HDF (Hierarchical Data Format) is a set of software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of large complex datasets. <\/p>\n
The following versions are available:<\/p>\n
If you require a version compiled with a particular compiler please contact us via its-ri-team@manchester.ac.uk<\/a><\/p>\n There are no restrictions on access.<\/p>\n Load one<\/strong> of the following modulefiles to set up your environment:<\/p>\n The modulefiles will set an environement variable named An example compilation command could be<\/p>\n The HDF ‘bin’ directory is added to your path so that you can access the Example projects are available in See the HDF website for full documentation<\/a>.<\/p>\n None.<\/p>\n","protected":false},"excerpt":{"rendered":" Overview HDF (Hierarchical Data Format) is a set of software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of large complex datasets. The following versions are available: v1.8.6 built with the Intel 11.1.064 fortran compiler v1.8.7 built with the GNU C compiler v1.8.11 built with the Open64 4.5.2 compiler for AMD Bulldozer only v1.8.11 built with the PGI 12.10 compiler for AMD Bulldozer only v1.8.16 built with the GNU C.. Read more »<\/a><\/p>\n","protected":false},"author":2,"featured_media":0,"parent":31,"menu_order":0,"comment_status":"open","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-513","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/pages\/513","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/comments?post=513"}],"version-history":[{"count":13,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/pages\/513\/revisions"}],"predecessor-version":[{"id":3480,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/pages\/513\/revisions\/3480"}],"up":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/pages\/31"}],"wp:attachment":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/wp-json\/wp\/v2\/media?parent=513"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}Restrictions on use<\/h2>\n
Set up procedure<\/h2>\n
\r\n# Includes MPI I\/O support but does not<\/strong> have the C++ interface compiled (a limitation of HDF)\r\nmodule load apps\/gcc\/hdf5\/1.8.16-mpi\r\n #\r\n # Before loading this modulefile you should load one of the\r\n # following MPI modulefiles:\r\n # module load mpi\/gcc\/openmpi\/1.6\r\n # module load mpi\/gcc\/openmpi\/1.6-ib\r\n\r\n\r\n# No MPI I\/O support but does have the C++ interface compiled.\r\nmodule load apps\/gcc\/hdf5\/1.8.16\r\nmodule load apps\/gcc\/hdf5\/1.8.7\r\n\r\n# Older Intel compiler build\r\nmodule load libs\/intel-11.1\/hdf\/5\/1.8.6 # Note the different hdf\/5\/ naming convention\r\n\r\n# Newer Intel compiler build\r\nmodule load libs\/intel-15.0\/hdf\/t\/1.8.16\r\n\r\n# Suitable for using on AMD Bulldozer\r\nmodule load libs\/open64-4.5.2\/hdf\/5\/1.8.11 # Note the different hdf\/5\/ naming convention\r\nmodule load libs\/pgi-12.10\/hdf\/5\/1.8.11-ib-amd-bd # Note the different hdf\/5\/ naming convention\r\n<\/pre>\n
Running the application<\/h2>\n
HDF5DIR<\/code> which can then be used in your compilation process (e.g., in a Makefile) to access the header and library files:<\/p>\n\n
-I$HDF5DIR\/include<\/code> on the command line<\/li>\n-L$HDF5DIR\/lib -lhdf5<\/code> on the command line<\/li>\n$(HDF5DIR)<\/code> rather than $HDF5DIR<\/code>.<\/li>\n<\/ul>\n\r\ngcc -I$HDF5DIR\/include ex_hdf5.c -o ex_hdf5 -L$HDF5DIR\/lib -lhdf5\r\n #\r\n # Use mpicc if compiling MPI code that uses the hdf5 library\r\n<\/pre>\n
h5<\/code> tools. Use ls $HDF5BIN<\/code> to see all binary tools.<\/p>\nFurther info<\/h2>\n
$HDF5DIR\/share\/hdf5_examples\/<\/code><\/p>\nUpdates<\/h2>\n