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Guilhem Lavaux 2014-05-30 17:12:48 +02:00
commit 6d19fe666f
93 changed files with 714 additions and 113 deletions
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22
CMakeLists.txt
View File

@ -7,6 +7,11 @@ include(GetGitRevisionDescription)
include(ExternalProject)
include(FindOpenMP)
include(FindPythonLibs)
set(NumPy_FIND_REQUIRED TRUE)
include(${CMAKE_SOURCE_DIR}/FindNumPy.cmake)
get_git_head_revision(HEAD GIT_VER)
option(BUILD_SHARED_LIBS "Build shared libraries." OFF)
@ -14,6 +19,12 @@ option(BUILD_STATIC_LIBS "Build static libraries." ON)
option(ENABLE_OPENMP "Enable OpenMP support." OFF)
option(ENABLE_SHARP "Enable SPHT support." ON)
IF(BUILD_SHARED_LIBS AND BUILD_STATIC_LIBS)
SET(CosmoTool_local CosmoTool_static)
ELSE(BUILD_SHARED_LIBS AND BUILD_STATIC_LIBS)
SET(CosmoTool_local CosmoTool)
ENDIF(BUILD_SHARED_LIBS AND BUILD_STATIC_LIBS)
find_path(NETCDF_INCLUDE_PATH NAMES netcdf.h)
find_path(NETCDFCPP_INCLUDE_PATH NAMES netcdfcpp.h netcdf)
find_path(GSL_INCLUDE_PATH NAMES gsl/gsl_blas.h)
@ -31,6 +42,8 @@ find_library(NETCDF_LIBRARY netcdf)
find_library(GSL_LIBRARY gsl)
find_library(GSLCBLAS_LIBRARY gslcblas)
find_program(CYTHON cython)
find_package(Boost 1.53)
if (ENABLE_SHARP)
@ -50,6 +63,14 @@ if (ENABLE_SHARP)
SET(SHARP_INCLUDE_PATH ${DEP_BUILD}/include)
endif (ENABLE_SHARP)
SET(OMPTL_BUILD_DIR ${CMAKE_BINARY_DIR}/omptl-prefix/src/omptl)
ExternalProject_Add(omptl
URL ${CMAKE_SOURCE_DIR}/external/omptl-20120422.tar.bz2
CONFIGURE_COMMAND echo "No configure"
BUILD_COMMAND echo "No build"
INSTALL_COMMAND ${CMAKE_COMMAND} -E copy_directory ${OMPTL_BUILD_DIR} ${CMAKE_BINARY_DIR}/external/stage/include/omptl
)
include_directories(${OMPTL_BUILD_DIR}/..)
set(HDF5_FIND_COMPONENTS HL CXX)
if(HDF5_ROOTDIR)
@ -102,5 +123,6 @@ SET(CPACK_SOURCE_IGNORE_FILES
add_subdirectory(src)
add_subdirectory(sample)
add_subdirectory(python)
include(CPack)

102
FindNumPy.cmake Normal file
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@ -0,0 +1,102 @@
# - Find the NumPy libraries
# This module finds if NumPy is installed, and sets the following variables
# indicating where it is.
#
# TODO: Update to provide the libraries and paths for linking npymath lib.
#
# NUMPY_FOUND - was NumPy found
# NUMPY_VERSION - the version of NumPy found as a string
# NUMPY_VERSION_MAJOR - the major version number of NumPy
# NUMPY_VERSION_MINOR - the minor version number of NumPy
# NUMPY_VERSION_PATCH - the patch version number of NumPy
# NUMPY_VERSION_DECIMAL - e.g. version 1.6.1 is 10601
# NUMPY_INCLUDE_DIRS - path to the NumPy include files
#============================================================================
# Copyright 2012 Continuum Analytics, Inc.
#
# MIT License
#
# 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 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR
# OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE,
# ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR
# OTHER DEALINGS IN THE SOFTWARE.
#
#============================================================================
# Finding NumPy involves calling the Python interpreter
if(NumPy_FIND_REQUIRED)
find_package(PythonInterp REQUIRED)
else()
find_package(PythonInterp)
endif()
if(NOT PYTHONINTERP_FOUND)
set(NUMPY_FOUND FALSE)
return()
endif()
execute_process(COMMAND "${PYTHON_EXECUTABLE}" "-c"
"import numpy as n; print(n.__version__); print(n.get_include());"
RESULT_VARIABLE _NUMPY_SEARCH_SUCCESS
OUTPUT_VARIABLE _NUMPY_VALUES_OUTPUT
ERROR_VARIABLE _NUMPY_ERROR_VALUE
OUTPUT_STRIP_TRAILING_WHITESPACE)
if(NOT _NUMPY_SEARCH_SUCCESS MATCHES 0)
if(NumPy_FIND_REQUIRED)
message(FATAL_ERROR
"NumPy import failure:\n${_NUMPY_ERROR_VALUE}")
endif()
set(NUMPY_FOUND FALSE)
return()
endif()
# Convert the process output into a list
string(REGEX REPLACE ";" "\\\\;" _NUMPY_VALUES ${_NUMPY_VALUES_OUTPUT})
string(REGEX REPLACE "\n" ";" _NUMPY_VALUES ${_NUMPY_VALUES})
# Just in case there is unexpected output from the Python command.
list(GET _NUMPY_VALUES -2 NUMPY_VERSION)
list(GET _NUMPY_VALUES -1 NUMPY_INCLUDE_DIRS)
string(REGEX MATCH "^[0-9]+\\.[0-9]+\\.[0-9]+" _VER_CHECK "${NUMPY_VERSION}")
if("${_VER_CHECK}" STREQUAL "")
# The output from Python was unexpected. Raise an error always
# here, because we found NumPy, but it appears to be corrupted somehow.
message(FATAL_ERROR
"Requested version and include path from NumPy, got instead:\n${_NUMPY_VALUES_OUTPUT}\n")
return()
endif()
# Make sure all directory separators are '/'
string(REGEX REPLACE "\\\\" "/" NUMPY_INCLUDE_DIRS ${NUMPY_INCLUDE_DIRS})
# Get the major and minor version numbers
string(REGEX REPLACE "\\." ";" _NUMPY_VERSION_LIST ${NUMPY_VERSION})
list(GET _NUMPY_VERSION_LIST 0 NUMPY_VERSION_MAJOR)
list(GET _NUMPY_VERSION_LIST 1 NUMPY_VERSION_MINOR)
list(GET _NUMPY_VERSION_LIST 2 NUMPY_VERSION_PATCH)
string(REGEX MATCH "[0-9]*" NUMPY_VERSION_PATCH ${NUMPY_VERSION_PATCH})
math(EXPR NUMPY_VERSION_DECIMAL
"(${NUMPY_VERSION_MAJOR} * 10000) + (${NUMPY_VERSION_MINOR} * 100) + ${NUMPY_VERSION_PATCH}")
find_package_message(NUMPY
"Found NumPy: version \"${NUMPY_VERSION}\" ${NUMPY_INCLUDE_DIRS}"
"${NUMPY_INCLUDE_DIRS}${NUMPY_VERSION}")
set(NUMPY_FOUND TRUE)

11
build_tools/gather_sources.py
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@ -1,5 +1,5 @@
#+
# This is CosmoTool (./build_tools/gather_sources.py) -- Copyright (C) Guilhem Lavaux (2007-2013)
# This is CosmoTool (./build_tools/gather_sources.py) -- Copyright (C) Guilhem Lavaux (2007-2014)
#
# guilhem.lavaux@gmail.com
#
@ -55,7 +55,7 @@ def apply_license(license, relimit, filename):
def apply_python_license(filename):
license="""#+
# This is CosmoTool (@FILENAME@) -- Copyright (C) Guilhem Lavaux (2007-2013)
# This is CosmoTool (@FILENAME@) -- Copyright (C) Guilhem Lavaux (2007-2014)
#
# guilhem.lavaux@gmail.com
#
@ -97,7 +97,7 @@ def apply_python_license(filename):
def apply_cpp_license(filename):
license="""/*+
This is CosmoTool (@FILENAME@) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (@FILENAME@) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
@ -131,13 +131,14 @@ The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
"""
relimit = r'^(?s)/\*\+.*\+\*/'
relimit = r'^(?s)/\*\+.*\+\*/\n'
print("C++ file: %s" % filename)
apply_license(license, relimit, filename)
def analyze_tree(prefix, t):
for ename,entry in t.items():
for entry in t:
ename = entry.name
if ename == 'external' or ename == 'zobov':
continue
if type(entry) == Tree:

BIN
external/omptl-20120422.tar.bz2 vendored Normal file
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49
python/CMakeLists.txt Normal file
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@ -0,0 +1,49 @@
set(CMAKE_SHARED_MODULE_PREFIX)
include_directories(${NUMPY_INCLUDE_DIRS} ${PYTHON_INCLUDE_PATH} ${CMAKE_SOURCE_DIR}/src ${CMAKE_BINARY_DIR}/src)
IF(CYTHON)
add_custom_command(
OUTPUT ${CMAKE_CURRENT_BINARY_DIR}/_cosmotool.cpp
COMMAND ${CYTHON} --cplus -o ${CMAKE_CURRENT_BINARY_DIR}/_cosmotool.cpp ${CMAKE_CURRENT_SOURCE_DIR}/_cosmotool.pyx
DEPENDS ${CMAKE_CURRENT_SOURCE_DIR}/_cosmotool.pyx)
ENDIF(CYTHON)
add_library(_cosmotool MODULE ${CMAKE_CURRENT_BINARY_DIR}/_cosmotool.cpp)
SET(CMAKE_EXE_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} -Bsymbolic-functions")
target_link_libraries(_cosmotool ${CosmoTool_local} ${PYTHON_LIBRARIES} ${GSL_LIBRARIES})
# Discover where to put packages
if (NOT PYTHON_SITE_PACKAGES)
execute_process (COMMAND ${PYTHON_EXECUTABLE} -c "from distutils.sysconfig import get_python_lib; print get_python_lib()" OUTPUT_VARIABLE internal_PYTHON_SITE_PACKAGES OUTPUT_STRIP_TRAILING_WHITESPACE)
SET(SYSTEM_PYTHON_SITE_PACKAGES ${internal_PYTHON_SITE_PACKAGES} CACHE PATH "Path to the target system-wide site-package where to install python modules")
execute_process (COMMAND ${PYTHON_EXECUTABLE} -c "from site import USER_SITE; print USER_SITE" OUTPUT_VARIABLE internal_PYTHON_SITE_PACKAGES OUTPUT_STRIP_TRAILING_WHITESPACE)
SET(USER_PYTHON_SITE_PACKAGES ${internal_PYTHON_SITE_PACKAGES} CACHE PATH "Path to the target user site-package where to install python modules")
mark_as_advanced(USER_PYTHON_SITE_PACKAGES SYSTEM_PYTHON_SITE_PACKAGES)
endif (NOT PYTHON_SITE_PACKAGES)
OPTION(INSTALL_PYTHON_LOCAL OFF)
IF (NOT INSTALL_PYTHON_LOCAL)
SET(PYTHON_SITE_PACKAGES ${SYSTEM_PYTHON_SITE_PACKAGES})
ELSE (NOT INSTALL_PYTHON_LOCAL)
SET(PYTHON_SITE_PACKAGES ${USER_PYTHON_SITE_PACKAGES})
ENDIF(NOT INSTALL_PYTHON_LOCAL)
if (WIN32 AND NOT CYGWIN)
SET_TARGET_PROPERTIES(_cosmotool PROPERTIES SUFFIX ".pyd")
endif (WIN32 AND NOT CYGWIN)
INSTALL(TARGETS _cosmotool
LIBRARY DESTINATION ${PYTHON_SITE_PACKAGES}/cosmotool
)
INSTALL(DIRECTORY cosmotool DESTINATION ${PYTHON_SITE_PACKAGES}
FILES_MATCHING PATTERN "*.py")

190
python/_cosmotool.pyx Normal file
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@ -0,0 +1,190 @@
from libcpp cimport bool
import numpy as np
cimport numpy as np
from cpython cimport PyObject, Py_INCREF
np.import_array()
cdef extern from "loadSimu.hpp" namespace "CosmoTool":
cdef cppclass SimuData:
np.float_t BoxSize
np.float_t time
np.float_t Hubble
np.float_t Omega_M
np.float_t Omega_Lambda
np.int64_t TotalNumPart
np.int64_t NumPart
np.int64_t *Id
float *Pos[3]
float *Vel[3]
int *type
cdef const int NEED_GADGET_ID
cdef const int NEED_POSITION
cdef const int NEED_VELOCITY
cdef const int NEED_TYPE
cdef extern from "loadGadget.hpp" namespace "CosmoTool":
SimuData *loadGadgetMulti(const char *fname, int id, int flags) except +
cdef extern from "loadRamses.hpp" namespace "CosmoTool":
SimuData *loadRamsesSimu(const char *basename, int id, int cpuid, bool dp, int flags) except +
cdef class Simulation:
cdef list positions
cdef list velocities
cdef object identifiers
cdef SimuData *data
property BoxSize:
def __get__(Simulation self):
return self.data.BoxSize
property time:
def __get__(Simulation self):
return self.data.time
property Hubble:
def __get__(Simulation self):
return self.data.Hubble
property Omega_M:
def __get__(Simulation self):
return self.data.Omega_M
property positions:
def __get__(Simulation self):
return self.positions
property velocities:
def __get__(Simulation self):
return self.velocities
property numParticles:
def __get__(Simulation self):
return self.data.NumPart
def __cinit__(Simulation self):
self.data = <SimuData *>0
def __dealloc__(Simulation self):
if self.data != <SimuData *>0:
print("Clearing simulation data")
del self.data
cdef class ArrayWrapper:
cdef void* data_ptr
cdef int size
cdef int type_array
cdef set_data(self, int size, int type_array, void* data_ptr):
""" Set the data of the array
This cannot be done in the constructor as it must recieve C-level
arguments.
Parameters:
-----------
size: int
Length of the array.
data_ptr: void*
Pointer to the data
"""
self.data_ptr = data_ptr
self.size = size
self.type_array = type_array
def __array__(self):
""" Here we use the __array__ method, that is called when numpy
tries to get an array from the object."""
cdef np.npy_intp shape[1]
shape[0] = <np.npy_intp> self.size
# Create a 1D array, of length 'size'
ndarray = np.PyArray_SimpleNewFromData(1, shape, self.type_array, self.data_ptr)
return ndarray
def __dealloc__(self):
""" Frees the array. This is called by Python when all the
references to the object are gone. """
pass
cdef object wrap_array(void *p, np.uint64_t s, int typ):
cdef np.ndarray ndarray
cdef ArrayWrapper wrapper
wrapper = ArrayWrapper()
wrapper.set_data(s, typ, p)
ndarray = np.array(wrapper, copy=False)
ndarray.base = <PyObject*> wrapper
Py_INCREF(wrapper)
return ndarray
cdef object wrap_float_array(float *p, np.uint64_t s):
return wrap_array(<void *>p, s, np.NPY_FLOAT)
cdef object wrap_int64_array(np.int64_t* p, np.uint64_t s):
return wrap_array(<void *>p, s, np.NPY_INT64)
cdef object wrap_simudata(SimuData *data, int flags):
cdef Simulation simu
simu = Simulation()
simu.data = data
if flags & NEED_POSITION:
simu.positions = [wrap_float_array(data.Pos[i], data.NumPart) for i in xrange(3)]
if flags & NEED_VELOCITY:
simu.velocities = [wrap_float_array(data.Vel[i], data.NumPart) for i in xrange(3)]
if flags & NEED_GADGET_ID:
simu.identifiers = wrap_int64_array(data.Id, data.NumPart)
return simu
def loadGadget(str filename, int snapshot_id, bool loadPosition = True, bool loadVelocity = False, bool loadId = False):
cdef int flags
cdef SimuData *data
cdef Simulation simu
flags = 0
if loadPosition:
flags |= NEED_POSITION
if loadVelocity:
flags |= NEED_VELOCITY
if loadId:
flags |= NEED_GADGET_ID
data = loadGadgetMulti(filename, snapshot_id, flags)
if data == <SimuData*>0:
return None
return wrap_simudata(data, flags)
def loadRamses(str basepath, int snapshot_id, int cpu_id, bool doublePrecision = False, bool loadPosition = True, bool loadVelocity = False):
""" loadRamses(basepath, snapshot_id, cpu_id, doublePrecision=False, loadPosition=True, loadVelocity=False)
Loads the indicated snapshot based on the cpu id, snapshot id and basepath. It is important to specify the correct precision in doublePrecision.
"""
cdef int flags
cdef SimuData *data
cdef Simulation simu
flags = 0
if loadPosition:
flags |= NEED_POSITION
if loadVelocity:
flags |= NEED_VELOCITY
data = loadRamsesSimu(basepath, snapshot_id, cpu_id, doublePrecision, flags)
if data == <SimuData*>0:
return None
return wrap_simudata(data, flags)

1
python/cosmotool/__init__.py Normal file
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@ -0,0 +1 @@
from _cosmotool import *

4
sample/CMakeLists.txt
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@ -1,4 +1,4 @@
SET(tolink ${GSL_LIBRARIES} CosmoTool ${CosmoTool_LIBS})
SET(tolink ${GSL_LIBRARIES} ${CosmoTool_local} ${CosmoTool_LIBS})
include_directories(${CMAKE_SOURCE_DIR}/src)
include_directories(${FFTW3_INCLUDE_DIRS}
${EIGEN3_INCLUDE_DIRS} ${NETCDF_INCLUDE_PATH} ${GSL_INCLUDE_PATH})
@ -33,7 +33,7 @@ add_executable(testPool testPool.cpp)
target_link_libraries(testPool ${tolink})
if (HDF5_FOUND)
add_executable(testReadFlash testReadFlash.cpp)
add_executable(testReadFlash testReadFlash.cpp)
target_link_libraries(testReadFlash ${tolink})
add_executable(testHDF5 testHDF5.cpp)

34
sample/gadgetToArray.cpp
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@ -1,3 +1,37 @@
/*+
This is CosmoTool (./sample/gadgetToArray.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
This software is a computer program whose purpose is to provide a toolbox for cosmological
data analysis (e.g. filters, generalized Fourier transforms, power spectra, ...)
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
#include <cmath>
#include <iostream>
#include <cstdlib>

34
sample/gadgetToDensity.cpp
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@ -1,3 +1,37 @@
/*+
This is CosmoTool (./sample/gadgetToDensity.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
This software is a computer program whose purpose is to provide a toolbox for cosmological
data analysis (e.g. filters, generalized Fourier transforms, power spectra, ...)
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
#include <cmath>
#include <iostream>
#include <cstdlib>

2
sample/testAlgo.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testAlgo.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testAlgo.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testBQueue.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testBQueue.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testBQueue.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testBSP.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testBSP.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testBSP.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testDelaunay.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testDelaunay.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testDelaunay.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testEskow.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testEskow.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testEskow.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

34
sample/testHDF5.cpp
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@ -1,3 +1,37 @@
/*+
This is CosmoTool (./sample/testHDF5.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
This software is a computer program whose purpose is to provide a toolbox for cosmological
data analysis (e.g. filters, generalized Fourier transforms, power spectra, ...)
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
#include <iostream>
#include <H5Cpp.h>
#include "hdf5_array.hpp"

2
sample/testInterpolate.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testInterpolate.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testInterpolate.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testNewton.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testNewton.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testNewton.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testPool.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testPool.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testPool.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testReadFlash.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testReadFlash.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testReadFlash.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testSmooth.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testSmooth.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testSmooth.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/test_cosmopower.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/test_cosmopower.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/test_cosmopower.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/test_fft_calls.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/test_fft_calls.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/test_fft_calls.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/test_healpix_calls.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/test_healpix_calls.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/test_healpix_calls.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testkd.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testkd.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testkd.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testkd2.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testkd2.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testkd2.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
sample/testkd3.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./sample/testkd3.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./sample/testkd3.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

5
src/CMakeLists.txt
View File

@ -1,3 +1,5 @@
add_definitions(-fPIC)
SET(CosmoTool_SRCS
fortran.cpp
interpolate.cpp
@ -69,7 +71,6 @@ set(CosmoTool_LIBS ${CosmoTool_LIBS} PARENT_SCOPE)
if (BUILD_SHARED_LIBS)
add_library(CosmoTool SHARED ${CosmoTool_SRCS})
target_link_libraries(CosmoTool ${CosmoTool_LIBS})
if (BUILD_STATIC_LIBS)
add_library(CosmoTool_static STATIC ${CosmoTool_SRCS})
endif(BUILD_STATIC_LIBS)
@ -89,5 +90,7 @@ endif (BUILD_SHARED_LIBS)
install(DIRECTORY . DESTINATION include/CosmoTool
FILES_MATCHING PATTERN "*.hpp")
install(DIRECTORY ${OMPTL_BUILD_DIR}
DESTINATION include/CosmoTool/omptl)
install(DIRECTORY . DESTINATION include/CosmoTool
FILES_MATCHING PATTERN "*.tcc")

2
src/algo.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/algo.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/algo.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/bqueue.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/bqueue.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/bqueue.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/bsp_simple.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/bsp_simple.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/bsp_simple.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/cic.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/cic.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/cic.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

4
src/cic.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/cic.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/cic.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
@ -36,7 +36,7 @@ knowledge of the CeCILL license and that you accept its terms.
#ifndef __CICFILTER_HPP
#define __CICFILTER_HPP
#include "CosmoTool/config.hpp"
#include "config.hpp"
#include <inttypes.h>
using namespace CosmoTool;

9
src/config.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/config.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/config.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
@ -39,6 +39,7 @@ knowledge of the CeCILL license and that you accept its terms.
#include <string>
#include <stdint.h>
#include <exception>
#include <stdexcept>
#include <cstring>
namespace CosmoTool
@ -83,13 +84,13 @@ namespace CosmoTool
* Base exception class for all exceptions handled by
* this library.
*/
class Exception : public std::exception
class Exception : public std::runtime_error
{
public:
Exception(const std::string& mess)
: msg(mess), msgok(true) {}
: std::runtime_error(mess), msg(mess), msgok(true) {}
Exception()
: msgok(false) {}
: std::runtime_error("No message"), msgok(false) {}
virtual ~Exception() throw () {}

2
src/cosmopower.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/cosmopower.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/cosmopower.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/cosmopower.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/cosmopower.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/cosmopower.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/dinterpolate.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/dinterpolate.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/dinterpolate.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/eskow.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/eskow.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/eskow.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/field.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/field.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/field.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fixArray.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fixArray.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fixArray.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fortran.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fortran.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fortran.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fortran.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fortran.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fortran.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/base_types.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/base_types.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/base_types.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/details/euclidian_maps.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/euclidian_maps.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/euclidian_maps.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/details/euclidian_spectrum_1d.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/euclidian_spectrum_1d.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/euclidian_spectrum_1d.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/details/euclidian_spectrum_1d_bin.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/euclidian_spectrum_1d_bin.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/euclidian_spectrum_1d_bin.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

40
src/fourier/details/euclidian_transform.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/euclidian_transform.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/euclidian_transform.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
@ -83,30 +83,30 @@ namespace CosmoTool
Nc = 1;
volume = 1;
for (int i = 0; i < dims.size(); i++)
{
N *= dims[i];
{
N *= dims[i];
Nc *= m_dims_hc[i];
volume *= L[i];
dk[i] = 2*M_PI/L[i];
volume *= L[i];
dk[i] = 2*M_PI/L[i];
swapped_dims[dims.size()-1-i] = dims[i];
}
}
realMap = new EuclidianFourierMapReal<T>(
boost::shared_ptr<T>(calls::alloc_real(N),
std::ptr_fun(calls::free)),
m_dims);
boost::shared_ptr<T>(calls::alloc_real(N),
std::ptr_fun(calls::free)),
m_dims);
fourierMap = new EuclidianFourierMapComplex<T>(
boost::shared_ptr<std::complex<T> >((std::complex<T>*)calls::alloc_complex(Nc),
std::ptr_fun(calls::free)),
dims[0], m_dims_hc, dk);
{
m_analysis = calls::plan_dft_r2c(dims.size(), &swapped_dims[0],
realMap->data(), (typename calls::complex_type *)fourierMap->data(),
FFTW_DESTROY_INPUT|FFTW_MEASURE);
m_synthesis = calls::plan_dft_c2r(dims.size(), &swapped_dims[0],
(typename calls::complex_type *)fourierMap->data(), realMap->data(),
FFTW_DESTROY_INPUT|FFTW_MEASURE);
}
boost::shared_ptr<std::complex<T> >((std::complex<T>*)calls::alloc_complex(Nc),
std::ptr_fun(calls::free)),
dims[0], m_dims_hc, dk);
{
m_analysis = calls::plan_dft_r2c(dims.size(), &swapped_dims[0],
realMap->data(), (typename calls::complex_type *)fourierMap->data(),
FFTW_DESTROY_INPUT|FFTW_MEASURE);
m_synthesis = calls::plan_dft_c2r(dims.size(), &swapped_dims[0],
(typename calls::complex_type *)fourierMap->data(), realMap->data(),
FFTW_DESTROY_INPUT|FFTW_MEASURE);
}
}
virtual ~EuclidianFourierTransform()

2
src/fourier/details/healpix_alms.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/healpix_alms.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/healpix_alms.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/details/healpix_map.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/healpix_map.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/healpix_map.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/details/healpix_spectrum.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/healpix_spectrum.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/healpix_spectrum.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/details/healpix_transform.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/healpix_transform.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/healpix_transform.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/details/healpix_utility.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/details/healpix_utility.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/details/healpix_utility.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/euclidian.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/euclidian.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/euclidian.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/fft/fftw_calls.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/fft/fftw_calls.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/fft/fftw_calls.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/fourier/healpix.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/fourier/healpix.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/fourier/healpix.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/growthFactor.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/growthFactor.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/growthFactor.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/growthFactor.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/growthFactor.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/growthFactor.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

36
src/h5_readFlash.cpp
View File

@ -1,11 +1,45 @@
/*+
This is CosmoTool (./src/h5_readFlash.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
This software is a computer program whose purpose is to provide a toolbox for cosmological
data analysis (e.g. filters, generalized Fourier transforms, power spectra, ...)
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
/*+
!!
This file has been developped by P. M. Sutter
!!
+*/
*/
/* This file contains the functions that read the data from the HDF5 file
* The functions accept the PARAMESH data through arguments.
*/

36
src/h5_readFlash.hpp
View File

@ -1,4 +1,38 @@
/*+
This is CosmoTool (./src/h5_readFlash.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
This software is a computer program whose purpose is to provide a toolbox for cosmological
data analysis (e.g. filters, generalized Fourier transforms, power spectra, ...)
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
/*+
!!! NOTE !!!
@ -6,7 +40,7 @@ This file has been developped by P. M. Sutter.
!!!!
+*/
*/
/* This file contains the functions that read the data from the HDF5 file
* The functions accept the PARAMESH data through arguments.
*/

34
src/hdf5_array.hpp
View File

@ -1,3 +1,37 @@
/*+
This is CosmoTool (./src/hdf5_array.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
This software is a computer program whose purpose is to provide a toolbox for cosmological
data analysis (e.g. filters, generalized Fourier transforms, power spectra, ...)
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
#ifndef __COSMO_HDF5_ARRAY_HPP
#define __COSMO_HDF5_ARRAY_HPP

33
src/hdf5_flash.h
View File

@ -1,9 +1,36 @@
/*+
!!
This is CosmoTool (./src/hdf5_flash.h) -- Copyright (C) Guilhem Lavaux (2007-2014)
This particular file has been developped by P. M. Sutter
guilhem.lavaux@gmail.com
!!
This software is a computer program whose purpose is to provide a toolbox for cosmological
data analysis (e.g. filters, generalized Fourier transforms, power spectra, ...)
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
+*/
/* general header file for the HDF 5 IO in FLASH */

2
src/interpolate.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/interpolate.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/interpolate.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/interpolate.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/interpolate.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/interpolate.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/interpolate3d.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/interpolate3d.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/interpolate3d.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/kdtree_leaf.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/kdtree_leaf.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/kdtree_leaf.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/kdtree_splitters.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/kdtree_splitters.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/kdtree_splitters.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/loadFlash.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadFlash.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadFlash.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/loadFlash.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadFlash.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadFlash.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/loadFlash_dummy.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadFlash_dummy.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadFlash_dummy.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

4
src/loadGadget.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadGadget.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadGadget.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com
@ -96,7 +96,7 @@ SimuData *CosmoTool::loadGadgetMulti(const char *fname, int id,
if (f == 0)
return 0;
delete out_fname;
delete[] out_fname;
} else {

2
src/loadGadget.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadGadget.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadGadget.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/loadRamses.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadRamses.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadRamses.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/loadRamses.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadRamses.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadRamses.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/loadSimu.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/loadSimu.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/loadSimu.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/load_data.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/load_data.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/load_data.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/load_data.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/load_data.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/load_data.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/mach.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/mach.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/mach.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/miniargs.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/miniargs.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/miniargs.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/miniargs.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/miniargs.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/miniargs.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/mykdtree.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/mykdtree.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/mykdtree.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

1
src/mykdtree.tcc
View File

@ -1,5 +1,6 @@
#include "replicateGenerator.hpp"
#include <cstring>
#include "omptl/omptl_algorithm"
#include <algorithm>
#include <limits>
#include <iostream>

2
src/newton.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/newton.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/newton.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/octTree.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/octTree.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/octTree.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/octTree.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/octTree.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/octTree.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/pool.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/pool.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/pool.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/powerSpectrum.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/powerSpectrum.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/powerSpectrum.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/powerSpectrum.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/powerSpectrum.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/powerSpectrum.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/replicateGenerator.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/replicateGenerator.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/replicateGenerator.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/sparseGrid.hpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/sparseGrid.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/sparseGrid.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/sphSmooth.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/sphSmooth.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/sphSmooth.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/yorick.hpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/yorick.hpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/yorick.hpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/yorick_nc3.cpp
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@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/yorick_nc3.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/yorick_nc3.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com

2
src/yorick_nc4.cpp
View File

@ -1,5 +1,5 @@
/*+
This is CosmoTool (./src/yorick_nc4.cpp) -- Copyright (C) Guilhem Lavaux (2007-2013)
This is CosmoTool (./src/yorick_nc4.cpp) -- Copyright (C) Guilhem Lavaux (2007-2014)
guilhem.lavaux@gmail.com