyes" &&
test "X$ac_cv_use_gnumake" != "Xno"; then
AC_MSG_RESULT(no)
AC_MSG_ERROR([The flag --with-gnumake requires perl to be in your path. The perl executable can alternatively be explicitly defined by the flag --with-perl=<executable>.])
fi
])

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dnl @synopsis TAC_ARG_ENABLE_FEATURE(FEATURE_NAME, FEATURE_DESCRIPTION, HAVE_NAME, DEFAULT_VAL)
dnl
dnl Test for --enable-${FEATURE_NAME} and set to DEFAULT_VAL value if feature not specified.
dnl Also calls AC_DEFINE to define HAVE_${HAVE_NAME} if value is not equal to "no"
dnl
dnl Use this macro to help defining whether or not optional
dnl features* should compiled. For example:
dnl
dnl TAC_ARG_ENABLE_FEATURE(epetra, [Configure and build epetra], EPETRA, yes)
dnl
dnl will test for --enable-epetra when configure is run. If it is defined
dnl and not set to "no" or not defined (default is "yes") then HAVE_EPETRA will
dnl be defined, if --enable-epetra is defined to be "no", HAVE_EPETRA will not
dnl be defined.
dnl
dnl *NOTE: epetra, aztecoo, komplex, ifpack, and other software found in
dnl subdirectories of Trilinos/packages are "packages" in their own right.
dnl However, these packages are also "features" of the larger package
dnl "Trilinos". Therefore, when configuring from the Trilinos directory,
dnl it is appropriate to refer to these software packages as "features".
dnl
dnl This file was based on tac_arg_with_package.m4 by Mike Heroux
dnl @author James Willenbring <jmwille@sandia.gov>
dnl
AC_DEFUN([TAC_ARG_ENABLE_FEATURE],
[
AC_ARG_ENABLE([$1],
AC_HELP_STRING([--enable-$1],[$2 (default is [$4])]),
ac_cv_use_$1=$enableval, ac_cv_use_$1=$4)
AC_MSG_CHECKING(whether to use [$1])
if test "X$ac_cv_use_$1" != "Xno"; then
AC_MSG_RESULT(yes)
AC_DEFINE([HAVE_$3],,[Define if want to build $1])
else
AC_MSG_RESULT(no)
fi
])

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dnl @synopsis TAC_ARG_ENABLE_FEATURE_SUB(FEATURE_NAME, SUB_FEATURE_NAME, FEATURE_DESCRIPTION, HAVE_NAME, DEFAULT_VAL)
dnl
dnl This hack gets around the fact that TAC_ARG_ENABLE_FEATURE does not support underscores
dnl in its feature names. TAC_ARG_ENABLE_FEATURE_SUB allows exactly one underscore. Not great,
dnl but arguably better than supporting no underscores.
dnl
dnl TAC_ARG_ENABLE_FEATURE(feature-sub, [Configure and build feature-sub], FEATURE_SUB, yes)
dnl fails because tac_arg_enable_feature tests for ac_cv_use_feature-sub which gets
dnl rejected because the `-' is not allowed in variables. (AC_ARG_ENABLE sets ac_cv_use_feature_sub
dnl to avoid this problem.) Use:
dnl
dnl TAC_ARG_ENABLE_FEATURE(feature, sub, [Configure and build feature-sub], FEATURE_SUB, yes)
dnl instead.
dnl
dnl Test for --enable-${FEATURE_NAME} and set to DEFAULT_VAL value if feature not specified.
dnl Also calls AC_DEFINE to define HAVE_${HAVE_NAME} if value is not equal to "no"
dnl
dnl Use this macro to help defining whether or not optional
dnl features* should compiled. For example:
dnl
dnl TAC_ARG_ENABLE_FEATURE(epetra, [Configure and build epetra], EPETRA, yes)
dnl
dnl will test for --enable-epetra when configure is run. If it is defined
dnl and not set to "no" or not defined (default is "yes") then HAVE_EPETRA will
dnl be defined, if --enable-epetra is defined to be "no", HAVE_EPETRA will not
dnl be defined.
dnl
dnl *NOTE: epetra, aztecoo, komplex, ifpack, and other software found in
dnl subdirectories of Trilinos/packages are "packages" in their own right.
dnl However, these packages are also "features" of the larger package
dnl "Trilinos". Therefore, when configuring from the Trilinos directory,
dnl it is appropriate to refer to these software packages as "features".
dnl
dnl This file was based on tac_arg_enable_package.m4 by Jim Willenbring
dnl @author Ken Stanley <ksstanl@sandia.gov>
dnl
AC_DEFUN([TAC_ARG_ENABLE_FEATURE_SUB],
[
AC_ARG_ENABLE([$1-$2],
AC_HELP_STRING([--enable-$1-$2],[$3 (default is [$5])]),
ac_cv_use_$1_$2=$enableval, ac_cv_use_$1_$2=$5)
AC_MSG_CHECKING(whether to use [$1-$2])
if test "X$ac_cv_use_$1_$2" != "Xno"; then
AC_MSG_RESULT(yes)
AC_DEFINE([HAVE_$4],,[Define if want to build $1-$2])
else
AC_MSG_RESULT(no)
fi
])

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dnl @synopsis TAC_ARG_ENABLE_FEATURE_SUB_CHECK(FEATURE_NAME, SUB_FEATURE_NAME, FEATURE_DESCRIPTION, HAVE_NAME)
dnl
dnl This hack gets around the fact that TAC_ARG_ENABLE_FEATURE does not support underscores
dnl in its feature names. TAC_ARG_ENABLE_FEATURE_SUB_CHECK allows exactly one underscore. Not great,
dnl but arguably better than supporting no underscores.
dnl
dnl TAC_ARG_ENABLE_FEATURE(feature-sub, [Configure and build feature-sub], FEATURE_SUB, yes)
dnl fails because tac_arg_enable_feature tests for ac_cv_use_feature-sub which gets
dnl rejected because the `-' is not allowed in variables. (AC_ARG_ENABLE sets ac_cv_use_feature_sub
dnl to avoid this problem.) Use:
dnl
dnl TAC_ARG_ENABLE_FEATURE_SUB_CHECK(feature, sub, [Configure and build feature-sub], FEATURE_SUB)
dnl instead.
dnl
dnl This macro will test for --enable-${FEATURE_NAME}-${SUB_FEATURE_NAME} when configure is run.
dnl If it is defined and not set to "no" or not defined and --disable-${SUB_FEATURE_NAME} is not
dnl specified then HAVE_${HAVE_NAME} will be defined.
dnl
dnl *NOTE: This macro is designed for the use-case when there is an individual Trilinos package
dnl offering fine-grained control of a Trilinos option. This way, the individual package
dnl option is enabled, as long as the Trilinos option is not disabled. If the Trilinos option is
dnl disabled, then the user must enable each packages option individually. For instance:
dnl
dnl --disable-tests --enable-teuchos-tests
dnl
dnl *NOTE: epetra, aztecoo, komplex, ifpack, and other software found in
dnl subdirectories of Trilinos/packages are "packages" in their own right.
dnl However, these packages are also "features" of the larger package
dnl "Trilinos". Therefore, when configuring from the Trilinos directory,
dnl it is appropriate to refer to these software packages as "features".
dnl
dnl This file was based on tac_arg_enable_package.m4 by Jim Willenbring
dnl and tac_arg_enable_package_sub.m4 by Ken Stanley.
dnl
dnl @author Heidi Thornquist <hkthorn@sandia.gov>
dnl
AC_DEFUN([TAC_ARG_ENABLE_FEATURE_SUB_CHECK],
[
AC_ARG_ENABLE([$2],, ac_cv_use_$2=$enableval, ac_cv_use_$2=yes)
AC_ARG_ENABLE([$1-$2],
AC_HELP_STRING([--enable-$1-$2],[$3 (default is yes if --disable-$2 is not specified)]),
ac_cv_use_$1_$2=$enableval, ac_cv_use_$1_$2=${ac_cv_use_$2})
AC_MSG_CHECKING(whether to use [$1-$2])
if test "X$ac_cv_use_$1_$2" != "Xno"; then
AC_MSG_RESULT(yes)
AC_DEFINE([HAVE_$4],,[Define if want to build $1-$2])
else
AC_MSG_RESULT(no)
fi
])

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dnl @synopsis TAC_ARG_ENABLE_OPTION(FEATURE_NAME, FEATURE_DESCRIPTION, HAVE_NAME, DEFAULT_VAL)
dnl
dnl Test for --enable-${FEATURE_NAME} and set to DEFAULT_VAL value if feature not specified.
dnl Also calls AC_DEFINE to define HAVE_${HAVE_NAME} if value is not equal to "no"
dnl
dnl Use this macro to facilitate definition of options in a package. For example:
dnl
dnl TAC_ARG_ENABLE_OPTION(threads, [enable shared memory threads], THREADS, no)
dnl
dnl will test for --enable-threads when configure is run. If it is defined (and not set to "no")
dnl then HAVE_THREADS will be defined, Otherwise HAVE_THREADS will not be defined.
dnl
dnl @author Mike Heroux <mheroux@cs.sandia.gov>
dnl
AC_DEFUN([TAC_ARG_ENABLE_OPTION],
[
AC_ARG_ENABLE([$1],
AC_HELP_STRING([--enable-$1],[$2 (default is [$4])]),
ac_cv_use_$1=$enableval, ac_cv_use_$1=$4)
AC_MSG_CHECKING(whether to use [$1])
if test "X$ac_cv_use_$1" != "Xno"; then
AC_MSG_RESULT(yes)
AC_DEFINE([HAVE_$3],1,[Define if want to build with $1 enabled])
else
AC_MSG_RESULT(no)
fi
])

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dnl @synopsis TAC_ARG_WITH_3PL_SUB( VALUE_NAME, VALUE_SUB_NAME, VALUE_DESCRIPTION)
dnl
dnl Test for --with-${VALUE_NAME}-${VALUE_SUB_NAME} and set to no if value not specified.
dnl
dnl Use this macro to set variables, such as library names and include paths, which
dnl include an underscore.
dnl
dnl This file was based on tac_arg_with_sub.m4 by Ken Stanley
dnl @author Jim Willenbring <jmwille@sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_3PL_SUB],
[
AC_ARG_WITH([$1-$2],
AC_HELP_STRING([--with-$1-$2],[$3]),
tac_with_$1_$2=$withval, tac_with_$1_$2=no)
])

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dnl @synopsis TAC_ARG_WITH_AR
dnl
dnl Test for --with-ar="ar_program ar_flags".
dnl Default is "ar cru"
dnl
dnl Generates an Automake conditional USE_ALTERNATE_AR that can be tested.
dnl Generates the user-specified archiver command in @ALTERNATE_AR@.
dnl
dnl @author Mike Heroux <mheroux@cs.sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_AR],
[
AC_ARG_WITH(ar,
AC_HELP_STRING([--with-ar], [override archiver command (default is "ar cru")]),
[
AC_MSG_CHECKING(user-defined archiver)
AC_MSG_RESULT([${withval}])
USE_ALTERNATE_AR=yes
ALTERNATE_AR="${withval}"
]
)
if test -n "${SPECIAL_AR}" && test "X${USE_ALTERNATE_AR}" != "Xyes";
then
USE_ALTERNATE_AR=yes
ALTERNATE_AR="${SPECIAL_AR}"
fi
AC_MSG_CHECKING(for special archiver command)
if test "X${USE_ALTERNATE_AR}" = "Xyes"; then
AC_MSG_RESULT([${ALTERNATE_AR}])
AM_CONDITIONAL(USE_ALTERNATE_AR, true)
else
AC_MSG_RESULT([none])
AM_CONDITIONAL(USE_ALTERNATE_AR, false)
fi
AC_SUBST(ALTERNATE_AR)
])

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dnl @synopsis TAC_ARG_WITH_FLAGS(lcase_name, UCASE_NAME)
dnl
dnl Test for --with-lcase_name="compiler/loader flags". if defined, prepend
dnl flags to standard UCASE_NAME definition.
dnl
dnl Use this macro to facilitate additional special flags that should be
dnl passed on to the preprocessor/compilers/loader.
dnl
dnl Example use
dnl
dnl TAC_ARG_WITH_FLAGS(cxxflags, CXXFLAGS)
dnl
dnl tests for --with-cxxflags and pre-pends to CXXFLAGS
dnl
dnl
dnl @author Mike Heroux <mheroux@cs.sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_FLAGS],
[
AC_MSG_CHECKING([whether additional [$2] flags should be added])
AC_ARG_WITH($1,
AC_HELP_STRING([--with-$1],
[additional [$2] flags to be added: will prepend to [$2]]),
[
$2="${withval} ${$2}"
AC_MSG_RESULT([$2 = ${$2}])
],
AC_MSG_RESULT(no)
)
])

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dnl @synopsis TAC_ARG_WITH_INCDIRS
dnl
dnl Test for --with-incdirs="-Iincdir1 -Iincdir2". if defined, prepend
dnl "-Iincdir1 -Iincdir2" to CPPFLAGS
dnl
dnl Use this macro to facilitate addition of directories to include file search path.
dnl
dnl
dnl @author Mike Heroux <mheroux@cs.sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_INCDIRS],
[
AC_MSG_CHECKING([whether additional include search paths defined])
AC_ARG_WITH(incdirs,
AC_HELP_STRING([--with-incdirs],
[additional directories containing include files: will prepend to search here for includes, use -Idir format]),
[
CPPFLAGS="${withval} ${CPPFLAGS}"
CFLAGS="${withval} ${CFLAGS}"
FCFLAGS="${withval} ${FCFLAGS}"
FFLAGS="${withval} ${FFLAGS}"
AC_MSG_RESULT([${withval}])
],
AC_MSG_RESULT(no)
)
])

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dnl @synopsis TAC_ARG_WITH_LIBDIRS
dnl
dnl Test for --with-libdirs="-Llibdir1 -Llibdir2". if defined,
dnl prepend "-Llibdir1 -Llibdir2" to LDFLAGS
dnl
dnl Use this macro to facilitate addition of directories to library search path.
dnl
dnl
dnl @author Mike Heroux <mheroux@cs.sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_LIBDIRS],
[
AC_MSG_CHECKING([whether additional library search paths defined])
AC_ARG_WITH(libdirs,
AC_HELP_STRING([--with-libdirs],
[OBSOLETE use --with-ldflags instead. (ex. --with-ldflags="-L<DIR> -L<DIR2>")]),
[
LDFLAGS="${withval} ${LDFLAGS}"
AC_MSG_RESULT([${withval}])
],
AC_MSG_RESULT(no)
)
])

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dnl @synopsis TAC_ARG_WITH_LIBS
dnl
dnl Test for --with-libs="name(s)".
dnl
dnl Prepends the specified name(s) to the list of libraries to link
dnl with.
dnl
dnl Example use
dnl
dnl TAC_ARG_WITH_LIBS
dnl
dnl tests for --with-libs and pre-pends to LIBS
dnl
dnl @author Jim Willenbring <jmwille@sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_LIBS],
[
AC_MSG_CHECKING([whether additional libraries are needed])
AC_ARG_WITH(libs,
AC_HELP_STRING([--with-libs],
[List additional libraries here. For example, --with-libs=-lsuperlu
or --with-libs=/path/libsuperlu.a]),
[
LIBS="${withval} ${LIBS}"
AC_MSG_RESULT([LIBS = ${LIBS}])
],
AC_MSG_RESULT(no)
)
]
)

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dnl @synopsis TAC_ARG_WITH_PACKAGE(FEATURE_NAME, FEATURE_DESCRIPTION, HAVE_NAME, DEFAULT_VAL)
dnl
dnl Test for --with-${FEATURE_NAME} and set to DEFAULT_VAL value if feature not specified.
dnl Also calls AC_DEFINE to define HAVE_${HAVE_NAME} if value is not equal to "no"
dnl
dnl Use this macro to help defining whether or not interfaces for optional
dnl package should compiled. For example:
dnl
dnl TAC_ARG_WITH_PACKAGE(zoltan, [Enable Zoltan interface support], ZOLTAN, no)
dnl
dnl will test for --with-zoltan when configure is run. If it is defined
dnl (and not set to "no") then HAVE_ZOLTAN will be defined,
dnl Otherwise HAVE_ZOLTAN will not be defined.
dnl
dnl @author Mike Heroux <mheroux@cs.sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_PACKAGE],
[
AC_ARG_WITH([$1],
AC_HELP_STRING([--with-$1],[$2 (default is [$4])]),
ac_cv_use_$1=$withval, ac_cv_use_$1=$4)
AC_MSG_CHECKING(whether to use [$1])
if test "X$ac_cv_use_$1" != "Xno"; then
AC_MSG_RESULT(yes)
AC_DEFINE([HAVE_$3],,[Define if want to build with $1 enabled])
else
AC_MSG_RESULT(no)
fi
])

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dnl @synopsis TAC_ARG_WITH_PERL(DEFAULT_VAL)
dnl
dnl Test for --enable-gnumake and set to DEFAULT_VAL value if feature not specified.
dnl Calls AC_DEFINE to define HAVE_GNUMAKE if value is not equal to "no"
dnl Calls AM_CONDITIONAL to define USING_GNUMAKE to true/false.
dnl
dnl This file was based on tac_arg_with_ar.m4 by Mike Heroux
dnl @author Roger Pawlowski <rppawlo@sandia.gov>
dnl
AC_DEFUN([TAC_ARG_WITH_PERL],
[
AC_ARG_WITH(perl,
AC_HELP_STRING([--with-perl], [supply a perl executable. For example --with-perl=/usr/bin/perl.]),
[
AC_MSG_CHECKING(for user supplied perl executable)
AC_MSG_RESULT([${withval}])
USER_SPECIFIED_PERL=yes
PERL_EXE="${withval}"
],
[
USER_SPECIFIED_PERL=no
])
if test "X${USER_SPECIFIED_PERL}" = "Xyes"; then
AC_CHECK_FILE(${PERL_EXE}, [HAVE_PERL=yes], [HAVE_PERL=no])
AC_SUBST(PERL_EXE, ${PERL_EXE})
else
AC_CHECK_PROG(HAVE_PERL, perl, yes, no)
AC_SUBST(PERL_EXE, perl)
fi
AM_CONDITIONAL(USING_PERL, test X${HAVE_PERL} = Xyes)
])

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#!/usr/bin/perl -w
#
# This perl script replaces a string with another string
# on a token basis. Here it is allowed for file_in and
# file_out to be the same file.
#
use strict;
#
my $g_use_msg =
"Use: token-replace.pl find_token replacement_token file_in file_out\n";
if( scalar(@ARGV) < 4 ) {
print STDERR $g_use_msg;
exit(-1);
}
#
my $find_token = shift;
my $replacement_token = shift;
my $file_in_name = shift;
my $file_out_name = shift;
#
#print "file_in_name = $file_in_name\n";
if($file_in_name=~/CVS/) {
# print "Do not replace in CVS\n";
exit;
}
open FILE_IN, "<$file_in_name" || die "The file $file_in_name could not be opended for input\n";
my @file_in_array = <FILE_IN>;
close FILE_IN;
#
my $match_str = '([^\w\d_]|^)' . $find_token . '([^\w\d_]|$)';
#print $match_str . "\n";
#
my @file_out_array;
my $did_replacement = 0;
foreach(@file_in_array) {
$did_replacement = 1 if $_=~s/$match_str/$1$replacement_token$2/g;
push @file_out_array, $_;
}
if($did_replacement || $file_out_name ne $file_in_name) {
open FILE_OUT, ">$file_out_name" || die "The file $file_out_name could not be opended for output\n";
print FILE_OUT @file_out_array;
close FILE_OUT;
}

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dnl Determine F90 vendor and version string.
AC_DEFUN([WK_FC_GET_VENDOR],
[AC_CACHE_CHECK([the compiler ID],
[wk_cv_prog_f90_version_string],
[$FC -version >conftest.log 2>&1
$FC -V >>conftest.log 2>&1
$FC --version >>conftest.log 2>&1
wk_grep_f90_NAG=`grep NAG conftest.log | head -1`
wk_grep_f90_Compaq=`grep Compaq conftest.log | head -1`
wk_grep_f90_Digital=`grep DIGITAL conftest.log | head -1`
wk_grep_f90_SGI=`grep MIPS conftest.log | head -1`
wk_grep_f90_Intel=`grep 'Intel(R)' conftest.log | head -1`
wk_grep_f90_Sun=`grep 'Sun' conftest.log | head -1`
wk_grep_f90_Lahey=`grep 'Lahey' conftest.log | head -1`
wk_grep_f90_PGI=`grep 'pgf' conftest.log | head -1`
wk_grep_f90_G95=`grep -i 'g95' conftest.log | grep -i 'gcc' | head -1`
wk_grep_f90_GFORTRAN=`grep -i 'GNU Fortran' conftest.log | head -1`
wk_grep_f90_Absoft=`grep -i 'Absoft' conftest.log | head -1`
if test -n "$wk_grep_f90_NAG"; then
wk_cv_prog_f90_type="NAG"
wk_cv_prog_f90_version_string=$wk_grep_f90_NAG
wk_cv_prog_f90_version=[`echo $wk_cv_prog_f90_version_string | sed -e 's/.* Release \([0-9][0-9]*\.[0-9][0-9]*.*$\)/\1/'`]
wk_cv_prog_f90_major_version=[`echo $wk_cv_prog_f90_version | sed -e 's/\([0-9][0-9]*\)\..*/\1/'`]
elif test -n "$wk_grep_f90_Compaq"; then
wk_cv_prog_f90_type="Compaq"
wk_cv_prog_f90_version_string=$wk_grep_f90_Compaq
elif test -n "$wk_grep_f90_Digital"; then
wk_cv_prog_f90_type="DEC"
wk_cv_prog_f90_version_string=$wk_grep_f90_Digital
elif test -n "$wk_grep_f90_SGI"; then
wk_cv_prog_f90_type="SGI"
wk_cv_prog_f90_version_string=$wk_grep_f90_SGI
elif test -n "$wk_grep_f90_Intel"; then
wk_cv_prog_f90_type="Intel"
wk_cv_prog_f90_version_string=$wk_grep_f90_Intel
wk_cv_prog_f90_version=[`echo $wk_cv_prog_f90_version_string | sed -e 's/.* Version \([0-9][0-9]*\.[0-9][0-9]*\) .*/\1/'`]
wk_cv_prog_f90_major_version=[`echo $wk_cv_prog_f90_version | sed -e 's/\([0-9][0-9]*\)\..*/\1/'`]
elif test -n "$wk_grep_f90_Sun"; then
wk_cv_prog_f90_type="Sun"
wk_cv_prog_f90_version_string=$wk_grep_f90_Sun
wk_cv_prog_f90_version=[`echo $wk_cv_prog_f90_version_string | sed -e 's/.* Fortran 95 \([0-9][0-9]*\.[0-9][0-9]*\) .*/\1/'`]
wk_cv_prog_f90_major_version=[`echo $wk_cv_prog_f90_version | sed -e 's/\([0-9][0-9]*\)\..*/\1/'`]
elif test -n "$wk_grep_f90_Lahey"; then
wk_cv_prog_f90_type="Lahey"
wk_cv_prog_f90_version_string=$wk_grep_f90_Lahey
elif test -n "$wk_grep_f90_PGI"; then
wk_cv_prog_f90_type="PGI"
wk_cv_prog_f90_version_string=$wk_grep_f90_PGI
elif test -n "$wk_grep_f90_G95"; then
wk_cv_prog_f90_type="G95"
wk_cv_prog_f90_version_string=$wk_grep_f90_G95
elif test -n "$wk_grep_f90_GFORTRAN"; then
wk_cv_prog_f90_type="GNU"
wk_cv_prog_f90_version_string=$wk_grep_f90_GFORTRAN
wk_cv_prog_f90_version=[`echo $wk_cv_prog_f90_version_string | sed -e 's/.*\([0-9][0-9]*\.[0-9][0-9]*\.[0-9][0-9]*\).*/\1/'`]
wk_cv_prog_f90_major_version=[`echo $wk_cv_prog_f90_version | sed -e 's/\([0-9][0-9]*\)\..*/\1/'`]
elif test -n "$wk_grep_f90_Absoft"; then
wk_cv_prog_f90_type="Absoft"
wk_cv_prog_f90_version_string=$wk_grep_f90_Absoft
else
wk_cv_prog_f90_type="unknown"
wk_cv_prog_f90_version_string="unknown"
fi
rm -f conftest.log
]) dnl end AC_CACHE_CHECK
dnl Vendor-specific variables:
AC_CACHE_CHECK([the compiler vendor], [wk_cv_prog_f90_type])
if test -n "$wk_cv_prog_f90_version"; then
AC_CACHE_CHECK([the compiler version], [wk_cv_prog_f90_version])
else
wk_cv_prog_f90_version=$wk_cv_prog_f90_version_string
fi
if test -n "$wk_cv_prog_f90_major_version"; then
AC_CACHE_CHECK([the compiler major version], [wk_cv_prog_f90_major_version])
else
wk_cv_prog_f90_major_version=$wk_cv_prog_f90_version
fi
FC_VERSION_STRING=$wk_cv_prog_f90_version_string
FC_VENDOR=$wk_cv_prog_f90_type
FC_VERSION=$wk_cv_prog_f90_version
FC_MAJOR_VERSION=$wk_cv_prog_f90_major_version
AC_SUBST(FC_VERSION_STRING)
AC_SUBST(FC_VENDOR)
AC_SUBST(FC_VERSION)
AC_SUBST(FC_MAJOR_VERSION)
dnl Module names: (all compilers apparently have converged to '.mod')
dnl The perl scripts need a quoted version of this
FC_MODNAME='$(1:.o=.mod)'
FC_MODNAME_Q='\$(1:.o=.mod)'
AC_SUBST(FC_MODNAME)
AC_SUBST(FC_MODNAME_Q)
]) dnl end AC_DEFUN

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dnl @synopsis ZAC_ARG_CONFIG_MPI
dnl
dnl Test a variety of MPI options:
dnl --enable-mpi - Turns MPI compiling mode on
dnl --with-mpi - specify root directory of MPI
dnl --with-mpi-compilers - Turns on MPI compiling mode and sets the MPI C++
dnl compiler C, and Fortran
dnl --with-mpi-incdir - specify include directory for MPI
dnl --with-mpi-libs - specify MPI libraries
dnl --with-mpi-libdir - specify location of MPI libraries
dnl
dnl If any of these options are set, HAVE_MPI will be defined for both
dnl Autoconf and Automake, and HAVE_MPI will be defined in the
dnl generated config.h file
dnl
dnl if --disable-mpi, then Zoltan will build serial MPI.
dnl
dnl --enable-mpi and --with-mpi-compilers are the default.
dnl
dnl --without-mpi is actually a user error, but we'll interpret it as --disable-mpi
dnl
dnl If CC, CXX, F77 and/or F90/FTN/FC have been set by the user, and MPI compilers
dnl are desired, these will be assumed to be the MPI compilers.
dnl
dnl This was adapted from the Trilinos TAC_ARG_CONFIG_MPI.
dnl
AC_DEFUN([ZAC_ARG_CONFIG_MPI],
[
HAVE_PKG_MPI=unset
SEEK_MPI_COMPILERS=unset
MPI_COMPILER_PATH=unset
AC_ARG_ENABLE(mpi,
[AC_HELP_STRING([--enable-mpi],[enable MPI support])],
[
if test X${enableval} = Xno; then
HAVE_PKG_MPI=no
else
HAVE_PKG_MPI=yes
fi
]
)
AC_ARG_WITH(mpi,
[AC_HELP_STRING([--with-mpi=MPIROOT],[the MPI root directory (above bin,lib,include), enables MPI])],
[
if test X${withval} = Xno; then
HAVE_PKG_MPI=no
else
HAVE_PKG_MPI=yes
if test X${withval} != Xyes; then
MPI_DIR=${withval}
fi
fi
]
)
AC_ARG_WITH(mpi-compilers,
[AC_HELP_STRING([--with-mpi-compilers={yes/no/path}],[Find MPI compilers/Don't use MPI compilers/Find MPI compilers in path])],
[
HAVE_PKG_MPI=yes
if test X${withval} = Xno; then
SEEK_MPI_COMPILERS=no
else
SEEK_MPI_COMPILERS=yes
if test X${withval} != Xyes; then
MPI_COMPILER_PATH=${withval}
fi
fi
],
[
if test X${HAVE_PKG_MPI} != Xno; then
SEEK_MPI_COMPILERS=yes
HAVE_PKG_MPI=yes
fi
]
)
dnl Using MPI is the default
if test X${HAVE_PKG_MPI} = unset ; then
HAVE_PKG_MPI=yes
fi
if test X${SEEK_MPI_COMPILERS} = Xyes; then
if test X${MPI_COMPILER_PATH} != Xunset ; then
# MPI_SEEK_PATH=$MPI_COMPILER_PATH$PATH_SEPARATOR$PATH
MPI_SEEK_PATH=$MPI_COMPILER_PATH
elif test -n "${MPI_DIR}" ; then
# MPI_SEEK_PATH=$MPI_DIR/bin$PATH_SEPARATOR$PATH
MPI_SEEK_PATH=$MPI_DIR/bin
else
MPI_SEEK_PATH=$PATH
fi
dnl Find C MPI compiler if MPI_CC is not already defined
if test -z "${MPI_CC}"; then
if test -f "${CC}"; then
MPI_CC=${CC}
else
if test -n "${CC}" ; then
MPI_CC_CANDIDATE=${CC}
else
MPI_CC_CANDIDATE=mpicc
fi
AC_PATH_PROG(MPI_CC, ${MPI_CC_CANDIDATE}, [notFound], [PATH = ${MPI_SEEK_PATH}])
if test "${MPI_CC}" != "notFound" ; then
CC=${MPI_CC}
else
echo "-----"
echo "Cannot find MPI C compiler in " ${MPI_SEEK_PATH}
echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH,"
echo "or specify a path to top mpi directory (above bin) with --with-mpi=PATH,"
echo "or specify a C compiler using CC=<compiler>"
echo "or --disable-mpi"
echo "-----"
AC_MSG_ERROR([MPI C compiler not found.])
fi
fi
fi
if test "X$ac_cv_use_zoltan_cppdriver" = "Xyes"; then
dnl Find C++ MPI compiler if MPI_CXX is not already defined
if test -z "${MPI_CXX}"; then
if test -f "${CXX}"; then
MPI_CXX=${CXX}
else
if test -n "${CXX}" ; then
MPI_CXX_CANDIDATES=${CXX}
else
MPI_CXX_CANDIDATES="[mpicxx mpic++ mpiCC]"
fi
AC_PATH_PROGS(MPI_CXX, ${MPI_CXX_CANDIDATES}, [notFound], [PATH = ${MPI_SEEK_PATH}])
if test "${MPI_CXX}" != "notFound" ; then
CXX=${MPI_CXX}
else
echo "-----"
echo "Cannot find MPI C++ compiler in " ${MPI_SEEK_PATH}
echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH,"
echo "or specify a path to top mpi directory (above bin) with --with-mpi=PATH,"
echo "or specify a C++ compiler using CXX=<compiler>"
echo "or --disable-mpi"
echo "-----"
AC_MSG_ERROR([MPI C++ compiler not found.])
fi
fi
fi
fi
# if test "X$ac_cv_use_fortran" = "Xyes"; then
# dnl Find a Fortran 77 MPI compiler if MPI_F77 is not already defined
#
# if test -z "${MPI_F77}"; then
# MPI_F77_CANDIDATE=mpif77
# if test -n "${F77}"; then
# MPI_F77_CANDIDATE=${F77}
# fi
#
# AC_PATH_PROG(MPI_F77, ${MPI_F77_CANDIDATE}, [notFound], [PATH = ${MPI_SEEK_PATH}])
#
# if test "${MPI_F77}" != "notFound" ; then
# F77=${MPI_F77}
# else
# echo "-----"
# echo "Cannot find MPI Fortan 77 compiler."
# echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH,"
# echo "or specify a path to top mpi directory (above bin) with --with-mpi=PATH,"
# echo "or specify a fortran 77 compiler using F77=<compiler>"
# echo "-----"
# AC_MSG_ERROR([MPI C compiler not found.])
# fi
# fi
# fi
if test "X$ac_cv_use_fortran90" = "Xyes"; then
dnl Find a Fortran 90 MPI compiler if MPI_F90 is not already defined
if test -z "${MPI_FC}"; then
if test -f "${FC}"; then
MPI_FC=${FC}
else
MPI_FC_CANDIDATES=""
if test -n "${FC}"; then
MPI_FC_CANDIDATES=${FC}
elif test -n "${FTN}"; then
MPI_FC_CANDIDATES=${FTN}
elif test -n "${F90}"; then
MPI_FC_CANDIDATES=${F90}
fi
if test -n "${MPI_FC_CANDIDATES}" && test -f ${MPI_FC_CANDIDATES} ; then
MPI_FC=${MPI_FC_CANDIDATES}
else
if test -z "${MPI_FC_CANDIDATES}"; then
MPI_FC_CANDIDATES="[mpif90 mpif77]"
fi
AC_PATH_PROGS(MPI_FC, ${MPI_FC_CANDIDATES}, [notFound], [PATH = ${MPI_SEEK_PATH}])
if test "${MPI_FC}" != "notFound" ; then
FC=${MPI_FC}
else
echo "-----"
echo "Cannot find MPI Fortran 90 compiler in " ${MPI_SEEK_PATH}
echo "Specify a path to all mpi compilers with --with-mpi-compilers=PATH,"
echo "or specify a path to top mpi directory (above bin) with --with-mpi=PATH,"
echo "or specify a fortran 90 compiler using FC=<compiler>"
echo "-----"
AC_MSG_ERROR([MPI C compiler not found.])
fi
fi
fi
fi
fi
fi
#AC_ARG_WITH(mpi-include,
#[AC_HELP_STRING([--with-mpi-include],[Obsolete. Use --with-mpi-incdir=DIR instead. Do not prefix DIR with '-I'.])],
#[AC_MSG_ERROR([--with-mpi-include is an obsolte option. Use --with-mpi-incdir=DIR instead. Do not prefix DIR with '-I'. For example '--with-mpi-incdir=/usr/lam_path/include'.])]
#)
AC_ARG_WITH(mpi-libs,
[AC_HELP_STRING([--with-mpi-libs="LIBS"],[MPI libraries @<:@"-lmpi"@:>@])],
[
MPI_LIBS=${withval}
AC_MSG_CHECKING(user-defined MPI libraries)
AC_MSG_RESULT([${MPI_LIBS}])
]
)
AC_ARG_WITH(mpi-incdir,
[AC_HELP_STRING([--with-mpi-incdir=DIR],[MPI include directory @<:@MPIROOT/include@:>@ Do not use -I])],
[
MPI_INC=${withval}
AC_MSG_CHECKING(user-defined MPI includes)
AC_MSG_RESULT([${MPI_INC}])
]
)
AC_ARG_WITH(mpi-libdir,
[AC_HELP_STRING([--with-mpi-libdir=DIR],[MPI library directory @<:@MPIROOT/lib@:>@ Do not use -L])],
[
MPI_LIBDIR=${withval}
AC_MSG_CHECKING(user-defined MPI library directory)
AC_MSG_RESULT([${MPI_LIBDIR}])
]
)
AC_MSG_CHECKING(whether we are using MPI)
AC_MSG_RESULT([${HAVE_PKG_MPI}])
if test "X${HAVE_PKG_MPI}" = "Xyes"; then
AC_DEFINE(HAVE_MPI,,[define if we want to use MPI])
fi
dnl Define Automake version of HAVE_MPI if appropriate
AM_CONDITIONAL(HAVE_MPI, [test "X${HAVE_PKG_MPI}" = "Xyes"])
])

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dnl @synopsis ZAC_ARG_WITH_ID
dnl
dnl Test for "--with-id-type="
dnl Default is "unsigned int". Can also be "long", "llong" or "int".
dnl
dnl Generates config.h macro.
dnl
AC_DEFUN([ZAC_ARG_WITH_ID],
[
AC_MSG_CHECKING([data type for ZOLTAN_ID_TYPE])
zoltan_id_type="unset"
AC_ARG_WITH(id-type,
AC_HELP_STRING([--with-id-type], [Zoltan global ID type: uint (default), ulong, or ullong]),
[
if test "X$withval" == "Xuint" ; then
AC_DEFINE([UNSIGNED_INT_GLOBAL_IDS],[1],[define if ZOLTAN_ID_TYPE is unsigned int])
zoltan_id_type="unsigned int"
else
if test "X$withval" == "Xulong" ; then
AC_DEFINE([UNSIGNED_LONG_GLOBAL_IDS],[1],[define if ZOLTAN_ID_TYPE is unsigned long])
zoltan_id_type="unsigned long"
else
if test "X$withval" == "Xullong" ; then
AC_DEFINE([UNSIGNED_LONG_LONG_GLOBAL_IDS],[1],[define if ZOLTAN_ID_TYPE is unsigned long long])
zoltan_id_type="unsigned long long"
else
AC_MSG_ERROR([Valid global ID types for Zoltan are uint, ulong, and ullong])
fi
fi
fi
],
[
AC_DEFINE([UNSIGNED_INT_GLOBAL_IDS],[1],[define if ZOLTAN_ID_TYPE is unsigned int])
zoltan_id_type="unsigned int"
]
)
AC_MSG_RESULT([typedef $zoltan_id_type ZOLTAN_ID_TYPE])
]
)

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463
thirdParty/Zoltan/configure.ac vendored Normal file
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# @HEADER
#
########################################################################
#
# Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
# Copyright 2012 Sandia Corporation
#
# Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
# the U.S. Government retains certain rights in this software.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
#
# 2. Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
#
# 3. Neither the name of the Corporation nor the names of the
# contributors may be used to endorse or promote products derived from
# this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
# EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
# PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
# CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
# EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
# PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
# LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
# NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
#
# Questions? Contact Karen Devine kddevin@sandia.gov
# Erik Boman egboman@sandia.gov
#
########################################################################
#
# @HEADER
# ------------------------------------------------------------------------
# Process this file with autoconf to produce a configure script.
# ------------------------------------------------------------------------
# ------------------------------------------------------------------------
# Initialization
# ------------------------------------------------------------------------
# This must be the first line in configure.ac.
# Optional 3rd argument is email address for bugs.
AC_INIT(Zoltan, 3.6, lriesen@sandia.gov)
echo "----------------------------------------"
echo "Running Zoltan Configure Script"
echo "----------------------------------------"
# This is to protect against accidentally specifying the wrong
# directory with --srcdir. Any file in that directory will do,
# preferably one that is unlikely to be removed or renamed.
AC_CONFIG_SRCDIR([src/include/zoltan.h])
# Specify directory for auxillary build tools (e.g., install-sh,
# config.sub, config.guess) and M4 files.
AC_CONFIG_AUX_DIR(config)
#
# We don't want people to configure in the source directory. Some
# things may break.
#
if test -e configure.ac ; then
echo "You are trying to run configure in the source directory. This is not allowed. Please run configure from a separate build directory."
exit
fi
# Configure should create src/Zoltan_config.h from src/Zoltan_config.h.in
AM_CONFIG_HEADER(src/include/Zoltan_config.h:src/include/Zoltan_config.h.in)
# Allow users to specify their own "install" command. If none is specified,
# the default is install-sh found in the config subdirectory.
AC_ARG_WITH(install,
[AC_HELP_STRING([--with-install=INSTALL_PROGRAM],
[Use the installation program INSTALL_PROGRAM rather the default that is provided. For example --with-install="/path/install -p"])],
[
INSTALL=$withval
INSTALL_PROGRAM=$withval
INSTALL_SCRIPT=$withval
INSTALL_DATA="$withval -m 644"
],)
# AM_MAINTAINER_MODE turns off maintainer-only makefile targets by
# default, and changes configure to understand a
# --enable-maintainer-mode option. --enable-maintainer-mode turns the
# maintainer-only targets back on. The maintainer-only makefile
# targets permit end users to clean automatically-generated files such
# as configure, which means they have to have autoconf and automake
# installed to repair the damage. AM_MAINTAINER_MODE makes it a bit
# harder for users to shoot themselves in the foot.
AM_MAINTAINER_MODE
# Define $build, $host, $target, etc
AC_CANONICAL_TARGET
# Note in header file and Makefile conditional what the host OS is
AM_CONDITIONAL(HOST_CYGWIN, false)
AM_CONDITIONAL(HOST_LINUX, false)
AM_CONDITIONAL(HOST_SOLARIS, false)
case $host_os in
cygwin)
AM_CONDITIONAL(HOST_CYGWIN, true)
AC_DEFINE(HOST_CYGWIN,1,[software host will be cygwin])
;;
linux*)
AM_CONDITIONAL(HOST_LINUX, true)
AC_DEFINE(HOST_LINUX,1,[software host will be linux])
;;
solaris*)
AM_CONDITIONAL(HOST_SOLARIS, true)
AC_DEFINE(HOST_SOLARIS,1,[software host will be solaris])
;;
esac
# Use automake
# - Required version of automake.
AM_INIT_AUTOMAKE(1.9.6 no-define tar-ustar)
# Specify required version of autoconf.
AC_PREREQ(2.59)
#TAC_ARG_ENABLE_OPTION(fortran, [enable Fortran support], FORTRAN_SUPPORT, no)
#This option is not currently available
TAC_ARG_ENABLE_OPTION(f90interface, [enable Fortran 90 interface (automatically enables Fortran support)], F90INTERFACE, no)
AM_CONDITIONAL(BUILD_ZOLTAN_F90_INTERFACE, [test "X$ac_cv_use_f90interface" != "Xno"])
#AM_CONDITIONAL(USE_FORTRAN, [test "X$ac_cv_use_fortran" != "Xno"])
if test "X$ac_cv_use_f90interface" = "Xyes"; then
ac_cv_use_fortran=yes
else
ac_cv_use_fortran=no
fi
if test "X$ac_cv_use_fortran" = "Xyes"; then
ac_cv_use_fortran90=yes
# AX_F90_MODULE_FLAG
# if test "X$ax_cv_f90_modflag" = "Xunknown" ; then
# AC_MSG_ERROR([unable to find f90 modules extension])
# else
# FCFLAGS="$ax_cv_f90_modflag../ $ax_cv_f90_modflag. ${FCFLAGS}"
# fi
else
ac_cv_use_fortran90=no
fi
TAC_ARG_ENABLE_FEATURE_SUB(zoltan, cppdriver, [Enable Zoltan's C++ driver], ZOLTAN_CPPDRIVER, yes)
AM_CONDITIONAL(HAVE_ZOLTAN_CPPDRIVER, [test "X$ac_cv_use_zoltan_cppdriver" != "Xno"])
#This can be removed after we retire the old build system
#AC_DEFINE([TRILINOS_CONFIG_H],,[Define when using the autotools to build Zoltan])
# ------------------------------------------------------------------------
# Check to see if MPI enabled and if any special configuration done
# ------------------------------------------------------------------------
# We may want to handle this differently because Zoltan requires MPI
#TAC_ARG_CONFIG_MPI
ZAC_ARG_CONFIG_MPI
# #np# - can eliminate compiler checks below if your package does not use the
# language corresponding to the check. Please note that if you use
# F77_FUNC to determine Fortran name mangling, you should not remove
# the Fortran compiler check or the check for Fortran flags. Doing
# so will prevent the detection of the proper name mangling in some
# cases.
AC_ARG_ENABLE(mpi-recv-limit,
AS_HELP_STRING([--enable-mpi-recv-limit],[Set to the limit on the number of simultaneous MPI posted receives, if any; default is --enable-mpi-recv-limit=10]),
[ AC_MSG_NOTICE(Building Zoltan to observe a limit of $enable_mpi_recv_limit simultaneously posted MPI receives)
AC_SUBST(MPI_RECV_LIMIT_FLAG, "-DMPI_RECV_LIMIT=$enable_mpi_recv_limit")
]
)
# ------------------------------------------------------------------------
# Checks for programs
# ------------------------------------------------------------------------
AM_PROG_CC_C_O(cc gcc)
#Conditional only?
#if test "X$ac_cv_use_zoltan_cppdriver" = "Xyes"; then
AC_PROG_CXX(CC g++ c++ cxx)
#fi
if test "X$ac_cv_use_fortran90" = "Xyes"; then
AC_PROG_FC(FC gfortran f90 xlf90 f95)
fi
if test "X$ac_cv_use_fortran" = "Xyes"; then
AC_PROG_FC(FC gfortran f90 xlf90 f95)
fi
AC_PROG_RANLIB
# Check if --with-flags present, prepend any specs to FLAGS
TAC_ARG_WITH_FLAGS(ccflags, CCFLAGS)
#if test "X$ac_cv_use_zoltan_cppdriver" = "Xyes"; then
TAC_ARG_WITH_FLAGS(cxxflags, CXXFLAGS)
CXXFLAGS="-DMPICH_IGNORE_CXX_SEEK ${CXXFLAGS}"
#fi
TAC_ARG_WITH_FLAGS(cflags, CFLAGS)
TAC_ARG_WITH_FLAGS(fcflags, FCFLAGS)
#TAC_ARG_WITH_FLAGS(fflags, FFLAGS)
TAC_ARG_WITH_LIBS
TAC_ARG_WITH_FLAGS(ldflags, LDFLAGS)
# ------------------------------------------------------------------------
# Alternate archiver
# ------------------------------------------------------------------------
TAC_ARG_WITH_AR
# ------------------------------------------------------------------------
# MPI link check
# ------------------------------------------------------------------------
TAC_ARG_CHECK_MPI
# ------------------------------------------------------------------------
# Checks for Makefile.export related systems
# ------------------------------------------------------------------------
# Add this later
TAC_ARG_ENABLE_EXPORT_MAKEFILES(yes)
# ------------------------------------------------------------------------
# Checks for special package flags
# ------------------------------------------------------------------------
ZAC_ARG_WITH_ID()
TAC_ARG_ENABLE_OPTION(gzip, [enable zlib support for driver], GZIP, no)
if test "X$ac_cv_use_gzip" != "Xno"; then
LIBS="-lz ${LIBS}"
fi
AM_CONDITIONAL(BUILD_GZIP, [test "X$ac_cv_use_gzip" != "Xno"])
TAC_ARG_WITH_PACKAGE(parmetis, [Enable Parmetis support.], PARMETIS, no)
AM_CONDITIONAL(BUILD_PARMETIS, [test "X$ac_cv_use_parmetis" != "Xno"])
TAC_ARG_WITH_3PL_SUB(parmetis, libdir, [Specify where the Parmetis library is located. Ex. /path/to/library])
if test "X$tac_with_parmetis_libdir" != "Xno"; then
LIBS="-L${tac_with_parmetis_libdir} -lparmetis -lmetis ${LIBS}"
fi
TAC_ARG_WITH_3PL_SUB(parmetis, incdir, [Specify where the Parmetis header files are located. Ex. /path/to/headers])
# It was necessary to move the parmetis include directories before the scotch
# include directories.
#if test "X$tac_with_parmetis_incdir" != "Xno"; then
# CPPFLAGS="-I${tac_with_parmetis_incdir} ${CPPFLAGS}"
#fi
TAC_ARG_WITH_PACKAGE(scotch, [Enable Scotch support.], SCOTCH, no)
AM_CONDITIONAL(BUILD_SCOTCH, [test "X$ac_cv_use_scotch" != "Xno"])
TAC_ARG_WITH_3PL_SUB(scotch, libdir, [Specify where the Scotch library is located. Ex. /path/to/library])
if test "X$tac_with_scotch_libdir" != "Xno"; then
LIBS="-L${tac_with_scotch_libdir} -lptscotch -lptscotcherr -lptscotcherrexit -lscotch -lscotcherr -lscotcherrexit ${LIBS}"
fi
TAC_ARG_WITH_3PL_SUB(scotch, incdir, [Specify where the Scotch header files are located. Ex. /path/to/headers])
if test "X$tac_with_scotch_incdir" != "Xno"; then
CPPFLAGS="-I${tac_with_scotch_incdir} ${CPPFLAGS}"
fi
# The parmetis include directories need to be before the Scotch include
# directories.
if test "X$tac_with_parmetis_incdir" != "Xno"; then
CPPFLAGS="-I${tac_with_parmetis_incdir} ${CPPFLAGS}"
fi
TAC_ARG_WITH_PACKAGE(patoh, [Enable Patoh support.], PATOH, no)
TAC_ARG_WITH_3PL_SUB(patoh, libdir, [Specify where the Patoh library is located. Ex. /path/to/library])
if test "X$tac_with_patoh_libdir" != "Xno"; then
LIBS="-L${tac_with_patoh_libdir} -lpatoh ${LIBS}"
fi
TAC_ARG_WITH_3PL_SUB(patoh, incdir, [Specify where the Patoh header files are located. Ex. /path/to/headers])
if test "X$tac_with_patoh_incdir" != "Xno"; then
CPPFLAGS="-I${tac_with_patoh_incdir} ${CPPFLAGS}"
fi
#TAC_ARG_WITH_PACKAGE(drum, [Enable Drum support. Library name as well as library and include paths must be specified using LDFLAGS and CPPFLAGS.], DRUM, no)
#TAC_ARG_WITH_3PL_SUB(drum, libdir, [Specify where the Drum library is located. Ex. /path/to/library])
#if test "X$tac_with_drum_libdir" != "Xno"; then
# LIBS="-L${tac_with_drum_libdir} ${LIBS}"
#fi
#TAC_ARG_WITH_3PL_SUB(drum, incdir, [Specify where the Drum header files are located. Ex. /path/to/headers])
#if test "X$tac_with_drum_incdir" != "Xno"; then
# CPPFLAGS="-I${tac_with_drum_incdir} ${CPPFLAGS}"
#fi
TAC_ARG_WITH_PACKAGE(nemesis_exodus, [Enable Nemesis/Exodus support for the Zdrive test executable. Library and include paths must be specified using LDFLAGS and CFLAGS.], NEMESIS_EXODUS, no)
#I am not sure if we can do this. We may not be able to get things in the right
#order. JW.
if test "X$ac_cv_use_nemesis_exodus" != "Xno"; then
LIBS="-lnemIc -lexoIIv2c -lnetcdf ${LIBS}"
fi
LIBS="${LIBS} -lm"
#TAC_ARG_WITH_PACKAGE(parkway, [Enable Parkway support.], PARKWAY, no)
#TAC_ARG_WITH_3PL_SUB(parkway, libdir, [Specify where the Parkway library is located. Ex. /path/to/library])
#if test "X$tac_with_parkway_libdir" != "Xno"; then
# LIBS="-L${tac_with_parkway_libdir} -lparkway -lpmpich++ -lstdc++ ${LIBS}"
#fi
#TAC_ARG_WITH_3PL_SUB(parkway, incdir, [Specify where the Parkway header files are located. Ex. /path/to/headers])
#if test "X$tac_with_parkway_incdir" != "Xno"; then
# CPPFLAGS="-I${tac_with_parkway_incdir} ${CPPFLAGS}"
#fi
# ------------------------------------------------------------------------
# Checks if tests and examples should be built
# ------------------------------------------------------------------------
TAC_ARG_ENABLE_FEATURE(tests, [Make tests for all Trilinos packages buildable with 'make tests'], TESTS, yes)
TAC_ARG_ENABLE_FEATURE_SUB_CHECK( zoltan, tests, [Make Zoltan tests buildable with 'make tests'], ZOLTAN_TESTS)
AM_CONDITIONAL(BUILD_TESTS, test "X$ac_cv_use_zoltan_tests" != "Xno")
TAC_ARG_ENABLE_FEATURE(examples, [Make examples for all Trilinos packages buildable with 'make examples'], EXAMPLES, yes)
TAC_ARG_ENABLE_FEATURE_SUB_CHECK( zoltan, examples, [Make Zoltan examples buildable with 'make examples'], ZOLTAN_EXAMPLES)
AM_CONDITIONAL(BUILD_EXAMPLES, test "X$ac_cv_use_zoltan_examples" != "Xno")
#We now build tests and examples through separate make targets, rather than
#during "make". We still need to conditionally include the test and example
#in SUBDIRS, even though SUB_TEST and SUB_EXAMPLE will never be
#defined, so that the tests and examples are included in the distribution
#tarball.
AM_CONDITIONAL(SUB_TEST, test "X$ac_cv_use_sub_test" = "Xyes")
AM_CONDITIONAL(SUB_EXAMPLE, test "X$ac_cv_use_sub_example" = "Xyes")
#TAC_ARG_ENABLE_FEATURE(libcheck, [Check for some third-party libraries. (Cannot be disabled unless tests and examples are also disabled.)], LIBCHECK, yes)
# ------------------------------------------------------------------------
# Specify other directories
# ------------------------------------------------------------------------
# enable use of --with-libdirs="-Llibdir1 -Llibdir2 ..." to prepend to LDFLAGS
TAC_ARG_WITH_LIBDIRS
# enable use of --with-incdirs="-Iincdir1 -Iincdir2 ..." to prepend to CPPFLAGS
TAC_ARG_WITH_INCDIRS
# ------------------------------------------------------------------------
# Checks for libraries
# ------------------------------------------------------------------------
ax_cv_f90_modulecase="lower"
FC_VENDOR="none"
# Define F77_FUNC that will be used to link with Fortran subroutines.
if test "X$ac_cv_use_fortran" != "Xno"; then
AC_FC_WRAPPERS
AC_FC_SRCEXT(f)
AC_FC_SRCEXT(f90)
# Determine compile-line flag for F90 modules (e.g., -M).
AX_F90_MODULE_FLAG
if test "X$ax_cv_f90_modflag" = "Xunknown" ; then
AC_MSG_ERROR([unable to find f90 modules extension])
else
FCFLAGS="$ax_cv_f90_modflag../ $ax_cv_f90_modflag. ${FCFLAGS}"
fi
# Determine case (upper or lower) of F90 module files.
AX_F90_MODULE_CASE
echo "KDDKDD " $ax_cv_f90_modulecase
WK_FC_GET_VENDOR()
echo "KDDKDD " $FC_VENDOR
if test "$FC_VENDOR" = "PGI"; then
FCFLAGS="-DPGI ${FCFLAGS}"
CFLAGS="-DPGI ${CFLAGS}"
fi
if test "$FC_VENDOR" = "Lahey"; then
FCFLAGS="-DFUJITSU ${FCFLAGS}"
CFLAGS="-DFUJITSU ${CFLAGS}"
fi
fi
AM_CONDITIONAL(F90_MODULE_LOWERCASE, [test "X$ax_cv_f90_modulecase" != "Xupper"])
AM_CONDITIONAL(NAG_F90_COMPILER, [test "X$FC_VENDOR" == "XNAG"])
# If tests, examples and libcheck are disabled, we don't have to check
# for these libraries.
#if test "X$ac_cv_use_new_package_examples" != "Xno" || test "X$ac_cv_use_libcheck" != "Xno"; then
#if test "X$ac_cv_use_zoltan_tests" != "Xno" || test "X$ac_cv_use_zoltan_examples" != "Xno" || test "X$ac_cv_use_libcheck" != "Xno"; then
# checks for libraries now
dnl Replace `main' with a function in -lm:
#AC_SEARCH_LIBS(pow,[m],,AC_MSG_ERROR(Cannot find math library))
#AC_SEARCH_LIBS(sqrt,[m],,AC_MSG_ERROR(Cannot find math library))
#fi
# end of the list of libraries that don't need to be checked for if
# tests and examples are disabled.
# ------------------------------------------------------------------------
# Checks for linker characteristics
# ------------------------------------------------------------------------
# Determine libraries needed for linking with Fortran
#AC_FC_LIBRARY_LDFLAGS
if test "X$ac_cv_use_fortran" = "Xyes"; then
AC_FC_LIBRARY_LDFLAGS
fi
# ------------------------------------------------------------------------
# Zoltan may be built via autotools, cmake, or our native makefile
# ------------------------------------------------------------------------
CPPFLAGS="-DAUTOTOOLS_BUILD ${CPPFLAGS}"
# ------------------------------------------------------------------------
# Perform substitutions in output files
# ------------------------------------------------------------------------
AC_SUBST(ac_aux_dir)
# ------------------------------------------------------------------------
# Output files
# ------------------------------------------------------------------------
#
AC_CONFIG_FILES([
Makefile
src/Makefile
src/driver/Makefile
src/fdriver/Makefile
Makefile.export.zoltan
example/Makefile
example/C/Makefile
example/CPP/Makefile
siMPI/Makefile
siMPI/pyMPI/Makefile
siMPI/pyMPI/siMPI/Makefile
])
# test/Large_Data/Makefile
# example/lib/Makefile
# example/C/Makefile
# example/C/sparse_matrix/Makefile
# example/CPP/Makefile
# Utilities/Makefile
AC_OUTPUT()
echo "---------------------------------------------"
echo "Finished Running Zoltan Configure Script"
echo "---------------------------------------------"

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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
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!
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<title>Zoltan Developer's Guide: Hybrid Partitioning</title>
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<div align="right"><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp;
|&nbsp; <a href="dev_reftree.html">Next(NEANEA CHANGE ME)</a>&nbsp; |&nbsp; <a
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<h2>
<a name="Hybrid Partitioning"></a>Appendix: Hybrid Partitioning</h2>
Hybrid partitioning is an amalgam of Zoltan's native parallel hypergraph
partitioner (<a href="dev_phg.html">PHG</a>) and it Recursive Coordinate
Bisection algortihm (<a href="dev_rcb.html">RCB</a>). Hybrid partitioning can
be useful when a user is looking to strike a happy medium of both efficiency
and fidelity in their work. Traditional Zoltan-PHG is well suited to minimize
the number of cut hyperedges in the system, but it is comparatively slow due
to the multiple layers of coarsening it goes through and the standard matching
methods used to calculate new vertices for the coarser hypergraph.
<p>
Hypergraph partitioning is a useful partitioning and
load balancing method when connectivity data is available. It can be
viewed as a more sophisticated alternative to
the traditional graph partitioning.
<p>A hypergraph consists of vertices and hyperedges. A hyperedge
connects
one or more vertices. A graph is a special case of a hypergraph where
each edge has size two (two vertices). The hypergraph model is well
suited to parallel computing, where vertices correspond to data objects
and hyperedges represent the communication requirements. The basic
partitioning problem is to partition the vertices into <i>k</i>
approximately equal sets such that the number of cut hyperedges is
minimized. Most partitioners (including Zoltan-PHG) allows a more
general
model where both vertices and hyperedges can be assigned weights.
It has been
shown that the hypergraph model gives a more accurate representation
of communication cost (volume) than the graph model. In particular,
for sparse matrix-vector multiplication, the hypergraph model
<strong>exactly</strong> represents communication volume. Sparse
matrices can be partitioned either along rows or columns;
in the row-net model the columns are vertices and each row corresponds
to an hyperedge, while in the column-net model the roles of vertices
and hyperedges are reversed. </p>
<p>Zoltan contains a native parallel hypergraph partitioner, called PHG
(Parallel HyperGraph partitioner). In addition, Zoltan provides
access to <a href="http://bmi.osu.edu/%7Eumit/software.htm">PaToH</a>,
a serial hypergraph partitioner.
Note that PaToH is not part of Zoltan and should be obtained
separately from the <a href="http://bmi.osu.edu/%7Eumit/software.htm">
PaToH web site</a>.
Zoltan-PHG is a fully parallel multilevel hypergraph partitioner. For
further technical description, see <a
href="ug_refs.html#hypergraph-ipdps06">[Devine et al, 2006]</a>.<br>
</p>
<h4>Algorithm:</h4>
The algorithm used is multilevel hypergraph partitioning. For
coarsening, several versions of inner product (heavy connectivity)
matching are available.
The refinement is based on Fiduccia-Mattheysis (FM) but in parallel it
is only an approximation.
<h4>Parallel implementation:</h4>
A novel feature of our parallel implementation is that we use a 2D
distribution of the hypergraph. That is, each processor owns partial
data about some vertices and some hyperedges. The processors are
logically organized in a 2D grid as well. Most communication is limited
to either a processor row or column. This design should allow for
good scalability on large number of processors.<br>
<h4>Data structures:</h4>
The hypergraph is the most important data structure. This is stored as
a compressed sparse matrix. Note that in parallel, each processor owns
a local part of the global hypergraph
(a submatrix of the whole matrix).
The hypergraph data type is <i>struct HGraph</i>, and contains
information like number of vertices, hyperedges, pins, compressed
storage of all pins, optional vertex and edge weights, pointers
to relevant communicators, and more. One cryptic notation needs an
explanation: The arrays <i>hindex, hvertex</i> are used to
look up vertex info given a hyperedge, and <i>vindex, vedge</i> are
used to look up hyperedge info given a vertex. Essentially,
we store the hypergraph as a sparse matrix in both CSR and CSC formats.
This doubles the memory cost but gives better performance.
The data on each processor is stored using local indexing, starting at zero.
In order to get the global vertex or edge number, use the macros
<i>VTX_LNO_TO_GNO</i> and <i>EDGE_LNO_TO_GNO</i>. These macros will
look up the correct offsets (using the dist_x and dist_y arrays).
Note that <i>phg->nVtx</i> is always the local number of vertices,
which may be zero on some processors.
<h4>Parameters:</h4>
In the User's Guide, only the most essential parameters have been
documented. There are several other parameters, intended for developers
and perhaps expert "power" users. We give a more complete list of all
parameters below. Note that these parameters <span
style="font-style: italic;">may change in future versions!<br>
</span>
For a precise list of parameters in a particular version of Zoltan, look at the source code (phg.c).
<table nosave="" width="100%">
<tbody>
<tr>
<td valign="top"><b>Method String:</b></td>
<td><b>HYPERGRAPH</b></td>
</tr>
<tr>
<td><b>Parameters:</b></td>
<td><br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">HYPERGRAPH_PACKAGE</span><br>
</td>
<td style="vertical-align: top;">PHG (parallel) or PaToH (serial)<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp; <span
style="font-style: italic;">CHECK_HYPERGRAPH</span><br>
</td>
<td style="vertical-align: top;">Check if input data is valid.
(Slows performance;intended for debugging.)<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;"><span style="font-style: italic;">&nbsp;&nbsp;&nbsp;
PHG_OUTPUT_LEVEL</span><br>
</td>
<td style="vertical-align: top;">Level of verbosity; 0 is silent.<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">PHG_FINAL_OUTPUT</span><br>
</td>
<td style="vertical-align: top;">Print stats about final
partition? (0/1)<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">PHG_NPROC_VERTEX</span><br>
</td>
<td style="vertical-align: top;">Desired number of processes in
the vertex direction (for 2D internal layout) </td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">PHG_NPROC_HEDGE</span><br>
</td>
<td style="vertical-align: top;">Desired number of processes in
the hyperedge direction (for 2D internal layout) </td>
</tr>
<tr>
<td valign="top"><i>&nbsp;&nbsp;&nbsp; PHG_COARSENING_METHOD</i></td>
<td>The method to use in matching/coarsening; currently these are
available.&nbsp; <br>
<span style="font-style: italic;">agg</span> - agglomerative inner product
matching (a.k.a. heavy connectivity matching) <br>
<span style="font-style: italic;">ipm</span> - inner product
matching (a.k.a. heavy connectivity matching) <br>
<span style="font-style: italic;">c-ipm</span> -&nbsp; column
ipm;&nbsp; faster method based on ipm within processor columns <br>
<span style="font-style: italic;">a-ipm </span>- alternate
between fast method (l-ipm ) and ipm <br>
<span style="font-style: italic;">l-ipm </span>-&nbsp; local ipm
on each processor. Fastest option&nbsp; but often gives poor quality. <br>
<i>h-ipm - </i>hybrid ipm that&nbsp; uses partial c-ipm followed
by ipm on each level <br>
<i><br>
</i></td>
</tr>
<tr>
<td>&nbsp;&nbsp;&nbsp; <span style="font-style: italic;">PHG_COARSENING_LIMIT</span><br>
</td>
<td>Number of vertices at which to stop coarsening.<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">PHG_VERTEX_VISIT_ORDER</span><br>
</td>
<td style="vertical-align: top;">Ordering of vertices in greedy
matching scheme:<br>
0 - random<br>
1 - natural order (as given by the query functions)<br>
2 - increasing vertex weights<br>
3 - increasing vertex degree<br>
4 - increasing vertex degree, weighted by pins<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">PHG_EDGE_SCALING</span><br>
</td>
<td style="vertical-align: top;">Scale edge weights by some
function of size of the hyperedges:<br>
0 - no scaling<br>
1 - scale by 1/(size-1)&nbsp;&nbsp;&nbsp;&nbsp; [absorption scaling]<br>
2 - scale by 2/((size*size-1)) [clique scaling]<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">PHG_VERTEX_SCALING</span><br>
</td>
<td style="vertical-align: top;">Variations in "inner product"
similarity metric (for matching):<br>
0 - Euclidean inner product: &lt;x,y&gt;<br>
1 - cosine similarity: &lt;x,y&gt;/(|x|*|y|)<br>
2 - &lt;x,y&gt;/(|x|^2 * |y|^2)<br>
3 - scale by sqrt of vertex weights<br>
4 - scale by vertex weights<br>
</td>
</tr>
<tr>
<td valign="top">&nbsp;&nbsp;&nbsp; <i>PHG_COARSEPARTITION_METHOD</i></td>
<td>Method to partition the coarsest (smallest) hypergraph;
typically done in serial:<br>
<span style="font-style: italic;">random</span> - random<br>
<span style="font-style: italic;">linear</span> - linear
(natural) order<br>
<span style="font-style: italic;">greedy </span>- greedy method
based on minimizing cuts<br>
<span style="font-style: italic;">auto </span>- automatically
select from the above methods (in parallel, the processes will do
different methods)<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp;&nbsp; <span
style="font-style: italic;">PHG_REFINEMENT_METHOD</span><br>
</td>
<td style="vertical-align: top;">Refinement algorithm:<br>
&nbsp;<span style="font-style: italic;">fm </span>- two-way
approximate&nbsp; FM<br>
<span style="font-style: italic;">none</span> - no refinement<br>
</td>
</tr>
<tr>
<td>&nbsp;&nbsp;&nbsp; <i>PHG_REFINEMENT_LOOP_LIMIT</i></td>
<td>Loop limit in FM refinement. Higher number means more
refinement. <br>
</td>
</tr>
<tr nosave="" valign="top">
<td>&nbsp;&nbsp;&nbsp; <span style="font-style: italic;">PHG_REFINEMENT_MAX_NEG_MOVE</span><br>
</td>
<td nosave="">Maximum number of negative moves allowed in FM.<br>
</td>
</tr>
<tr nosave="" valign="top">
<td>&nbsp;&nbsp; <span style="font-style: italic;">PHG_BAL_TOL_ADJUSTMENT</span><br>
</td>
<td nosave="">Controls how the balance tolerance is adjusted at
each level of bisection.<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp; <span
style="font-style: italic;">PHG_RANDOMIZE_INPUT</span><br>
</td>
<td style="vertical-align: top;">Randomize layout of vertices and
hyperedges in internal parallel 2D layout? (0/1)<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp; <a
name="PHG_EDGE_WEIGHT_OPERATION"></a><span style="font-style: italic;">PHG_EDGE_WEIGHT_OPERATION</span>
</td>
<td style="vertical-align: top;">Operation to be applied to edge
weights supplied by different processes for the same hyperedge:<br>
<i>add</i> - the hyperedge weight will be the sum of the supplied
weights<br>
<i>max</i> - the hyperedge weight will be the maximum of the
supplied weights<br>
<i>error</i> - if the hyperedge weights are not equal, Zoltan
will flag an error, otherwise the hyperedge weight will be the value
returned by the processes<br>
</td>
</tr>
<tr nosave="" valign="top">
<td>&nbsp;&nbsp; <span style="font-style: italic;">EDGE_SIZE_THRESHOLD</span><br>
</td>
<td nosave="">Ignore hyperedges greater than this fraction times
number of vertices.<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp; <span
style="font-style: italic;">PATOH_ALLOC_POOL0</span><br>
</td>
<td style="vertical-align: top;">Memory allocation for PaToH; see
the PaToH manual for details.<br>
</td>
</tr>
<tr>
<td style="vertical-align: top;">&nbsp;&nbsp; <span
style="font-style: italic;">PATOH_ALLOC_POOL1</span><br>
</td>
<td style="vertical-align: top;">Memory allocation for PaToH; see
the PaToH manual for details.</td>
</tr>
<tr>
<td valign="top"><b>Default values:</b></td>
<td><br>
</td>
</tr>
<tr>
<td><br>
</td>
<td><i>HYPERGRAPH_PACKAGE = PHG<br>
</i></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">CHECK_HYPERGRAPH</span>
= 0<br>
</td>
</tr>
<tr>
<td><br>
</td>
<td><span style="font-style: italic;">PHG_OUTPUT_LEVEL=0</span></td>
</tr>
<tr>
<td><br>
</td>
<td><span style="font-style: italic;">PHG_FINAL_OUTPUT=0</span></td>
</tr>
<tr>
<td><br>
</td>
<td><i>PHG_REDUCTION_METHOD=ipm</i></td>
</tr>
<tr>
<td><br>
</td>
<td><span style="font-style: italic;">PHG_REDUCTION_LIMIT=100</span></td>
</tr>
<tr>
<td><br>
</td>
<td><span style="font-style: italic;">PHG_VERTEX_VISIT_ORDER=0</span></td>
</tr>
<tr>
<td><br>
</td>
<td><span style="font-style: italic;">PHG_EDGE_SCALING=0</span></td>
</tr>
<tr>
<td><br>
</td>
<td><span style="font-style: italic;">PHG_VERTEX_SCALING=0</span></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><i>PHG_COARSEPARTITION_METHOD=greedy</i></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">PHG_REFINEMENT_METHOD=fm</span></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><i>PHG_REFINEMENT_LOOP_LIMIT=10</i></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">PHG_REFINEMENT_MAX_NEG_MOVE=100</span></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">PHG_BAL_TOL_ADJUSTMENT=0.7</span></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">PHG_RANDOMIZE_INPUT=0</span></td>
</tr>
<tr>
<td><br>
</td>
<td><span style="font-style: italic;">PHG_EDGE_WEIGHT_OPERATION=max</span></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">EDGE_SIZE_THRESHOLD=0.25</span></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">PATOH_ALLOC_POOL0=0</span></td>
</tr>
<tr>
<td style="vertical-align: top;"><br>
</td>
<td style="vertical-align: top;"><span style="font-style: italic;">PATOH_ALLOC_POOL1=0</span></td>
</tr>
<tr>
<td valign="top"><b>Required Query Functions:</b></td>
<td><br>
</td>
</tr>
<tr>
<td><br>
</td>
<td><b><a href="../ug_html/ug_query_lb.html#ZOLTAN_NUM_OBJ_FN">ZOLTAN_NUM_OBJ_FN</a></b></td>
</tr>
<tr>
<td><br>
</td>
<td><b><a href="../ug_html/ug_query_lb.html#ZOLTAN_OBJ_LIST_FN">ZOLTAN_OBJ_LIST_FN</a></b>
or <b><a href="../ug_html/ug_query_lb.html#ZOLTAN_FIRST_OBJ_FN">ZOLTAN_FIRST_OBJ_FN</a></b>/<b><a
href="../ug_html/ug_query_lb.html#ZOLTAN_NEXT_OBJ_FN">ZOLTAN_NEXT_OBJ_FN</a></b>
pair</td>
</tr>
<tr nosave="" valign="top">
<td><br>
</td>
<td nosave=""> <b><a href="../ug_html/ug_query_lb.html#ZOLTAN_HG_SIZE_CS_FN">ZOLTAN_HG_SIZE_CS_FN</a></b>
<br>
<b><a href="../ug_html/ug_query_lb.html#ZOLTAN_HG_CS_FN">ZOLTAN_HG_CS_FN</a></b>
</td>
</tr>
<tr>
<td valign="top"><b>Optional Query Functions:</b></td>
<td><br>
</td>
</tr>
<tr>
<td><br>
</td>
<td><b><a href="../ug_html/ug_query_lb.html#ZOLTAN_HG_SIZE_EDGE_WTS_FN">ZOLTAN_HG_SIZE_EDGE_WTS_FN</a></b></td>
</tr>
<tr>
<td><br>
</td>
<td><b><a href="../ug_html/ug_query_lb.html#ZOLTAN_HG_EDGE_WTS_FN">ZOLTAN_HG_EDGE_WTS_FN</a></b></td>
</tr>
</tbody>
</table>
<p>
It is possible to provide the graph query functions instead of the
hypergraph queries, though this is not recommended. If only graph query
functions are registered, Zoltan will automatically create a hypergraph
from the graph, but some information (specifically, edge weights) will
be lost. </p>
<hr width="100%">[<a href="ug.html">Table of Contents</a>&nbsp; | <a
href="dev_reftree.html">Next:&nbsp;
Refinement Tree Partitioning(NEANEA CHANGE ME)</a>&nbsp; |&nbsp; <a
href="dev_parmetis.html">Previous:&nbsp;
ParMetis(NEANEA CHANGE ME)</a>&nbsp; |&nbsp; <a href="http://www.sandia.gov/general/privacy-security/index.html">Privacy and Security</a>]
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\documentclass[12pt]{article}
\usepackage{amsmath} % need for subequations
\usepackage{graphicx} % need for figures
\usepackage{verbatim} % useful for program listings
\usepackage{color} % use if color is used in text
\usepackage{subfigure} % use for side-by-side figures
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\begin{comment}
\pagestyle{empty}
\end{comment}
\begin{document}
\begin{center}
{\large Hybrid Partitioning in Zoltan} \\
Nick Aase, Karen Devine \\
Summer, 2011
\end{center}
\section{Introduction}
When used for partitioning, Zoltan has a wide range of algorithms
available to it. Traditionally they have fallen into two categories:
geometric-based partitioning, and topology-based partitioning. Each
method has its own strengths and weaknesses which ultimately come down
to the tradeoff between speed and quality, and the onus is placed
upon the user to determine which is more desirable for the project
at hand.
In our project we strived to develop a hybrid partitioning algorithm;
one that attempts to take advantage of the efficiency of geometric
methods, as well as the precision of topological ones. The reasoning
behind this concept is that problem sets with large amounts of data may
be more easily digestible by topological methods if they are first
reduced into managable pieces based on their geometry.
The two subjects chosen for this project were the Recursive
Coordinate Bisection (RCB) algorithm and Parallel Hypergraph
partitioning (PHG). RCB is an extremely fast method of partitioning,
but it can be clumsy at times when it ``cuts'' across a coordinate plane.
On the other hand, PHG has a good understanding of the relationships
between data, making its partitioning quite accurate, but it suffers
from having to spend a great deal of time finding those relationships.
For further information on implementing hybrid partitioning, please see
the developer's guide at
http://www.cs.sandia.gov/Zoltan/dev\_html/dev\_hybrid.html
\section{Parallel hypergraphs and geometric input}
In order for Zoltan to support hybrid partitioning, it is necessary
to properly and frequently obtain, preserve, and communicate coordinate
data. The first step that needed to be taken was to modify PHG to
support coordinate information. Hypergraph objects carry a substantial
amount of data already, but we had to add an array of floating point
values to store the coordinates. Currently, when a hypergraph is built and
geometric information is available from the input, each vertex will have
a corresponding subset within the array defining its coordinates;
that is, \forall\, $v_x$\in\, $H:$\, \exists\, $C_x = \{c_0, c_1, ..., c_{n-1}\},$
where $v_x$ is an arbitrary vertex in the hypergraph $H$, $C_x$ is its
corresponding coordinate subset, and $n$ is the number of dimensions in
the system. In this way, Zoltan can treat each coordinate subset as an
element of that vertex
\section{PHG, MPI and 2-dimensional representation}
PHG is interesting in that multiple processors can share partial data
that describes the properties of hyperedges and vertices. This sort of
system can be represented in a 2-dimensional distribution similar to
Table 1. A populated field represents that a processor on the y-axis has
data related to the vertex on the x-axis. In this example, you can see
that processor $P_0$ and $P_2$ share data describing vertices $v_0$ and
$v_2$.
\begin{table}[h]
\begin{center}
\begin{tabular}{|r|l|l|l|}
\hline
Processor & $v_0$ & $v_1$ & $v_2$ \\
\hline
$P_0$ & x & & x \\
\hline
$P_1$ & & x & \\
\hline
$P_2$ & x & & x \\
\hline
\end{tabular}
\caption{\label{tab:0/tc} Before communication}
\end{center}
\end{table}
Using Message Passing Interface (MPI) communicators, it is possible to
communicate with processors by column. We use an \texttt{MPI\_Allreduce}
call to collect data from each processor, which groups them into a usable
form. Consider Table 2.
\begin{table}[h]
\begin{center}
\begin{tabular}{|r|l|l|l|}
\hline
Processor & $v_0$ & $v_1$ & $v_2$ \\
\hline
$P_0$ & x & & \\
\hline
$P_1$ & & x & \\
\hline
$P_2$ & & & x \\
\hline
\end{tabular}
\caption{\label{tab:1/tc} After communication}
\end{center}
\end{table}
This same sort of operation is performed with weight data, so implementing
it on coordinate data was simply another step in setting up PHG to support
coordinate information from the input. Afterwards the entirity of a vertex's
data will be unique to a single processor, with the number of global
vertices == $\sum_{i=0}^{numProc-1} ($number of local vertices_i$)$.
\section{Matching}
There are several matching methods already native to Zoltan and specific to
PHG, but we needed to create a new method in order to use RCB on the
hypergraph data. Before the actual matching occurs several specialized
callbacks and parameters are registered. Doing this is crucial if RCB and PHG
are to interface properly with each other.
The next task is to physically call RCB. It was easy enough to send PHG
data to RCB as we simply used the \texttt{Zoltan\_LB\_Partition} wrapper,
not unlike other standard load balancing partitioners. However, getting
matchings \emph{back} from RCB to PHG was another matter entirely. Thanks to
Dr. Devine's work, we were able to ostensibly comondeer one of RCB's unused
return values: since all matching algorithms conform syntactically to the
afforementioned load-balancing wrapper, there are some arguments and/or
values that are never used depending on what data that partitioner needs In
the case of RCB, the return value \texttt{*export\_global\_ids}, which is
defined in its prototype, was never actually computed. Dr. Devine was able
to rewire RCB so that, when using hybrid partitioning, it would return the
IDs of the matchings we need for each hypergraph (which are referred to in
the matching procedure as \emph{candidates}).
This new matching procedure is similar to PHG's agglomerative matching,
whereby candidate vertices are selected to represent groups of similar
vertices. These candidates then make up the standard vertices in the
resultant coarse hypergraph. The major difference is that standard
agglomerative matching determines its candidates by the connectivity of
vertices to one another; the more heavily connected a subset of vertices
is, the more likely they will share the same candidate. Using RCB means
making the assumption that related vertices will be geometrically similar:
recursive geometric cuts will be more likely to naturally bisect less
connected parts of the hypergraph, and the vertices that are members of
the resulting subdomains will share the same candidates. Given RCB's
track record, this method should be significantly faster than the
agglomerative matching.
\section{Reduction factor}
When using hybrid partitioning, the user passes a parameter in the input
file called \texttt{HYBRID\_REDUCTION\_FACTOR}, which is a number $> 0$
and $\leq 1$ that gets passed into RCB. This parameter defines the
aggressiveness of the overall procedure. This number simply determines
the amount by which the larger graph will be reduced (e.g. for the
original, fine hypergraph, $H_f$, where the number of vertices
$|V_f| == 1000$, and a reduction factor of $f == 0.1$, the coarse hypergraph,
$H_c$, will have $|V_c| == 100$ vertices).
This gives the user more control over the balance between quality
and efficiency.
\section{Results}
We ran experiments primarily with 2 and 128 processors on the Odin cluster
at Sandia National Labs, though there were brief, undocumented forees with
16 and 32 processors as well. Odin has two AMD Opteron 2.2GHz processors
and 4GB of RAM on each node, which are connected with a Myrinet network
\cite{Catalyurek}. The partitioning methods used were RCB, PHG, and hybrid
partitioning with a reduction factor of 0.01, 0.05, and 0.1. Each run went
through 10 iterations of the scenario. The runs with 128 processors were
given 5 different meshes to run on, whereas the 2 processor runs only ran
on the 4 smaller meshes, as the cluster was undergoing diagnostics at the
time of the experiements.
%NEED TIMES @ 128 PROCS
\begin{figure}[hgp]
\centering
\includegraphics[width=\textwidth, height=80mm]{128_time.pdf}
\caption{Runtimes on 128 processors}\label{fig:Times_np_128}
\end{figure}
%NEED cutl @ 128 PROCS
\begin{figure}[hgp]
\centering
\includegraphics[width=\textwidth, height=70mm]{128_cutl.pdf}
\caption{Cuts on 128 processors}\label{fig:Cuts_np_128}
\end{figure}
You can see from Figure 1 and 2 that at 128 processors the hybrid methods
are mainly slower than PHG and less accurate than RCB: both results are
the inverse of what we had hoped. There was better news looking at where
the processes were taking their time though:
%timer breakdowns for 128
\begin{figure}[hgp]
\centering
\includegraphics[width=\textwidth, height=70mm]{128_breakdown_percent.pdf}
\caption{Timing by percentage on 128 processors (UL, Shockstem 3D; UR,
Shockstem 3D -- 108; LL, RPI; LR, Slac1.5}\label{fig:Percent_np_128}
\end{figure}
The dramatic decrease in the matching time meant that RCB was, indeed,
helping on that front.
When we ran our simulations in serial, however, we saw some very different
results:
%times, cutl
\begin{figure}[hgp]
\centering
\includegraphics[width=\textwidth, height=80mm]{2_time.pdf}
\caption{Runtimes in serial on 2 processors}\label{fig:Times_np_2}
\end{figure}
%NEED cutl @ 128 PROCS
\begin{figure}[hgp]
\centering
\includegraphics[width=\textwidth, height=70mm]{2_cutl.pdf}
\caption{Cuts in serial on 2 processors}\label{fig:Cuts_np_2}
\end{figure}
In general the hybrid times beat the PHG times, and the hybrid cuts beat
the RCB cuts.
%time breakdowns for 2
\begin{figure}[hgp]
\centering
\includegraphics[width=\textwidth, height=70mm]{2_breakdown_percent.pdf}
\caption{Timing by percentage on 2 processors (UL, Shockstem 3D; UR,
Shockstem 3D -- 108; LL, RPI; LR, Slac1.5}\label{fig:Percent_np_2}
\end{figure}
Looking at individual timers in this serial run, we can see that RCB has
still drastically reduced the matching time. In addition, the slowdown in
the coarse partitioning has been greatly reduced.
\section{Conclusion and discussion}
The parallel implementation of hybrid partitioning is obviously not
functioning as desired, but we believe that there is ultimately a great
deal of promise in this method. Seeing the results from our serial runs
is encouraging, and it would be worth the effort to continue forward.
Perhaps it would be helpful to check for any communication issues arising
between processors. The whole system could potentially drag, was a
single processor waiting for a message. Additionally, Dr. Catalyurek had
suggested only using RCB-based coarsening on the largest, most complex
hypergraphs, and then revert to standard agglomerative matching for
coarser iterations.
At this moment, there could be four different ways to use Dr. Catalyurek's
method: the first, and perhaps simplest of the three, would be to hardwire
in the number of coarsening levels to give to RCB. A second way would be
to define a new parameter to allow the user to select the number of
RCB-based coarsenings. A third would be to write a short algorithm to
determine and use the optimal number of layers based off of the input.
Finally, there could be an option of user input, with a default to
be either of the other ways.
\begin{thebibliography}{5}
\bibitem{Catalyurek}U.V. Catalyurek, E.G. Boman, K.D. Devine, D. Bozdag,
R.T. Heaphy, and L.A. Riesen. \emph{A Repartitioning Hypergraph Model
for Dynamic Load Balancing.} Sandia National Labs, 2009.
\end{thebibliography}
{\small \noindent August 2011.}
\end{document}

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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
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<td VALIGN=TOP><!--MAIN CONTENT AREA STARTS HERE--><!----------------THIS IS A CHANGE AREA----------------><!------HEADER TEXT SHOULD BE REPLACE THIS TEXT------><b><font face="Verdana, Arial, Helvetica"><font size=+2>Zoltan:&nbsp;</font></font></b>
<br><b><font face="Verdana, Arial, Helvetica"><font size=+2>Parallel Partitioning, Load Balancing and Data-Management Services
<p>
Frequently Asked Questions
</font></font></b>
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<p>
<ol>
<!------------------------------------------------------------------------->
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<!------------ Type questions here; hyperlink to answers below. ---------->
<!------------ Keep them in the same order! ---------->
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<li> <a href="#ZOLTANH">How do I upgrade from the Zoltan v1 interface (in
lbi_const.h) to the current Zoltan interface (in zoltan.h)?
<li> <a href="#EMPTYPART">Zoltan's hypergraph partitioner
is returning empty parts, that is, parts that have zero
objects in them. Is this a bug?</a>
<li> <a href="#MPILEAK">On some platforms, why do Zoltan partitioning
methods RCB and RIB use an increasing amount of memory over multiple
invocations?</a>
<li> <a href=#INTELF90">Why does compilation of the Fortran interface hang
with Intel's F90 compiler?</a>
<li> <a href="#MPIRECVLIMIT">During runs (particularly on RedStorm), MPI
reports that it is out of resources or too many messages have been posted.
What does this mean and what can I do?</a>
<li><a href="#MPIRECVLIMIT2">On very large problems,
Zoltan communication routines fail in MPI_Alltoallv.
Why does this happen and what can I do?</a>
<li> <a href="#REALLOCBUG">Realloc fails when there is plenty of memory. Is this a Zoltan bug?</a>
<li> <a href="#DEPFILES">What does the following message mean during
compilation of <i>zoltan</i>:
Makefile:28: mem.d: No such file or directory
</ol>
<p>
<hr WIDTH="100%">
<hr WIDTH="100%">
<p>
<ol>
<!------------------------------------------------------------------------->
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<!------------ Type answers here. ---------------->
<!------------ Keep them in the same order as list above! ---------------->
<!------------------------------------------------------------------------->
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<hr WIDTH="100%">
<li> <a NAME="ZOLTANH"></a>How do I upgrade from the Zoltan v1 interface (in
lbi_const.h) to the current Zoltan interface (in zoltan.h)?
<p>
The Zoltan interface was revised in version 1.3 to include "Zoltan" in
function names and defined types. Upgrading to this interface is easy.
<ul>
<li> Include "zoltan.h" instead of "lbi_const.h" in your source files.
<li> For most Zoltan functions and constants, prefix "LB_" is replaced
by "Zoltan_"; for example, "LB_Set_Param" is now "Zoltan_Set_Param."
A few exceptions exist; for example,
"LB_Balance" is Zoltan_LB_Balance; "LB_Free_Data" is "Zoltan_LB_Free_Data."
See the <a href="ug_html/ug_backward.html#Backward v1.3">Release v1.3
backward compatibility notes</a> for a complete list of name changes.
<li> Fortran90 applications should define user-defined data
in <i>zoltan_user_data.f90</i> rather than <i>lb_user_const.f90</i>.
</ul>
More complete details are in the
<a href="ug_html/ug_backward.html#Backward v1.3">Release v1.3
backward compatibility notes</a>.
<hr WIDTH="100%">
<li> <a NAME="EMPTYPART"></a>Zoltan's hypergraph partitioner
is returning empty parts, that is, parts that have zero
objects in them. Is this a bug?
<p>
The hypergraph partitioner creates partitions with up to a specified amount
of load imbalance; the default value is 10% imbalance allowed, but the user
can tighten the load imbalance. Any partition that satisfies the load
imbalance tolerance is a valid partition. As a secondary goal, the
hypergraph partitioner attempts to minimize interprocessor communication.
Having a part with zero weight almost certainly reduces total communication;
the zero-weight part would not need to communicate with any other part.
<p>
So in some cases, Zoltan is generating a valid partition -- one that
satisfies the imbalance tolerance -- that happens to have lower total
communication if one of the parts is empty. This is a good thing, but one
that some applications don't like because they didn't consider having zero
weight on a processor.
<p>
To try to avoid this problem, lower the imbalance tolerance so that
the partitioner is more likely to give work to all parts. Change the value
of Zoltan parameter
<a href="ug_html/ug_alg.html#IMBALANCE_TOL">IMBALANCE_TOL</a>
to a smaller value; e.g., 1.03 to allow only 3% imbalance: <br>
<a href="ug_html/ug_interface_init.html#Zoltan_Set_Param">Zoltan_Set_Param</a>(zz, "IMBALANCE_TOL", "1.03");
<p>
As an alternative, you may try one of Zoltan geometric methods, such as
<a href="ug_html/ug_alg_rcb.html">RCB</a>,
<a href="ug_html/ug_alg_rib.html">RIB</a> or
<a href="ug_html/ug_alg_hsfc.html">HSFC</a>, which do not have this property.
<p>
We may in the future add a parameter to disallow zero-weight parts, but at
present, we do not have that option.
<hr WIDTH="100%">
<li> <a NAME="MPILEAK"></a>On some platforms, why do Zoltan partitioning
methods RCB and RIB use an increasing amount of memory over multiple
invocations?
<p>
Zoltan partitioning methods RCB and RIB use MPI_Comm_dup and MPI_Comm_split
to recursively create communicators with subsets of processors.
Some implementations of
MPI (e.g., the default MPI on Sandia's Thunderbird cluster) do not correctly
release memory associated with these communicators during MPI_Comm_free,
resulting in growing memory use over multiple invocations of RCB or RIB.
An undocumented workaround in
Zoltan is to set the TFLOPS_SPECIAL parameter to 1 (e.g.,
<a href="ug_html/ug_interface_init.html#Zoltan_Set_Param"><b>Zoltan_Set_Param</b></a>(zz,"TFLOPS_SPECIAL","1");), which causes an
implementation that doesn't use MPI_Comm_split to be invoked.
<hr WIDTH="100%">
<li> <a NAME=INTELF90"></a>Why does compilation of the Fortran interface hang
with Intel's F90 compiler?
<p>
There is a bug in some versions of Intel's F90 compiler. We know
Zoltan's Fortran interface compiles with Intel's F90 compiler versions
10.1.015 through 11.1.056. We know that it does not compile with
versions 11.1.059, 11.1.069 and 11.1.072. We reported the problem to
Intel, and we are told that the compiler bug is fixed in version 11.1 update 7,
which is scheduled for release in August 2010. See this
<a href="https://software.intel.com/en-us/forums/showthread.php?t=75385">Intel
Forum link</a> for more details.
<hr WIDTH="100%">
<li><a NAME="MPIRECVLIMIT"></a>During runs (particularly on RedStorm), MPI
reports that it is out of resources or too many messages have been posted.
What does this mean and what can I do?
<p>
Some implementations of MPI (including RedStorm's implementation) limit
the number of message receives that can be posted simultaneously. Some
communications in Zoltan (including hashing of IDs to processors in the
Zoltan Distributed Data Directory) can require messages from large numbers
of processors, triggering this error on certain platforms.
<p>
To avoid this problem, Zoltan contains logic to use AllToAll communication
instead of point-to-point communication when a large number
of receives are needed. The maximum number of simultaneous receives allowed
can be set as a compile-time option to Zoltan.
In the <a href="ug_html/ug_usage.html#TrilinosAutotools">Autotool build
environment</a>, option <i>--enable-mpi-recv-limit=#</i> sets the
maximum number of simultaneous receives allowed. The default value is 4.
<hr WIDTH="100%">
<li><a NAME="MPIRECVLIMIT2"></a>On very large problems,
Zoltan communication routines fail in MPI_Alltoallv.
Why does this happen and what can I do?
<p>
For very large problems, the values in the displacement arrays needed
by MPI_Alltoallv can exceed INT_MAX (the largest integer that can be stored
in 32 bits). The solution to this problem is to make Zoltan avoid using
MPI_Alltoallv and, instead, use point-to-point sends and receives. The
compile-time option
in the <a href="ug_html/ug_usage.html#TrilinosAutotools">Autotool build
environment</a> is <i>--enable-mpi-recv-limit=0</i>.
<hr WIDTH="100%">
<li> <a NAME="REALLOCBUG"></a>Realloc fails when there is plenty of memory. Is this a Zoltan bug?
<p>
This problem has been noted on different Linux clusters running parallel
applications using different MPI libraries and C++ libraries.
Realloc fails where a malloc call will succeed. The source of the error has
not been identified, but it is not a Zoltan bug. The
solution is to compile Zoltan with the flag <b>-DREALLOC_BUG</b>.
Zoltan will replace
every realloc call with malloc followed by a memcpy and a free.
<hr WIDTH="100%">
<li> <a NAME="DEPFILES"></a>What does the following message mean during
compilation of Zoltan?<br>
Makefile:28: mem.d: No such file or directory</blockquote>
<p>
In the old "manual" build system for Zoltan, dependency files were
generated for each source file <i>filename</i>.c. The first time Zoltan
was built for a given platform, the dependency files do not exist.
After producing this
warning, gmake created the dependency files it needed and continued
compilation.
<p>
Newer versions of Zoltan use autotools or cmake for builds and, thus, do
not produce this warning.
</ol>
<p>
<hr WIDTH="100%">
Updated: August 2, 2010
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<td VALIGN=TOP WIDTH="150"><!----------- 7th little turquoise bevel button ------------>
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<td COLSPAN="2"><b><font face="Verdana, Arial, Helvetica">
<a href="mailto: zoltan-dev@software.sandia.gov">Contact Zoltan Developers</a></font></b></td>
</tr>
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<td COLSPAN="2"></td>
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<!----------------THIS IS A CHANGE AREA---------------->
<!------HEADER TEXT SHOULD BE REPLACE THIS TEXT------>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Zoltan:
</font></font></b>
<br>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Data-Management Services for Parallel Applications
</font></font></b>
<p>
<!---------------END OF THIS CHANGE AREA--------------->
<!----------------THIS IS A CHANGE AREA---------------->
<!--MAIN CONTENT SHOULD BE PLACED IN THE AREA BELOW-->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Reporting Zoltan Bugs
</font></font></b>
<hr>
The Zoltan team uses Trilinos' <a href="https://github.com/trilinos/Trilinos">Github</a> to
collect bug reports.
In your bug reports, please mention "@trilinos/zoltan" so that your bug report
is sent to Zoltan developers.
<p>
<hr WIDTH="100%">
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
<!doctype html public "-//w3c//dtd html 4.0 transitional//en">
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<meta name="filename" content="Zoltan.html">
<meta name="review" content="28 May, 1999">
<meta name="subject" content="Zoltan Home Page">
<meta name="sandia.approval_type" content="formal">
<meta name="sandia.approved" content="SAND99-1375">
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<title>Zoltan</title>
<!----CHANGE INFORMATION IN AREAS WITH THIS HEADER---->
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<!--------CHANGE THE NAME AFTER THE DASH-------->
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<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td><b><font face="Verdana, Arial, Helvetica"><a href="Zoltan.html">Zoltan
Home Page</a></font></b></td>
</tr>
</table>
</td>
<td VALIGN=TOP WIDTH="20"></td>
</tr>
<tr VALIGN=TOP>
<td COLSPAN="2"></td>
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<!-------------------------------------------------------------------------->
<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 1st little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td><b><font face="Verdana, Arial, Helvetica"><a href="ug_html/ug.html">Zoltan
User's Guide</a></font></b></td>
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<td COLSPAN="2"></td>
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<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 2nd little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td><b><font face="Verdana, Arial, Helvetica"><a href="dev_html/dev.html">Zoltan
Developer's Guide</a></font></b></td>
</tr>
</table>
</td>
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</tr>
<tr VALIGN=TOP>
<td COLSPAN="2"></td>
</tr>
<!-------------------------------------------------------------------------->
<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 2A-nd little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td><b><font face="Verdana, Arial, Helvetica"><a href="Zoltan_FAQ.html">
Frequently Asked Questions</a></font></b></td>
</tr>
</table>
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</tr>
<tr VALIGN=TOP>
<td COLSPAN="2"></td>
</tr>
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<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 3rd little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td COLSPAN="2"><b><font face="Verdana, Arial, Helvetica"><a href="Zoltan_phil.html">Zoltan
Project Description</a></font></b></td>
</tr>
</table>
</td>
<td VALIGN=TOP WIDTH="20"></td>
</tr>
<tr VALIGN=TOP>
<td COLSPAN="2"></td>
</tr>
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<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 4th little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td COLSPAN="2"><b><font face="Verdana, Arial, Helvetica"><a href="Zoltan_pubs.html">Papers
and Presentations</a></font></b></td>
</tr>
</table>
</td>
<td VALIGN=TOP WIDTH="20"></td>
</tr>
<!-------------------------------------------------------------------------->
<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 4Ath little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td COLSPAN="2"><b><font face="Verdana, Arial, Helvetica"><a href="Zoltan_cite.html">How to Cite Zoltan</a></font></b></td>
</tr>
</table>
</td>
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</tr>
<tr VALIGN=TOP>
<td COLSPAN="2"></td>
</tr>
<!-------------------------------------------------------------------------->
<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 5th little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td COLSPAN="2"><b><font face="Verdana, Arial, Helvetica"><a href="https://github.com/sandialabs/Zoltan/releases">Download
Zoltan</a></font></b></td>
</tr>
</table>
</td>
<td VALIGN=TOP WIDTH="20"></td>
</tr>
<tr VALIGN=TOP>
<td COLSPAN="2"></td>
</tr>
<!-------------------------------------------------------------------------->
<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 6th little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
<tr ALIGN=CENTER VALIGN=CENTER>
<td COLSPAN="2"><b><font face="Verdana, Arial, Helvetica"><a href="Zoltan_bugreport.html">Report a Zoltan Bug</a></font></b></td>
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</table>
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</tr>
<tr VALIGN=TOP>
<td COLSPAN="2"></td>
</tr>
<!-------------------------------------------------------------------------->
<tr ALIGN=LEFT VALIGN=TOP>
<td VALIGN=TOP WIDTH="150"><!----------- 7th little turquoise bevel button ------------>
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 WIDTH="150" BGCOLOR="#00CCFF" >
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<td COLSPAN="2"><b><font face="Verdana, Arial, Helvetica">
<a href="mailto: zoltan-dev@software.sandia.gov">Contact Zoltan Developers</a></font></b></td>
</tr>
</table>
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<td VALIGN=TOP WIDTH="20"></td>
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<tr VALIGN=TOP>
<td COLSPAN="2"></td>
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<!-------------------------------------------------------------------------->
</table>
</td>
<td VALIGN=TOP>
<!--MAIN CONTENT AREA STARTS HERE-->
<!----------------THIS IS A CHANGE AREA---------------->
<!------HEADER TEXT SHOULD BE REPLACE THIS TEXT------>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Zoltan:
</font></font></b>
<br>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Data-Management Services for Parallel Applications
</font></font></b>
<p>
<!---------------END OF THIS CHANGE AREA--------------->
<!----------------THIS IS A CHANGE AREA---------------->
<!--MAIN CONTENT SHOULD BE PLACED IN THE AREA BELOW-->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
How to Cite Zoltan
</font></font></b><br>
<hr>
<!---------------------------------------------------------------------------->
<p>
Please use (at least) one of the following references when you cite Zoltan:
<p>
<small>
@Article{<b>ZoltanIsorropiaOverview2012</b>,<br>
&nbsp;&nbsp; author = {E. G. Boman and U. V. Catalyurek and C. Chevalier and K. D. Devine}, <br>
&nbsp;&nbsp; title = {The {Z}oltan and {I}sorropia Parallel Toolkits for Combinatorial Scientific Computing: Partitioning, Ordering, and Coloring}, <br>
&nbsp;&nbsp; journal = {Scientific Programming}, <br>
&nbsp;&nbsp; year = {2012}, <br>
&nbsp;&nbsp; volume = {20}, <br>
&nbsp;&nbsp; number = {2}, <br>
&nbsp;&nbsp; pages = {129--150} <br>
} <br>
</small>
<p>
<small>
@Article{<b>ZoltanOverviewArticle2002</b>,<br>
&nbsp;&nbsp; author = {Karen Devine and Erik Boman and Robert Heaphy and
Bruce Hendrickson and Courtenay Vaughan}, <br>
&nbsp;&nbsp; title = {{Zoltan} Data Management Services for Parallel
Dynamic Applications}, <br>
&nbsp;&nbsp; journal = {Computing in Science and Engineering}, <br>
&nbsp;&nbsp; year = {2002}, <br>
&nbsp;&nbsp; volume = {4}, <br>
&nbsp;&nbsp; number = {2}, <br>
&nbsp;&nbsp; pages = {90--97} <br>
} <br>
</small>
<p>
<small>
@Unpublished{<b>ZoltanHomePage</b>,<br>
&nbsp;&nbsp; author = {Erik Boman and Karen Devine and Lee Ann Fisk and
Robert Heaphy and Bruce Hendrickson and Vitus Leung
and Courtenay Vaughan and Umit Catalyurek and
Doruk Bozdag and William Mitchell},<br>
&nbsp;&nbsp; title = {{Zoltan} home page},<br>
&nbsp;&nbsp; note = {\url{http://cs.sandia.gov/Zoltan}},<br>
&nbsp;&nbsp; year = {1999}}<br>
}<br>
</small>
<p>
<small>
@Manual{<b>ZoltanUsersGuideV3</b>,<br>
&nbsp;&nbsp; title = {{Zoltan 3.0}: Parallel Partitioning, Load-balancing, and Data Management Services; User's Guide},<br>
&nbsp;&nbsp; author = {Erik Boman and Karen Devine and Lee Ann Fisk and
Robert Heaphy and Bruce Hendrickson and
Courtenay Vaughan and Umit Catalyurek and
Doruk Bozdag and William Mitchell and James Teresco},<br>
&nbsp;&nbsp; organization = {Sandia National Laboratories},<br>
&nbsp;&nbsp; address = {Albuquerque, NM},<br>
&nbsp;&nbsp; year = {2007},<br>
&nbsp;&nbsp; note = {Tech. Report SAND2007-4748W
\url{http://cs.sandia.gov/Zoltan/ug_html/ug.html}}<br>
}<br>
</small>
<p>
<small>
@Manual{<b>ZoltanDevelopersGuideV3</b>,<br>
&nbsp;&nbsp; title = {{Zoltan 3.0}: Parallel Partitioning, Load-balancing, and Data Management Services; Developer's Guide},<br>
&nbsp;&nbsp; author = {Erik Boman and Karen Devine and Lee Ann Fisk and
Robert Heaphy and Bruce Hendrickson and
Courtenay Vaughan and Umit Catalyurek and
Doruk Bozdag and William Mitchell and James Teresco},<br>
&nbsp;&nbsp; organization = {Sandia National Laboratories},<br>
&nbsp;&nbsp; address = {Albuquerque, NM},<br>
&nbsp;&nbsp; year = {2007},<br>
&nbsp;&nbsp; note = {Tech. Report SAND2007-4749W,
\url{http://cs.sandia.gov/Zoltan/dev_html/dev.html}}<br>
}<br>
</small>
<p>
<small>
@Inproceedings{<b>ZoltanHypergraphIPDPS06</b>,<br>
&nbsp;&nbsp; title = {Parallel Hypergraph Partitioning for
Scientific Computing},<br>
&nbsp;&nbsp; author = {Karen D. Devine and Erik G. Boman and
Robert T. Heaphy and Rob H. Bisseling
and Umit V. Catalyurek},<br>
&nbsp;&nbsp; conference = {IPDPS'06},<br>
&nbsp;&nbsp; publisher = {IEEE},<br>
&nbsp;&nbsp; year = {2006}<br>
}<br>
</small>
<p>
<small>
@Inproceedings{<b>ZoltanParHypRepart07</b>,<br>
&nbsp;&nbsp; title = {Hypergraph-based Dynamic Load Balancing for Adaptive
Scientific Computations},<br>
&nbsp;&nbsp; author = {U.V. Catalyurek and E.G. Boman and K.D. Devine
and D. Bozdag and R.T. Heaphy and L.A. Riesen},<br>
&nbsp;&nbsp; booktitle = {Proc. of 21st International Parallel and
Distributed Processing Symposium (IPDPS'07)},<br>
&nbsp;&nbsp; publisher = {IEEE},<br>
&nbsp;&nbsp; year = {2007},<br>
&nbsp;&nbsp; note = {Best Algorithms Paper Award.}<br>
}<br>
</small>
<p>
<hr>
<!---------MAIN CONTENT AREA ENDS HERE---------><!-- CHANGE CONTACT + E-MAIL, NOTE "SUBJECT" IN E-MAIL CODE --></td>
</tr>
</table>
<hr width="100%">
<table BORDER=0 WIDTH="100%" >
<tr ALIGN=CENTER>
<td VALIGN=TOP WIDTH="140">
<table BORDER=0 WIDTH="140" >
<tr>
<td ALIGN=CENTER VALIGN=TOP WIDTH="120"></td>
<td WIDTH="20"></td>
</tr>
</table>
</td>
<td ALIGN=CENTER VALIGN=TOP WIDTH="100%"></td>
</tr>
</table>
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</html>

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@ -0,0 +1,344 @@
<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
<!doctype html public "-//w3c//dtd html 4.0 transitional//en">
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<meta name="filename" content="Zoltan.html">
<meta name="review" content="28 May, 1999">
<meta name="subject" content="Zoltan Home Page">
<meta name="sandia.approval_type" content="formal">
<meta name="sandia.approved" content="SAND99-1375">
<meta name="sandia.create_date" content="05/28/99">
<meta name="keywords" content="Zoltan, Zoltan Home Page, Zoltan dynamic load balancing library, Zoltan parallel computing">
<meta name="description" content="Zoltan: Home Page for the Zoltan Library project at Sandia National Laboratories">
<meta name="GENERATOR" content="Mozilla/4.7 [en] (X11; U; SunOS 5.7 sun4u) [Netscape]">
<title>Zoltan</title>
<!----CHANGE INFORMATION IN AREAS WITH THIS HEADER---->
<!----SCROLL DOWN TO FIND OTHER AREAS TO BE CHANGED---->
<!--------CHANGE THE NAME AFTER THE DASH-------->
<!--------CHANGE THE FILENAME-------->
<!--------CHANGE THE REVIEW DATE-------->
<!--------CHANGE THE SUBJECT-------->
<link rel="schema.sandia" href="http://www.sandia.gov/html_schema.htm">
<!--------CHANGE THE SAND NUMBER INFO-------->
<!--------INSERT THE DATE DOCUMENT CREATED-------->
<!--------CHANGE THE PAGE OWNER AND EMAIL ADDRESS-------->
<link rev="made" title="name of contact" >
<!--------CHANGE THE PAGE MAKER AND EMAIL ADDRESS-------->
<!--------PLACE FIVE KEY WORDS WITHIN THE QUOTES-------->
<!---------------END OF THIS CHANGE AREA--------------->
</head>
<body text="#000000">
<!-- KDD Turned off alternative link colors in template; the >
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<!-- link="#003366" vlink="#cc0033" alink="#000000">
<a NAME="TOP"></a><!---TOP BANNER AREA STARTS HERE--->
<table BORDER=0 valign="top" >
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Zoltan:
</font></font></b>
<br>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Data-Management Services for Parallel Applications
</font></font></b>
<p>
<!---------------END OF THIS CHANGE AREA--------------->
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<!--MAIN CONTENT SHOULD BE PLACED IN THE AREA BELOW-->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<hr WIDTH="100%">
<p>
<b> The Zoltan Team </b><br>
<b> Sandia National Laboratories: </b><br>
<a href="http://www-sccm.stanford.edu/~boman/">Erik Boman</a> <br>
<a href="http://www.cs.sandia.gov/~kddevin">Karen Devine</a><br>
Lee Ann Fisk<br>
Robert Heaphy<br>
<a href="http://www.cs.sandia.gov/~bahendr">Bruce Hendrickson</a></b><br>
Courtenay Vaughan<br>
<br>
<b> Ohio State University</b><br>
<a href="http://bmi.osu.edu/personnel/detail.cfm?id=29">Umit Catalyurek</a><br>
Doruk Bozdag<br>
<br>
<b>National Institute of Standards and Technology</b><br>
<a href="http://math.nist.gov/~mitchell">William F. Mitchell</a><br>
<p>
<p>
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<hr width="100%">
<b>Zoltan is temporarily unavailable in preparation for a new release.
</b> <br>
We expect the new release to be completed by October 13, 2006.
If you would like an email notification of the new release, please
join the zoltan-announce mailing list at
<a href="http://software.sandia.gov/mailman/listinfo/zoltan-announce">http://software.sandia.gov/mailman/listinfo/zoltan-announce</a>.
<p>
Thank you for your patience.
<p>
<b>For more information, contact:</b>
<ul>
<li>
<a href="mailto: kddevin@sandia.gov">Karen Devine</a></li>
</ul>
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
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<meta name="review" content="28 May, 1999">
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<b><font face="Verdana, Arial, Helvetica"><font size="+2">Zoltan Download Page</font></font></b>
<p>
</p><hr width="100%">
<p><b>NOTE:</b> If you have not registered yet, please take a moment
to do so at the <a href="http://cs.sandia.gov/web1400/1400_download.html">
<b>Download Registration Form</b></a> (Note: this information is only used to
provide usage statistics to our program sponsors).</p><p>
</p><hr>
<h3>Join the Mailing Lists</h3>
If you haven't done so already,
we recommend you subscribe to these mailing lists:
<ul>
<li> <a href="https://software.sandia.gov/mailman/listinfo/zoltan-announce">zoltan-announce</a> is used for announcement of Zoltan news, such as new releases.
</li><li> <a href="https://software.sandia.gov/mailman/listinfo/zoltan-users">zoltan-users</a> is a community forum for discussion of issues related to Zoltan.
</li></ul>
<p>
</p><hr>
<p>
<h3>Zoltan Releases for Download</h3>
The most current version of Zoltan is always available in the
<a href="https://trilinos.github.io/">Trilinos</a> framework.
You can download
Trilinos <a href="https://github.com/trilinos/Trilinos">here</a>.
In the Trilinos directory, the Zoltan code is in directory
Trilinos/packages/zoltan. In this directory, you can continue to
build Zoltan separately from Trilinos.
<p>
Stand-alone versions of Zoltan are available below.
We recommend the latest version.
For more details, see the
Zoltan <a href="ug_html/ug_release.html">release notes</a>.
<ul>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.83.tar.gz">Version 3.83</a> (1/28/16; as in Trilinos v12.6; aaf328db7e43001ee2d3148f72f12147e51c3293) </li>
<!------
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.82.tar.gz">Version 3.82</a> (5/1/15; as in Trilinos v12) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.81.tar.gz">Version 3.81</a> (11/06/14; as in Trilinos v11.12.2) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.8.tar.gz">Version 3.8</a> (10/28/13; as in Trilinos v10.11) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.6.tar.gz">Version 3.6</a> (11/2/11; as in Trilinos v10.8) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.501.tar.gz">Version 3.501</a> (5/12/11; as in Trilinos v10.6 with additions) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.3.tar.gz">Version 3.3</a> (7/31/10; as in Trilinos v10.4) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.2.tar.gz">Version 3.2</a> (10/5/09) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.1.tar.gz">Version 3.1</a> (9/30/08) </li>
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v3.0.tar.gz">Version 3.0</a> (5/30/07) </li>
---->
<li> <a href="http://cs.sandia.gov/Zoltan/Zoltan_Distributions/zoltan_distrib_v2.1.tar.gz">Version 2.1</a> (10/05/06)</li>
</ul>
<p>
Zoltan is provided as a compressed tar file. Unpack with 'tar xfz zoltan*.tar.gz'.
<hr>
<h3>Zoltan Tutorial</h3>
The Zoltan Tutorial presented at SciDAC2007 is now on-line. Download it here:
<ul>
<li>
<a href="http://cs.sandia.gov/Zoltan/papers/Zoltan_Tutorial_Slides.pdf">Zoltan Tutorial Slides</a> (14 Mbytes; PDF)
</li>
<li>
<a href="http://cs.sandia.gov/Zoltan/papers/Zoltan_Tutorial_Handouts.pdf">Zoltan Tutorial Handouts</a> (Four slides per page; 8.8 Mbytes; PDF)
</li>
<p>
</ul>
<hr>
</p><h5><i>Last Updated: September 23, 2008</i>
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
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<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Zoltan:
</font></font></b>
<br>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Data-Management Services for Parallel Applications
</font></font></b>
<p>
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<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Project Description
</font></font></b><br>
<hr>
<ul>
<li>
<a href="Zoltan_phil.html#Overview">Overview</a></li>
<li>
Design Considerations
<ul>
<li>
<a href="Zoltan_phil.html#Design">Design of Toolkits and Libraries</a>
</li>
<li>
<a href="Zoltan_phil.html#ZDesign">Zoltan's Design</a></li>
<li>
<a href="Zoltan_phil.html#ZExamples">Zoltan Examples</a></li>
</ul>
</li>
<li>
Dynamic Load-Balancing and Data Migration Tools
<ul>
<li>
<a href="Zoltan_phil.html#Typical">Typical Approach to Dynamic Load Balancing</a
></li>
<li>
<a href="Zoltan_phil.html#Harder">Why Dynamic Load Balancing is Harder
than Static Partitioning</a></li>
<li>
<a href="Zoltan_phil.html#ZLB">Zoltan's Load-Balancing Suite</a></li>
<li>
<a href="Zoltan_phil.html#Mig">Data Migration Tools</a></li>
</ul>
</li>
<li>
Communication Tools
<ul>
<li>
<a href="Zoltan_phil.html#UComm">Unstructured Communication Library</a>
</li>
<li>
<a href="Zoltan_phil.html#DD">Distributed Data Directories</a>
</li>
</ul>
</li>
<li>
<a href="Zoltan_phil.html#MemTools">Memory Management Tools</a></li>
</ul>
<!---------------------------------------------------------------------------->
<a name="Overview"><hr><b>Overview</b><p>
The Zoltan library is a collection of data management services for parallel,
unstructured, adaptive, and dynamic applications. It simplifies the
load-balancing, data movement, unstructured communication, and memory usage
difficulties that arise in dynamic applications such as adaptive
finite-element methods, particle methods, and crash simulations.
Zoltan's data-structure neutral design also lets a wide range of applications
use it without imposing restrictions on application data structures.
Its object-based interface provides a simple and inexpensive way for
application developers to use the library and researchers to make new
capabilities available under a common interface.
<p>
Zoltan provides tools that help developers of parallel applications.
<ul>
<li>
A suite of <a href="ug_html/ug_alg.html">parallel partitioning algorithms</a>
and <a href="ug_html/ug_interface_mig.html">data migration tools</a>
dynamically redistribute data to reflect, say, changing processor workloads.
</li>
<li>
<a href="ug_html/ug_util_dd.html">Distributed data directories</a> and
<a href="ug_html/ug_util_comm.html">unstructured communication</a>
services let
applications perform complication communication using only a few simple
primitives.
</li>
<li>
<a href="ug_html/ug_util_mem.html">Dynamic memory management tools</a>
enhance common memory allocation functions to
simplify debugging of dynamic memory usage.
</li>
</ul>
These tools are provided in an easy-to-use toolkit that is callable from C,
C++, and Fortran90.
<!---------------------------------------------------------------------------->
<a name="Design"><hr><b>Design of Toolkits and Libraries</b><p>
Using general-purpose libraries allows
algorithms to be shared among and compared within many applications. The
close dependence of libraries on application data, however,
requires careful design to maintain separation between the
libraries and application data structures.
<p>
One way to provide this separation is to use object-based software design.
Instead of requiring the application to build data structures
required by the library, the application could pass functions that access
the application data structure to the libraries.
For example, rather than require an application to build a complicated graph
description, the library can require an application to provide a
function returning graph vertices and a function returning edge
connectivity for a given vertex.
Using these functions, the
library can build the data structures it needs.
<p>
This object-based design has a number of advantages.
<ul>
<li>
Changes in the library's data structures need not
propagate back to the application. As long as the set of required functions
does not change, the application does not need to change to use new versions
of the library.
</li>
<li>
Once the set of required functions is implemented, the application can use all
the algorithms in the library.
</li>
<li>
The required functions are generally easy for
an application to implement, as most applications need to
access their data objects and the interactions between objects
for their own computations.
</li>
<li>
Memory usage is lower as
an application does not have to build an intermediate data structure
that is later converted to appropriate data structures for the library.
</li>
<li>
The constructor for library data structures is called only when it
is needed, and only the data needed for a particular algorithm is obtained.
</li>
</ul>
<p>
There are a few disadvantages to this object-based approach as well.
<ul>
<li>
Additional overhead is incurred as the library calls the functions to
build its data structures.
In experiments, however, this cost has been very low
relative to the cost of actual computation in the library.
</li>
<li>
A general-purposes tool can
provide only limited support for manipulations of application data
structures (e.g., data movement).
</li>
</ul>
<p>
For more detailed information, see
[<a href="http://cs.sandia.gov/pub/papers/kddevin/cmame.ps.gz">Hendrickson
and Devine</a>].
<p>
<!---------------------------------------------------------------------------->
<a name="ZDesign"><hr><b>Zoltan's Design</b><p>
We have chosen an object-based, callback function design. An application
provides a number of simple callback functions that access the application
data structures. Zoltan then calls these functions to obtain data it needs.
Geometric algorithms are
supported via callback functions returning objects to be balanced and the
weights and coordinates of those objects.
Graph-based algorithms are
supported by callback functions returning objects to be
balanced, edges between objects, and object and edge weights.
For refinement-tree algorithms, additional callback functions return
parent-child relationships.
<p>
Support for data migration (the movement of data to establish a new
decomposition) is also provided through a similar callback
function interface. An application provides callback functions that pack
object data into and unpack data from communication buffers provided by
Zoltan. Zoltan calls the packing function to load communication buffers,
performs the communication necessary to move the data, and calls the unpacking
function to unload the communication buffers.
<!---------------------------------------------------------------------------->
<a name="ZExamples"><hr><b>Zoltan Examples</b><p>
Several examples of Zoltan's use can be found in the
<a href="ug_html/ug.html">Zoltan User's Guide</a>.
<ul>
<li>
<a href="ug_html/ug_intro.html#Load-Balancing Tools">General
examples of library usage</a>.
</li>
<li>
<a href="ug_html/ug_examples.html">Specific examples</a>
for each phase of balancing
(<a href="ug_html/ug_examples_init.html">initialization</a>,
<a href="ug_html/ug_examples_lb.html">load balancing</a>, and
<a href="ug_html/ug_examples_mig.html">data migration</a>).
</li>
<li>
<a href="ug_html/ug_examples_query.html">Examples of callback function
implementations</a>.
</li>
</ul>
<p>
<!---------------------------------------------------------------------------->
<a name="Typical"><hr><b>Typical Approach to Dynamic Load Balancing</b><p>
Dynamic load balancing has been used in many applications, ranging from
adaptive mesh refinement to particle methods to contact detection algorithms.
In most applications using dynamic load balancing, the load-balancing
algorithm is implemented directly in the application, with close coupling
between the application's and load-balancing algorithm's data structures.
This typical approach has two disadvantages.
<ul>
<li> It is possible that the application developer did not select the
best algorithm for the application, but the developer is unable to compare the
algorithm with others without taking time to implement many algorithms in the
application.
</li>
<li> The close coupling of the algorithm's and application's
data structures limits the algorithm's use to a single application.
Developers wanting to use the algorithm in a new application have to re-write
the algorithm using the new application's data structures.
</li>
</ul>
As a result, research into and use of dynamic load-balancing algorithms are
severely impaired.
<p>
<!---------------------------------------------------------------------------->
<a name="Harder"><hr><b>Why Dynamic Load Balancing is Harder than Static Partitioning</b><p>
Many high-quality static partitioning tools exist; examples include
<a href="http://cs.sandia.gov/CRF/chac.html">Chaco</a>,
<a href="https://www-users.cs.umn.edu/~karypis/metis">METIS</a>,
<!---
<a href="https://www.uni-paderborn.de/fachbereich/AG/monien/RESEARCH/PART/party.html">Party</a>,
-->
and
<a href="https://www.labri.fr/perso/pelegrin/scotch/">SCOTCH</a>.
General-purpose dynamic load-balancing tools are less common, however,
since they are more difficult to implement. The difficulty arises from
fundamental algorithmic and software-engineering
differences between static and dynamic partitioning. These differences are
summarized in the following table.
<p>
<table border=1>
<tr>
<td valign=top><b>Static Partitioning...</b></td>
<td valign=top><b>Dynamic Load Balancing...</b></td>
</tr>
<tr>
<td valign=top>Generally used as a pre-processor to an application.</td>
<td valign=top>Runs side-by-side with an application.</td>
</tr>
<tr>
<td valign=top>Can be (and usually is) implemented serially.</td>
<td valign=top>Must be implemented in parallel.</td>
</tr>
<tr>
<td valign=top>Has only modest concern for execution time.</td>
<td valign=top>Must run quickly (time to load balance should not exceed time to run in
an unbalanced state).</td>
</tr>
<tr>
<td valign=top>Has only modest concern for memory usage.</td>
<td valign=top>Must use little memory (should not affect scalability of
application).</td>
</tr>
<tr>
<td valign=top>Can use file-based interfaces (read geometry from a file; write partition
info to a file).</td>
<td valign=top>Must use function-call interfaces.</td>
</tr>
<tr>
<td valign=top>Has no dependence on an application's data structures.</td>
<td valign=top>Needs information stored in an application's data structures.</td>
</tr>
<tr>
<td valign=top>Accounts for part sizes and communication costs.</td>
<td valign=top>Accounts for part sizes, communication costs, and data movement
costs.</td>
</tr>
</table>
<p>
<!---------------------------------------------------------------------------->
<a name="ZLB"><hr><b>Zoltan's Load-Balancing Suite</b></a>
<p>
In our experience, no single partitioning strategy is effective for all
parallel computations. Some application require partitions based only on the
problem's workloads and geometry; others benefit from explicit consideration
of dependencies between data. Some applications require the highest quality
partitions possible, regardless of the cost to generate them; others can
sacrifice some quality so long as new partitions can be generated quickly.
For some applications, the cost to relocate data is prohibitively high, so
incremental partitioning algorithms are needed; other applications can
tolerate greater remapping costs. Most important, application developers
might not know in advance which strategies work best in their applications, so
the need a convenient means of comparing algorithms.
<p>
We provide two classes of parallel partitioning algorithms in the Zoltan
library:
<ul>
<li>Geometric methods
<blockquote>
<a href="ug_html/ug_alg_rcb.html">Recursive Coordinate Bisection</a><br>
<a href="ug_html/ug_alg_rib.html">Recursive Inertial Bisection</a><br>
<a href="ug_html/ug_alg_hsfc.html">Hilbert Space-Filling Curve Partitioning</a> <br>
<a href="ug_html/ug_alg_reftree.html">Refinement Tree Partitioning</a>
</blockquote>
</li>
<li>Topology-based methods
<blockquote>
<a href="ug_html/ug_alg_phg.htmml">Hypergraph partitioning</a><br>
<a href="ug_html/ug_alg_phg.htmml">Graph partitioning</a><br>
Graph partitioning (through interfaces to
<a href="ug_html/ug_alg_parmetis.html">ParMETIS</a> (U. Minn.) and
<a href="ug_html/ug_alg_jostle.html">Jostle</a> (U. Greenwich))<br>
</li>
</ul>
Once the Zoltan callback functions are implemented, an application can switch
between partitioning algorithms by changing only the
<a href="ug_html/ug_alg.html#LB_METHOD"><i>LB_METHOD</i></a> parameter
through a call to
<a href="ug_html/ug_interface_init.html#Zoltan_Set_Param"><b>Zoltan_Set_Param</b></a>.
Thus, comparing different algorithms within a single application is easy,
enabling users to try several algorithms and find
the best ones for their applications.
<p>
<!---------------------------------------------------------------------------->
<a name="Mig"><hr><b>Data Migration Tools</b></a>
<p>
A complicated part of dynamic repartitioning is the need to move data from old
processors to new ones. This data migration requires deletions and insertions
from the application data structures as well as communication between the
processors.
<p>
To help an application with
<a href="ug_html/ug_interface_mig.html">data migration</a>, Zoltan requires an application to
supply callback functions that pack data into communication buffers and unpack
data from communication buffers. Zoltan
calls the packing function to load communication buffers with objects to be
exported, performs all communication needed to move the data, and calls the
unpacking function to load the objects in the data structures on the new
processors. This mechanism eliminates the need for the application developer
to implement complicated communication for data migration.
<p>
<!---------------------------------------------------------------------------->
<a name="UComm"><hr><b>Unstructured Communication Library</b></a>
<p>
Unlike static applications, where communication patterns remain fixed
throughout the computation, dynamic applications can have complicated,
changing communication patterns. For example:
<ul>
<li>After adaptive mesh refinement,
new communication patterns must reflect dependencies between newly created
elements.
</li>
<li>
Multiphysics simulations, such as crash simulations, might require complicated
communication to transfer data between decompositions for different simulation
phases.
</li>
</ul>
Zoltan provides an
<a href="ug_html/ug_util_comm.html">unstructured communication package</a>
to simplify
communication. The package builds a communication plan, including information
about both message sends and receives for a given processor. The plan can be
reused throughout the application, or destroyed and rebuilt when communication
patterns change. The package also includes simple communication primitives that
insulate the user from details of message sends and receives.
<p>
<!---------------------------------------------------------------------------->
<a name="DD"><hr><b>Distributed Data Directories</b></a>
<p>
Dynamic applications often need to locate off-processor information. After
repartitioning, for example, a processor might need to rebuild ghost cells and
lists of data to be communicated. It might know which data it needs, but not
where the data are located.
<p>
To help locate off-processor data, Zoltan includes a
<a href="ug_html/ug_util_dd.html">distributed data
directory</a> tool that is scalable with respect to both memory usage and
computation time. Processors register their owned objects with the directory.
Then, through a rendezvous algorithm, other processors can look up the
location of data they need.
<p>
<!---------------------------------------------------------------------------->
<a name="MemTools"><hr><b>Memory Management Tools</b></a>
<p>
Dynamic applications rely heavily on the ability to allocate and free memory
as needed. Memory leaks and invalid memory accesses are common to developing
software. Although many software development tools let users track memory
bugs, these tools are often not available on state-of-the-art parallel
computers.
<p>
Zoltan's <a href="ug_html/ug_util_mem.html">memory management package</a>
provides simple in-application debugging
tools that are beneficial on state-of-the-art computing platforms. The
package includes wrappers around malloc and free that record the location of
all memory
allocation operations. Thus, tracking memory leaks is simplified, as
source-code locations of unfreed-memory allocations can be printed.
Statistics about memory allocations and frees are also available.
<p>
<!---------------------------------------------------------------------------->
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
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! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
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<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Zoltan:
</font></font></b>
<br>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Data-Management Services for Parallel Applications
</font></font></b>
<p>
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<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Papers and Presentations
</font></font></b>
<hr>
This list may not be up-to-date...
<p>
<b> Hypergraph Partitioning</b>
<ul>
<li>
<b>Hypergraph-based Dynamic Load Balancing for Adaptive Scientific Computations.</b><br>
U. Catalyurek, E. Boman, K. Devine, D. Bozdag, R. Heaphy, L.A. Riesen.<br>
<i> Proceedings of IPDPS'07</i>, Best Algorithms Paper Award, March 2007.
<br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/Catalyurek_IPDPS07.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/papers/Catalyurek_IPDPS07.pdf">Paper</a> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/citations/Catalyurek_IPDPS07.txt">Citation</a> (BIBTEX)
</li>
<p>
<li>
<b>A Repartitioning Hypergraph Model for Dynamic Load Balancing</b><br>
U. Catalyurek, E. Boman, K. Devine, D. Bozdag, R. Heaphy, L.A. Riesen.<br>
<i>Journal of Parallel and Distributed Computing</i>,
Vol. 69, No. 8, pp. 711-724, Aug 2009.
<br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/JPDC_repart.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/papers/JPDC_repart.pdf">Paper</a> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/citations/JPDC_repart.txt">Citation</a> (BIBTEX)
</li>
<p>
<li>
<b>Hypergraph-based Dynamic Partitioning and Load Balancing.</b><br>
U. Catalyurek, D. Bozdag, E. Boman, K. Devine, R. Heaphy, and L.A. Riesen.<br>
<i>Advanced Computational Infrastructures for
Parallel/Distributed Adaptive Applications,</i> M. Parashar, ed., Wiley Publishing, Dec. 2009.
<br>
<!---- <a href="http://cs.sandia.gov/Zoltan/papers/wiley_chapter.pdf">Paper</a> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp; ---->
<a href="http://cs.sandia.gov/Zoltan/citations/wiley_chapter.txt">Citation</a> (BIBTEX)
</li>
<p>
<li>
<b>Parallel Hypergraph Partitioning for Scientific Computing.</b><br>
K. Devine, E. Boman, R. Heaphy, R. Bisseling, U. Catalyurek.<br>
<i> Proceedings of IPDPS 2006</i>, April 2006.
<br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/IPDPS06_Final.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/papers/IPDPS06_Final.pdf">Paper</a> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/citations/IPDPS06_Final.txt">Citation</a> (BIBTEX)
</li>
<p>
<li>
<b>Parallel Hypergraph Partitioning for Irregular Problems.</b><br>
K. Devine, E. Boman, R. Heaphy, U. Catalyurek, R. Bisseling.<br>
<i>SIAM Parallel Processing for Scientific Computing</i>, February 2006.
<br>
<a href="http://cs.sandia.gov/Zoltan/papers/siam_pp06.pdf">Viewgraphs</a> (PDF)
</li>
</ul>
<b>Zoltan</b>
<ul>
<li>
<a href="https://dx.doi.org/10.3233/SPR-2012-0342"><b>The Zoltan and Isorropia Parallel Toolkits for Combinatorial Scientific Computing: Partitioning, Ordering, and Coloring</b></a>
<br>E.G. Boman, U.V. Catalyurek, C. Chevalier, and K.D. Devine, Scientific Programming vol. 20, no. 2, 2012, special issue on Trilinos.
<br> <br>
<li>
<b>Getting Started with Zoltan: A Short Tutorial.</b><br>
K. Devine, E. Boman, L.A. Riesen, U. Catalyurek and C. Chevalier.<br>
<i>Proc. 2009 Dagstuhl Seminar on Combinatorial Scientific Computing</i>,
February, 2009.<br>
<a href="http://cs.sandia.gov/Zoltan/papers/Dagstuhl09.pdf">PDF</a>
&nbsp; &nbsp; &nbsp; &nbsp;
<a href="http://cs.sandia.gov/Zoltan/citations/Dagstuhl09.txt">Citation</a> (BIBTEX)
&nbsp; &nbsp; &nbsp; &nbsp;
<a href="http://cs.sandia.gov/Zoltan/papers/zoltan_tutorial_dagstuhl09.pdf">Viewgraphs</a> from the tutorial (PDF)
<br><br>
</li>
<li>
<b>Zoltan Data Management Services for Parallel Dynamic Applications.</b><br>
K. Devine, E. Boman, R. Heaphy, B. Hendrickson, and C. Vaughan.<br>
<i>Computing in Science and Engineering</i>, Vol. 4, No. 2, March/April 2002, pp. 90-97.
<br>
<a href="http://cs.sandia.gov/Zoltan/papers/c2sciprog_final.pdf">Paper</a> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/citations/c2sciprog_final.txt">Citation</a> (BIBTEX)
<br>
<p>
<li>
<b><a href="ug_html/ug.html">Zoltan v3: Parallel Partitioning, Load Balancing and Data-Management Services, User's Guide
</a>.</b><br>
E. Boman, K. Devine, R. Heaphy, B. Hendrickson, V. Leung, L.A. Riesen, C. Vaughan, U. Catalyurek, D. Bozdag, W. Mitchell and J. Teresco.<br>
Sandia National Laboratories Tech. Rep. SAND2007-4748W, Albuquerque, NM, 2007.
<br>
<a href="ug_html/ug.html">Manual</a> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/citations/zoltanUG.txt">Citation</a> (BIBTEX)
<br>
<p>
<li>
<b><a href="dev_html/dev.html">Zoltan v3: Parallel Partitioning, Load Balancing and Data-Management Services, Developer's Guide
</a>.</b><br>
E. Boman, K. Devine, R. Heaphy, B. Hendrickson, V. Leung, L.A. Riesen, C. Vaughan, U. Catalyurek, D. Bozdag, and W. Mitchell.<br>
Sandia National Laboratories Tech. Rep. SAND2007-4749W, Albuquerque, NM, 2007.
<br>
<!-----------
<a href="http://cs.sandia.gov/Zoltan/Zoltan_pdf/dev.pdf">Manual</a> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp;
--------->
<a href="http://cs.sandia.gov/Zoltan/citations/zoltanDEV.txt">Citation</a> (BIBTEX)
<br>
<p>
<li>
<b>Tinkertoy Parallel Computing: A Case Study With Zoltan.</b><br>
K. Devine and B. Hendrickson.<br>
<i>Int. J. Computational Science and Engineering</i>, 2005.
<br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/tinkertoy.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/papers/tinkertoy.pdf">Paper</a> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp;
<a href="http://cs.sandia.gov/Zoltan/citations/tinkertoy.txt">Citation</a> (BIBTEX)
</li>
<p>
<li>
<b>Design of Dynamic Load-Balancing Tools for Parallel Applications.</b><br>
K. Devine, B. Hendrickson, E. Boman, M. St.John, and C. Vaughan.<br>
<i>Proceedings of the International Conference on Supercomputing</i>,
Santa Fe, May, 2000. <br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/ics00.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<!----
<A HREF="http://cs.sandia.gov/Zoltan/papers/ics00.ps.gz">Paper</A> (PS.GZ)
&nbsp;&nbsp;&nbsp;&nbsp;
---->
<a href="http://cs.sandia.gov/Zoltan/citations/ics00.txt">Citation</a> (BIBTEX)
<br>
<p>
</ul>
<b>Dynamic Load Balancing</b>
<br>
<ul>
<li>
<b>Partitioning and Load Balancing for Emerging Parallel Applications and
Architectures.</b><br>
K. Devine, E. Boman, and G. Karypis.<br>
Chapter in <i>Parallel Processing for Scientific Computing</i>,
Heroux, Raghavan, Simon, eds. SIAM (2006) 99-126.
<br>
<!----
<A HREF="http://cs.sandia.gov/Zoltan/papers/pp04.pdf">Paper</A> (PDF)
&nbsp;&nbsp;&nbsp;&nbsp;
---->
<a href="http://cs.sandia.gov/Zoltan/citations/pp04.txt">Citation</a> (BIBTEX)
</li>
<p>
<li>
<b>New Challenges in Dynamic Load Balancing.</b><br>
K. Devine, E. Boman, R. Heaphy, B. Hendrickson, J. Teresco, J. Faik,
J. Flaherty, L. Gervasio.<br>
<i>Applied Numerical Mathematics</i>, Vol. 52, Issues 2-3, pp. 133-152, 2005.
</li>
<p>
<li>
<b>Partitioning and Dynamic Load Balancing for the Numerical Solution of
Partial Differential Equations.</b><br>
J. Teresco, K. Devine, J. Flaherty.<br>
Chapter in
<i>Numerial Solution of Partial Differential Equations on Parallel
Computers</i>, Bruaset, Bj<42>rstad, Tveito, editors. <20> Springer-Verlag, 2005.
</li>
<p>
<li>
<b>A model for resource-aware load balancing on heterogeneous clusters.</b><br>
J. Faik, J. Flaherty, L. Gervasio, J. Teresco, K. Devine.<br>
Williams College Department of Computer Science Technical Report CS-05-01, 2005.
</li>
<p>
<li>
<b>Dynamic Load Balancing in Computational Mechanics.</b><br>
B. Hendrickson and K. Devine.<br>
<i>Comput. Methods Appl. Mech. Engrg.</i>, <b>184</b> (2000), 485-500.
<br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/cmame.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/Zoltan/papers/cmame.ps.gz">Paper</A> (PS.GZ)
<br>
<p>
<LI>
<b>Graph Partitioning Models for Parallel Computing.</b><br>
Bruce Hendrickson and Tamara G. Kolda.<br>
<i>Parallel Computing</i>, <b>26</b> (2000), 1519-1534. <BR>
<A HREF="http://cs.sandia.gov/~bahendr/abstracts/models.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/pub/papers/bahendr/models.ps.gz">Paper</A> (PS.GZ)
<br>
<P>
<LI>
<b>Load Balancing Fictions, Falsehoods and Falacies.</b><br>
Bruce Hendrickson.<br>
<i>Applied Mathematical Modelling</i>, 25:99-108, 2000.<BR>
<A HREF="http://cs.sandia.gov/~bahendr/abstracts/myths.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/pub/papers/bahendr/myths.ps.gz">Paper</A> (PS.GZ)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/~bahendr/talks/Myths_html/main.htm">HTML version of overheads</A> from plenary talk at the <i>3rd DRAMA Steering Workshop</i>,
September, 1999.<BR>
<P>
<LI>
<b>Interprocessor Communication with Memory Constraints.</b><br>
Ali Pinar and Bruce Hendrickson.<br>
<i>Proc. 12th ACM Symp. Parallel Algorithms and Architectures</i>,
July 2000. <BR>
<A HREF="http://cs.sandia.gov/~bahendr/abstracts/spaa00.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/pub/papers/bahendr/spaa00.ps.gz">Paper</A> (PS.GZ)
<P>
<LI>
<b>Graph Partitioning and Parallel Solvers: Has the Emperor No Clothes
(Extended Abstract).</b><br>
Bruce Hendrickson.<br>
<i>Proc. Irregular'98</i>,
<A HREF="https://link.springer.de/series/lncs/"> Lecture Notes in
Computer Science, 1457</A>, pp. 218-225, 1998. Copyright Springer-Verlag. <BR>
<A HREF="http://cs.sandia.gov/~bahendr/abstracts/irreg98.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/pub/papers/bahendr/irreg98.ps.gz">Paper</A> (PS.GZ)
<br>
<P>
<li>
<b>Parallel Adaptive <i>hp</i>-Refinement Techniques for Conservation Laws.</b><br>
K. Devine and J. Flaherty.<br>
<i>Applied Numerical Mathematics</i>, <b>20</b> (1996), 367-386.
<br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/anm96.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/Zoltan/papers/anm96.ps.gz">Paper</A> (PS.GZ)
<br>
<p>
<li>
<b>Dynamic Load Balancing for Parallel Finite Element Methods
with Adaptive <i>h</i>- and <i>p</i>-Refinement.</b><br>
K. Devine and J. Flaherty.<br>
<i>Proceedings of the Seventh SIAM Conference on
Parallel Processing for Scientific Computing</i>,
San Francisco, CA, February, 1995.<br>
<A HREF="http://cs.sandia.gov/Zoltan/abstracts/siampp95.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/Zoltan/papers/siampp95.ps.gz">Paper</A> (PS.GZ)
<br>
<p>
<LI>
<b>Parallel Algorithms for Dynamically Partitioning Unstructured Grids.</b><br>
Pedro Diniz, Steve Plimpton, Bruce Hendrickson and Robert Leland.<br>
<i>Proceedings of the Seventh SIAM Conference on Parallel
Processing for Scientific Computing</i>, San Francisco, CA, February, 1995. <BR>
<A HREF="http://cs.sandia.gov/~bahendr/abstracts/dynamic.html">Abstract</A> (HTML)
&nbsp;&nbsp;&nbsp;&nbsp;
<A HREF="http://cs.sandia.gov/pub/papers/bahendr/dynamic.ps.gz">Paper</A> (PS.GZ)
<br>
<p>
</ul>
<p>
<b>
Coloring
</b>
<p>
<ul>
<li>
<b>Improving Graph Coloring on Distributed Memory Parallel Computers.</b><br>
A.E. Sariy<69>ce, E. Saule and <20>.V. <20>ataly<6C>rek. <br>
<i>Proceedings of 18th Annual International Conference on High Performance Computing (HiPC 2011), </i>
Dec 2011, to appear.
<br><p>
</li>
<li>
<b>Distributed-memory Parallel Algorithms for Distance-2 Coloring and Related Problems in Derivative Computation. </b><br>
D. Bozdag, <20>.V. <20>ataly<6C>rek, A. H. Gebremedhin, F. Manne, E.G. Boman, and F. <20>zg<7A>ner. <br>
<i>SIAM Journal of Scientific Computing</i>, Vol. 32, No. 4, pp. 2418-2446, 2010. <br><p>
</li>
<li>
<b>A Framework for Scalable Greedy Coloring on Distributed Memory Parallel Computers. </b><br>
D. Bozdag, A. Gebremedhin, F. Manne, E.G. Boman, and <20>.V. <20>ataly<6C>rek. <br>
<i>Journal of Parallel and Distributed Computing</i>, Vol. 68, No. 4, pp. 515-535, Apr 2008. <br><p>
</li>
<li>
<b>A Scalable Parallel Graph Coloring Algorithm for Distributed-Memory
Computers.</b><br>
E. Boman, D. Bozdag, U. Catalyurek, A. Gebremedhim, F. Manne.<br>
<i>EuroPar 2005</i>, August 2005.
</li>
<p>
<li>
<b>A Parallel Distance-2 graph coloring algorithm for distributed memory
computers.</b><br>
E. Boman, D. Bozdag, U. Catalyurek, A. Gebremedhin, F. Manne, F. Ozguner.<br>
<i>HPCC-05</i>, September 2005.
</li>
</ul>
<b>Miscellaneous</b>
<ul>
<li>
<b>Combinatorial Algorithms Enabling Computational Science: Tales From the
Front.</b><br>
S. Bhowmick, E. Boman, K. Devine, A. Gebremedhin, B. Hendrickson, P. Hovland, T. Munson, A. Pothen.<br>
Sandia National Laboratories Tech. Rep. SAND2006-3914C, Albuquerque, NM, 2006.
Submitted to <i>Journal of Physics: Conference Series</i>, July 2006.
</li>
<p>
</ul>
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<!-------- @HEADER
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! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
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! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
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!
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Zoltan:
</font></font></b>
<br>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Parallel Partitioning, Load Balancing and
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<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<p><b><font face="Verdana, Arial, Helvetica"><font size=+2>Developer's
Guide&nbsp;</font></font></b>
<p>
<hr WIDTH="100%">
<p>
<hr WIDTH="100%">
<p>
<h3><b> The Zoltan Team </b></h3>
<table width="100%">
<tr>
<td width="50%" valign=top>
<b> Sandia National Laboratories</b><br>
<a href="https://www.sandia.gov/~egboman">Erik Boman</a> <br>
Cedric Chevalier<br>
<a href="https://www.sandia.gov/~kddevin">Karen Devine</a><br>
Vitus Leung<br>
Sivasankaran Rajamanickam<br>
Lee Ann Riesen<br>
Michael Wolf<br>
</td>
<td width="50%" valign=top>
<b> Ohio State University</b><br>
<a href="https://bmi.osu.edu/~umit/">Umit Catalyurek</a><br>
<a href="https://www.ece.osu.edu/~bozdagd">Doruk Bozdag</a><br>
</td>
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<h3><b> Past Zoltan Contributors</b></h3>
<table width="100%"
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<td width="50%" valign=top>
<b> Sandia National Laboratories: </b><br>
Robert Heaphy<br>
Bruce Hendrickson <br>
Matthew St. John<br>
Courtenay Vaughan<br>
<br>
</td>
<td width="50%" valign=top>
<b> Williams College</b><br>
<a href="https://www.teresco.org/~terescoj/">James Teresco</a><br>
</td>
</tr>
<tr>
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<b> National Institute of Standards and Technology</b><br>
<a href="https://math.nist.gov/~mitchell">William F. Mitchell</a><br>
</td>
<td width="50%" valign=top>
<b> Rensselaer Polytechnic Institute</b><br>
Jamal Faik<br>
Luis Gervasio<br>
</td>
</tr>
</table>
<p>
<p>
<hr WIDTH="100%">
<div ALIGN=right>
<b><i>Zoltan Developer's Guide, Version 3.3</b></i></div>
<p>
<p>
<blockquote>
<b>
The Zoltan Developer's Guide is undergoing major revision and will be re-released with Zoltan 4.0.
Please excuse the inconvenience.
</b>
</blockquote>
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!
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<a href="http://www.sandia.gov/general/privacy-security/index.html">Sandia Privacy and Security Notice</a></font></b></td>
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<!--MAIN CONTENT AREA STARTS HERE-->
<!----------------THIS IS A CHANGE AREA---------------->
<!------HEADER TEXT SHOULD BE REPLACE THIS TEXT------>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Zoltan:
</font></font></b>
<br>
<b><font face="Verdana, Arial, Helvetica"><font size=+2>
Parallel Partitioning, Load Balancing and
Data-Management Services
</font></font></b>
<p>
<!---------------END OF THIS CHANGE AREA--------------->
<!----------------THIS IS A CHANGE AREA---------------->
<!--MAIN CONTENT SHOULD BE PLACED IN THE AREA BELOW-->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<!------------------------------------------------------------------------->
<p><b><font face="Verdana, Arial, Helvetica"><font size=+2>Developer's
Guide&nbsp;</font></font></b>
<p>
<hr WIDTH="100%">
<p>
<hr WIDTH="100%">
<p>
<h3><b> The Zoltan Team </b></h3>
<table width="100%">
<tr>
<td width="50%" valign=top>
<b> Sandia National Laboratories</b><br>
<a href="http://www.sandia.gov/~egboman">Erik Boman</a> <br>
Cedric Chevalier<br>
<a href="http://www.cs.sandia.gov/~kddevin">Karen Devine</a><br>
Vitus Leung<br>
Lee Ann Riesen<br>
</td>
<td width="50%" valign=top>
<b> Ohio State University</b><br>
<a href="http://bmi.osu.edu/~umit/">Umit Catalyurek</a><br>
<a href="http://www.ece.osu.edu/~bozdagd">Doruk Bozdag</a><br>
</td>
</tr>
</table>
<br>
<h3><b> Past Zoltan Contributors</b></h3>
<table width="100%"
<tr>
<td width="50%" valign=top>
<b> Sandia National Laboratories: </b><br>
Robert Heaphy<br>
<a href="http://www.cs.sandia.gov/~bahendr">Bruce Hendrickson</a></b><br>
Matthew St. John<br>
Courtenay Vaughan<br>
<br>
</td>
<td width="50%" valign=top>
<b> Williams College</b><br>
<a href="http://www.teresco.org/~terescoj/">James Teresco</a><br>
</td>
</tr>
<tr>
<td width="50%" valign=top>
<b> National Institute of Standards and Technology</b><br>
<a href="http://math.nist.gov/~mitchell">William F. Mitchell</a><br>
</td>
<td width="50%" valign=top>
<b> Rensselaer Polytechnic Institute</b><br>
Jamal Faik<br>
Luis Gervasio<br>
</td>
</tr>
</table>
<p>
<p>
<hr WIDTH="100%">
<div ALIGN=right>
<b><i>Zoltan Developer's Guide, Version 3.2</b></i></div>
<p>
<h4>
<table border="1"> <tr> <td>
<a href="http://www.cs.sandia.gov/~kddevin/Zoltan_pdf/dev.pdf">DOWNLOAD PDF VERSION HERE.</a>
</td> </tr> </table>
<p>
<h4>
<a href="dev_intro.html">Introduction and General Principles</a></h4>
<blockquote><a href="dev_intro_philosophy.html">Philosophy of Zoltan</a>
<br><a href="dev_intro_coding.html">Coding Principles in Zoltan</a>
<ol TYPE=A><a href="dev_intro_coding.html#include">Include files</a>
<br><a href="dev_intro_coding.html#global">Global Variables</a>
<br><a href="dev_intro_coding.html#functions">Function Names</a>
<br><a href="dev_intro_coding.html#par_comm">Parallel Communication</a>
<br><a href="dev_intro_coding.html#memory1">Memory Management</a>
<br><a href="dev_intro_coding.html#return">Errors, Warnings and Return Codes</a>
</ol>
<a href="dev_intro_sqe.html">Zoltan Quality Assurance</a>
</blockquote>
<h4>
<a href="dev_dist.html">Zoltan Distribution</a></h4>
<ol TYPE=1><a href="dev_dist_cvs.html">CVS</a>
<br><a href="dev_dist_dir.html">Layout of Directories</a>
<br><a href="dev_dist_compile.html">Compilation and Makefiles</a></ol>
<h4>
<a href="dev_lb.html">Zoltan Interface and Data Structures</a></h4>
<ol TYPE=1><a href="dev_lb_interface.html">Interface Functions</a>
<br><a href="dev_lb_types.html">ID Data Types</a>
<br><a href="dev_lb_structs.html">Data Structures</a></ol>
<h4>
<a href="dev_services.html">Services (to simplify new algorithm development)</a></h4>
<ol TYPE=1><a href="dev_services_params.html">Parameter Setting Routines</a>
<br><a href="dev_services_parallel.html">Parallel Computing Routines</a>
<br><a href="dev_services_objlist.html">Common Functions for Querying Applications</a>
<br><a href="dev_services_hash.html">Hash Function</a>
<br><a href="dev_services_time.html">Timing Routines</a>
<br><a href="dev_services_zoltantimer.html">High-Level Timing Services: ZOLTAN_TIMER</a>
<br><a href="dev_services_debug.html">Debugging Services</a></ol>
<h4>
<a href="dev_add.html">Adding New Load-Balancing Algorithms to Zoltan</a></h4>
<ol TYPE=1><a href="dev_add_interface.html">Load-Balancing Interface Routines</a>
<br><a href="dev_add_lb.html">Load-Balancing Function Implementation</a>
<br><a href="dev_add_struct.html">Data Structures</a>
<br><a href="dev_add_memory.html">Memory Management</a>
<br><a href="dev_add_params.html">Parameters</a>
<br><a href="dev_add_remap.html">Part Remapping</a>
</ol>
<h4>
<a href="dev_mig.html">Migration Tools</a></h4>
<h4>
<a href="dev_fortran.html">FORTRAN Interface</a></h4>
<h4>
<a href="dev_cpp.html">C++ Interface</a></h4>
<h4>
<a href="dev_refs.html">References</a></h4>
<h4>
<a href="dev_driver.html">Appendix: Using the Test Drivers <i>zdrive</i>, <i>zCPPdrive</i> and <i>zfdrive</i></a></h4>
<ul><a href="dev_driver.html#Introduction">Introduction</a>
<br><a href="dev_driver.html#running zdrive">Running the Test Drivers</a>
<br><a href="dev_driver.html#adding algorithms">Adding New Algorithms</a></ul>
<h4>
<a href="dev_view.html">Appendix: Visualization of Geometric Partitions</a></h4>
<ul><a href="dev_view.html#Vis_2D">2D problems with <I>gnuplot</I></a>
<br><a href="dev_view.html#Vis_3D">3D problems with <I>vtk_view</I></a>
<br><a href="dev_view.html#Vis_offscreen">Off-screen rendering with <I>vtk_write</I></a>
<br><a href="dev_view.html#Vis_other">Other file formats</a>
</ul>
<h4>
<a href="dev_test_script.html">Appendix: Using the Test Script <i>test_zoltan</i></a></h4>
<h4>
<a href="dev_rcb.html">Appendix: Recursive Coordinate Bisection (RCB)</a></h4>
<h4>
<a href="dev_rib.html">Appendix: Recursive Inertial Bisection (RIB)</a></h4>
<h4>
<a href="dev_parmetis.html">Appendix: Graph Partitioning (ParMETIS and Jostle) </a></h4>
<h4>
<a href="dev_phg.html">Appendix: Hypergraph Partitioning (PHG) </a></h4>
<h4>
<a href="dev_reftree.html">Appendix: Refinement Tree </a></h4>
<h4>
<a href="dev_hsfc.html">Appendix: Hilbert Space_Filling Curve (HSFC)</a></h4>
<h4>
<a href="dev_degenerate.html">Appendix: Handling Degenerate Geometries</a></h4>
<hr WIDTH="100%">
Copyright (c) 2000-2007, Sandia National Laboratories. <br>
<hr WIDTH="100%">
<br>[<a href="../Zoltan.html">Zoltan Home Page</a>&nbsp; |&nbsp; <a href="dev_intro.html">Next:&nbsp;
Introduction and General Principles</a>]&nbsp;<!---------MAIN CONTENT AREA ENDS HERE---------><!-- CHANGE CONTACT + E-MAIL, NOTE "SUBJECT" IN E-MAIL CODE --></td>
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
<!doctype html public "-//w3c//dtd html 4.0 transitional//en">
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<meta name="GENERATOR" content="Mozilla/4.7 [en] (X11; U; SunOS 5.6 sun4m) [Netscape]">
<meta name="sandia.approved" content="SAND99-1376">
<meta name="author" content="karen devine, kddevin@sandia.gov">
<title> Zoltan Developer's Guide: Adding Algorithms</title>
</head>
<body bgcolor="#FFFFFF">
<div align=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp;
|&nbsp; <a href="dev_add_interface.html">Next</a>&nbsp; |&nbsp; <a href="dev_services_debug.html">Previous</a></i></b></div>
<h2>
<a NAME="new_methods"></a>Adding New Load-Balancing Algorithms to Zoltan</h2>
The Zoltan library is designed so that adding new load-balancing algorithms
to the library is simple. In many cases, existing code can be easily modified
to use the interface query functions to build the data structures needed
for the algorithm. The process for adding new algorithms to the library
is described below; more detail is provided at each link.
<ol>
<li>
Make sure you follow the <a href="dev_intro_philosophy.html">Philosophy
of Zoltan</a> and the <a href="dev_intro_coding.html">Coding Principles
in Zoltan</a>.</li>
<li>
Use the <a href="dev_add_struct.html">Data Structures</a>
provided by Zoltan.</li>
<li>
Implement a <a href="dev_add_lb.html">Load-Balancing Function</a> front-end
to the algorithm. Note that Zoltan load-balance methods should assign objects both to processors and parts, which may be different. The recommended strategy is to assign objects to parts first, then use Zoltan_LB_Part_To_Proc to generate the corresponding processors.</li>
<li>
Add the algorithm to the <a href="dev_add_interface.html">Load-Balancing
Interface Routines</a>.</li>
<li>
Add the <a href="dev_add_params.html">Parameters</a> needed by the algorithm.
Also make sure that the algorithm uses the <a href="../ug_html/ug_param.html#General_Parameters">General Parameters</a> in Zoltan properly, in particular
<a href="../ug_html/ug_alg.html#LB Parameters"><b>Imbalance_Tol</b></a> and
<a href="../ug_html/ug_param.html#Debug Levels in Zoltan"><b>Debug_Level.</b></a></li>
<li>
If necessary, write a routine to free your dynamically allocated data structures.
See tips on <a href="dev_add_memory.html">memory management</a></li>
in Zoltan.</a></li>
<li>
If your algorithm uses persistent data structures,
like the RCB tree with <a href="../ug_html/ug_alg_rcb.html">KEEP_CUTS</a>,
write a routine to copy your load balancing
<a href="dev_add_struct.html#Copy">data structure</a>. </li>
<li>
We recommend you add part remapping to your algorithm using
<a href="dev_add_.html"><b>Zoltan_LB_Remap</b></a>.</li>
<li>
Update the <a href="dev_fortran.html#fortran dev add">Fortran</a>
and <a href="dev_cpp.html">C++</a> interfaces, if necessary.</li>
<li>
Document your new method. The documentation should be written in a format
that can easily be converted into HTML and PDF. Consider adding a
simple application to the <I>examples</I> directory demonstrating the
use of your method.</li>
<li>
Please contact the Zoltan team if you would like your method to be distributed
with future versions of Zoltan.</li>
</ol>
<hr WIDTH="100%">
<br>[<a href="dev.html">Table of Contents</a>&nbsp; |&nbsp; <a href="dev_add_interface.html">Next:&nbsp;
Load-Balancing Interface Routines</a>&nbsp; |&nbsp; <a href="dev_services_debug.html">Previous:&nbsp;
Debugging Services</a>&nbsp; |&nbsp; <a href="https://www.sandia.gov/general/privacy-security/index.html">Privacy and Security</a>]
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
<!doctype html public "-//w3c//dtd html 4.0 transitional//en">
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<meta name="GENERATOR" content="Mozilla/4.7 [en] (X11; U; SunOS 5.7 sun4u) [Netscape]">
<meta name="sandia.approved" content="SAND99-1376">
<meta name="author" content="karen devine, kddevin@sandia.gov">
<title> Zoltan Developer's Guide: Adding Interface Routines</title>
</head>
<body bgcolor="#FFFFFF">
<div ALIGN=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp; |&nbsp; <a href="dev_add_lb.html">Next</a>&nbsp; |&nbsp; <a href="dev_add.html">Previous</a></i></b></div>
<h2>
<a NAME="new_interface"></a>Load-Balancing Interface Routines</h2>
Any new method that you wish to add to the Zoltan library must have an
interface that conforms to the prototype <b><a href="dev_add_lb.html">LB_FN</a></b>.
Note that the load balancing
function may return either import lists, export lists, or both. All
processes must return the same type of list. If import (export) lists
are not computed, then the variable <i>num_import</i> (<i>num_export</i>)
must be set to a negative number (typically -1) upon return.
Full support of the <a href="../ug_html/ug_alg.html#RETURN_LISTS">RETURN_LISTS</a>
parameter is not required.
If <a href="../ug_html/ug_alg.html#RETURN_LISTS">RETURN_LISTS</a>
is not set to NONE,
the new algorithm may return either import or export lists; the Zoltan
interface will then build the lists requested by
<a href="../ug_html/ug_alg.html#RETURN_LISTS">RETURN_LISTS</a>.
<p>
A new algorithm must be added to the load-balancing interface for use
with parameter
<a href="../ug_html/ug_alg.html#LB_METHOD">LB_METHOD</a>.
An entry for the new algorithm must be added to the enumerated type <b>Zoltan_LB_Method</b>
in <i>lb/lb_const.h</i>. An external <b><a href="dev_add_lb.html">LB_FN</a></b>
prototype for the load-balancing function must also be added to <i>lb/lb_const.h</i>;
see the prototype for function <i>Zoltan_RCB</i> as an example. A character
string describing the new algorithm should be chosen to be used as the parameter
value for
<a href="../ug_html/ug_alg.html#LB_METHOD">LB_METHOD</a>.
In
function <b>Zoltan_LB_Set_LB_Method</b>,
a test for this string should be added
and the <i>Method</i> and <i>LB_Fn</i> fields of the <b><a href="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</a></b>
should be set to the new enumerated type value and new load-balancing function
pointer.
<br>&nbsp;
<p>
<hr WIDTH="100%">
<br>[<a href="dev.html">Table of Contents</a>&nbsp; |&nbsp; <a href="dev_add_lb.html">Next:&nbsp;
Load-Balancing Function Implementation</a>&nbsp; |&nbsp; <a href="dev_add.html">Previous:&nbsp;
Adding New Algorithms</a>&nbsp; |&nbsp; <a href="https://www.sandia.gov/general/privacy-security/index.html">Privacy and Security</a>]
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
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!
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<TITLE> Zoltan Developer's Guide: Adding Load-Balancing Functions</TITLE>
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<div ALIGN=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp; |&nbsp; <a href="dev_add_struct.html">Next</a>&nbsp; |&nbsp; <a href="dev_add_interface.html">Previous</a></i></b></div>
<H2>
<A NAME="new_implementation"></A>Load-Balancing Function Implementation</H2>
The new load-balancing algorithm should be implemented as an <B>ZOLTAN_LB_FN</B>.
The type definition for an <B>ZOLTAN_LB_FN</B> is in <I>lb/lb_const.h</I> and
is described below. When the new algorithm is selected,
the <I>LB_Fn</I> field of the <B>Zoltan_Struct</B> is set to point to the <B>ZOLTAN_LB_FN</B>
function for the new algorithm. This pointer is then used in invoking load
balancing in <B><A HREF="../ug_html/ug_interface_lb.html#Zoltan_LB_Partition">Zoltan_LB_Partition</A></B>.
<BR>&nbsp;
<P>
<hr>
<HR>typedef int <B>ZOLTAN_LB_FN</B>
(struct&nbsp;<B><A HREF="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</A></B>&nbsp;*<I>zz</I>,
float&nbsp;*<I>part_sizes</I>,
int&nbsp;*<I>num_import</I>,
<B><A HREF="dev_lb_types.html">ZOLTAN_ID_PTR</A></B>&nbsp;*<I>import_global_ids</I>,
<B><A HREF="dev_lb_types.html">ZOLTAN_ID_PTR</A></B>&nbsp;*<I>import_local_ids</I>,
int&nbsp;**<I>import_procs</I>,
int&nbsp;**<I>import_to_parts</I>,
int&nbsp;*<I>num_export</I>,
<B><A HREF="dev_lb_types.html">ZOLTAN_ID_PTR</A></B>&nbsp;*<I>export_global_ids</I>,
<B><A HREF="dev_lb_types.html">ZOLTAN_ID_PTR</A></B>&nbsp;*<I>export_local_ids</I>,
int&nbsp;**<I>export_procs</I>,&nbsp;
int&nbsp;**<I>export_to_parts</I>);&nbsp;
<HR>
<BR>The <B>ZOLTAN_LB_FN</B> function type describes the arguments passed to a
load-balancing function. The input to the function is a <B><A HREF="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</A></B>
containing pointers to application-registered functions to be used in the
load-balancing algorithm. The remaining arguments are output parameters
listing the objects to be imported or exported to the processor in the
new decomposition. The arrays for global and local IDs and source processors
must be allocated by the load-balancing function. The load-balancing function
may return either the import arrays, the export arrays, or both. If no
import data is returned, *<I>num_import </I>must be set to a negative number,
and similarly with *<I>num_export.</I>
Full support of the <a href="../ug_html/ug_alg.html#RETURN_LISTS">RETURN_LISTS</a>
parameter is not required.
If <a href="../ug_html/ug_alg.html#RETURN_LISTS">RETURN_LISTS</a>
is not set to NONE,
the new algorithm may return either import or export lists; the Zoltan
interface will then build the lists requested by
<a href="../ug_html/ug_alg.html#RETURN_LISTS">RETURN_LISTS</a>.
<BR>&nbsp;
<TABLE WIDTH="100%" >
<TR VALIGN=TOP>
<TD VALIGN=TOP WIDTH="20%"><B>Arguments:</B></TD>
<TD WIDTH="80%"></TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; zz</I></TD>
<TD>A pointer to the <B><A HREF="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</A></B>
to be used in the load-balancing algorithm.</TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; part_sizes</I></TD>
<TD>Input: an array of part sizes for each weight component.
Entry
<i>part_sizes[i*obj_weight_dim+j]</i>
contains the user-requested
part size for part <i>i</i> with respect to object weight <i>j</i> for
<i>i</i>=0,1,...,number of parts-1, and
<i>j</i>=0,1,...,<i>obj_weight_dim</i>-1.
If the application sets parameter
<i><a href="../ug_html/ug_param.html#OBJ_WEIGHT_DIM">OBJ_WEIGHT_DIM</a></i>,
<i>obj_weight_dim</i> is the set value of
<i><a href="../ug_html/ug_param.html#OBJ_WEIGHT_DIM">OBJ_WEIGHT_DIM</a></i>;
otherwise, <i>obj_weight_dim</i> is one.
</TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; num_import</I></TD>
<TD>Upon return, the number of objects to be imported to the processor
for the new decomposition. A negative number indicates that no import data
has been computed and the import arrays should be ignored.</TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; import_global_ids</I></TD>
<TD>Upon return, an array of <I>num_import</I> global IDs
of objects to be imported to the processor for the new decomposition.
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</td>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; <I>import_local_ids</I></TD>
<TD>Upon return, an array of <I>num_import</I> local IDs
of objects to be imported to the processor for the new decomposition.
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</td>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; <I>import_procs</I></TD>
<TD>Upon return, an array of size <I>num_import</I> containing the processor
IDs of processors owning (in the old decomposition) the objects to be imported
for the new decomposition.
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</td>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; <I>import_to_parts</I></TD>
<TD>Upon return, an array of size <I>num_import</I> containing the part
IDs of parts to which objects will be imported
<i>in the NEW decomposition</i>.
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</td>
</TR>
<TR VALIGN=TOP>
<TD>&nbsp;&nbsp;&nbsp; <I>num_export</I></TD>
<TD>Upon return, the number of objects to be exported from the processor
for the new decomposition. A negative number indicates that no export data
has been computed and the export arrays should be ignored.</TD>
</TR>
<TR VALIGN=TOP>
<TD>&nbsp;&nbsp;&nbsp; <I>export_global_ids</I></TD>
<TD>Upon return, an array of <I>num_export</I> global IDs
of objects to be exported from the processor for the new decomposition.
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</td>
</TR>
<TR VALIGN=TOP>
<TD>&nbsp;&nbsp;&nbsp; <I>export_local_ids</I></TD>
<TD>Upon return, an array of <I>num_export</I> local IDs
of objects to be exported from the processor for the new decomposition.
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</TD>
</TR>
<TR VALIGN=TOP>
<TD>&nbsp;&nbsp;&nbsp; <I>export_procs</I></TD>
<TD>Upon return, an array of size <I>num_export</I> containing the
processor IDs of processors owning (in the old decomposition) the objects
to be exported for the new decomposition.&nbsp;
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</td>
</TR>
<TR VALIGN=TOP>
<TD>&nbsp;&nbsp;&nbsp; <I>export_to_parts</I></TD>
<TD>Upon return, an array of size <I>num_export</I> containing the
part IDs of parts to which the objects will be
exported for the new decomposition.&nbsp;
If this array is non-null, it must be allocated by
<b><a href="dev_add_memory.html#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
</td>
</TR>
<TR VALIGN=TOP>
<TD></TD>
<TD></TD>
</TR>
<TR VALIGN=TOP>
<TD><B>Returned Value:</B></TD>
<TD></TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; int</TD>
<TD><A HREF="../ug_html/ug_interface.html#Error Codes">Error code</A>.</TD>
</TR>
</TABLE>
<HR WIDTH="100%">
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
<!doctype html public "-//w3c//dtd html 4.0 transitional//en">
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<meta name="GENERATOR" content="Mozilla/4.7 [en] (X11; U; SunOS 5.7 sun4u) [Netscape]">
<meta name="sandia.approved" content="SAND99-1376">
<meta name="author" content="karen devine, kddevin@sandia.gov">
<title> Zoltan Developer's Guide: Adding Algorithms: How to handle memory</title>
</head>
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<div align=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp;
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<!------------------------------------------------------------------------->
<h2>
Memory Management in Zoltan Algorithms</h2>
Zoltan uses a <a href="../ug_html/ug_util_mem.html">memory management
package</a> to simplify debugging of memory problems.
It is strongly recommended that algorithm
developers use the routines in this package, such as
<a href="../ug_html/ug_util_mem.html#Zoltan_Malloc"><b>ZOLTAN_MALLOC</b> </a>,
<a href="../ug_html/ug_util_mem.html#Zoltan_Calloc"><b>ZOLTAN_CALLOC</b> </a> and
<b><a href="../ug_html/ug_util_mem.html#Zoltan_Free">ZOLTAN_FREE</a></b>, instead
of the standard C routines for most memory management.
<p>
Macros that simplify the <a href="dev_lb_types.html#ID alloc">allocation of global and local identifiers (IDs)</a>
are defined in <i>zz/zz_id_const.h</i>. These macros are described in the
<a href="dev_lb_types.html">ID Data Types</a> section. The macros include
error checking for the allocations and, thus, their use is highly recommended.
<p>When a dynamic structure needs to be returned to the application,
special memory allocation routines are needed.&nbsp; For example, the import
and export lists of data to migrate are returned to an application from
<b><a href="../ug_html/ug_interface_lb.html#Zoltan_LB_Partition">Zoltan_LB_Partition</a></b>
and
<b><a href="../ug_html/ug_interface_mig.html#Zoltan_Invert_Lists">Zoltan_Invert_Lists</a></b>.
There are two special routines for managing memory for such situations,
called <b><a href="#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b> and <b><a href="#Zoltan_Special_Free">Zoltan_Special_Free</a></b>.
Algorithms must use these functions to maintain compatibility with both
C and Fortran90 applications; these special routines manage memory in a
way that is compatible with both languages.
<p>Some load-balancing algorithms may contain persistent data structures,
that is, data structures that are preserved between calls to the load-balancing
routine. The <a href="dev_lb_structs.html"><b>Zoltan_Struct</b></a> structure contains a field
<a href="dev_add_struct.html"><i>LB.Data_Structure</i></a>
for this purpose, allowing multiple Zoltan structures to preserve
their own decomposition data. The developer should write a function that
frees this data structure.&nbsp; Use <b>Zoltan_RCB_Free_Structure </b>as an
example.
<p>
<!------------------------------------------------------------------------->
<hr>
<a NAME="Zoltan_Special_Malloc"></a>
<hr>
int <b>Zoltan_Special_Malloc</b>(struct
<b><a href="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</a></b>
*<i>zz</i>, void **<i>array</i>, int <i>size</i>, <b>ZOLTAN_SPECIAL_MALLOC_TYPE</b><i>type</i>);&nbsp;
<hr>
<p>The <b>Zoltan_Special_Malloc</b> routine allocates memory to be returned to the application by Zoltan (e.g., the result arrays
of
<b><a href="../ug_html/ug_interface_lb.html#Zoltan_LB_Partition">Zoltan_LB_Partition</a></b>
and
<b><a href="../ug_html/ug_interface_mig.html#Zoltan_Invert_Lists">Zoltan_Invert_Lists</a></b>).
Returned memory must be allocated by <b>Zoltan_Special_Malloc</b> to insure it is allocated
by the same language as the application. Memory allocated by <b>Zoltan_Special_Malloc</b>
must be deallocated by <b><a href="#Zoltan_Special_Free">Zoltan_Special_Free</a></b>.
<br>&nbsp;
<table WIDTH="100%" >
<tr VALIGN=TOP>
<td VALIGN=TOP WIDTH="20%"><b>Arguments:</b></td>
<td WIDTH="80%"></td>
</tr>
<tr>
<td VALIGN=TOP><i>&nbsp;&nbsp;&nbsp; zz</i></td>
<td>The Zoltan structure currently in use.</td>
</tr>
<tr>
<td VALIGN=TOP><i>&nbsp;&nbsp;&nbsp; array</i></td>
<td>
Upon return, a pointer to the allocated space.
Usually of type int** or <b><a href="dev_lb_types.html">ZOLTAN_ID_PTR</a></b>*.
</td>
</tr>
<tr>
<td VALIGN=TOP><i>&nbsp;&nbsp;&nbsp; size</i></td>
<td>The number of elements (not bytes) to be allocated.</td>
</tr>
<tr>
<td VALIGN=TOP>&nbsp;&nbsp;&nbsp; <i>type</i></td>
<td>The type of array to allocate. Must be one of <b>ZOLTAN_SPECIAL_MALLOC_INT</b>,
<b>ZOLTAN_SPECIAL_MALLOC_GID</b>
or <b>ZOLTAN_SPECIAL_MALLOC_LID</b> for processor numbers, <a href="dev_lb_types.html">global IDs</a> and <a href="dev_lb_types.html">local IDs</a>, respectively.
</td>
</tr>
<tr>
<td><b>Returned Value:</b></td>
<td></td>
</tr>
<tr>
<td VALIGN=TOP>&nbsp;&nbsp; int</td>
<td>1 if the allocation succeeded; 0 if it failed.</td>
</tr>
<tr>
<td VALIGN=TOP><b>Example:</b></td>
<td></td>
</tr>
<tr>
<td VALIGN=TOP></td>
<td>
<tt>
ierr = <b>Zoltan_Special_Malloc</b>(<i>zz</i>, (void **)<i>import_gid</i>,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <i>num_import</i>,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <b>ZOLTAN_SPECIAL_MALLOC_GID</b>);
</tt>
</td>
</tr>
<tr>
<td VALIGN=TOP></td>
<td>Allocates an array with <i>num_import</i> <a href="dev_lb_types.html">global IDs</a>
and returns a pointer to the allocated space in <i>import_gid</i>.
</td>
</tr>
</table>
<p>
<!------------------------------------------------------------------------->
<hr>
<a NAME="Zoltan_Special_Free"></a>
<hr>
int <b>Zoltan_Special_Free</b>(struct <b><a href="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</a></b>
*<i>zz</i>, void **<i>array</i>,<b> ZOLTAN_SPECIAL_MALLOC_TYPE</b> <i>type</i>);&nbsp;
<hr>
<p><b>Zoltan_Special_Free</b> frees memory allocated by <b><a href="#Zoltan_Special_Malloc">Zoltan_Special_Malloc</a></b>.
The array pointer is set to NULL upon return.
<br>&nbsp;
<table WIDTH="100%" >
<tr VALIGN=TOP>
<td VALIGN=TOP WIDTH="20%"><b>Arguments:</b></td>
<td WIDTH="80%"></td>
</tr>
<tr>
<td VALIGN=TOP><i>&nbsp;&nbsp;&nbsp; zz</i></td>
<td>The Zoltan structure currently in use.</td>
</tr>
<tr>
<td VALIGN=TOP><i>&nbsp;&nbsp;&nbsp; array</i></td>
<td>The array to be freed. Upon return, the pointer is set to NULL.</td>
</tr>
<tr>
<td VALIGN=TOP>&nbsp;&nbsp;&nbsp; <i>type</i></td>
<td>The type of the array. Must be one of <b>ZOLTAN_SPECIAL_MALLOC_INT</b>,
<b>ZOLTAN_SPECIAL_MALLOC_GID</b>
or <b>ZOLTAN_SPECIAL_MALLOC_LID</b> for processor numbers, <a href="dev_lb_types.html">global IDs</a> and <a href="dev_lb_types.html">local IDs</a>, respectively.</td>
</tr>
<tr>
<td><b>Returned Value:</b></td>
<td></td>
</tr>
<tr>
<td VALIGN=TOP>&nbsp;&nbsp; int</td>
<td>1 if the deallocation succeeded; 0 if it failed.</td>
</tr>
<tr>
<td VALIGN=TOP><b>Example:</b></td>
<td></td>
</tr>
<tr>
<td VALIGN=TOP></td>
<td>
<tt>
ierr = <b>Zoltan_Special_Free</b>(<i>zz</i>, (void **)<i>import_gid</i>,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <b>ZOLTAN_SPECIAL_MALLOC_GID</b>);
</tt>
</td>
</tr>
<tr>
<td VALIGN=TOP></td>
<td>Frees the <b><a href="dev_lb_types.html">global IDs</a></b>
array <i>import_gid</i> and sets it to NULL.</td>
</tr>
</table>
<br>&nbsp;
<p>
<!------------------------------------------------------------------------->
<hr WIDTH="100%">
<br>[<a href="dev.html">Table of Contents</a>&nbsp; |&nbsp; <a href="dev_add_params.html">Next:&nbsp;
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
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<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
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<meta name="sandia.approved" content="SAND99-1376">
<meta name="author" content="karen devine, kddevin@sandia.gov">
<title> Zoltan Developer's Guide: Adding Parameters</title>
</head>
<body bgcolor="#FFFFFF">
<div ALIGN=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp; |&nbsp; <a href="dev_add_remap.html">Next</a>&nbsp; |&nbsp; <a href="dev_add_memory.html">Previous</a></i></b></div>
<h2>
<a NAME="new_parameters"></a>Adding new parameters</h2>
All parameters in Zoltan should be set and accessed through the <a href="dev_services_params.html">parameter
setting routines</a>. To add a new parameter to an existing method, you
need to do the following:
<ul>
<li>
In the source code for the desired method, search for&nbsp; the place where
the static array of parameters is defined. It will look something like:
<i>static
PARAM_VARS Method_params[] = { ... }</i>.&nbsp; Add a line with the name
of the new parameter, a pointer to the variable you want to associate (usually
NULL), and its type.</li>
<li>
In the method source code, bind the parameter to a local variable through
<b><a href="dev_services_params.html#Zoltan_Bind_Param">Zoltan_Bind_Param</a></b>.
Make sure you do this before <b><a href="dev_services_params.html#Zoltan_Assign_Param_Vals">Zoltan_Assign_Param_Vals
</a></b>is
invoked.</li>
<li>
Update the parameter function for the method in question. This routine
is typically called <b>Zoltan_</b><i>Method</i><b>_Set_Param</b><i>. </i>This
routine checks if a given string is a valid parameter for that method.
It may also verify the values.</li>
</ul>
When you add a new method to Zoltan, you also need to:
<ul>
<li>
Write a parameter function for your method that checks whether a given
string and value is a valid parameter pair for your method. See <b>Zoltan_RCB_Set_Param</b>
in <i>rcb/rcb.c</i> for an example.</li>
<li>
Let your method access the parameters via <b><a href="dev_services_params.html#Zoltan_Bind_Param">Zoltan_Bind_Param
</a></b>and
<b><a href="dev_services_params.html#Zoltan_Assign_Param_Vals">Zoltan_Assign_Param_Vals</a></b>.</li>
<li>
Change the parameter function array in <i>params/set_params.c</i> to include
your parameter function. Simply add a new entry to the static array that
looks like: <i>static ZOLTAN_SET_PARAM_FN * Param_func[] = {...}</i>.</li>
<li>
Make sure your method uses the <a href="../ug_html/ug_param.html#General_Parameters">key
parameters</a> in Zoltan correctly.</li>
</ul>
One useful convention is to put your method routine and your corresponding
parameter function in the same source file. This way you can define the
parameters in a static array. This convention eliminates&nbsp; the risk
of bugs caused by duplicate declarations (that are, incorrectly, not identical).
<br>
<hr WIDTH="100%">
<br>[<a href="dev.html">Table of Contents</a>&nbsp; |&nbsp; <a href="dev_add_remap.html">Next:&nbsp;
Part Remapping</a>&nbsp; |&nbsp; <a href="dev_add_memory.html">Previous:&nbsp;
Memory Management</a>&nbsp; |&nbsp; <a href="https://www.sandia.gov/general/privacy-security/index.html">Privacy and Security</a>]
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
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<HEAD>
<META HTTP-EQUIV="Content-Type" CONTENT="text/html; charset=iso-8859-1">
<META NAME="GENERATOR" CONTENT="Mozilla/4.04 [en] (X11; U; SunOS 5.6 sun4m) [Netscape]">
<META NAME="sandia.approved" CONTENT="SAND99-1376">
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<TITLE> Zoltan Developer's Guide: Part Remapping</TITLE>
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<div ALIGN=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp; |&nbsp; <a href="dev_mig.html">Next</a>&nbsp; |&nbsp; <a href="dev_add_params.html">Previous</a></i></b></div>
<H2>
<A NAME="new_implementation"></A>Part Remapping</H2>
Part remapping can be incorporated into load-balancing algorithms.
The part remapping algorithm works as follows:
<ul>
<li>
After partitioning within an <a href="dev_add_lb.html"><b>ZOLTAN_LB_FN</b></a>
but before import or export lists are built, the partitioning algorithm calls
<a href="#Zoltan_LB_Remap"><b>Zoltan_LB_Remap</b></a>.
</li>
<li>
<a href="#Zoltan_LB_Remap"><b>Zoltan_LB_Remap</b></a> builds a bipartite
graph based on local import or export information (depending on which is
available in the partitioning algorithm). Vertices of the graph are
processor or part numbers used in the old (input to the partitioner)
and new (computed by the partitioner) decompositions. Edges connect
old and new vertices; edge weight for edge <i>e<sub>ij</sub></i> is the
number of objects in old part <i>i</i> that are also in new part
<i>j</i>. The bipartite graph is stored as a hypergraph, so that Zoltan's
hypergraph matching routines may be applied.
</li>
<li>
<a href="#Zoltan_LB_Remap"><b>Zoltan_LB_Remap</b></a> gathers the local
hypergraph edges onto each processor and performs a serial matching of
the vertices. This matching defines the remapping.
</li>
<li>
<a href="#Zoltan_LB_Remap"><b>Zoltan_LB_Remap</b></a> remaps the input
processor and part information to reflect the remapping and returns
the result to the application. It also builds array <i>zz->LB.Remap</i>
that is used in other functions (e.g.,
<b><a href="../ug_html/ug_interface_augment.html#Zoltan_LB_Box_PP_Assign">Zoltan_LB_Box_PP_Assign</a></b> and
<b><a href="../ug_html/ug_interface_augment.html#Zoltan_LB_Point_PP_Assign">Zoltan_LB_Point_PP_Assign</a></b>).
</li>
<li>
Using the remapping information returned from
<a href="#Zoltan_LB_Remap"><b>Zoltan_LB_Remap</b></a>, the partitioning
algorithm builds the import or export lists to return to the application.
Note: if the partitioning algorithm builds import lists, data may have to be
moved to appropriate processors before building import lists to reflect
the remapping; see <i>rcb/shared.c</i> for an example.
</li>
</ul>
<P>
<hr><a NAME="Zoltan_LB_Remap"></a>
<HR>int <B>Zoltan_LB_Remap</B>
(struct&nbsp;<B><A HREF="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</A></B>&nbsp;*<I>zz</I>,
int&nbsp;*<I>new_map</I>,
int&nbsp;<I>num_obj</I>,
int&nbsp;*<I>procs</I>,
int&nbsp;*<I>old_parts</I>,
int&nbsp;*<I>new_parts</I>,
int&nbsp;<I>export_list_flag</I>);
<HR>
<BR>
<b>Zoltan_LB_Remap</b> remaps computed part (or processor) numbers in
an attempt to maximize the amount of data that does not have to be migrated
to the new decomposition. It is incorporated directly into partitioning
algorithms, and should be called after the new decomposition is computed
but before return lists (import or export lists) are created.
<b>Zoltan_LB_Remap</b> should be invoked when Zoltan parameter
<i><a href="../ug_html/ug_alg.html#REMAP">REMAP</a></i> is one.
Even when
<i><a href="../ug_html/ug_alg.html#REMAP">REMAP</a></i> is one,
remapping is not done under a number of conditions; these conditions are
listed with the description of
<i><a href="../ug_html/ug_alg.html#REMAP">REMAP</a></i>.
<BR>&nbsp;
<TABLE WIDTH="100%" >
<TR VALIGN=TOP>
<TD VALIGN=TOP WIDTH="20%"><B>Arguments:</B></TD>
<TD WIDTH="80%"></TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; zz</I></TD>
<TD>A pointer to the <B><A HREF="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</A></B>
used in the partitioning algorithm.</TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; new_map</I></TD>
<TD>Upon return, a flag indicating whether remapping was actually done.
Remapping is not done under a number of conditions (described with
parameter
<i><a href="../ug_html/ug_alg.html#REMAP">REMAP</a></i>) or when the
computed remap gives a worse or equivalent result than the decomposition
computed by the partitioning algorithm.
</TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; num_obj</I></TD>
<TD>Input: the number of objects the processor knows about after
computing the decomposition. If the partitioning algorithm computes
export lists, <i>num_obj</i> is the number of objects stored on the
processor; if it computes import lists, <i>num_obj</i> is the number of
objects that will be stored on the processor in the new decomposition.
</td>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP><I>&nbsp;&nbsp;&nbsp; procs</I></TD>
<TD>
Upon input:
an array of size <i>num_obj</i> containing processor
assignments for the objects;
if <i>export_list_flag</i> == 1,
<i>procs</i> contains processor assignments
in the NEW decomposition (computed by the partitioner); otherwise,
<i>procs</i> contains processor assignments
in the OLD decomposition (input by the application).
Upon return, <i>procs</i> contains remapped
processor assignments for the NEW decomposition, regardless of the value of
<i>export_list_flag</i>.
</td>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; <I>old_parts</I></TD>
<TD>
Upon input:
an array of size <i>num_obj</i> containing part
assignments for the objects in the OLD decomposition (input by the
application).
</td>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; <I>new_parts</I></TD>
<TD>
Upon input:
an array of size <i>num_obj</i> containing part
assignments for the objects in the NEW decomposition (computed by the
partitioning algorithm).
Upon return:
<i>new_parts</i> contains remapped part assignments in the NEW decomposition.
</td>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; <I>export_list_flag</I></TD>
<TD>
Flag indicating whether the partitioning algorithm computes
export lists or import lists. The procedure
for building the bipartite
graph depends on whether
the partitioning algorithm knows export or import information.
</td>
</TR>
<TR VALIGN=TOP>
<TD></TD>
<TD></TD>
</TR>
<TR VALIGN=TOP>
<TD><B>Returned Value:</B></TD>
<TD></TD>
</TR>
<TR VALIGN=TOP>
<TD VALIGN=TOP>&nbsp;&nbsp;&nbsp; int</TD>
<TD><A HREF="../ug_html/ug_interface.html#Error Codes">Error code</A>.</TD>
</TR>
</TABLE>
<HR WIDTH="100%">
<BR>[<A HREF="dev.html">Table of Contents</A>&nbsp; |&nbsp; <A HREF="dev_mig.html">Next:&nbsp;
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
<!doctype html public "-//w3c//dtd html 4.0 transitional//en">
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<meta name="GENERATOR" content="Mozilla/4.7 [en] (X11; U; SunOS 5.7 sun4u) [Netscape]">
<meta name="sandia.approved" content="SAND99-1376">
<meta name="author" content="karen devine, kddevin@sandia.gov">
<title> Zoltan Developer's Guide: Adding Data Structures</title>
</head>
<body bgcolor="#FFFFFF">
<div align=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp;
|&nbsp; <a href="dev_add_memory.html">Next</a>&nbsp; |&nbsp; <a href="dev_add_lb.html">Previous</a></i></b></div>
<h2>
<a NAME="new_data_structs"></a>Data Structures</h2>
The main data structures for the algorithm should be pointed to by the
<i>LB.Data_Structure</i>
field of the <b><a href="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</a></b>.
This requirement allows reuse of data structures from one invocation of
the new load-balancing algorithm to the next. It also prevents the use
of global data structures for the algorithm so that multiple instances
of the algorithm may be used (i.e., the same algorithm can be used for
multiple <b><a href="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</a></b> structures).&nbsp;
An example showing the construction of data structures for the
<a href="../ug_html/ug_alg_rcb.html">Recursive
Coordinate Bisection (RCB)</a> algorithm is included
in the <a href="#RCB_example">figure</a> below.
<center><table BORDER=2 COLS=1 WIDTH="90%" NOSAVE >
<tr>
<td><a NAME="RCB_example"></a>
<tt>
<br>/* Allocate RCB data structure for this Zoltan structure.
<br>&nbsp;* If the previous data structure still exists, free the Dots
first;
<br>&nbsp;* the other fields can be reused.
<br>&nbsp;*/
<br>if (zz->LB.Data_Structure == NULL) {
<br>&nbsp;&nbsp; rcb = (RCB_STRUCT *) <a href="../ug_html/ug_util_mem.html#Zoltan_Malloc">ZOLTAN_MALLOC</a>(sizeof(RCB_STRUCT));
<br>&nbsp;&nbsp; zz->LB.Data_Structure = (void *) rcb;
<br>&nbsp;&nbsp; rcb->Tree_Ptr = (struct rcb_tree *)&nbsp;
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
<a href="../ug_html/ug_util_mem.html#Zoltan_Malloc">ZOLTAN_MALLOC</a>(zz->Num_Proc*sizeof(struct
rcb_tree));
<br>&nbsp;&nbsp; rcb->Box = (struct rcb_box *) <a href="../ug_html/ug_util_mem.html#Zoltan_Malloc">ZOLTAN_MALLOC</a>(sizeof(struct
rcb_box));
<br>}
<br>else {
<br>&nbsp;&nbsp; rcb = (RCB_STRUCT *) zz->LB.Data_Structure;
<br>&nbsp;&nbsp; <a href="../ug_html/ug_util_mem.html#Zoltan_Free">ZOLTAN_FREE</a>(&amp;(rcb->Dots));
<br>}
</tt>
</td>
</tr>
<caption ALIGN=BOTTOM><i>Example demonstrating allocation of data structures
for the RCB algorithm.&nbsp; (Taken from rcb/rcb_util.c.)</i></caption>
</table></center>
<p>The data needed for the algorithm is collected through calls to the
query functions registered by the application. Algorithms should test the
query function pointers for NULL and report errors when needed functions
are not registered. The appropriate query functions can be called to build
the algorithm's data structures up front, or they can be called during
the algorithm's execution to gather data only as it is needed. The <a href="#query_example">figure</a>
below shows how the <i>Dots</i> data structure needed by RCB is built.&nbsp;
The call to <i>zz->Get_Num_Obj</i> invokes an <b><a href="../ug_html/ug_query_lb.html#ZOLTAN_NUM_OBJ_FN">ZOLTAN_NUM_OBJ_FN</a></b>
query function to determine the number of objects on the processor.&nbsp;
Space for the <i>Dots</i> data structure is allocated through calls to
<b><a href="../ug_html/ug_util_mem.html#Zoltan_Malloc">ZOLTAN_MALLOC</a></b>, <a href="dev_lb_types.html#ID alloc"><b>ZOLTAN_MALLOC_GID_ARRAY</b></a>,
and <a href="dev_lb_types.html#ID alloc"><b>ZOLTAN_MALLOC_LID_ARRAY</b></a>.&nbsp; The <i>Dots</i> information is obtained
through a call to the Zoltan service function <b><a href="dev_services_objlist.html">Zoltan_Get_Obj_List</a></b>; this
function calls either an <b><a href="../ug_html/ug_query_lb.html#ZOLTAN_OBJ_LIST_FN">ZOLTAN_OBJ_LIST_FN</a></b>
or an <b><a href="../ug_html/ug_query_lb.html#ZOLTAN_FIRST_OBJ_FN">ZOLTAN_FIRST_OBJ_FN</a></b>/<b><a href="../ug_html/ug_query_lb.html#ZOLTAN_NEXT_OBJ_FN">ZOLTAN_NEXT_OBJ_FN</a></b>
pair to get the object IDs and weights. The data for each
<i>Dot</i> is
set in the function <i>initialize_dot</i>, which includes calls to<i> zz->Get_Geom</i>,
an <b><a href="../ug_html/ug_query_lb.html#ZOLTAN_GEOM_FN">ZOLTAN_GEOM_FN</a></b>
query function.
<br>&nbsp;
<br>&nbsp;
<center><table BORDER=2 COLS=1 WIDTH="90%" NOSAVE >
<tr>
<td><a NAME="query_example"></a>&nbsp;&nbsp;
<tt>
<br>/*
<br>&nbsp;* Allocate space for objects.&nbsp; Allow extra space
<br>&nbsp;* for objects that are imported to the processor.
<br>&nbsp;*/
<p>*num_obj = zz->Get_Num_Obj(zz->Get_Num_Obj_Data, &amp;ierr);
<br>if (ierr) {
<br>&nbsp; <a href="dev_intro_coding.html#ZOLTAN_PRINT">ZOLTAN_PRINT_ERROR</a>(zz->Proc,
yo,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
"Error returned from Get_Num_Obj.");
<br>&nbsp; return(ierr);
<br>}
<p>*max_obj = (int)(1.5 * *num_obj) + 1;
<br>*global_ids = <a href="dev_lb_types.html#ID alloc">ZOLTAN_MALLOC_GID_ARRAY</a>(zz, (*max_obj));
<br>*local_ids&nbsp; = <a href="dev_lb_types.html#ID alloc">ZOLTAN_MALLOC_LID_ARRAY</a>(zz, (*max_obj));
<br>*dots = (struct Dot_Struct *)
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <a href="../ug_html/ug_util_mem.html#Zoltan_Malloc">ZOLTAN_MALLOC</a>((*max_obj)*sizeof(struct
Dot_Struct));
<p>if (!(*global_ids) || (zz->Num_LID &amp;&amp; !(*local_ids)) ||
!(*dots)) {
<br>&nbsp; <a href="dev_intro_coding.html#ZOLTAN_PRINT">ZOLTAN_PRINT_ERROR</a>(zz->Proc,
yo, "Insufficient memory.");
<br>&nbsp; return(<a href="../ug_html/ug_interface.html#Error Codes">ZOLTAN_MEMERR</a>);
<br>}
<p>if (*num_obj > 0) {
<p>&nbsp; if (wgtflag) {
<p>&nbsp;&nbsp;&nbsp; /*
<br>&nbsp;&nbsp;&nbsp;&nbsp; *&nbsp; Allocate space for object weights.
<br>&nbsp;&nbsp;&nbsp;&nbsp; */
<p>&nbsp;&nbsp;&nbsp; objs_wgt = (float *) <a href="../ug_html/ug_util_mem.html#Zoltan_Malloc">ZOLTAN_MALLOC</a>((*num_obj)*sizeof(float));
<br>&nbsp;&nbsp;&nbsp; if (!objs_wgt) {
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <a href="dev_intro_coding.html#ZOLTAN_PRINT">ZOLTAN_PRINT_ERROR</a>(zz->Proc,
yo, "Insufficient memory.");
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; return(<a href="../ug_html/ug_interface.html#Error Codes">ZOLTAN_MEMERR</a>);
<br>&nbsp;&nbsp;&nbsp; }
<br>&nbsp;&nbsp;&nbsp; for (i = 0; i &lt; *num_obj; i++) objs_wgt[i]
= 0.;
<br>&nbsp; }
<p>&nbsp; /*
<br>&nbsp;&nbsp; *&nbsp; Get list of objects' IDs and weights.
<br>&nbsp;&nbsp; */
<p>&nbsp; <a href="dev_services_objlist.html">Zoltan_Get_Obj_List</a>(zz, *global_ids, *local_ids, wgtflag,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; objs_wgt, &amp;ierr);
<br>&nbsp; if (ierr) {
<br>&nbsp;&nbsp;&nbsp; <a href="dev_intro_coding.html#ZOLTAN_PRINT">ZOLTAN_PRINT_ERROR</a>(zz->Proc,
yo,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
"Error returned from Zoltan_Get_Obj_List.");
<br>&nbsp;&nbsp;&nbsp; <a href="../ug_html/ug_util_mem.html#Zoltan_Free">ZOLTAN_FREE</a>(&amp;objs_wgt);
<br>&nbsp;&nbsp;&nbsp; return(ierr);
<br>&nbsp; }
<p>&nbsp; ierr = initialize_dot(zz, *global_ids, *local_ids, *dots,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
*num_obj, wgtflag, objs_wgt);
<br>&nbsp; if (ierr == ZOLTAN_FATAL || ierr == ZOLTAN_MEMERR) {
<br>&nbsp;&nbsp;&nbsp; <a href="dev_intro_coding.html#ZOLTAN_PRINT">ZOLTAN_PRINT_ERROR</a>(zz->Proc,
yo,
<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
"Error returned from initialize_dot.");
<br>&nbsp;&nbsp;&nbsp; <a href="../ug_html/ug_util_mem.html#Zoltan_Free">ZOLTAN_FREE</a>(&amp;objs_wgt);
<br>&nbsp;&nbsp;&nbsp; return(ierr);
<br>&nbsp; }
<p>&nbsp; <a href="../ug_html/ug_util_mem.html#Zoltan_Free">ZOLTAN_FREE</a>(&amp;objs_wgt);
<br>}
</tt>
</td>
</tr>
<caption ALIGN=BOTTOM><i>Example demonstrating how data structures are
built for the RCB algorithm.&nbsp; (Taken from rcb/shared.c.)</i></caption>
</table></center>
<p>
The data structures pointed to by <i>zz->LB.Data_Structure</i> will be freed
at some point, and may be copied.
<p>A function that frees these structures and resets <i>zz->LB.Data_Structure</i>
to NULL should be written. The function should be called when the load-balancing
algorithm exits, either normally or due to an error condition.
The function
<b>Zoltan_RCB_Free_Structure</b> in <i>rcb/rcb_util.c</i> may be used as an example.
<A NAME="Copy"></A>
<p>If your algorithm uses the <a href="../ug_html/ug_alg_rcb.html">KEEP_CUTS</a>
parameter, a function that copies one <i>zz->LB.Data_Structure</i> to another is
required. This is particularly important for C++,
which may create temporary objects
at runtime by invoking a copy operator (which will call your copy function).
It is a convenience for C applications, which may wish to copy one Zoltan_Struct
to another.
See the function <b>Zoltan_RCB_Copy_Structure</b> in <i>rcb/rcb_util.c</i>
for an example.
<hr WIDTH="100%">
<br>[<a href="dev.html">Table of Contents</a>&nbsp; |&nbsp; <a href="dev_add_memory.html">Next:&nbsp;
Memory Management</a>&nbsp; |&nbsp; <a href="dev_add_lb.html">Previous:&nbsp;
Load-Balancing Function Implementation</a>&nbsp; |&nbsp; <a href="https://www.sandia.gov/general/privacy-security/index.html">Privacy and Security</a>]
<br>&nbsp;
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
<HTML>
<HEAD>
<META HTTP-EQUIV="Content-Type" CONTENT="text/html; charset=iso-8859-1">
<META NAME="GENERATOR" CONTENT="Mozilla/4.04 [en] (X11; U; SunOS 4.1.3_U1 sun4m) [Netscape]">
<META NAME="sandia.approved" CONTENT="SAND99-1376">
<META NAME="author" CONTENT="lee ann fisk, lafisk@sandia.gov">
<TITLE> Zoltan Developer's Guide: C++ Interface</TITLE>
</HEAD>
<BODY BGCOLOR="#FFFFFF">
<div ALIGN=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp; |&nbsp; <a href="dev_refs.html">Next</a>&nbsp; |&nbsp; <a href="dev_fortran.html">Previous</a></i></b></div>
<H2>
<A NAME="cpp dev"></A>C++ Interface</H2>
As with the Fortran interface just described, any change to the user
API of Zoltan should be reflected in the C++ interface. This section
explains the conventions used in the C++ interface, which you will want
to follow when you modify or expand it.
<UL><A HREF="#cpp dev classes">Classes</A><BR>
<A HREF="#cpp dev conventions">Programming Conventions</A>
<UL>
<A HREF="#cpp dev namespaces"><I>Namespaces</I></A><BR>
<A HREF="#cpp dev cnames"><I>Class names</I></A><BR>
<A HREF="#cpp dev mnames"><I>Method names</I></A><BR>
<A HREF="#cpp dev constmethods"><I>Const methods</I></A><BR>
<A HREF="#cpp dev parameters"><I>Declaration of method parameters</I></A><BR>
<A HREF="#cpp dev copy"><I>Copy constructor, copy operator</I></A>
</UL>
<A HREF="#cpp dev updating">Keeping the C++ interface up-to-date</A><BR>
</UL>
<H3> <A NAME="cpp dev classes"></A>Classes</H3>
The C language Zoltan library already observes the principles of
object oriented program design. Each sub function of Zoltan (load
balancing, timing, etc.) has a data structure
associated with it. This data structure maintains all the state required
for one instance of that sub function. Each request of the library for
some operation requires that data structure.
<P>The classes in the Zoltan C++ library follow the structure just described.
Each class is defined in a header
file and encapsulates a Zoltan data structure and the functions that
operate on that structure. A C++ application wishing to use a
feature of Zoltan, would include the feature's header file in it's source, and
link with the Zoltan C library.
<P>The C language load balancing data stucture
(<B><A HREF="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</A></B>)
and the C functions that operate on it are accessed
through the C++ <B>Zoltan</B> class, defined in <I>zoltan_cpp.h</I>.
<P>The communication package is encapsulated the <B>Zoltan_Comm</B> class
defined in <I>zoltan_comm_cpp.h</I>.
Again, to use the communication utility of Zoltan from a C++ program,
include <I>zoltan_comm_cpp.h</I> and use the C++ methods defined there.
<P>The C++ Zoltan timer class is called <B>Zoltan_Timer_Object</B> and
is defined in <I>zoltan_timer_cpp.h</I>.
<P>The distributed directory utility of Zoltan is encapsulated in the
class <B>Zoltan_DD</B> defined in <I>zoltan_dd_cpp.h</I>
<H3> <A NAME="cpp dev conventions"></A>Programming Conventions</H3>
When modifying the interface to Zoltan , you will want to modify
the appropriate C++ header file accordingly. This section describes the
conventions to follow to maintain a consistent and correct library interface
for the C++ user of Zoltan.
<H4><I><A NAME="cpp dev namespaces">Namespaces</A></I></H4>
In order to maintain portability across platforms, there is no Zoltan
namespace. Many C++ compilers do not support namespaces at this time.
The name of each Zoltan class begins with <B>Zoltan_</B>, and hopefully
this will never clash with another namespace.
<H4><I><A NAME="cpp dev cnames">Class names</A></I></H4>
Class names are <B>Zoltan_</B> followed by text indicating the sub
function of Zoltan that is encapsulated by the class.
<H4><I><A NAME="cpp dev mnames">Method names</A></I></H4>
Method names are derived from the C library function names in such a
way that the name will be obvious to a person familiar with the C library.
We remove the beginning of the C library name, the part that identifies
the subset of the Zoltan library that the function is part of, and keep
the last part of the C library name, the part that describes what the
function does. For example the C function <B>Zoltan_LB_Partition</B> becomes
the C++ method <B>LB_Partition</B> in the class <B>Zoltan</B> and
C function <B>Zoltan_Comm_Create</B> becomes the C++ method
<B>Create</B> in the class <B>Zoltan_Comm</B>.
<H4><I><A NAME="cpp dev constmethods">Const methods</A></I></H4>
All class methods which can be declared <B>const</B>, because they
do not modify the object, should be declared <B>const</B>. This allows
C++ programmers to call these methods on their <B>const</B> objects.
<H4><I><A NAME="cpp dev parameters">Declaration of method parameters</A></I></H4>
Parameters that are not changed in the method should be declared <B>const</B>.
This can get complicated, but it helps to read declarations from right to
left. <B>const int * & p</B> says <I>p is a reference to a pointer to
a const int</I> and means the method will not change the value pointed
to by <I>p</I>. On the other hand <B>int * const & p</B> says that
<I>p is a reference to a const pointer to int</I> so the method will
not change the pointer.
<P>Variables that are passed by value in a C function will be passed by
const reference in the C++ method. This is semantically the same, but
it is more efficient, and it will work with temporary variables created
by a compiler.
<P>If a C function takes a pointer to a single built-in type (not an aggregate
type), the associated C++ method will take a reference variable.
If a C function takes a pointer to a pointer, the C++ function will take
a pointer reference. The references are more efficient, and it is
the behavior a C++ programmer expects.
A pointer to an array remains a pointer to an array.
<P><TABLE rules=cols,rows frame=box align=center cellpadding=5>
<TR> <TH>C function parameter</TH> <TH>C++ method parameter</TH> <TH> method's const behavior</TR>
<TR> <TD>int val</TD>
<TD>const int &val</TD>
<TD>won't change value</TD></TR>
<TR> <TD>int *singlep</TD>
<TD>int &singlep <br> const int &singlep</TD>
<TD>may change value <br> won't change value</TD></TR>
<TR> <TD>int **singlep</TD>
<TD>int *&singlep <br> const int * &p <br> int *const &p <br> const int * const &p</TD>
<TD>may change pointer or value<br>won't change value<br>won't change pointer to value<br>won't change anything</TD></TR>
<TR> <TD>int *arrayp</TD>
<TD>int *arrayp <br> const int * arrayp</TD>
<TD>may change array contents <br> won't change array contents</TD> </TR>
</TABLE>
<P>If a C function takes a pointer to an array of <I>char</I>, the
associated C++ method will take a <I>string</I> object.
<P><TABLE rules=cols,rows frame=box align=center cellpadding=5>
<TR> <TH>C function parameter</TH> <TH>C++ method parameter</TH> </TR>
<TR> <TD>char *fname</TD> <TD>std::string &fname</TD> </TR>
</TABLE>
<P> In all honesty, it is tedious to carefully apply const'ness in
parameter declarations, and we did not do it consistently throughout the
C++ wrapping of Zoltan. Please feel free to add <I>const</I> declarations
where they belong, and try to use them correctly if you add or modify Zoltan
C++ methods.
<H4><I><A NAME="cpp dev copy">Copy constructor, copy operator</A></I></H4>
Each class should have a copy constructor and a copy operator.
<H3> <A NAME="cpp dev updating"></A>Keeping the C++ interface up-to-date</H3>
Here we provide a checklist of things to be done when the C interface to
the Zoltan library is changed:
<UL>
<LI>If a new major component is added to Zoltan, create a C++ class for
that component in a new header file, using the programming conventions
described above. </LI>
<LI>If functions are added or removed, or their parameter lists are
changed, then update the header file defining the class that contains
those functions.</LI>
<LI>When Zoltan data structures are changed, be sure to change the C functions
that copy the data structure. (They contain <B>Copy</B> in their name.)
Correct copying is more important in C++,
where the compiler may generate new temporary objects, than it is in C.</LI>
<LI>If you change the C++ API, be sure to change:
<UL>
<LI><B>zCPPdrive</B>, the test program for the Zoltan C++ library</LI>
<LI>the C++ examples in the <B>Examples</B> directory</LI>
<LI>the method prototypes in the <A HREF="../ug_html/ug.html">Zoltan User's Guide</A>.</LI>
</UL>
</UL>
<HR WIDTH="100%">
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
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<HEAD>
<META HTTP-EQUIV="Content-Type" CONTENT="text/html; charset=iso-8859-1">
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<META NAME="sandia.approved" CONTENT="SAND99-1376">
<META NAME="author" CONTENT="lee ann fisk, lafisk@sandia.gov">
<TITLE> Zoltan Developer's Guide: Degenerate Geometries</TITLE>
</HEAD>
<BODY BGCOLOR="#FFFFFF">
<div ALIGN=right><b><i><a href="dev.html">Zoltan Developer's Guide</a>&nbsp;
|&nbsp; <a href="dev_hsfc.html">Previous</a></i></b></div>
<H2>
<A NAME="HSFC"></A>Appendix: Handling Degenerate Geometries</H2>
The geometry processed by one of the geometric methods
<a href="dev_rcb.html">RCB</a>, <a href="dev_rib.html">RIB</a>, or
<a href="dev_hsfc.html">HSFC</a>
may be degenerate. By this we mean
it may have 3-dimensional coordinates but be essentially flat, or
it may have 3 or 2-dimensional coordinates but be essentially a line
in space. If we treat the geometry as a lower dimensional object
for the purpose of partitioning, the result may be a more natural
partition (one the user would have expected) and a faster
run time.
<p>
The caller may set the <B>REDUCE_DIMENSIONS</B> parameter to TRUE
in any of the three geometric methods if they want Zoltan to check
for a degenerate condition and do lower dimensional partitioning
if such a condition if found. They may set the <B>DEGENERATE_RATIO</B>
to specify how flat or thin a geometry must be to be considered
degenerate.
<p>
<H3>
Outline of Algorithm</H3>
All three geometric methods call
<a href="dev_services_objlist.html#Zoltan_Get_Coordinates"><b>Zoltan_Get_Coordinates</b></a>
to obtain the
problem coordinates. If <B>REDUCE_DIMENSIONS</B> is TRUE, we check
in this function to see if the geometry is degenerate. If it is,
we transform the coordinates to the lower dimensional space, flag
that the problem is now lower dimensional, and return the transformed
coordinates. The
<a href="dev_rcb.html">RCB</a>, <a href="dev_rib.html">RIB</a>, or
<a href="dev_hsfc.html">HSFC</a>
calculation is performed on the new coordinates in the lower dimensional
space.
<p>
If <B>KEEP_CUTS</B> is TRUE, the transformation is saved so that in
<a href="../ug_html/ug_interface_augment.html#Zoltan_LB_Box_Assign"><b>Zoltan_LB_Box_Assign</b></a> or <a href="../ug_html/ug_interface_augment.html#Zoltan_LB_Point_Assign"><b>Zoltan_LB_Point_Assign</b></a>
the coordinates can be transformed before the assignment is calculated.
If <B>RCB_REUSE</B> is TRUE in the <a href="dev_rcb.html">RCB</a> method,
the transformation is also saved. On re-partitioning, we can do some
simple tests to see if the degeneracy condition has changed before
completely re-calculating the coordinate transformation.
<p>
To determine if the geometry is degenerate, we calculate
the same inertial matrix that is calculated for <a href="dev_rib.html">RIB</a>,
except that we ignore vertex weights. The 3 orthogonal eigenvectors
of the inertial matrix describe the three primary directions of the
geometry. The bounding box oriented in these directions is tested
for degeneracy. In particular (for a 3 dimensional geometry) if the
length of the longest side divided by the length of the shortest side
exceeds the DEGENERATE_RATIO, we consider the geometry to be flat. If
in addition, the length longest side divided by the length of the
middle side exceeds the
DEGENERATE_RATIO, we consider the geometry to be essentially a line.
<p>
If a 3 dimensional geometry is determined to be flat, we transform
coordinates to a coordinate system where the XY plane corresponds
to the oriented bounding box,
and project all coordinates to that plane. These
X,Y coordinates are returned to the partitioning algorithm, which
performs two dimensional partitioning. Similarly if the geometry
is very thin, we transform coordinates to a coordinate system
with the X axis going through the
bounding box in it's principal direction, and project all points to
that axis. Then one dimensional partitioning is performed.
<p>
There is a small problem in calculating
<a href="../ug_html/ug_interface_augment.html#Zoltan_LB_Box_Assign"><b>Zoltan_LB_Box_Assign</b></a>
when the partitioning was performed
on transformed geometry. The caller provides the box vertices in
problem coordinates, but the partition was calculated in
transformed coordinates. When the vertices are transformed, they
are in general no longer the vertices of an axis-aligned box in
the new coordinate system. The
<B>Box_Assign</B> calculation requires an axis-aligned box, and
so we use the bounding box of the transformed vertices. The resulting
list of processes or parts intersecting the box may therefore
contain some processes or parts which actually do not intersect
the box in problem coordinates, however it will not omit any.
<H3>Data Structure Definitions</H3>
The transformation is stored in a <B>Zoltan_Transform_Struct</B>
structure which is
defined in <i>zz/zz_const.h</i>. It is saved as part of the algorithm
specific information stored in the
<b><a href="dev_add_struct.html">LB.Data_Structure</a></b> field of the
<b><a href="dev_lb_structs.html#Zoltan_Struct">Zoltan_Struct</a></b>.
The flag that indicates whether the geometry was found to be
degenerate is the <B>Target_Dim</B> field of this structure.
<p>
To use the degenerate geometry detection capability from a new
geometric method, you would add a <B>Zoltan_Transform_Struct</b>
structure to the algorithm specific data structure, add code to
<B>Zoltan_Get_Coordinates</B> to look for it, and check the
<B>Target_Dim</B> field on return to see if the problem dimension
was reduced. You would also need to include the
coordinate transformation in your Box_Assign and Point_Assign
functionality.
<BR>&nbsp;
<BR>&nbsp;
<P>
<HR WIDTH="100%">
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<!-------- @HEADER
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! Zoltan Toolkit for Load-balancing, Partitioning, Ordering and Coloring
! Copyright 2012 Sandia Corporation
!
! Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
! the U.S. Government retains certain rights in this software.
!
! Redistribution and use in source and binary forms, with or without
! modification, are permitted provided that the following conditions are
! met:
!
! 1. Redistributions of source code must retain the above copyright
! notice, this list of conditions and the following disclaimer.
!
! 2. Redistributions in binary form must reproduce the above copyright
! notice, this list of conditions and the following disclaimer in the
! documentation and/or other materials provided with the distribution.
!
! 3. Neither the name of the Corporation nor the names of the
! contributors may be used to endorse or promote products derived from
! this software without specific prior written permission.
!
! THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
! EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
! IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
! PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
! CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
! EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
! PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
! PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
! LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
! NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
! SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
!
! Questions? Contact Karen Devine kddevin@sandia.gov
! Erik Boman egboman@sandia.gov
!
! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!
! @HEADER
------->
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<HEAD>
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<TITLE> Zoltan Developer's Guide: Distribution</TITLE>
</HEAD>
<BODY BGCOLOR="#FFFFFF">
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<H2>
<A NAME="distribution"></A>Zoltan Distribution</H2>
The organization of the Zoltan software distribution is described in the
following sections.&nbsp; Full pathnames are specific to Sandia's CSRI SON
LAN.
<BLOCKQUOTE><A HREF="dev_dist_cvs.html">CVS (source code control)</A>
<BR><A HREF="dev_dist_dir.html">Layout of Directories</A>
<BR><A HREF="dev_dist_compile.html">Compilation and Makefiles</A></BLOCKQUOTE>
<HR WIDTH="100%">
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