GEOS-5 Quick Start: Difference between revisions

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*''plot'' (containing an incomplete plotting job script)

The post-processing script will complete (i.e., add necessary commands to) the archiving and plotting scripts as it runs. The setup script that you ran also creates a directory under ~~your~~ home directory containing the run scripts and GEOS resource (''.rc'') files.

The post-processing script will complete (i.e., add necessary commands to) the archiving and plotting scripts as it runs. The setup script that you ran also creates an experiment home directory under the user home directory containing the run scripts and GEOS resource (''.rc'') files.

The run scripts need some more environment variables -- here are the minimum contents of a ''.cshrc'':

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setenv LD_LIBRARY_PATH ${LIBRARY_PATH}:${BASEDIR}/${arch}/lib

where ''.g5_modules'' is simply a copy of the ''g5_modules'' that you ran earlier.

where ''.g5_modules'' is simply a copy of the ''g5_modules'' that you ran earlier before compiling.

Copy the *rst and cap_restart files into the experiment directory EXPDIR, by default under /discovery/nobackup/USERNAME . Keep the "originals" handy since if the model crashes early in the run it might have renamed them ~~and put~~ them in the ~~EXPDIR~~/~~restarts/ directory~~.

Copy the restart (initial condition) and '''cap_restart''' (t=t0) files into the experiment directory EXPDIR, by default under /discovery/nobackup/USERNAME . Keep the "originals" handy since if the model crashes early in the run it might have renamed them. The model expects restarts to end in "rst" but produces them with the date at time appended to the filename, so you may have to rename them. The '''cap_restart''' file is simply one line with the format "YYYYMMDD HHMMSS". The boundary conditions/forcings are provided by symbolic links created by the run script.

For the moment, you will have to change RC/Chem_Registry.rc so that everything under "Active Constituents" besides doing_PC is "no".

@@ Line 45: / Line 45: @@
 *''plot''  (containing an incomplete plotting job script)
-The post-processing script will complete (i.e., add necessary commands to) the archiving and plotting scripts as it runs.  The setup script that you ran also creates a directory under your home directory containing the run scripts and GEOS resource (''.rc'') files.
+The post-processing script will complete (i.e., add necessary commands to) the archiving and plotting scripts as it runs.  The setup script that you ran also creates an experiment home directory under the user home directory containing the run scripts and GEOS resource (''.rc'') files.
 The run scripts need some more environment variables -- here are the minimum contents of a ''.cshrc'':
@@ Line 56: / Line 58: @@
   setenv LD_LIBRARY_PATH ${LIBRARY_PATH}:${BASEDIR}/${arch}/lib
-where ''.g5_modules'' is simply a copy of the ''g5_modules'' that you ran earlier.
+where ''.g5_modules'' is simply a copy of the ''g5_modules'' that you ran earlier before compiling.
-Copy the *rst and cap_restart files into the experiment directory EXPDIR, by default under /discovery/nobackup/USERNAME .   Keep the "originals" handy since if the model crashes early in the run it might have renamed them and put them in the EXPDIR/restarts/ directory.
+Copy the restart (initial condition) and '''cap_restart''' (t=t0) files into the experiment directory EXPDIR, by default under /discovery/nobackup/USERNAME .   Keep the "originals" handy since if the model crashes early in the run it might have renamed them.  The model expects restarts to end in "rst" but produces them with the date at time appended to the filename, so you may have to rename them.   The '''cap_restart''' file is simply one line with the format "YYYYMMDD HHMMSS".  The boundary conditions/forcings are provided by symbolic links created by the run script.
 For the moment, you will have to change RC/Chem_Registry.rc so that everything under "Active Constituents" besides doing_PC is "no".