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Below are steps to compile a program which uses hdf5.

Load the appropriate hdf5+compiler module

Use module avail to see a list of hdf5+compiler options. Below is one possible choice:

module load hdf5_1.8.13-icc_15.0

Compiling using a Makefile

If you are using a Makefile then inside your Makefile you should have lines similar to below:

FFLAGS = -O3 -fp-model source -I/sw/hdf5-1.8.13_icc-15.0/include

LDFLAGS = -L/usr/lib64 -L/sw/hdf5-1.8.13_icc-15.0/lib -lhdf5

Now you can run make.

Compiling at command line

If you are compiling your code at the command line then you should issue commands similar to below commands:

export FFLAGS = -O3 -fp-model source -I/sw/hdf5-1.8.13_icc-15.0/include

export LDFLAGS = -L/usr/lib64 -L/sw/hdf5-1.8.13_icc-15.0/lib -lhdf5

Now you can run the compiler.


(1) The "-O3 -fp-model source" and "-L/usr/lib64" can be replaced by your choice of compiler and linker flags.

(2) The underscores and dashes in the module name and corresponding directory on /sw are not at the same place.

(3) More details are here:

(4) Use below command to find location of hdf5:

    which h5cc

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