Difference between revisions of "HDF5"
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| − | {{Package-Introduction|HDF5 is a general purpose library and file format for storing scientific data. HDF5 stores two primary objects: datasets and groups. A dataset is a multidimensional array of data elements, and a group is a structure for organizing objects in an HDF5 file. The internal structure of an HDF5 file is very similar to the filesystem hierarchy.|http:// | + | {{Package-Introduction|HDF5 is a general purpose library and file format for storing scientific data. HDF5 stores two primary objects: datasets and groups. A dataset is a multidimensional array of data elements, and a group is a structure for organizing objects in an HDF5 file. The internal structure of an HDF5 file is very similar to the filesystem hierarchy.|http://hdfgroup.org/HDF5/}} |
== Dependencies == | == Dependencies == | ||
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|Extracts user block from 'h5_file' into 'user_block_file' and HDF5 file into 'h5_file_out'. | |Extracts user block from 'h5_file' into 'user_block_file' and HDF5 file into 'h5_file_out'. | ||
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Latest revision as of 07:54, 24 December 2009
| Download Source: | ftp://ftp.hdfgroup.org/HDF5/current/src/hdf5-1.8.2.tar.gz |
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Contents
Introduction to HDF5
HDF5 is a general purpose library and file format for storing scientific data. HDF5 stores two primary objects: datasets and groups. A dataset is a multidimensional array of data elements, and a group is a structure for organizing objects in an HDF5 file. The internal structure of an HDF5 file is very similar to the filesystem hierarchy.
Project Homepage: http://hdfgroup.org/HDF5/
Dependencies
Optional
Configuration Information
The following options may be passed to the configure script:
| F9X=gfortran: Specifies the FORTRAN compiler to interface with. |
| --enable-fortran: Compile the FORTRAN interface. |
| --enable-cxx: Compile the C++ interface. |
| --enable-linux-lfs: Enable support for large (64-bit) files on Linux. |
| --with-ssl=<LIB>: Use the SSL library. |
| --enable-parallel: Enable MPI-IO and MPI support. |
Parallel Support
If building HDF5 with parallel support, you must build MPICH2 with FORTRAN enabled and use the MPI C and FORTRAN compilers to build HDF5. In this case, set the compilers as follows for both Non-Multilib and Multilib builds. Obviously you will need to replace the ${BUILD32} as appropriate.
F9X=mpif77 CC="mpicc ${BUILD32}"
You will also need to add the --disable-cxx option in place of --enable-cxx when executing the configure script.
Non-Multilib
Compile the package:
F9X=gfortran ./configure --prefix=/usr --sysconfdir=/etc \ --enable-fortran --enable-cxx && make
Install the package:
make install
Install the documentation:
make install-doc
Multilib
32Bit
Compile the package:
CC="gcc ${BUILD32}" PKG_CONFIG_PATH="${PKG_CONFIG_PATH32}" F9X=gfortran \
./configure --prefix=/usr --sysconfdir=/etc --enable-fortran --enable-cxx &&
make
Install the package:
make install
N32
Compile the package:
CC="gcc ${BUILDN32}" PKG_CONFIG_PATH="${PKG_CONFIG_PATHN32}" F9X=gfortran \
./configure --prefix=/usr --libdir=/usr/lib32 --sysconfdir=/etc --enable-fortran --enable-cxx &&
make
Install the package:
make install
64Bit
Compile the package:
CC="gcc ${BUILD64}" PKG_CONFIG_PATH="${PKG_CONFIG_PATH64}" F9X=gfortran \
./configure --prefix=/usr --libdir=/usr/lib64 --sysconfdir=/etc --enable-fortran --enable-cxx &&
make
Install the package:
make install
Install the documentation:
make install-doc
Contents
| Installed Directories: | /usr/share/doc/hdf5, /usr/share/doc/hdf5/examples, /usr/share/doc/hdf5/examples/fortran, /usr/share/doc/hdf5/examples/c++, /usr/share/doc/hdf5/examples/c |
|---|---|
| Installed Programs: | h5dump, h5diff, h5ls, h5cc, h5debug, h5redeploy, h5repart, gif2h5, h52gif, h5import, h5repack, h5jam, h5unjam, h5fc, h5c++, h5perf |
| Installed Libraries: | libhdf5.so, libhdf5.la, libhdf5.a, libhdf5_hl.so, libhdf5_hl.la, libhdf5_hl.a, libhdf5_fortran.la, libhdf5_fortran.a, libhdf5_cpp.la, libhdf5_cpp.a, libhdf5_cpp.la, libhdf5_cpp.a |
| Symlinks: | None |
Short Descriptions
| /usr/doc/hdf5: | Directory containing example programs for using HDF5 files with c, c++, and/or FORTRAN as well as the documentation. |
|---|---|
| h5c++: | Script to assist in interfacing HDF5 to c++. |
| h5cc: | Script to assist in interfacing HDF5 to c. |
| h5fc: | Script to assist in interfacing HDF5 to FORTRAN. |
| h5debug: | Program to assist in debugging HDF5 file. |
| h5diff: | Similar to the diff program except for HDF5 files. |
| h5dump: | Dumps information from an HDF5 file to stdout. |
| h5import: | Converts data stored in one or more ASCII or binary files into one or more datasets in an existing or new HDF5 file. |
| h5jam: | Add 'user_block_file' to front of 'h5_file'. |
| h5ls: | Displays contents of HDF5 file similar to ls command. |
| h5repack: | Compresses HDF5 file using gzip or szip. |
| h5unjam: | Extracts user block from 'h5_file' into 'user_block_file' and HDF5 file into 'h5_file_out'. |
