Difference between revisions of "Welcome to Geosciences Modeling Wiki"

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(→‎Editing pages on the niluOS MediaWiki)
(Added SURFEX/Crocus section where we will compile information on how to run SURFEX/Crocus on our machines)
 
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Welcome to the Geosciences LATTICE Wiki. The purpose of these pages is to provide information on software tools available for data analysis and scientific program for LATTICE and other relevant projects. Overall, the objective of this site is to create a 'go to' location where incoming students who will be working with modeling can find tips for getting started.
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This Wiki is meant to provide a resource for those at UiO interested in working with computer modeling and data analysis in Earth Sciences.
  
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Content herein is generally specific to UiO, as otherwise it is recommended to make posts to [http://stackexchange.com/sites Stack Exchange] and the sites therein.
  
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'''NOTE:''' While we are requiring registration, and have the pages hidden from anonymous viewers, the pages are ''public'' facing, meaning they may be visible to users outside of NILU. Please be thoughtful when posting scripts or information on the system infrastructure. [[User:Jfb|Jfb]] 12:50, 14 September 2011 (CEST)
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This wiki uses 'category' tags, and below are some of the categories available. Note that in some cases, the content does not yet exist, in which case you are encouraged to edit and add information, or [https://wiki.uio.no/mn/geo/geoit/index.php/Maintainers contact one of the site maintainers] to request further information.
  
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== Make a contribution ==
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=== <span style="font-family:arial,helvetica,sans-serif">Purpose:</span> ===
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<span style="font-family:arial,helvetica,sans-serif">Provide information on software tools available for data analysis and scientific program for projects within the field of Geosciences&nbsp;''in general''&nbsp;and to provide users a cenral resource for keeping notes on '''UIO specific''' aspects of running various software routines.&nbsp;Ideally, this site will become overtime a 'go to' location where incoming students who will be working with modeling and heavy data analysis on servers can find tips for getting started.</span>
  
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Here is a list of [[NeededUpdates]]. Feel free to tackle something from the list!
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Enjoy!
  
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Editing Editing pages]
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:How_to How to]
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== Tools and Topics ==
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Style_guide Style guide]
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Data Data]
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====[[FLEXPART_Model]]====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Abbreviations_and_terminology Abbreviations_and_terminology]
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Information and resources for running and setting up FLEXPART. Mostly geared toward the ATMOS users.
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Data_formats Formats]
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Measurements Measurements]
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====[[FLEXINVERT]]====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Ordering Ordering]
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Bayesian inversion code for use with FLEXPART
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Satellites Satellite imagery]
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Re_analysis Re-analysis]
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====[[ECMWF]]====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:GIS GIS]
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Decriptions of how to get data in various ways from the ECMWF server.
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Tools Tools]
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::[https://wiki.uio.no/mn/geo/geoit/index.php/WorkingOnServers WorkingOnServers]
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====[[Python]]====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Command_line Command_line]
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A starting point for all-things Python. Provides information on best practices, different packages that are frequently used, and other information to make using Python at NILU easier.
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Software Software]
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Code_Coffee Code Coffee]<br />
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====Tools for [[WorkingOnServers]] at UiO.====
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:R R]<br />
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An important resource for anyone using the servers.
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Fortran Fortran]
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Micmac Micmac]
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====General [[Fortran]] Tips====
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Python Python]
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Some general usage tips for coding in FORTRAN.
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Matlab Matlab]
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Excel Excel]
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====[[Matlab]] (Not open source, but extensively used)====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:UioNetwork Computing Facilities<br />]
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Contributions from MATLAB users
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Login How to login?]<br />
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Wessel Wessel]<br />
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Sverdrup Sverdrup]<br />
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== Editing pages on the Geo-IT MediaWiki ==
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Moulin Moulin]
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:geo-hiperf geo-hiperf]
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A good starting place for markup reference can be found here: http://meta.wikimedia.org/wiki/Help:Wikitext_examples
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Abel Abel HPC]<br />
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Nortur Notur HPC]<br />
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Another point is that this wiki is using Subpages, so in places you'll see reference to a <nowiki><subpages .></nowiki> tag. This just means that the list of subpages will be dynamically generated in that location.
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:::[[Set-up your own server (IaaS)]]
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Norstore Data storage (lagrinshotell, Norstore & storage for researchers)]<br />
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====Editing Source Code====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Models Models]
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Note that for the purposes of documenting source code there are two important features:
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:WRF WRF, WRF-CHEM and WRF-Hydro]
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:OpenIFS OpenIFS]
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# use the <nowiki><code> ... </code></nowiki> to show some simple code snippets: <code>def foo(): return</code>
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:FLEXPART Flexpart]
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# The syntax highlighting extension has been installed, so you can wrap source code examples in <nowiki><syntaxhighlight></nowiki> tags. This is helpful for documenting a code example and supports many languages. Usage is simple. Here's an example of how to display some 'Hello World' source code examples:
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:MITgcm MITgcm]
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Cesm cesm]
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<pre><nowiki>
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Noresm noresm]<br />
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<syntaxhighlight lang='cs'>
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:ESysParticle ESys-Particle]
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//Hello World in C#
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:::[[SURFEX/Crocus]]<br />
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class HelloWorld
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Field_of_study Field of study]
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{
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Hydrology Hydrology]
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    static void Main()
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Meteorology Meteorology]
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    {
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Glaciology Glaciology]
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        System.Console.WriteLine("Hello, World!");
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Communication Communication]
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    }
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::[[Mail and Mailing lists|Mail and Mailing lists]]
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}
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Presentations Presentations]
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Templates Templates]
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</syntaxhighlight>
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Logo Logo]
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<syntaxhighlight lang='cpp'>
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Climabyte Climabyte]
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// Hello World in C++ (pre-ISO)
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Administration Administration]
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Teaching Teaching]
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#include <iostream.h>
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Summerschools Summerschools]
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main()
 
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{
 
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    cout << "Hello World!" << endl;
 
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    return 0;
 
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}
 
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</syntaxhighlight>
 
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<syntaxhighlight lang='python'>
 
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# Hello World in Python
 
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print("Hello World")
 
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</syntaxhighlight>
 
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</nowiki></pre>
 
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Results in:
 
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<syntaxhighlight lang='cs'>
 
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//Hello World in C#
 
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class HelloWorld
 
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{
 
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    static void Main()
 
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    {
 
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        System.Console.WriteLine("Hello, World!");
 
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    }
 
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}
 
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C++
 
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Back to index
 
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</syntaxhighlight>
 
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<syntaxhighlight lang='cpp'>
 
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// Hello World in C++ (pre-ISO)
 
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#include <iostream.h>
 
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main()
 
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{
 
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    cout << "Hello World!" << endl;
 
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    return 0;
 
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}
 
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</syntaxhighlight>
 
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<syntaxhighlight lang='python'>
 
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# Hello World in Python
 
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print("Hello World")
 
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</syntaxhighlight>
 
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====Other Resources====
 
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Consult the [http://meta.wikimedia.org/wiki/Help:Contents User's Guide] for information on using the wiki software.
 
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See Also:
 
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* [http://www.mediawiki.org/wiki/Manual:Configuration_settings Configuration settings list]
 
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* [http://www.mediawiki.org/wiki/Manual:FAQ MediaWiki FAQ]
 
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* [https://lists.wikimedia.org/mailman/listinfo/mediawiki-announce MediaWiki release mailing list]
 
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[[/Reference]]
 

Latest revision as of 15:48, 5 December 2017

This Wiki is meant to provide a resource for those at UiO interested in working with computer modeling and data analysis in Earth Sciences.

Content herein is generally specific to UiO, as otherwise it is recommended to make posts to Stack Exchange and the sites therein.

This wiki uses 'category' tags, and below are some of the categories available. Note that in some cases, the content does not yet exist, in which case you are encouraged to edit and add information, or contact one of the site maintainers to request further information.

Purpose:

Provide information on software tools available for data analysis and scientific program for projects within the field of Geosciences in general and to provide users a cenral resource for keeping notes on UIO specific aspects of running various software routines. Ideally, this site will become overtime a 'go to' location where incoming students who will be working with modeling and heavy data analysis on servers can find tips for getting started.

Enjoy!

Editing pages
How to
Style guide
Data
Abbreviations_and_terminology
Formats
Measurements
Ordering
Satellite imagery
Re-analysis
GIS
Tools
WorkingOnServers
Command_line
Software
Code Coffee
R
Fortran
Micmac
Python
Matlab
Excel
Computing Facilities
How to login?
Wessel
Sverdrup
Moulin
geo-hiperf
Abel HPC
Notur HPC
Set-up your own server (IaaS)
Data storage (lagrinshotell, Norstore & storage for researchers)
Models
WRF, WRF-CHEM and WRF-Hydro
OpenIFS
Flexpart
MITgcm
cesm
noresm
ESys-Particle
SURFEX/Crocus
Field of study
Hydrology
Meteorology
Glaciology
Communication
Mail and Mailing lists
Presentations
Templates
Logo
Climabyte
Administration
Teaching
Summerschools
Retrieved from "https://wiki.uio.no/mn/geo/geoit/index.php?title=Welcome_to_Geosciences_Modeling_Wiki&oldid=1536"