Re: [netcdfgroup] Building netCDF 4.3.1-rc1 with parallel I/O support fails

• To: Stefan Mauerberger <stefan.mauerberger@xxxxxxxxx>
• Subject: Re: [netcdfgroup] Building netCDF 4.3.1-rc1 with parallel I/O support fails
• From: Orion Poplawski <orion@xxxxxxxxxxxxx>
• Date: Mon, 26 Aug 2013 15:01:46 -0600

On 08/26/2013 07:21 AM, Stefan Mauerberger wrote:

Hello there,

first of all, building serial netCDF on Ubuntu 12.10 works fine.
Therefore I installed the packages libhdf5-dev and libhdf5-7 1.8.8-9.
All tests pass through.

Well, in INSTALL.cmake lines 72 and 90 are wrong. They should better
read as
     cmake ./ -DCMAKE_INSTALL_PREFIX=$HOME/local ...
instead of
     ./cmake
In addition between lines 72-73 and 90-91 a 'make' is missing.

In contrast to serial netCDF, I can not build netCDF with parallel I/O
support. Both CMake and ./configure complain that there is no hdf5.h
header file.

Let me explain first what I have done so far. The packages libhdf5-dev
and libhdf5-7 got replaced by there MPI counterparts. That are
libhdf5-openmpi-dev and libhdf5-openmpi-7 also version 1.8.8-9.
After that I tried to run
     CC=mpicc.openmpi cmake . -DENABLE_PARALLEL=ON
-DCMAKE_INSTALL_PREFIX=$HOME/local/
Unfortunately the output is:

....
-- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version
"7.27.0")
CMake Error at CMakeLists.txt:572 (CHECK_LIBRARY_EXISTS):
   CHECK_LIBRARY_EXISTS Macro invoked with incorrect arguments for
macro
   named: CHECK_LIBRARY_EXISTS


CMake Error at CMakeLists.txt:576 (CHECK_LIBRARY_EXISTS):
   CHECK_LIBRARY_EXISTS Macro invoked with incorrect arguments for
macro
   named: CHECK_LIBRARY_EXISTS


-- Cannot find HDF5 library built with parallel support. Disabling
parallel build.
-- Looking for math.h
-- Looking for math.h - found
....

Well, HDF5 with parallel IO support is installed. Why doesn't cmake
(2.8.9) as well as the configure script find it? Any ideas?

I have to explicitly give the location of the parallel hdf5 library, e.g.:

-DENABLE_PARALLEL=ON
-DHDF5_LIB=/usr/lib64/openmpi/lib/libhdf5.so
-DHDF5_HL_LIB=/usr/lib64/openmpi/lib/libhdf5_hl.so
-DHDF5_INCLUDE_DIR=/usr/include/openmpi-x86_64



--
Orion Poplawski
Technical Manager                     303-415-9701 x222
NWRA, Boulder/CoRA Office             FAX: 303-415-9702
3380 Mitchell Lane                       orion@xxxxxxxx
Boulder, CO 80301                   http://www.nwra.com

• Follow-Ups:
  • Re: [netcdfgroup] Building netCDF 4.3.1-rc1 with parallel I/O support fails
    • From: Gerry Creager - NOAA Affiliate

• References:
  • [netcdfgroup] Building netCDF 4.3.1-rc1 with parallel I/O support fails
    • From: Stefan Mauerberger