In your .bashrc or .tcshrc or other rc file add a line:
module use -a /discover/swdev/gmao_SIteam/modulefiles-SLES12
module use -a /nobackup/gmao_SIteam/modulefiles
On the GMAO desktops, the SI Team modulefiles should automatically be
part of running module avail but if not, they are in:
module use -a /ford1/share/gmao_SIteam/modulefiles
Also do this in any interactive window you have. This allows you to get module files needed to correctly checkout and build the model.
Now load the GEOSenv module:
module load GEOSenv
which obtains the latest git, CMake, and mepo modules.
On GitHub, there are three ways to clone the model: SSH, HTTPS, or GitHub CLI.
The first two are "git protocols" which determine how git communicates with
GitHub: either through https or ssh. (The latter is a CLI that uses either ssh or
https protocol underneath.)
For developers of GEOSadas, the SSH git protocol is recommended as it can avoid some issues if two-factor authentication (2FA) is enabled on GitHub.
To clone the GEOSadas using the SSH url (starts with [email protected]), you run:
git clone [email protected]:GEOS-ESM/GEOSadas.git
If this is your first time using GitHub with any SSH URL, you might get this error:
Permission denied (publickey).
fatal: Could not read from remote repository.
Please make sure you have the correct access rights
and the repository exists.
If you do see this, you need to upload an ssh key to your GitHub account. This needs to be done on any machine that you want to use the SSH URL through.
To clone the model through HTTPS you run:
git clone https://github.com/GEOS-ESM/GEOSadas.git
Note that if you use the HTTPS URL and have 2FA set up on GitHub, you will need to use personal access tokens as a password.
You can also use the GitHub CLI with:
gh repo clone GEOS-ESM/GEOSadas
Note that when you first use gh, it will ask what your preferred git protocol
is (https or ssh) to use "underneath". The caveats above will apply to whichever
you choose.
An important note is for users to realize that cloning of the Fixture does not give a complete set of required components to work or build the ADAS. Only by doing a "mepo clone" (below) or by running the "parallel_build" script (which embeds the mepo call; below) will the user extract of full set of source components. Before users start working with the ADAS, it is highly recommended they clone the whole system by using either one of these modes.
If all you wish is to build the model, you can run parallel_build.csh from a head node. Doing so will checkout all the external repositories of the model and build it. When done, the resulting model build will be found in build/ and the installation will be found in install/ with setup scripts like gcm_setup and fvsetup in install/bin.
To obtain a debug version, you can run parallel_build.csh -debug which will build with debugging flags. This will build in build-Debug/ and install into install-Debug/.
The steps detailed below are essentially those that parallel_build.csh performs for you. Either method should yield identical builds.
The GEOS ADAS is comprised of a set of sub-repositories. These are
managed by a tool called mepo. To
clone all the sub-repos, you can run mepo clone inside the fixture:
cd GEOSadas
mepo clone
The first command initializes the multi-repository and the second one
clones and assembles all the sub-repositories according to
components.yaml
On tcsh:
source @env/g5_modules
or on bash:
source @env/g5_modules.sh
We currently do not allow in-source builds of GEOSadas. So we must make a directory:
mkdir build
The advantages of this is that you can build both a Debug and Release version with the same clone if desired.
CMake generates the Makefiles needed to build the model.
cd build
cmake .. -DBASEDIR=$BASEDIR/Linux -DCMAKE_Fortran_COMPILER=ifort -DCMAKE_INSTALL_PREFIX=../install
This will install to a directory parallel to your build directory. If you prefer to install elsewhere change the path in:
-DCMAKE_INSTALL_PREFIX=<path>
and CMake will install there.
make -jN install
where N is the number of parallel processes. On discover head nodes, this should only be as high as 2 due to limits on the head nodes. On a compute node, you can set N from 6 to 10 which is about the limit of useful parallelism in our model's make system.
NOTE: Do not use make -j install with GEOSadas. The GEOSadas has a lot of parallelism at the beginning and the build system will gladly build as much as it can at the same time. However, the license server for the Intel compiler on discover will quickly lock up as each process accesses it, and will "break" the Intel compiler for all other users.
Once the model has built successfully, you will have an install/ directory in your checkout. To run gcm_setup go to the install/bin/ directory and run it there:
cd install/bin
./gcm_setup
Documentation for Running the ADAS can be found in the GEOS ADAS Wiki page https://github.com/GEOS-ESM/GEOSadas/wiki
Please check out our contributing guidelines.
All files are currently licensed under the Apache-2.0 license, see LICENSE.
Previously, the code was licensed under the NASA Open Source Agreement, Version 1.3.