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Merge branch 'master' of bitbucket.org:glavaux/cosmotool

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This commit is contained in:
Guilhem Lavaux 2015-04-28 17:08:00 +02:00
commit 4684c6ea83
5 changed files with 68 additions and 40 deletions
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20
src/CMakeLists.txt
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@ -22,13 +22,15 @@ ENDIF (Boost_FOUND)
IF (ENABLE_OPENMP)
ENDIF (ENABLE_OPENMP)
IF(FOUND_NETCDF3)
IF (YORICK_SUPPORT)
IF(FOUND_NETCDF3)
SET(CosmoTool_SRCS ${CosmoTool_SRCS} yorick_nc3.cpp)
ELSE(FOUND_NETCDF3)
IF(FOUND_NETCDF4)
ELSE(FOUND_NETCDF3)
IF(FOUND_NETCDF4)
SET(CosmoTool_SRCS ${CosmoTool_SRCS} yorick_nc4.cpp)
ENDIF(FOUND_NETCDF4)
ENDIF(FOUND_NETCDF3)
ENDIF(FOUND_NETCDF4)
ENDIF(FOUND_NETCDF3)
ENDIF(YORICK_SUPPORT)
if (HDF5_FOUND)
@ -66,9 +68,13 @@ SET(CosmoTool_SRCS ${CosmoTool_SRCS}
growthFactor.hpp
)
include_directories(${GSL_INCLUDE_PATH} ${NETCDF_INCLUDE_PATH} ${NETCDFCPP_INCLUDE_PATH} ${CMAKE_BINARY_DIR}/src)
include_directories(${Boost_INCLUDE_DIRS} ${GSL_INCLUDE_PATH} ${CMAKE_BINARY_DIR}/src)
set(CosmoTool_LIBS ${NETCDFCPP_LIBRARY} ${NETCDF_LIBRARY} ${GSL_LIBRARIES})
set(CosmoTool_LIBS ${GSL_LIBRARIES})
if(YORICK_SUPPORT)
set(CosmoTool_LIBS ${CosmoTool_LIBS} ${NETCDFCPP_LIBRARY} ${NETCDF_LIBRARY} ${GSL_LIBRARIES})
include_directories(${NETCDF_INCLUDE_PATH} ${NETCDFCPP_INCLUDE_PATH})
endif(YORICK_SUPPORT)
if (HDF5_FOUND)
set(CosmoTool_LIBS ${CosmoTool_LIBS} ${HDF5_CXX_LIBRARIES} ${HDF5_LIBRARIES})
include_directories(${HDF5_INCLUDE_DIRS})

10
src/hdf5_array.hpp
View file

@ -126,11 +126,13 @@ namespace CosmoTool {
bool doCreate = true,
bool useBases = false)
{
H5::DataSpace dataspace(data.num_dimensions(), dimensions.data());
std::vector<hsize_t> memdims(data.shape(), data.shape() + data.num_dimensions());
H5::DataSpace dataspace(dimensions.size(), dimensions.data());
H5::DataSpace memspace(memdims.size(), memdims.data());
if (useBases) {
std::vector<hssize_t> offsets(data.index_bases(), data.index_bases() + data.num_dimensions());
dataspace.offsetSimple(offsets.data());
std::vector<hsize_t> offsets(data.index_bases(), data.index_bases() + data.num_dimensions());
dataspace.selectHyperslab(H5S_SELECT_SET, memdims.data(), offsets.data());
}
H5::DataSet dataset;
@ -139,7 +141,7 @@ namespace CosmoTool {
else
dataset = fg.openDataSet(data_set_name);
dataset.write(data.data(), datatype);
dataset.write(data.data(), datatype, memspace, dataspace);
}