Difference between revisions of "Main Page"

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|<p><font color="#FFFFFF" size="+3">'''GEOS&#150;Chem Wiki'''</font></p>
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<th colspan="2" height="80" valign="middle"><p><font color="#FFFFFF" size="+3">GEOS&#150;Chem Wiki</font></p></th>
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<blockquote><p align="justify">The [http://acmg.seas.harvard.edu/geos/ GEOS–Chem model] is a global 3-D model of atmospheric composition driven by assimilated meteorological observations from the Goddard Earth Observing System (GEOS) of the [http://www.as.harvard.edu NASA Global Modeling and Assimilation Office]. It is applied by [http://acmg.seas.harvard.edu/geos/geos_people.html research groups around the world] to a wide range of atmospheric composition problems, Central management and support of the model is provided by the [http://acmg.seas.harvard.edu/index.html Atmospheric Chemistry Modeling Group at Harvard University.]</p></blockquote>
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<blockquote><p align="justify">This wiki is meant to facilitate communication between GEOS-Chem users and developers. If this is '''your first time here''', check out [[Features of the GEOS-Chem public wiki|the features page]]. If you would like to contribute to the wiki, please register as a user by clicking ''create account'' at the top right corner of this page.</p></blockquote>
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<blockquote><p align="justify">New information is continually being added to the wiki, so please check back here often, or even better, [[Features_of_the_GEOS-Chem_public_wiki#Let_the_GEOS-Chem_wiki_inform_you_of_recent_changes.21|subscribe to the recent changes' RSS feed]]: you will not miss a discussion!</p></blockquote>
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----
<!-- ===== GENERAL INFO ABOUT GEOS-CHEM                ===== -->
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<p>&nbsp;</p>
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<table width="100%" border="1" bordercolor="#000000" cellspacing="0" cellpadding="5" align="center">
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<p align="center"><big>'''GEOS-Chem Community Mission: to advance understanding of human and natural influences on the environment<br>through a comprehensive, state-of-the-science, readily accessible global model of atmospheric composition.'''</big></p>
<th colspan="2" height="50" valign="middle"><p><font color="#FFFFFF" size="+2">General information about GEOS&#150;Chem</font></p></th>
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The [http://acmg.seas.harvard.edu/geos/ GEOS–Chem model] is a global 3-D model of atmospheric composition driven by assimilated meteorological observations from the Goddard Earth Observing System (GEOS) of the [http://gmao.gsfc.nasa.gov/ NASA Global Modeling and Assimilation Office]. It is applied by [http://acmg.seas.harvard.edu/geos/geos_people.html research groups around the world] to a wide range of atmospheric composition problems, Central management and support of the model is provided by the [http://acmg.seas.harvard.edu/index.html Atmospheric Chemistry Modeling Group at Harvard University.]
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<th width="50%"scope="col"><big>Introduction and overview</big></th>
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<th width="50%"scope="col"><big>Steering Committee And Working Groups</big></th>
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</tr>
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|width="225px" align="center"|<font size="+2">[[GEOS-Chem versions|Past releases]]</font>
* [[GEOS-Chem welcome letter for new users]]
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|width="450px" align="center" bgcolor="#CCFFFF"|<font size="+2">[[GEOS-Chem 12#12.8.2|'''Current release: GEOS-Chem 12.8.2''']]</font>'''''
* [[Features of the GEOS-Chem public wiki]]
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|width="225px" align="center"|<font size="+2">[[GEOS-Chem model development_priorities|Future releases]]</font>
* [http://acmg.seas.harvard.edu/geos/geos_overview.html GEOS-Chem Overview]
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* [http://acmg.seas.harvard.edu/geos/geos_people.html GEOS-Chem People & Projects]
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* [http://acmg.seas.harvard.edu/geos/word_pdf_docs/resources_guidelines_tips.pdf User Resources, Code Development Guidelines, and Debugging Tips]
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* [[GEOS-Chem Support Team]]
+
* [[GEOS-Chem newsletters]]
+
* [http://acmg.seas.harvard.edu/geos/geos_search.html GEOS-Chem Search Engines]
+
* [http://acmg.seas.harvard.edu/geos/geos_credit.html Recommendations for offering co-authorships to GEOS-Chem developers]
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* [http://acmg.seas.harvard.edu/geos/geos_dev_history.html GEOS-Chem code development history]
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</td>
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== News ==
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*'''30 May 2020''' Read the [[Media:GEOS-Chem_Newsletter_Spring_2020.pdf|GEOS-Chem Newsletter, Spring 2020 Edition]]!
* [http://acmg.seas.harvard.edu/geos/geos_steering_cmte.html GEOS-Chem Steering Committee]
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*'''27 May 2020:''' [[GEOS-Chem_12#12.8.2|GEOS-Chem 12.8.2]] is now available!
** [[GEOS-Chem model development priorities]]
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*'''02 Apr 2020:''' The GEOS-Chem Youtube Channel has 100+ subscribers and a new URL: <tt>'''https://youtube.com/c/geoschem'''</tt>!
* [http://acmg.seas.harvard.edu/geos/geos_working_groups.html GEOS-Chem Working Groups]
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*'''03 Feb 2020:''' View our GEOS-Chem "dry-run" tutorial at our [http://youtube.geos-chem.org GEOS-Chem Youtube channel]!
** [[GEOS-Chem Adjoint|Adjoint Model and Data Assimilation Working Group]]
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*'''17 Sep 2019:''' NASA/GMAO is now producing [https://gmao.gsfc.nasa.gov/weather_prediction/GEOS-CF/ GEOS chemical forecasts (GEOS-CF)] using GEOS-Chem coupled to the NASA/GEOS ESM!
** [[Aerosols_overview:_projects_and_developments|Aerosols Working Group]]
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*'''14 Jun 2019:''' We have overhauled the GEOS-Chem wiki to make content easier to understand. If you miss the old front page, it can still be viewed [[Main_Page_(June_2017)|HERE]].
** [[Carbon Gases and Organics Working Group]]
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** [[Chemistry-Climate Working Group]]
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** [[Hg and POPs Working Group]]
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** [[Chemistry Issues|Oxidants and Chemistry Working Group]]
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** [[Nested Model Working Group]]
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** [[Sources and Sinks Working Group]]
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</td>
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</tr>
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For access to all past GEOS-Chem newsletters, visit [[GEOS-Chem newsletters|this page]].
  
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== Documentation ==
<!-- ===== GENERAL INFO : SECOND ROW                    ===== -->
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*[[GEOS-Chem welcome letter for new users]]
<tr bgcolor="#cccccc">
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*[[GEOS-Chem overview]]
<th width="50%"scope="col"><big>Getting Started With GEOS-Chem</big></th>
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*[[GEOS-Chem basics]]
<th width="50%"scope="col"><big>General Technical Information</big></th>
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*[[Getting Started with GEOS-Chem]]
</tr>
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*[[Getting Started with GCHP]]
 +
*[http://cloud.geos-chem.org Running GEOS-Chem on AWS cloud ('''''cloud.geos-chem.org''''')]
 +
*[[GEOS-Chem overview#GEOS-Chem Guides|GEOS-Chem Guides]]
 +
*[[GEOS-Chem_Benchmarks|GEOS-Chem Benchmarks]]
 +
*[[Guide to species in GEOS-Chem|GEOS-Chem species]]
  
<tr>
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== Featured links ==
 
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*[[Submitting GEOS-Chem support requests]]
<!-- Getting Started With GEOS-Chem: Links -->
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*[[Bugs_and_fixes#Bugs_and_fixes_lists_have_now_been_migrated_to_Github|List of GEOS-Chem bugs and fixes by version]] (as posted on  [https://github.com/geoschem/geos-chem/issues/ our Github issue tracker])
<td width="50%" valign="top">
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*[[Submitting updates for inclusion in GEOS-Chem]]
* [[Frequently asked questions about GEOS-Chem]]
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*[[GEOS-Chem HP|GCHP Main Page]]
* [[Minimum system requirements for GEOS-Chem]]
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*[[GEOS-Chem Adjoint]]
* [[GEOS-Chem supported platforms and compilers]]
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*[http://wrf.geos-chem.org GEOS-Chem coupled with WRF ('''''wrf.geos-chem.org''''')]
* [[Downloading GEOS-Chem source code and data]]
+
*[http://youtube.com/c/geoschem GEOS-Chem YouTube Channel ('''''youtube.com/c/geoschem''''')&mdash;contains tutorial videos]
* [[GEOS-Chem code development cycle]]
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* [[GEOS-Chem programming resources]] (e.g. tutorials, user guides, etc.)
+
* [http://acmg.seas.harvard.edu/geos/doc/man/appendix_7.html GEOS-Chem Programming Style Guide]
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* [[Running GEOS-Chem with TESTRUN]]
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</td>
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<!-- General Technical Information: Links -->
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<td width="50%" valign="top">
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* [[Initial conditions for GEOS-Chem]]
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* [[GEOS-Chem Debugging Tips|Tips on how to debug GEOS-Chem effectively]]
+
* [[Reporting GEOS-Chem bugs]]
+
* [[Parallelizing GEOS-Chem]] with the OpenMP directives
+
* [[Common GEOS-Chem error messages]]
+
</td>
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</tr>
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</table>
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<p>&nbsp;</p>
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<table width="100%" border="1" bordercolor="#000000" cellspacing="0" cellpadding="5" align="center">
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<tr bgcolor="#00AAAA">
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<th colspan="2" height="50" valign="middle"><p><font color="#FFFFFF" size="+2">GEOS&#150;Chem Code Developers' Forums</font></p></th>
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</tr>
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<!-- ===== CODE DEVELOPER'S FORUMS : FIRST ROW          ===== -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>Coding</big></th>
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<th width="50%"scope="col"><big>Diagnostics</big></th>
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</tr>
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<tr>
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<!-- Coding: Links -->
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<td width="50%" valign="top">
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* [[GEOS-Chem versions under development]]
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* [[Bugs and fixes|List of GEOS-Chem bugs and in which version they were resolved]]
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* [[Common GEOS-Chem error messages]]
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* [[GEOS-Chem performance]]
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* [[Machine issues & portability]]
+
* [[Floating point math issues]]
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* [[Version control with Git]]
+
</td>
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<!-- Diagnostics: Links -->
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<td width="50%" valign="top">
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* [http://acmg.seas.harvard.edu/geos/doc/man/appendix_5.html Overview of diagnostics characteristics]
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* [[Diagnostic time step]]
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* [[Mass Flux (ND24/25/26)]]
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* [[Additional diagnostics]]
+
</td>
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+
</tr>
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<!-- ===== CODE DEVELOPER'S FORUMS : SECOND ROW        ===== -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>Emissions</big></th>
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<th width="50%"scope="col"><big>Chemistry</big></th>
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</tr>
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<tr>
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+
<!-- Emissions: Links -->
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<td width="50%" valign="top">
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* [[Emissions overview]]
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* [[Aerosol emissions]]
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* [[Aircraft emissions]]
+
* [[Anthropogenic emissions]]
+
** [http://acmg.seas.harvard.edu/geos/word_pdf_docs/emissions_v8_02_03.pdf Anthropogenic emissions in GEOS-Chem v8-02-03]
+
** [http://wiki.seas.harvard.edu/geos-chem/images/Anth_emiss_gc_v8-01-04.pdf Anthropogenic emissions in GEOS-Chem v8-01-04]  
+
** [http://acmg.seas.harvard.edu/geos/word_pdf_docs/INVENTORY_GC_public-pre_v8.pdf Anthropogenic emissions prior to v8-01-01]
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** [[Scale factors for anthropogenic emissions]]
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* [[Biofuel emissions]]
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* [[Biogenic emissions]]
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* [[Biomass burning emissions]]
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* [[Lightning NOx emissions]]
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* [[Ship emissions]]
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* [[Soil NOx emissions]]
+
* [[Volcanic SO2 emissions from Aerocom|Volcanic emissions]]
+
</td>
+
 
+
<!-- Chemistry Links -->
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<td width="50%" valign="top">
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* Standard chemistry mechanisms in GEOS-Chem
+
** [[Updating standard chemistry with JPL 10-6]]
+
** [[NOx-Ox-HC-aerosol|NOx-Ox-hydrocarbon-aerosol (aka "full-chemistry") simulation]]
+
** [[KPP solvers FAQ|KPP chemical solver]]
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** [[Linoz stratospheric ozone chemistry]]
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** [[Photolysis mechanism|FAST-J photolysis mechanism]]
+
* Optional chemistry mechanisms in GEOS-Chem
+
** [[Dicarbonyls simulation]]
+
** [[New isoprene scheme|Caltech isoprene chemistry scheme (v8-03-01+)]]
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** [[Bromine chemistry mechanism]]
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* [[Offline chemistry simulations]] in GEOS-Chem
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* Other resources
+
** [[Chemistry Issues]]
+
** [[DSMACC chemical box model]]
+
** [[Isoprene|List of recent papers about isoprene]]
+
** [[Linking GEOS-Chem to CMAQ]]
+
</tr>
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<!-- ===== CODE DEVELOPER'S FORUMS : THIRD ROW        ===== -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>Dynamics</big></th>
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<th width="50%"scope="col"><big>Deposition</big></th>
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</tr>
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<tr>
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<!-- Dynamics: Links -->
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<td width="50%" valign="top">
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* [[Advection scheme TPCORE]]
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* [[Boundary layer mixing]]
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* [[Cloud convection]]
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* [[Dynamic tropopause]]
+
</td>
+
 
+
<!-- Deposition: Links -->
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<td width="50%" valign="top">
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* [[Dry deposition]]
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* [[Wet deposition]]
+
</td>
+
 
+
</tr>
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<!-- ===== CODE DEVELOPER'S FORUMS : FOURTH ROW        ===== -->
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<!-- Header title -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>Aerosols</big></th>
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<th width="50%"scope="col"><big>Met Fields</big></th>
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</tr>
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<tr>
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<!-- Aerosols: Links -->
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<td width="50%" valign="top">
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* [[Aerosols overview: projects and developments|Aerosols working group]]
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* [[Aerosol-only simulation]]
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* [[Aerosol optical properties]]
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* [[Aerosol thermodynamical equilibrium]]
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* [[Carbonaceous aerosols]]
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* [[Mineral dust aerosols]]
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* [[Secondary organic aerosols]]
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* [[Sea salt aerosols]]
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* [[Sulfate aerosols]]
+
* Aerosol Microphysics
+
** [[APM aerosol microphysics|APM]]
+
** [[TOMAS aerosol microphysics|TOMAS]]
+
</td>
+
 
+
<!-- Met Fields: Links -->
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<td width="50%" valign="top">
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* [[GCAP]]
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* [[Overview of GMAO met data products]]
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* [[GMAO GEOS-4]]
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* [[GEOS-5|GMAO GEOS-5]]
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** [[List of GEOS-5 met fields|List of GEOS-5 met fields used by GEOS-Chem]]
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** [[GEOS-5 issues]]
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** [[GEOS-5 met field reprocessing]]
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* [[MERRA|GMAO MERRA "reanalysis"]]
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** [[List of MERRA met fields|List of MERRA met fields used by GEOS-Chem]]
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** [[MERRA implementation details|Implementing MERRA into GEOS-Chem]]
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* [[GEOS-5.7.2|GMAO GEOS-5.7.2]]
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** [[List of GEOS-5.7.2 met fields|List of GEOS-5.7.2 met fields proposed for GEOS-Chem]]
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* [http://acmg.seas.harvard.edu/geos/doc/man/appendix_4.html GEOS-Chem Met Fields (from website)]
+
** [[Notes regarding GEOS vertical grids]]
+
</td>
+
 
+
</tr>
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<!-- ======================================================== -->
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<!-- ===== CODE DEVELOPER'S FORUMS : FIFTH ROW          ===== -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>Nested Grid Simulations</big></th>
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<th width="50%"scope="col"><big>Earth System Model Framework</big></th>
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</tr>
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<tr>
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<!-- Nested Grid Simulations: Links -->
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<td width="50%" valign="top">
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* [[GEOS-Chem nested grid simulations]]
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* [[Setting up GEOS-Chem nested grid simulations]]
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* [[Available met data for nested grid simulations]]
+
* [http://acmg.seas.harvard.edu/geos/wiki_docs/nested_grids/geos_data_downloads.pdf Protocol for nested-grid data downloads]
+
</td>
+
 
+
<!-- Met Fields: Links -->
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<td width="50%" valign="top">
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* [[Installing ESMF and other required libraries]]
+
* [[Code development with the Earth System Model Framework]]
+
* [[Automatic documentation with protex|Generating automatic LaTeX documentation with protex]]
+
** [http://frodo.elon.edu/tutorial/tutorial/tutorial.html Web-based LaTeX tutorial]
+
</td>
+
 
+
</tr>
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<!-- ======================================================== -->
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<!-- ===== CODE DEVELOPER'S FORUMS : SIXTH ROW          ===== -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>Benchmarking and Evaluation</big></th>
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<th width="50%"scope="col"><big>Related Projects</big></th>
+
</tr>
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<tr>
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+
<!-- Diagnostics: Links -->
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<td width="50%" valign="top">
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* [http://acmg.seas.harvard.edu/geos/geos_benchmark.html General info about GEOS-Chem benchmark simulations]
+
* [http://acmg.seas.harvard.edu/geos/geos_1yr_plots.html List of GEOS-Chem 1-year benchmark simulations]
+
* [[Mean OH lifetime in GEOS-Chem]]
+
* [ftp://ftp.as.harvard.edu/pub/geos-chem/1yr_benchmarks/ FTP site with output from 1-year GEOS-Chem benchmark simulations]
+
</td>
+
 
+
<!-- Related Projects: Links -->
+
<td width="50%" valign="top">
+
* [[GEOS-Chem column code]]
+
* [[GEOS-Chem Adjoint]]
+
* [[GEOS-Chem Near-Real-Time Simulations]]
+
* [[FlexAOD]]
+
</td>
+
 
+
</tr>
+
</table>
+
 
+
<!-- ======================================================== -->
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<!-- ===== REFERENCE: TITLE                            ===== -->
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<!-- ======================================================== -->
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<p>&nbsp;</p>
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<table width="100%" border="1" bordercolor="#000000" cellspacing="0" cellpadding="5" align="center">
+
 
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<tr bgcolor="#00AAAA">
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<th colspan="2" height="50" valign="middle"><p><font color="#FFFFFF" size="+2">Reference Section</font></p></th>
+
</tr>
+
 
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<!-- ======================================================== -->
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<!-- ===== REFERENCE: FIRST ROW                        ===== -->
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<!-- ======================================================== -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>IDL</big></th>
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<th width="50%"scope="col"><big>GAMAP</big></th>
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</tr>
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<tr>
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+
<!-- IDL: Links -->
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<td width="50%" valign="top">
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* [http://www.ittvis.com/ ITT Visualization (vendor)]
+
* [http://idlastro.gsfc.nasa.gov/idl_html_help/Structures.html Structures in IDL]
+
* [http://idlastro.gsfc.nasa.gov/idl_html_help/Pointers.html Pointers in IDL]
+
* [http://idlastro.gsfc.nasa.gov/idl_html_help/Overview_of_Mathematics_in_IDL.html Overview of Mathematics in IDL]
+
* [http://www.dfanning.com/ Coyote's Guide to IDL Programming (David Fanning's Web Site)] - Lots of tips on how to accomplish programming tasks
+
* [http://www.mpimet.mpg.de/en/misc/software/idl IDL Page at Max Planck Institute for Meteorology]
+
* [http://www.mpimet.mpg.de/en/misc/software/idl/doc/mgs_script.pdf Martin Schultz's IDL Tutorial (PDF Format)]
+
* [http://idlastro.gsfc.nasa.gov/homepage.html IDL Astronomy User's Library]
+
* [http://fermi.jhuapl.edu/s1r/idl/idl.html JHU/APL/S1R IDL routines page]
+
* [http://cow.physics.wisc.edu/~craigm/idl/idl.html Craig Markwardt's IDL library]
+
* [http://cimss.ssec.wisc.edu/~gumley/doc/idltips.pdf The Underground Guide to IDL by Liam Gumley (PDF)]
+
* [[Reading binary files in IDL]]
+
</td>
+
 
+
<!-- Diagnostics: Links -->
+
<td width="50%" valign="top">
+
* [http://acmg.seas.harvard.edu/gamap/ GAMAP web page]
+
* [http://acmg.seas.harvard.edu/gamap/doc/ GAMAP on-line users' guide]
+
* [[GAMAP bugs and fixes]]
+
* [[GAMAP tips and tricks]]
+
**[[General GAMAP usage]]
+
**[[File I/O with GAMAP]]
+
***[http://acmg.seas.harvard.edu/gamap/doc/timeseries_brief_tutorial.pdf Working with timeseries output in GAMAP]
+
**[[Color and graphics with GAMAP]]
+
*** [http://acmg.seas.harvard.edu/geos/wiki_docs/gamap/gamap_color_table_file.pdf Loading Color Tables in GAMAP v2.12]
+
*** [http://acmg.seas.harvard.edu/forum_files/cdh_ColorInIDL.pdf Working with color in IDL by Chris Holmes]
+
**[[Regridding with GAMAP]]
+
**[[Date and time computations with GAMAP]]
+
**[[Text manipulation with GAMAP]]
+
</td>
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</tr>
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<!-- ===== REFERENCE: SECOND ROW                        ===== -->
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<!-- Header title -->
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<tr bgcolor="#cccccc">
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<th width="50%"scope="col"><big>Fortran</big></th>
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<th width="50%"scope="col"><big>Wiki Documentation</big></th>
+
</tr>
+
 
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<tr>
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+
<!-- Fortran: Links -->
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<td width="50%" valign="top">
+
* [http://www.intel.com/cd/software/products/asmo-na/eng/compilers/flin/282048.htm Intel Fortran Compiler for Linux]
+
* [http://www.pgroup.com/products/ PGI Fortran]
+
* [http://www-01.ibm.com/software/awdtools/fortran/xlfortran/ IBM XL Fortran]
+
* [http://docs.sun.com/app/docs/doc/819-3686 Sun Studio 11 Fortran Compiler]
+
* [http://www.liv.ac.uk/HPC/HTMLF90Course/HTMLF90CourseSlides.html Modular Programming w/ Fortran 90 (U. Liverpool)]
+
* [http://www.liv.ac.uk/HPC/F90page.html Other University of Liverpool F90 tutorials and courses]
+
* [http://sunsite.unc.edu/pub/languages/fortran/ User Notes on FORTRAN Programming]
+
* [http://www.nsc.liu.se/~boein/f77to90/f77to90.html Fortran 90 for the FORTRAN 77 Programmer]
+
* [http://www.kcl.ac.uk/kis/support/cc/fortran/f90home.html#1.0 Fortran 90 Home Page at King's College, London]
+
* [http://www.cs.rpi.edu/~szymansk/oof90.html Object Oriented Fortran 90 Programming]
+
</td>
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* [[Sandbox]]
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* [http://www.mediawiki.org/wiki/Manual:FAQ MediaWiki FAQ]
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* [http://meta.wikimedia.org/wiki/Help:Contents MediaWiki User's Guide]
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* [http://meta.wikimedia.org/wiki/Help:Wikitext Examples of Wiki markup text]
+
* [http://meta.wikimedia.org/wiki/Help:Reference_card One-page editing reference card]
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* [http://www.mediawiki.org/wiki/Manual:Configuration_settings Configuration Settings list]
+
* [http://lists.wikimedia.org/mailman/listinfo/mediawiki-announce MediaWiki release mailing list]
+
</td>
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Revision as of 13:49, 1 June 2020

GEOS–Chem Wiki


GEOS-Chem Community Mission: to advance understanding of human and natural influences on the environment
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