Difference between revisions of "Welcome to Geosciences Modeling Wiki"

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Welcome to the Geosciences Modeling and Data Science Wiki. The purpose of these pages is to provide information on software tools available for data analysis and scientific program for projects within Geosciences. Overall, the objective of this site is to create 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.
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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.
  
 +
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.
  
'''NOTE:''' While we are requiring registration, and have some pages hidden from anonymous viewers, the pages are in general ''public'' facing, meaning they may be visible to users outside of UiO. 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.
  
== 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>
  
Here is a list of [[NeededUpdates]]. Feel free to tackle something from the list!
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Enjoy!
  
== Tools and Topics ==
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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]
====Tools for [[WorkingOnServers]] at UiO.====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Style_guide Style guide]
An important resource for anyone using the servers.
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Data Data]
 
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Abbreviations_and_terminology Abbreviations_and_terminology]
====[[Python]]====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Data_formats Formats]
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:Measurements Measurements]
 
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Ordering Ordering]
====General [[Fortran]] Tips====
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Satellites Satellite imagery]
Some general usage tips for coding in FORTRAN.
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Re_analysis Re-analysis]
 
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:GIS GIS]
====[[ECMWF]]====
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Tools Tools]
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/WorkingOnServers WorkingOnServers]
 
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Command_line Command_line]
====[[FLEXPART_Model]]====
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Software Software]
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/Code_Coffee Code Coffee]<br />
 
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:R R]<br />
====[[FLEXINVERT]]====
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Fortran Fortran]
Bayesian inversion code for use with FLEXPART
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Micmac Micmac]
 
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Python Python]
====[[Matlab]] (Not open source, but extensively used)====
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Matlab Matlab]
Contributions from MATLAB users
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Excel Excel]
 
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:UioNetwork Computing Facilities<br />]
 
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Login How to login?]<br />
== Editing pages on the Geo-IT MediaWiki ==
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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 />
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:Moulin Moulin]
 
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:geo-hiperf geo-hiperf]
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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:::[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 />
====Editing Source Code====
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:::[[Set-up your own server (IaaS)]]
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:Norstore Data storage (lagrinshotell, Norstore & storage for researchers)]<br />
 
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Models Models]
# 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:WRF WRF, WRF-CHEM and WRF-Hydro]
# 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:OpenIFS OpenIFS]
 
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:FLEXPART Flexpart]
<pre><nowiki>
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:MITgcm MITgcm]
<syntaxhighlight lang='python'>
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Cesm cesm]
# Hello World in Python
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Noresm noresm]<br />
print("Hello World")
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:::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:ESysParticle ESys-Particle]
</syntaxhighlight>
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:::[[SURFEX/Crocus]]<br />
<syntaxhighlight lang='csharp'>
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Field_of_study Field of study]
//Hello World in C#
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Hydrology Hydrology]
class HelloWorld
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Meteorology Meteorology]
{
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Glaciology Glaciology]
    static void Main()
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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Communication Communication]
    {
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::[[Mail and Mailing lists|Mail and Mailing lists]]
        System.Console.WriteLine("Hello, World!");
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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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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Logo Logo]
 
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::[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Climabyte Climabyte]
</syntaxhighlight>
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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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:[https://wiki.uio.no/mn/geo/geoit/index.php/Summerschools Summerschools]
<syntaxhighlight lang='cpp'>
 
// Hello World in C++ (pre-ISO)
 
 
 
#include <iostream.h>
 
 
 
main()
 
{
 
    cout << "Hello World!" << endl;
 
    return 0;
 
}
 
 
 
 
 
 
 
</syntaxhighlight>
 
 
 
</nowiki></pre>
 
 
 
The above code block results in:
 
<syntaxhighlight lang='python'>
 
# Hello World in Python
 
print("Hello World")
 
</syntaxhighlight>
 
<syntaxhighlight lang='csharp'>
 
//Hello World in C#
 
class HelloWorld
 
{
 
    static void Main()
 
    {
 
        System.Console.WriteLine("Hello, World!");
 
    }
 
}
 
 
 
C++
 
Back to index
 
</syntaxhighlight>
 
<syntaxhighlight lang='cpp'>
 
// Hello World in C++ (pre-ISO)
 
 
 
#include <iostream.h>
 
 
 
main()
 
{
 
    cout << "Hello World!" << endl;
 
    return 0;
 
}
 
 
 
 
 
 
 
</syntaxhighlight>
 
 
 
====Other Resources====
 
 
 
 
 
Consult the [http://meta.wikimedia.org/wiki/Help:Contents User's Guide] for information on using the wiki software.
 
See Also:
 
 
 
* [http://www.mediawiki.org/wiki/Manual:Configuration_settings Configuration settings list]
 
* [http://www.mediawiki.org/wiki/Manual:FAQ MediaWiki FAQ]
 
* [https://lists.wikimedia.org/mailman/listinfo/mediawiki-announce MediaWiki release mailing list]
 
 
 
 
 
[[/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