Commit f9450fcb authored by Kilian Lackhove's avatar Kilian Lackhove
Browse files

Merge branch 'master' into feature/APE-forcing

# Conflicts:
#	CHANGELOG.md
parents 4a01ed1a d199ea62
......@@ -13,4 +13,4 @@ AllowShortLoopsOnASingleLine: false
IndentCaseLabels: true
Standard: Cpp03
AccessModifierOffset: -4
BinPackParameters: false
BinPackParameters: true
......@@ -3,9 +3,11 @@ Changelog
v4.4.0
------
**Library:**
**Library**:
- Add support for variable polynomial order for 3D simulations with continuous
Galerkin discretisation (!604)
- Bump version of gsmpi to suppress autotuning output unless `--verbose` is
specified (!652)
- Add support for variable polynomial order with periodic boundary conditions
(!658)
- Statistics are now printed for lowest level of multi-level static condensation
......@@ -15,8 +17,15 @@ v4.4.0
- New FieldUtils library allows support for most `FieldConvert` post-processing
operations during simulation using a new filter (!589)
- Adjust CMake dependencies to reduce compile time (!671)
- Homogeneous1D dealiasing improvements (!622)
- Add support for HDF5 as an alternative output to XML-based output, including
refactoring of FieldIO, improvements to MPI interface and added communicators
to boundary conditions (!615)
- Update Body/Field forces at each timestep (!665)
**ADRSolver:**
- Add a projection equation system for C^0 projections (!675)
**APESolver:**
- Use a continuous basefield projection and revert to constant c formulation (!664)
- Added ability to compute CFL number (!664)
......@@ -25,14 +34,30 @@ v4.4.0
**IncNavierStokesSolver:**
- Add ability to simulate additional scalar fields (!624)
- Improve performance when using homogeneous dealiasing (!622)
**FieldConvert:**
- Allow equi-spaced output for 1D and 2DH1D fields (!613)
**NekMesh:**
- Modify curve module to allow for spline input (!628)
- Add STL surface writer module (!668)
- New module for inserting an alternate high-order surface into the working
mesh (!669)
- Improvements to mesh linearisation module (!659)
- Add support for Gmsh high-order output (!679)
**FieldConvert:**
- Move all modules to a new library, FieldUtils, to support post-processing
during simulations (!589)
- Add module to stretch homogeneous direction (!609)
- Add module to add composite ID of elements as a field (!674)
v4.3.4
------
**Library:**
- Fix performance issue with `v_ExtractDataToCoeffs` for post-processing of large
simulations (!672)
v4.3.3
------
......
......@@ -178,6 +178,7 @@ ENDIF ()
INCLUDE (ThirdPartyTinyxml)
INCLUDE (ThirdPartyLoki)
INCLUDE (ThirdPartyMetis)
INCLUDE (ThirdPartyHDF5)
INCLUDE (ThirdPartyScotch)
INCLUDE (ThirdPartyZlib)
INCLUDE (ThirdPartyBoost)
......
#.rst:
# FindHDF5
# --------
#
# Find HDF5, a library for reading and writing self describing array data.
#
#
#
# This module invokes the HDF5 wrapper compiler that should be installed
# alongside HDF5. Depending upon the HDF5 Configuration, the wrapper
# compiler is called either h5cc or h5pcc. If this succeeds, the module
# will then call the compiler with the -show argument to see what flags
# are used when compiling an HDF5 client application.
#
# The module will optionally accept the COMPONENTS argument. If no
# COMPONENTS are specified, then the find module will default to finding
# only the HDF5 C library. If one or more COMPONENTS are specified, the
# module will attempt to find the language bindings for the specified
# components. The only valid components are C, CXX, Fortran, HL, and
# Fortran_HL. If the COMPONENTS argument is not given, the module will
# attempt to find only the C bindings.
#
# On UNIX systems, this module will read the variable
# HDF5_USE_STATIC_LIBRARIES to determine whether or not to prefer a
# static link to a dynamic link for HDF5 and all of it's dependencies.
# To use this feature, make sure that the HDF5_USE_STATIC_LIBRARIES
# variable is set before the call to find_package.
#
# To provide the module with a hint about where to find your HDF5
# installation, you can set the environment variable HDF5_ROOT. The
# Find module will then look in this path when searching for HDF5
# executables, paths, and libraries.
#
# Both the serial and parallel HDF5 wrappers are considered and the first
# directory to contain either one will be used. In the event that both appear
# in the same directory the serial version is preferentially selected. This
# behavior can be reversed by setting the variable HDF5_PREFER_PARALLEL to
# true.
#
# In addition to finding the includes and libraries required to compile
# an HDF5 client application, this module also makes an effort to find
# tools that come with the HDF5 distribution that may be useful for
# regression testing.
#
# This module will define the following variables:
#
# ::
#
# HDF5_INCLUDE_DIRS - Location of the hdf5 includes
# HDF5_INCLUDE_DIR - Location of the hdf5 includes (deprecated)
# HDF5_DEFINITIONS - Required compiler definitions for HDF5
# HDF5_C_LIBRARIES - Required libraries for the HDF5 C bindings.
# HDF5_CXX_LIBRARIES - Required libraries for the HDF5 C++ bindings
# HDF5_Fortran_LIBRARIES - Required libraries for the HDF5 Fortran bindings
# HDF5_HL_LIBRARIES - Required libraries for the HDF5 high level API
# HDF5_Fortran_HL_LIBRARIES - Required libraries for the high level Fortran
# bindings.
# HDF5_LIBRARIES - Required libraries for all requested bindings
# HDF5_FOUND - true if HDF5 was found on the system
# HDF5_VERSION - HDF5 version in format Major.Minor.Release
# HDF5_LIBRARY_DIRS - the full set of library directories
# HDF5_IS_PARALLEL - Whether or not HDF5 was found with parallel IO support
# HDF5_C_COMPILER_EXECUTABLE - the path to the HDF5 C wrapper compiler
# HDF5_CXX_COMPILER_EXECUTABLE - the path to the HDF5 C++ wrapper compiler
# HDF5_Fortran_COMPILER_EXECUTABLE - the path to the HDF5 Fortran wrapper compiler
# HDF5_DIFF_EXECUTABLE - the path to the HDF5 dataset comparison tool
#=============================================================================
# Copyright 2015 Axel Huebl, Helmholtz-Zentrum Dresden - Rossendorf
# Copyright 2009 Kitware, Inc.
#
# Distributed under the OSI-approved BSD License (the "License");
# see accompanying file Copyright.txt for details.
#
# This software is distributed WITHOUT ANY WARRANTY; without even the
# implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
# See the License for more information.
#=============================================================================
# (To distribute this file outside of CMake, substitute the full
# License text for the above reference.)
# This module is maintained by Will Dicharry <wdicharry@stellarscience.com>.
include(SelectLibraryConfigurations)
include(FindPackageHandleStandardArgs)
# List of the valid HDF5 components
set( HDF5_VALID_COMPONENTS
C
CXX
Fortran
HL
Fortran_HL
)
# Validate the list of find components.
if( NOT HDF5_FIND_COMPONENTS )
set( HDF5_LANGUAGE_BINDINGS "C" )
else()
# add the extra specified components, ensuring that they are valid.
foreach( component ${HDF5_FIND_COMPONENTS} )
list( FIND HDF5_VALID_COMPONENTS ${component} component_location )
if( ${component_location} EQUAL -1 )
message( FATAL_ERROR
"\"${component}\" is not a valid HDF5 component." )
else()
list( APPEND HDF5_LANGUAGE_BINDINGS ${component} )
endif()
endforeach()
endif()
# Determine whether to search for serial or parallel executable first
if(HDF5_PREFER_PARALLEL)
set(HDF5_C_COMPILER_NAMES h5pcc h5cc)
set(HDF5_CXX_COMPILER_NAMES h5pc++ h5c++)
set(HDF5_Fortran_COMPILER_NAMES h5pfc h5fc)
else()
set(HDF5_C_COMPILER_NAMES h5cc h5pcc)
set(HDF5_CXX_COMPILER_NAMES h5c++ h5pc++)
set(HDF5_Fortran_COMPILER_NAMES h5fc h5pfc)
endif()
# try to find the HDF5 wrapper compilers
find_program( HDF5_C_COMPILER_EXECUTABLE
NAMES ${HDF5_C_COMPILER_NAMES}
HINTS ENV HDF5_ROOT
PATH_SUFFIXES bin Bin
DOC "HDF5 Wrapper compiler. Used only to detect HDF5 compile flags." )
mark_as_advanced( HDF5_C_COMPILER_EXECUTABLE )
find_program( HDF5_CXX_COMPILER_EXECUTABLE
NAMES ${HDF5_CXX_COMPILER_NAMES}
HINTS ENV HDF5_ROOT
PATH_SUFFIXES bin Bin
DOC "HDF5 C++ Wrapper compiler. Used only to detect HDF5 compile flags." )
mark_as_advanced( HDF5_CXX_COMPILER_EXECUTABLE )
find_program( HDF5_Fortran_COMPILER_EXECUTABLE
NAMES ${HDF5_Fortran_COMPILER_NAMES}
HINTS ENV HDF5_ROOT
PATH_SUFFIXES bin Bin
DOC "HDF5 Fortran Wrapper compiler. Used only to detect HDF5 compile flags." )
mark_as_advanced( HDF5_Fortran_COMPILER_EXECUTABLE )
unset(HDF5_C_COMPILER_NAMES)
unset(HDF5_CXX_COMPILER_NAMES)
unset(HDF5_Fortran_COMPILER_NAMES)
find_program( HDF5_DIFF_EXECUTABLE
NAMES h5diff
HINTS ENV HDF5_ROOT
PATH_SUFFIXES bin Bin
DOC "HDF5 file differencing tool." )
mark_as_advanced( HDF5_DIFF_EXECUTABLE )
# Invoke the HDF5 wrapper compiler. The compiler return value is stored to the
# return_value argument, the text output is stored to the output variable.
macro( _HDF5_invoke_compiler language output return_value )
if( HDF5_${language}_COMPILER_EXECUTABLE )
exec_program( ${HDF5_${language}_COMPILER_EXECUTABLE}
ARGS -show
OUTPUT_VARIABLE ${output}
RETURN_VALUE ${return_value}
)
if( ${${return_value}} EQUAL 0 )
# do nothing
else()
message( STATUS
"Unable to determine HDF5 ${language} flags from HDF5 wrapper." )
endif()
endif()
endmacro()
# Parse a compile line for definitions, includes, library paths, and libraries.
macro( _HDF5_parse_compile_line
compile_line_var
include_paths
definitions
library_paths
libraries )
# See if we are running using an MPI wrapper. If we are, then try to also
# add include directories from here as well.
string( REGEX MATCH "^mpi[^ ]+" mpi_wrapper "${${compile_line_var}}")
if (mpi_wrapper)
# Invoke MPI wrapper to search for additional include directories
exec_program(${mpi_wrapper}
ARGS -show
OUTPUT_VARIABLE mpi_wrapper_output
RETURN_VALUE mpi_wrapper_return)
if (${mpi_wrapper_return} EQUAL 0)
string( REGEX MATCHALL "-I([^\" ]+)" include_path_flags
"${mpi_wrapper_output}")
foreach( IPATH ${include_path_flags} )
string( REGEX REPLACE "^-I" "" IPATH ${IPATH} )
string( REPLACE "//" "/" IPATH ${IPATH} )
list( APPEND ${include_paths} ${IPATH} )
endforeach()
endif()
endif()
# Match the include paths
string( REGEX MATCHALL "-I([^\" ]+)" include_path_flags
"${${compile_line_var}}"
)
foreach( IPATH ${include_path_flags} )
string( REGEX REPLACE "^-I" "" IPATH ${IPATH} )
string( REPLACE "//" "/" IPATH ${IPATH} )
list( APPEND ${include_paths} ${IPATH} )
endforeach()
# Match the definitions
string( REGEX MATCHALL "-D[^ ]*" definition_flags "${${compile_line_var}}" )
foreach( DEF ${definition_flags} )
list( APPEND ${definitions} ${DEF} )
endforeach()
# Match the library paths
string( REGEX MATCHALL "-L([^\" ]+|\"[^\"]+\")" library_path_flags
"${${compile_line_var}}"
)
foreach( LPATH ${library_path_flags} )
string( REGEX REPLACE "^-L" "" LPATH ${LPATH} )
string( REPLACE "//" "/" LPATH ${LPATH} )
list( APPEND ${library_paths} ${LPATH} )
endforeach()
# now search for the library names specified in the compile line (match -l...)
# match only -l's preceded by a space or comma
# this is to exclude directory names like xxx-linux/
string( REGEX MATCHALL "[, ]-l([^\", ]+)" library_name_flags
"${${compile_line_var}}" )
# strip the -l from all of the library flags and add to the search list
foreach( LIB ${library_name_flags} )
string( REGEX REPLACE "^[, ]-l" "" LIB ${LIB} )
list( APPEND ${libraries} ${LIB} )
endforeach()
endmacro()
# Try to find HDF5 using an installed hdf5-config.cmake
if( NOT HDF5_FOUND )
find_package( HDF5 QUIET NO_MODULE )
if( HDF5_FOUND )
set( HDF5_INCLUDE_DIRS ${HDF5_INCLUDE_DIR} )
set( HDF5_LIBRARIES )
set( HDF5_C_TARGET hdf5 )
set( HDF5_CXX_TARGET hdf5_cpp )
set( HDF5_HL_TARGET hdf5_hl )
set( HDF5_Fortran_TARGET hdf5_fortran )
set( HDF5_Fortran_HL_TARGET hdf5_hl_fortran )
foreach( _component ${HDF5_LANGUAGE_BINDINGS} )
list( FIND HDF5_VALID_COMPONENTS ${_component} _component_location )
get_target_property( _comp_location ${HDF5_${_component}_TARGET} LOCATION )
if( _comp_location )
set( HDF5_${_component}_LIBRARY ${_comp_location} CACHE PATH
"HDF5 ${_component} library" )
mark_as_advanced( HDF5_${_component}_LIBRARY )
list( APPEND HDF5_LIBRARIES ${HDF5_${_component}_LIBRARY} )
endif()
endforeach()
endif()
endif()
if( NOT HDF5_FOUND )
_HDF5_invoke_compiler( C HDF5_C_COMPILE_LINE HDF5_C_RETURN_VALUE )
_HDF5_invoke_compiler( CXX HDF5_CXX_COMPILE_LINE HDF5_CXX_RETURN_VALUE )
_HDF5_invoke_compiler( Fortran HDF5_Fortran_COMPILE_LINE HDF5_Fortran_RETURN_VALUE )
set(HDF5_HL_COMPILE_LINE ${HDF5_C_COMPILE_LINE})
set(HDF5_Fortran_HL_COMPILE_LINE ${HDF5_Fortran_COMPILE_LINE})
# seed the initial lists of libraries to find with items we know we need
set( HDF5_C_LIBRARY_NAMES_INIT hdf5 )
set( HDF5_HL_LIBRARY_NAMES_INIT hdf5_hl ${HDF5_C_LIBRARY_NAMES_INIT} )
set( HDF5_CXX_LIBRARY_NAMES_INIT hdf5_cpp ${HDF5_C_LIBRARY_NAMES_INIT} )
set( HDF5_Fortran_LIBRARY_NAMES_INIT hdf5_fortran
${HDF5_C_LIBRARY_NAMES_INIT} )
set( HDF5_Fortran_HL_LIBRARY_NAMES_INIT hdf5hl_fortran hdf5_hl
${HDF5_Fortran_LIBRARY_NAMES_INIT} )
foreach( LANGUAGE ${HDF5_LANGUAGE_BINDINGS} )
if( HDF5_${LANGUAGE}_COMPILE_LINE )
_HDF5_parse_compile_line( HDF5_${LANGUAGE}_COMPILE_LINE
HDF5_${LANGUAGE}_INCLUDE_FLAGS
HDF5_${LANGUAGE}_DEFINITIONS
HDF5_${LANGUAGE}_LIBRARY_DIRS
HDF5_${LANGUAGE}_LIBRARY_NAMES
)
# take a guess that the includes may be in the 'include' sibling
# directory of a library directory.
foreach( dir ${HDF5_${LANGUAGE}_LIBRARY_DIRS} )
list( APPEND HDF5_${LANGUAGE}_INCLUDE_FLAGS ${dir}/../include )
endforeach()
endif()
# set the definitions for the language bindings.
list( APPEND HDF5_DEFINITIONS ${HDF5_${LANGUAGE}_DEFINITIONS} )
# find the HDF5 include directories
if(${LANGUAGE} MATCHES "Fortran")
set(HDF5_INCLUDE_FILENAME hdf5.mod)
else()
set(HDF5_INCLUDE_FILENAME hdf5.h)
endif()
find_path( HDF5_${LANGUAGE}_INCLUDE_DIR ${HDF5_INCLUDE_FILENAME}
HINTS
${HDF5_${LANGUAGE}_INCLUDE_FLAGS}
ENV
HDF5_ROOT
PATHS
$ENV{HOME}/.local/include
PATH_SUFFIXES
include
Include
)
mark_as_advanced( HDF5_${LANGUAGE}_INCLUDE_DIR )
list( APPEND HDF5_INCLUDE_DIRS ${HDF5_${LANGUAGE}_INCLUDE_DIR} )
set( HDF5_${LANGUAGE}_LIBRARY_NAMES
${HDF5_${LANGUAGE}_LIBRARY_NAMES_INIT}
${HDF5_${LANGUAGE}_LIBRARY_NAMES} )
# find the HDF5 libraries
foreach( LIB ${HDF5_${LANGUAGE}_LIBRARY_NAMES} )
if( UNIX AND HDF5_USE_STATIC_LIBRARIES )
# According to bug 1643 on the CMake bug tracker, this is the
# preferred method for searching for a static library.
# See https://cmake.org/Bug/view.php?id=1643. We search
# first for the full static library name, but fall back to a
# generic search on the name if the static search fails.
set( THIS_LIBRARY_SEARCH_DEBUG lib${LIB}d.a ${LIB}d )
set( THIS_LIBRARY_SEARCH_RELEASE lib${LIB}.a ${LIB} )
else()
set( THIS_LIBRARY_SEARCH_DEBUG ${LIB}d )
set( THIS_LIBRARY_SEARCH_RELEASE ${LIB} )
endif()
find_library( HDF5_${LIB}_LIBRARY_DEBUG
NAMES ${THIS_LIBRARY_SEARCH_DEBUG}
HINTS ${HDF5_${LANGUAGE}_LIBRARY_DIRS}
ENV HDF5_ROOT
PATH_SUFFIXES lib Lib )
find_library( HDF5_${LIB}_LIBRARY_RELEASE
NAMES ${THIS_LIBRARY_SEARCH_RELEASE}
HINTS ${HDF5_${LANGUAGE}_LIBRARY_DIRS}
ENV HDF5_ROOT
PATH_SUFFIXES lib Lib )
select_library_configurations( HDF5_${LIB} )
list(APPEND HDF5_${LANGUAGE}_LIBRARIES ${HDF5_${LIB}_LIBRARY})
endforeach()
list( APPEND HDF5_LIBRARY_DIRS ${HDF5_${LANGUAGE}_LIBRARY_DIRS} )
# Append the libraries for this language binding to the list of all
# required libraries.
list(APPEND HDF5_LIBRARIES ${HDF5_${LANGUAGE}_LIBRARIES})
endforeach()
# We may have picked up some duplicates in various lists during the above
# process for the language bindings (both the C and C++ bindings depend on
# libz for example). Remove the duplicates. It appears that the default
# CMake behavior is to remove duplicates from the end of a list. However,
# for link lines, this is incorrect since unresolved symbols are searched
# for down the link line. Therefore, we reverse the list, remove the
# duplicates, and then reverse it again to get the duplicates removed from
# the beginning.
macro( _remove_duplicates_from_beginning _list_name )
list( REVERSE ${_list_name} )
list( REMOVE_DUPLICATES ${_list_name} )
list( REVERSE ${_list_name} )
endmacro()
if( HDF5_INCLUDE_DIRS )
_remove_duplicates_from_beginning( HDF5_INCLUDE_DIRS )
endif()
if( HDF5_LIBRARY_DIRS )
_remove_duplicates_from_beginning( HDF5_LIBRARY_DIRS )
endif()
# If the HDF5 include directory was found, open H5pubconf.h to determine if
# HDF5 was compiled with parallel IO support
set( HDF5_IS_PARALLEL FALSE )
set( HDF5_VERSION "" )
foreach( _dir IN LISTS HDF5_INCLUDE_DIRS )
foreach(_hdr "${_dir}/H5pubconf.h" "${_dir}/H5pubconf-64.h" "${_dir}/H5pubconf-32.h")
if( EXISTS "${_hdr}" )
file( STRINGS "${_hdr}"
HDF5_HAVE_PARALLEL_DEFINE
REGEX "HAVE_PARALLEL 1" )
if( HDF5_HAVE_PARALLEL_DEFINE )
set( HDF5_IS_PARALLEL TRUE )
endif()
unset(HDF5_HAVE_PARALLEL_DEFINE)
file( STRINGS "${_hdr}"
HDF5_VERSION_DEFINE
REGEX "^[ \t]*#[ \t]*define[ \t]+H5_VERSION[ \t]+" )
if( "${HDF5_VERSION_DEFINE}" MATCHES
"H5_VERSION[ \t]+\"([0-9]+\\.[0-9]+\\.[0-9]+).*\"" )
set( HDF5_VERSION "${CMAKE_MATCH_1}" )
endif()
unset(HDF5_VERSION_DEFINE)
endif()
endforeach()
endforeach()
set( HDF5_IS_PARALLEL ${HDF5_IS_PARALLEL} CACHE BOOL
"HDF5 library compiled with parallel IO support" )
mark_as_advanced( HDF5_IS_PARALLEL )
# For backwards compatibility we set HDF5_INCLUDE_DIR to the value of
# HDF5_INCLUDE_DIRS
if( HDF5_INCLUDE_DIRS )
set( HDF5_INCLUDE_DIR "${HDF5_INCLUDE_DIRS}" )
endif()
endif()
find_package_handle_standard_args( HDF5
REQUIRED_VARS HDF5_LIBRARIES HDF5_INCLUDE_DIRS
VERSION_VAR HDF5_VERSION
)
......@@ -103,6 +103,13 @@ IF( NEKTAR_USE_VTK )
${NEKTAR++_TP_INCLUDE_DIRS} ${VTK_INCLUDE_DIRS})
ENDIF( NEKTAR_USE_VTK )
SET(NEKTAR_USE_HDF5 "@NEKTAR_USE_HDF5@")
IF( NEKTAR_USE_HDF5 )
SET(HDF5_INCLUDE_DIRS "@HDF5_INCLUDE_DIRS@")
SET(NEKTAR++_TP_INCLUDE_DIRS
${NEKTAR++_TP_INCLUDE_DIRS} ${HDF5_INCLUDE_DIRS})
ENDIF( NEKTAR_USE_HDF5 )
# find and add Nektar++ libraries
INCLUDE(${NEKTAR++_LIBRARY_DIRS}/cmake/Nektar++Libraries.cmake)
......
......@@ -7,11 +7,14 @@
########################################################################
IF (NOT WIN32)
CMAKE_DEPENDENT_OPTION(NEKTAR_USE_ANN
"Use ANN routines for performing Approximate Nearest Neighbour searches." ON
"NEKTAR_USE_MESHGEN" OFF)
OPTION(NEKTAR_USE_ANN
"Use ANN routines for performing Approximate Nearest Neighbour searches." OFF)
ENDIF(NOT WIN32)
IF( NEKTAR_USE_MESHGEN )
SET(NEKTAR_USE_ANN ON CACHE BOOL "" FORCE)
ENDIF()
IF (NEKTAR_USE_ANN)
# First search for system ANN installs. Hint /opt/local for MacPorts and
# /usr/local/opt/ann for Homebrew.
......
......@@ -2,22 +2,30 @@
#
# ThirdParty configuration for Nektar++
#
# Star CCM i/o
# Star CCM i/o
#
########################################################################
OPTION(NEKTAR_USE_CCM
OPTION(NEKTAR_USE_CCM
"CCM star i/o library is available." OFF)
IF( NEKTAR_USE_CCM )
FIND_LIBRARY(CCMIO_LIBRARY NAMES "ccmio" "adf" PATHS /usr/local/lib ${Nektar++_TP_LIBRARY_DIRS})
set(CCMIO_LIBRARIES
ccmio
adf
)
FIND_LIBRARY(CCMIO_LIBRARY NAMES "ccmio" PATHS /usr/local/lib ${Nektar++_TP_LIBRARY_DIRS})
IF( CCMIO_LIBRARY )
MESSAGE(STATUS "Found Ccmio: ${CCMIO_LIBRARY}")
MESSAGE(STATUS "Found Ccmio: ${CCMIO_LIBRARY}")
MARK_AS_ADVANCED(CCMIO_LIBRARY)
ADD_DEFINITIONS(-DNEKTAR_USE_CCM)
FIND_PATH (CCMIO_INCLUDE_DIR ccmio.h)
GET_FILENAME_COMPONENT(CCMIO_LIBRARY_PATH ${CCMIO_LIBRARY} PATH)
LINK_DIRECTORIES(${CCMIO_LIBRARY_PATH})
GET_FILENAME_COMPONENT(CCMIO_LIBRARY_DIR ${CCMIO_LIBRARY} PATH)
INCLUDE_DIRECTORIES(NekMesh ${CCMIO_INCLUDE_DIR})
LINK_DIRECTORIES(${CCMIO_LIBRARY_DIR})
MESSAGE(STATUS ${CCMIO_LIBRARY_DIR})
ELSE()
MESSAGE(FATAL_ERROR "Cound not find ccmio library")
ENDIF()
......
########################################################################
#
# ThirdParty configuration for Nektar++
#
# HDF5
#
########################################################################
OPTION(NEKTAR_USE_HDF5
"Enable HDF5 I/O support." OFF)
IF (NEKTAR_USE_HDF5)
IF (NOT NEKTAR_USE_MPI)
MESSAGE(FATAL_ERROR "HDF5 requires Nektar++ to be configured with "
"NEKTAR_USE_MPI for MPI support.")
ENDIF()
# Try to find parallel system HDF5 first.
SET(HDF5_PREFER_PARALLEL ON)
FIND_PACKAGE(HDF5 QUIET)
IF (HDF5_FOUND AND NOT HDF5_IS_PARALLEL)
MESSAGE(STATUS "Non-parallel system HDF5 detected: will build instead.")
SET(BUILD_HDF5 ON)
ELSEIF(HDF5_FOUND)
SET(BUILD_HDF5 OFF)
ELSE()
SET(BUILD_HDF5 ON)
ENDIF()
CMAKE_DEPENDENT_OPTION(THIRDPARTY_BUILD_HDF5
"Build HDF5 from ThirdParty" ${BUILD_HDF5}
"NEKTAR_USE_HDF5" OFF)
IF(THIRDPARTY_BUILD_HDF5)
IF (CMAKE_VERSION VERSION_LESS 3.1.0)
MESSAGE(FATAL_ERROR "HDF5 compilation requires CMake 3.1.0 or later.")
ENDIF()
INCLUDE(ExternalProject)
EXTERNALPROJECT_ADD(
hdf5-1.8.16
PREFIX ${TPSRC}
URL ${TPURL}/hdf5-1.8.16.tar.bz2
URL_MD5 79c1593573ebddf734eee8d43ecfe483
STAMP_DIR ${TPBUILD}/stamp
DOWNLOAD_DIR ${TPSRC}
SOURCE_DIR ${TPSRC}/hdf5-1.8.16
BINARY_DIR ${TPBUILD}/hdf5-1.8.16
TMP_DIR ${TPBUILD}/hdf5-1.8.16-tmp
INSTALL_DIR ${TPDIST}
CONFIGURE_COMMAND ${CMAKE_COMMAND}
-G ${CMAKE_GENERATOR}
-DCMAKE_C_COMPILER:FILEPATH=${CMAKE_C_COMPILER}
-DCMAKE_CXX_COMPILER:FILEPATH=${CMAKE_CXX_COMPILER}
-DCMAKE_INSTALL_PREFIX:PATH=${TPDIST}
-DHDF5_ENABLE_PARALLEL=ON