Compiling wgrib2 v3.0.2+
1) Download ftp://ftp.cpc.ncep.noaa.gov/wd51we/wgrib2/wgrib2.tgz
or https://ftp.cpc.ncep.noaa.gov/wd51we/wgrib2/wgrib2.tgz
2) remove pre-existing grib2 directory if exists: rm -r grib2
3) untar wgrib2.tgz: tar -xzvf wgrib2.tgz (use gnu tar)
4) cd to main directory: cd grib2
For wgrib2 upto v3.1.2 .. add AEC support for ECMWF files
5) edit makefile
6) change USE_AEC=0 to USE_AEC=1
The makefile uses two and one optional environment variables that have to be set.
With wgrib2 v3.0.2, you need to set $CC and $FC, and the makefile tries to identify
$COMP_SYS from "uname -a". However, if the makefile cannot identify your system,
$COMP_SYS will not be set. If your compilers are gcc and gfortran, you can
try compiling wgrib2 with COMP_SYS=gnu_linux.
linux, bsd-type OS, gcc/gfortran compilers: COMP_SYS=gnu_linux
CC=gcc
FC=gfortran
linux, AOCC: COMP_SYS=clang_linux
CC=clang
FC=flang
linux, icc and ifort: COMP_SYS=intel_linux
CC=icc
FC=ifort
linux, icx and ifx: requires wgrib2 v3.1.2 COMP_SYS=oneapi_linux
(needs src code bug fix) CC=icx
FC=ifx
linux, Nvidia HPC SDK COMP_SYS=nvidia_linux
CC=nvc
FC=nvfortran
Windows, cygwin gcc and gfortran: COMP_SYS=cygwin_win
CC=gcc
FC=gfortran
MacOS, real gcc and gfortran: COMP_SYS=gnu_mac
CC=gcc
not recently tested AIX, gnu_linux_g95, open64
If COMP_SYS is not defined, the makefile will attempt to determine the COMP_SYS.
8) set environment variables and make, example
export CC=gcc (bash version)
export FC=gfortran
export COMP_SYS=gnu_linux (optional in linux)
make (to make wgrib2)
make lib (to make wgrib2 library)
For NCEP's WCOSS-2. see the question on lib64, and WCOSS-2.
AEC and ECMWF files
ECMWF started using AEC compression (type 42) June 2023. The default wgrib2 v3.1.2 and earlier
did not include AEC compression in the default build because building it requires a
recent version of CMake. Some sites, like my workplace, do not provide CMake. So I
cannot (June 2023) build the AEC library at work.
Now that ECMWCF is distributing files with AEC compression, wgrib2 v3.1.3 will include
AEC compression as default.
Intel Compilers
The Intel C compiler will not compile the Jasper library (jpeg2000 support).
To get jpeg2000 support, you will either have to use OpenJPEG or compile
Jasper with the gnu compiler. The makefile will automatically use gcc when
trying to build the Jasper library when the classic Intel compilers are used.
Compiling wgrib2 using the Intel compilers on Windows is possible but is
not supported. (Grib files will be limited to 2 GB, and I have no way to test.)
To compile with the intel compilers on linux,
Classic compilers
export CC=icc
export FC=ifort
export COMP_SYS=intel_linux
make
LLVM compilers (wgrib2 v3.1.2+)
need to use OpenJPEG instead of Jasper
export CC=icx
export FC=ifx
export COMP_SYS=oneapi_linux
make
Compiling with Cygwin (Windows)
The only Windows C compiler supported is Cygwin's gcc.
The other Windows C compilers follow Microsoft's lead where
a "long int" is 32-bits on a 64 bit operating system. Wgrib2
will work with a 32-bit long int but will limit a grib file
to barely acceptable 2GB size. Cygwin's gcc also supports POSIX
which means that you don't have to turn off features that require POSIX.
Compiling in MacOS
You need to use compile with gcc and gfortran. The default MacOS
installation has gcc pointing to clang. You can get the real deal
from homebrew.
With wgrib2 v3.0.0, MacOS support is now builtin. For prior
releases, there have been nice pages which detail the compiling process.
With wgrib2 v3.1.2, you have to turn off proj support.
Compiling with other compilers
There is no support for other compilers. At one time, AIX was
supported until our machines were scraped (2012). Use to support
gcc/g95 and the open64 compilers until development was stopped on
g95 and open64. I haven't tried the Cray compilers because
the Crays are already well supported by gcc/gfortran, icc/ifort
and clang/flang.
While there is no support for other compilers, the wgrib2 source
code was written to be operating system, compiler and hardware independant. The only
limitation is that integers need to be 32+ bits long. The only compiler/hardware
feature is an optional optimization to replace a loop with a __builtin_clz()
which works when GNUC >= 4. The main difficulties with porting to another
system should be in the libraries and disabling POSIX features.
Makefile Options
There are many options that are documented in the makefile (grib2/makefile).
There are options to remove features that require POSIX support. There are
options to remove libraries that are not public domain or not under a GNU license.
There are options for code that may be difficult to cross-compile.
Python Support, make a shared library
Python support requires a shared wgrib2 library. This option
only works for gnu/linux, gnu/MacOS, gnu/Windows, nvidia/linux AOCC/linux, icx/ifx.
MAKE_SHARED_LIB=1
note: to make the shared library $ make clean
$ make lib
shared library will be in lib/
Grib names
With wgrib2 v3.0.2, the grib variable names are shown using the
DWD, ECMWF or NCEP tables. The locally defined variable names are
shown by the table of the local center. This option sets the default
grib table.
Not all names could be
accommadated because some of the names had level, timing information
This feature is more beta because of the difficulty with level
and timing information in the variable names.
USE_NAMES=NCEP use NCEP name (default)
USE_NAMES=ECMWF use ECMWF names
USE_NAMES=DWD1 use DWD names, DWD has two center ids.
NetCDF
- Option 1: No NetCDF support
- fastest compile
- small executable (3.9 MB as of 2014)
- compile works on 32+ bit machines
- cannot read nor write NetCDF files
- no library conflicts in wgrib2lib when calling program
uses netcdf or hdf
- makefile configuration: USE_NETCDF3=0, USE_NETCDF4=0
- Option 2: NetCDF3 support (default in makefile)
- fast compile
- modest increase in executable size (5.7 MB vs 3.9 MB as of 2014)
- compile may fail on 32-bit machines
- library conflict in wgrib2lib when calling program that uses netcdf
- makefile configuration: USE_NETCDF3=1, USE_NETCDF4=0
- Option 3: NetCDF4 compile libraries
- slow compile time (hours on an Intel Apollo Lake)
- 3.5x increase in executable size (13.5 MB vs 3.9 MB as of 2014)
- makefile configuration: before wgrib2 v3.1.2 USE_NETCDF3=0, USE_NETCDF4=1
- makefile configuration: wgrib2 v3.1.2+ USE_NETCDF3=0, USE_NETCDF4=compile, USE_HDF5=compile
- may or may not work
- User is resonsible for validating the results using the netcdf4/hdf5 libraries.
- library conflict in wgrib2lib when calling program also uses netcdf
- prompts for downloading netcdf4/hdf5 libraries
- Option 4: NetCDF4 and HDF5 system libraries (v3.1.2+)
- In some systems, the netcdf4 and hdf5 libraries are automatically found
- makefile configuration: wgrib2 v3.1.2+ USE_NETCDF3=0, USE_NETCDF4=system, USE_HDF5=system
- User is resonsible for validating the results using the netcdf4/hdf5 libraries.
- Option 5: NetCDF4 and HDF5 libraries installed (v3.1.2+)
- makefile configuration: wgrib2 v3.1.2+ USE_NETCDF3=, USE_NETCDF4=A:B, USE_HDF5=C:D
- A=directory of the NetCDF4 includes
- B=directory of the NetCDF4 libraries
- C=directory of the HDF5 includes
- D=directory of the HDF5 libraries
- User is resonsible for validating the results using the netcdf4/hdf5 libraries.
The NetCDF4 option is currently unsupported (10/2020). Compiling
NetCDF/HDF5 is strongly dependent on the compiler and linux distribution.
Testing has been a pain as some errors only occur in specific situations.
The user needs verify that NetCDF/HDF5 is working.
JPEG2000: Jasper, OpenJPEG
With wgrib2 v3.0.0, jpeg2000 compression can be handled by either the
Jasper or OpenJPEG library. Both libraries are equally slow and files are
roughly the same size. (I haven't tried compiling OpenJPEG with AVX2.)
The advantages with the Jasper library is that the last problem with the Jasper library was fixed
may years ago. The disadvantage with Jasper is that support may be lacking and
it doesn't compile with several C compilers.
The advantage with OpenJPEG is the support is ongoing. The disadvantage is that it requires
cmake to build. Consequently I cannot build and test the OpenJPEG version on my linux
workstation at work. Eventually OpenJPEG will be the default option.
Some libraries are being created in grib2/lib64
Normally the libraries created by the wgrib2 build are stored in
grib2/lib. However, I found one weird machine that put some libraries in grib2/lib64.
One builds many of the libraries by first configuring the build by running
the "./configure" program. The "./configure -help" command says the libraries
will be saved in (whatever)/lib. However, in the weird machine, the
$CONFIG_SITE script changes it ti (whatever)/lib64. In my case, you can
work around this $CONFIG_SITE by
$ make
(crash)
$ cp -r lib64/* lib/
if you want the wgrib2 program
$ make
if you want the wgrib2 library
$ make lib
Missing zlib.h
I haven't been able to reproduce this compiling problem. The png compression requires
both the zlib library and the zlib.h include. I suspect that the libpng configure program
is using the system zlib because it finds the system zlib library. Perhaps the fix is
to install the zlib.h files by installing the "zlib-develop" package. Another fix
is to remove the system zlib and let libpng use the wgrib2-supplied zlib. The third
fix is to diable png compression in the make file. PNG compression
is not very good and I have only seen it used by RADAR files from ESRL.
wgrib2 compile questions
Question: Warnings about parameter type mismatch in fftpack.f"?
Answer:
The file fftpack.f is was written to an old fortran standard
before you had an allocatable array and memory was at a premium.
To save space, a real work array was defined and used in some parts
of the code. The same array was used in other parts of the code
which needed an integer work array. You save memory by using the
same array in both places. It was common practice and the old
compilers didn't complain. Ignore the warnings.
Question: Why do you not support "make install"?
Answer:
"Make install" is not supported by the makefile because
installation is just copying the executable to another location.
There is no obvious default for all systems.
Question: Why do you build japser with the following flags?
--disable-libjpeg --disable-opengl
Answer:
Libjpeg is not needed by wgrib2. The makefile should work when
the system doesn't have libjpeg installed.
Opengl is not needed by wgrib2. Makefile should still work when the
system doesn't have opengl installed.
The wgrib2 makefile compiles the libraries in a manner optimized for wgrib2.
The libraries are not meant for general use. For example, the netcdf library
doesn't have a fortran interface because I want the makefile to
work if a user lacks a fortran compiler.
Question: Why do build zlib and libpng?
Answer: Not all linux distributions include libpng or they give it a
different name. Some linux distributions may have different versions
of libpng and zlib.
Question: Why don't you make netcdf4 the default netcdf package?
Answer:
The Netcdf4/hdf5 libraries are very big and the end result is a long
download time and a large executable. If you decide to compile with
Netcdf4, the make will fail with the commands needed to download
the netcdf4 and hdf5 libraries. After you have download the libraries,
the make should work.
At the current time (9/2020), compiling with the netcdf4 option has been
unsupported for a few years. (Classes of users will have problems and nothing
can be done.) Until recently, the hdf5 library had problems being compiled
with the newer versions of gcc. The latest version will compile with the
gcc included with Ubuntu. However the newest version breaks the -import_netcdf
option with a uninformative hdf5 error message.
Question: Why don't you automatically download the netcdf and hdf5 packages?
Answer:
People concerned about security would not like that action.
Question: I get the error messagee: /bin/sh: ./configure: Permission denied
Answer:
It is possible to configure a filesystem so that the execute bit is
set to zero. Programs and scripts will not execute when they reside
on that filesystem. Try compiling on another filesystem. If that doesn't
work, you are probably not allowed to download programs. The solution
is to ask that your sys admin to compile the program for you. But if
your sys admin will compile code for you, why are you reading this page?
Let him read this page.
Question: Why the options to turn off aec, jpeg2000 and png compression
Answer:
Some HPC machines use one type of cpu and/or OS to compile and
another type of cpu and/or OS to run (cross-compile). Using configure
scripts can be a challenge when cross-compiling. I wanted a reasonable
wgrib2-subset that can be cross-compiled. Consequently all libraries that
that require a configure script are optional.
The configure programs of various libraries may not handle certain
machines or compilers. For example an ARM user had to turn off the
jasper library. Clang on the MacOS may be a problem for the AEC
library.
Question: Why does compiling wgrib2 with the Netcdf option fail?
Answer:
This frequently happens with 32-bit machines. This problem goes away
on a 64-bit platform or if netcdf-4 is used instead of netcdf-3. This
problem is not being addressed because of a lack of 32-bit machines.
Some versions of hdf5 will not compile with modern C compilers.
Question: Why the option to turn off g2clib?
Answer: g2clib is not needed but it can be installed for testing at NCEP.
Question: Why gctpc and proj4? Why not proj4 without gctpc?
Answer: Gctpc and proj4 are both projection libraries and only one is
really needed. Proj4 has more functionality, is modern and has an
active support group. Gctpc is old and is more-or-less unsupported.
On the other hand, gctpc is simpler, works and supports OpenMP like the
rest of wgrib2. Proj4 supports a different threading model. As
grids get larger, you want the speed of gctpc. Both libraries are being
supported in order to help debugging and in the case that a future
grid requires Proj4 support.
Question: Why so many compile options?
Answer:
Some systems or compilers do not support certain POSIX features
Some functionality is not needed by most systems.
Not all systems have fortran, MySQL, or support NetCDF/HDF5.
The code that calls IPOLATES is not using a standard interface.
Some systems do not handle cross-compiling easily.
Some uses of wgrib2 may require a small RAM usage.
Same makefile is used to compile the wgrib2 library.
Some compilers may not support C99 or C11 (future).
Problem: I compiled wgrib2 and when I run it, it complains about
missing libraries.
Answer:
I have the same problem with our Cray. If you compile with the Intel
compilers, you have to load the Intel environment before running the
executables. If you compile with the GNU compilers, you have to load
the GNU environment before running. The way to get around this
problem is to compile wgrib2 with the same compiler that was used
to compile the system commands. (An old version of gcc/gfortran.)
Question: I am compiling with Intel Compilers and amd getting undefined references.
Answer:
If you get an error message to a "ompc" routine like
Ncpu.c:(.text+0x24): undefined reference to `ompc_set_num_threads'
This is because you are using an old Intel compiler. The makefile uses the
current option to enable OpenMP rather than the old option.
Question: Why don't the get_*.sh work?
Answer:
The get_*.sh scripts download tables from the WMO github servers,
and local tables from various centers. My work machine has wget v1.14,
and gets this error.
wget: unable to resolve host address ‘-o-’
My home machine has wget v1.20 and works. The created *.dat file can
be used on machines with an old wget.
Question: how to compile on RedHat 6?
RedHat 6 uses an old version of gcc (v4.4) which doesn't fully support
OpenMP v3.1. You can compile wgrib2 v2.0.8. For a more modern version
of wgrib2, you will have to turn off OpenMP and Proj4 by changeing grib2/makefile
USE_OPENMP=0
USE_PROJ4=0
Of course, moving to a newer version of Redhat means that you getting
more wgrib2 testing. Testing building wgrib2 was tested on RH8 but
not RH6. Future testing will include building on RH7, RH8, Ubuntu v20.04LTS,
and Ubuntu v22.04LTS.
Question: how to compile on WCOSS-2 using icc/ifort?
module install intel/19.1.3.304 module load the intel compiler
export CC=icc
export FC=ifort
make this will fail because of missing libraries
cp lib64/*a lib/ they changed configure to write the libraries to lib64 instead of lib
to make wgrib2: make
to make libwgrib2: make lib
OpenJPEG will not compile on WCOSS-2. OpenJPEG requires the png, tiff, lcms, z libraries
and the WCOSS2 build complains about missing libjbig and liblzma. I see them in /usr/lib64.
Icc/ifort will compile OpenJPEG on my personal machine. I spent enough time with compiling
wgrib2 on this weird machine.
|
NOAA/
National Weather Service
National Centers for Environmental Prediction
Climate Prediction Center
5830 University Research Court
College Park, Maryland 20740
Climate Prediction Center Web Team
Page modified: Dec 29, 2017, Oct 13, 2019, Sep 30, 2020, Oct 2020, Feb 2021, Oct 2021, Jan 2023. Feb 2023
|
Disclaimer
|
Privacy Policy
|
|
|