Compiling source code of netcdf4 on linux

First obtain szip libraries (from the link at http://www.hdfgroup.org/HDF5/release/obtain5.html)
wget http://www.hdfgroup.org/ftp/lib-external/szip/2.1/src/szip-2.1.tar.gz
tar -xzvf szip-2.1.tar.gz
cd szip-2.1

./configure --prefix=/home/acizmeli/opt

make 

make test

make install

Then obtain the hd5 source code  (again from http://www.hdfgroup.org/HDF5/release/obtain5.html)

wget http://www.hdfgroup.org/ftp/lib-external/szip/2.1/src/szip-2.1.tar.gz

tar -xzvf hdf5-1.8.8.tar.gz 

cd hdf5-1.8.8

./configure --prefix=/home/acizmeli/opt  --with-szlib=/home/acizmeli/opt/

(make sure that ./configure has recognized the szip libraries)

make

(or for parallel compilation : ) make -j -16

make install

Then obtain the netcdf4 source :

wget http://www.unidata.ucar.edu/downloads/netcdf/ftp/netcdf-4.2.tar.gz

tar -xzvf netcdf-4.2.tar.gz

cd netcdf-4.2

CPPFLAGS=-I/home/acizmeli/opt/include/ LDFLAGS=-L/home/acizmeli/opt/lib ./configure --prefix=/home/acizmeli/opt/

make

make install

If there is a doxygen error, try adding --disable-doxygen