visit
VisIt: Advanced parallel visualisation tool which can be used to inspect currently running FVCOM model outputs (e.g. http://fvcom.smast.umassd.edu/FVCOMinVISIT/index.html).
There are some precompiled packages for Ubuntu and Red Hat Enterprise Linux, but neither were suitable for us at PML. To get VisIt running on a Fedora 17 machine, the following steps can be taken. These steps should apply equally to any version of Linux.
Download the build script
wget http://portal.nersc.gov/svn/visit/trunk/releases/2.6.2/build_visit2_6_2
Make it executable
chmod +x build_visit2_6_2
And execute it
./build_visit2_6_2
You will be presented with a screen with a series of options.
[*] Groups select 3rd party and advanced build
[ ] Custom select custom flags provided by each module
[ ] SVN get sources from SVN server
[ ] Tarball specify VisIt tarball name
[ ] Parallel specify parallel build flags
[ ] Python enable VisIt python module
[ ] Java enable java client library
[ ] Fortran enable fortran in third party libraries
[ ] SLIVR enable SLIVR volume rendering library
[ ] EnvVars specify build environment var values
[ ] Advanced display advanced options
To enable FVCOM support in the compiled version, you need to ensure that the NetCDF libraries are enabled when building VisIt. These are part of the enable the following options:
[*] required All required libraries
[ ] Customize(required) Customize selection of required
[ ] optional All optional libraries
[ ] Customize(optional) Customize selection of optional
[ ] no-thirdparty Do not build required 3rd party libraries
[ ] Customize(no-thirdparty) Customize selection of no-thirdparty
[*] all-io Build all available I/O libraries
[*] Customize(all-io) Customize selection of all-io
[ ] dbio-only Disables EVERYTHING but I/O.
[ ] Customize(dbio-only) Customize selection of dbio-only
[ ] nonio Build non I/O libraries
[ ] Customize(nonio) Customize selection of nonio
[ ] advanced Must be manually downloaded
[ ] Customize(advanced) Customize selection of advanced
By selecting the Customize(all-io) option, a second list of options is presented wherein the NetCDF libraries can be selected to be compiled without compiling the other input/output libraries (see below). If you know all you will use is FVCOM (and NetCDF files in general) with VisIt, this should be fine, otherwise, deselect the Customize(all-io) option and let the build script compile all input/output functionality.
[ ] adios Enable/Disable adios library
[ ] advio Enable/Disable advio library
[ ] boxlib Enable/Disable boxlib library
[ ] ccmio Enable/Disable ccmio library
[ ] cfitsio Enable/Disable cfitsio library
[ ] cgns Enable/Disable cgns library
[ ] exodus Enable/Disable exodus library
[ ] fastbit Enable/Disable fastbit library
[ ] gdal Enable/Disable gdal library
[ ] h5part Enable/Disable h5part library
[ ] hdf5 Enable/Disable hdf5 library
[ ] mxml Enable/Disable mxml library
[*] netcdf Enable/Disable netcdf library
[ ] silo Enable/Disable silo library
[ ] szip Enable/Disable szip library
[ ] xdmf Enable/Disable xdmf library
Select OK to begin the download and build process. This will take a long time (on my machine it took ~6 hours).
Alternatively, run the following command to build a minimal install with only with NetCDF support (which should be quicker):
./build_visit2_6_2 --prefix /opt/visit/ --python-module --required \
--visit --system-cmake --system-python --netcdf --console
This will install VisIt into /opt/visit. Change the path to whatever you want, or omit the --prefix /opt/visit section to install into the current directory.
I (Pierre) specifically built it with the following command:
./build_visit2_6_2 --all-io --optional --required --visit --netcdf \
--hdf5 --silo --szip --pyside --mxml --gdal --fastbit --exodus \
--advio --adios --vtk --system-qt --system-python \
--system-cmake --slivr --console
[*] Groups select 3rd party and advanced build
[ ] Custom select custom flags provided by each module
[ ] SVN get sources from SVN server
[ ] Tarball specify VisIt tarball name
[ ] Parallel specify parallel build flags
[ ] Python enable VisIt python module
[ ] Java enable java client library
[ ] Fortran enable fortran in third party libraries
[ ] SLIVR enable SLIVR volume rendering library
[ ] EnvVars specify build environment var values
[ ] Advanced display advanced options
[*] required All required libraries
[ ] Customize(required) Customize selection of required
[ ] optional All optional libraries
[ ] Customize(optional) Customize selection of optional
[ ] no-thirdparty Do not build required 3rd party libraries
[ ] Customize(no-thirdparty) Customize selection of no-thirdparty
[ ] all-io Build all available I/O libraries
[*] Customize(all-io) Customize selection of all-io
[ ] dbio-only Disables EVERYTHING but I/O.
[ ] Customize(dbio-only) Customize selection of dbio-only
[ ] nonio Build non I/O libraries
[ ] Customize(nonio) Customize selection of nonio
[ ] advanced Must be manually downloaded
[ ] Customize(advanced) Customize selection of advanced
[ ] adios Enable/Disable adios library
[ ] advio Enable/Disable advio library
[ ] boxlib Enable/Disable boxlib library
[ ] ccmio Enable/Disable ccmio library
[ ] cfitsio Enable/Disable cfitsio library
[ ] cgns Enable/Disable cgns library
[ ] exodus Enable/Disable exodus library
[ ] fastbit Enable/Disable fastbit library
[ ] gdal Enable/Disable gdal library
[ ] h5part Enable/Disable h5part library
[ ] hdf5 Enable/Disable hdf5 library
[ ] mxml Enable/Disable mxml library
[*] netcdf Enable/Disable netcdf library
[ ] silo Enable/Disable silo library
[ ] szip Enable/Disable szip library
[ ] xdmf Enable/Disable xdmf library
Background
=== FVCOM Wiki ===
User guide
-
Additional information of less frequent usage in no particular order
How to cite
Licensing and copyright
Acknowledgements
Policy
