Difference between revisions of "Creating run directories for GEOS-Chem 13.0.0 and later"

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#[[Running GEOS-Chem|Running]]
 
#[[Running GEOS-Chem|Running]]
 
#[[GEOS-Chem output files|Output files]]
 
#[[GEOS-Chem output files|Output files]]
#[[Guide_to_visualization_and_analysis_tools_for_GEOS-Chem|Visualizing and processing output]]
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#[[Python tools for use with GEOS-Chem]]
 
#[[GEOS-Chem_coding_and_debugging|Coding and debugging]]
 
#[[GEOS-Chem_coding_and_debugging|Coding and debugging]]
 
#[[GEOS-Chem_overview#Further_reading|Further reading]]
 
#[[GEOS-Chem_overview#Further_reading|Further reading]]
  
  
== Overview ==
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This content has been migrated to the [https://geos-chem.readthedocs.io/en/latest/gcc-guide/02-build/create-rundir.html '''Create a run directory''' chapter of <tt>geos-chem.readthedocs.io</tt>].
 
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We have greatly simplified run directory creation in [[GEOS-Chem 13.0.0]] and later versions.  You no longer need to download the separate [[GEOS-Chem Unit Tester]] repository any longer, but can create run directories from a script in the GEOS-Chem source code itself.
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We have
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== Example 1: Creating a run directory for a full-chemistry simulation ==
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Let us walk through the process of creating a run directory for a global GEOS-Chem full-chemistry simulation.
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'''1.''' Navigate to the <tt>GCClassic</tt> superproject folder and get a directory listing:
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cd /path/to/your/GCClassic
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ls -CF
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You should see this output:
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CMakeLists.txt  LICENSE  run@  src/
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As mentioned previously, <tt>run@</tt> is a symbolic link.  It actually points to the to the <tt>src/GEOS-Chem/run/GCClassic</tt> folder.  This folder contains several scripts and template files for run directory creation.
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'''2.'''  Navigate to the <tt>run</tt> folder and get a directory listing:
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cd run
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ls -CF
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and you should see this output:
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archiveRun.sh*    gitignore                  HISTORY.rc.templates/  runScriptSamples/
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createRunDir.sh*  HEMCO_Config.rc.templates/  input.geos.templates/
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getRunInfo*      HEMCO_Diagn.rc.templates/  README
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You can see several folders (highlighted in the directory display with <tt>/</tt>) and a few executable scripts (highlighted with <tt>*</tt>).  The script we are interested in is <tt>createRunDir.sh</tt>.
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'''3.''' Run the createRunDir.sh script and answer the prompts:
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Run the  <tt>/createRunDir.sh</tt> script:
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./createRunDir.sh
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The script will start asking you to supply information about the type of run directory that you wish to create:
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===========================================================
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GEOS-CHEM RUN DIRECTORY CREATION
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===========================================================
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-----------------------------------------------------------
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Choose simulation type:
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-----------------------------------------------------------
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    1. Full chemistry
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    2. Aerosols only
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    3. CH4
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    4. CO2
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    5. Hg
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    6. POPs
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    7. Tagged CH4
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    8. Tagged CO
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    9. Tagged O3
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  10. TransportTracers
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We would to create a run directory for a full-chemistry simulation, so type <tt>1</tt> followed by the <tt>ENTER</tt> key.  The script will prompt you with the next menu.
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-----------------------------------------------------------
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Choose chemistry domain:
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-----------------------------------------------------------
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  1. Troposphere + stratosphere (Recommended)
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  2. Troposphere only
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We will select the recommended option (type <tt>1</tt> and then <tt>ENTER</tt>. The next menu will appear:
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-----------------------------------------------------------
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Choose additional simulation option:
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-----------------------------------------------------------
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  1. Standard
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  2. Benchmark
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  3. Complex SOA
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  4. Marine POA
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  5. Acid uptake on dust
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  6. TOMAS
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  7. APM
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  8. RRTMG
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In this menu, you can select among different full-chemistry options (such as adding the RRTG
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----
 
----
 
'''''[[Creating GEOS-Chem run directories|Previous]] | [[Creating run directories for GEOS-Chem 12.9.3 and prior|Next]] | [[Getting Started with GEOS-Chem]]'''''
 
'''''[[Creating GEOS-Chem run directories|Previous]] | [[Creating run directories for GEOS-Chem 12.9.3 and prior|Next]] | [[Getting Started with GEOS-Chem]]'''''

Latest revision as of 20:59, 3 August 2022

Previous | Next | Getting Started with GEOS-Chem

  1. Minimum system requirements
  2. Installing required software
  3. Configuring your computational environment
  4. Downloading source code
  5. Downloading data directories
  6. Creating GEOS-Chem run directories
  7. Configuring runs
  8. Compiling
  9. Running
  10. Output files
  11. Python tools for use with GEOS-Chem
  12. Coding and debugging
  13. Further reading


This content has been migrated to the Create a run directory chapter of geos-chem.readthedocs.io.



Previous | Next | Getting Started with GEOS-Chem