GEOS-5 Checkout and Build Instructions: Difference between revisions

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In what follows I will assume we are working on the NCCS computer '''discover'''.

Before we get going, let's make some light edits to your .cshrc file. First, near the top of your .cshrc file add the word:

unlimit

We're not sure what this means, but Arlindo says it is important.

Next, let's setup an environment variable GEOSUTIL that points to the GEOS_Util directory in your model build. In my case, it looks something like:

setenv GEOSUTIL /home/colarco/GEOSagcm/src/Shared/GEOS_Util

The GEOS_Util stuff is needed by the post-processing scripts.

Finally, let's make sure that your binaries from your compiled GEOS-5 code are in your path. Include the following line somewhere in your .cshrc file:

setenv PATH .:/home/colarco/GEOSagcm/Linux/bin:$PATH

where obviously you replace the particular path to my binaries (/home/colarco/GEOSagcm/Linux/bin) with your path. Note what this implies: it won't be a good idea to move or clean this directory while the model is running!

=== Decide on Your Experiment ID and Setup the Associated Directories ===

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=== Run the Simulation ===

~~One thing to do before running the code: let's make sure that your binaries from your compiled GEOS-5 code are in your path. Include the following line somewhere in your .cshrc file:~~

~~setenv PATH .:/home/colarco/GEOSagcm/Linux/bin:$PATH~~

where obviously you replace the particular path to my binaries (/home/colarco/GEOSagcm/Linux/bin) with your path. Note what this implies: it won't be a good idea to move or clean this directory while the model is running!

At this point we're ready to take a crack at running the model. Go into your experiment home directory (e.g., /home/colarco/geos5/dragnet). You can start the model job by issuing:

% qsub gcm_run.j

And check the progress by issuing:

% qstat | grep YOUR_USERNAME

@@ Line 104: / Line 104: @@
 In what follows I will assume we are working on the NCCS computer '''discover'''.
+Before we get going, let's make some light edits to your .cshrc file.  First, near the top of your .cshrc file add the word:
+ unlimit
+We're not sure what this means, but Arlindo says it is important.
+Next, let's setup an environment variable GEOSUTIL that points to the GEOS_Util directory in your model build.  In my case, it looks something like:
+ setenv GEOSUTIL /home/colarco/GEOSagcm/src/Shared/GEOS_Util
+The GEOS_Util stuff is needed by the post-processing scripts.
+Finally, let's make sure that your binaries from your compiled GEOS-5 code are in your path.  Include the following line somewhere in your .cshrc file:
+ setenv PATH .:/home/colarco/GEOSagcm/Linux/bin:$PATH
+where obviously you replace the particular path to my binaries (/home/colarco/GEOSagcm/Linux/bin) with your path.  Note what this implies: it won't be a good idea to move or clean this directory while the model is running!
 === Decide on Your Experiment ID and Setup the Associated Directories ===
@@ Line 195: / Line 208: @@
 === Run the Simulation ===
-One thing to do before running the code: let's make sure that your binaries from your compiled GEOS-5 code are in your path.  Include the following line somewhere in your .cshrc file:
- setenv PATH .:/home/colarco/GEOSagcm/Linux/bin:$PATH
-where obviously you replace the particular path to my binaries (/home/colarco/GEOSagcm/Linux/bin) with your path.  Note what this implies: it won't be a good idea to move or clean this directory while the model is running!
 At this point we're ready to take a crack at running the model.  Go into your experiment home directory (e.g., /home/colarco/geos5/dragnet).  You can start the model job by issuing:
   % qsub gcm_run.j
 And check the progress by issuing:
   % qstat | grep YOUR_USERNAME