Difference between revisions of "Welcome to Geosciences Modeling Wiki"

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:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Teaching Teaching]
 
:[https://wiki.uio.no/mn/geo/geoit/index.php/Category:Teaching Teaching]
  
==<span style="font-family:arial,helvetica,sans-serif">Purpose:</span>==
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<span style="font-family:arial,helvetica,sans-serif">Purpose:</span>
  
 
<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>
 
<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>
 
== <span style="font-family:arial,helvetica,sans-serif">Make a contribution</span> ==
 
 
<span style="font-family:arial,helvetica,sans-serif">Feel free to tackle something from the list of [[NeededUpdates]]. Essentially, the usefullness of this site is up to '''you'''. We are building this up as we go, but&nbsp;don't be shy. Your&nbsp;contributions are valuable. Please, if you are working on something and stumble... it's likely someone else may have the same problem eventually. Make a note here of your solution.&nbsp;</span>
 
 
== <span style="font-family:arial,helvetica,sans-serif">Tools and Topics</span> ==
 
 
=== <span style="font-family:arial,helvetica,sans-serif">Tools for [[WorkingOnServers]] at UiO.</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Processing large datasets and running models for geosciences will likely require that you work on the command line of a server and not on your laptop. It's important to learn how to do this efficiently so that you don't feel that it restricts where you can work from. In fact, it's generally the opposite. Once you learn how to use a server well, you will find it much easier to work from anywhere! All you need is an internet connection.</span>
 
 
<span style="font-family:arial,helvetica,sans-serif">In this section, we give you an overview of UIO computing systems and how to set-up your environment (module package) and cover some tips for connecting via ssh, setting up your own laptop so it is 'as if' you are working locally, and other nice tricks for staying productive in a server-based environment.</span>
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[Python]]</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">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.</span>
 
 
=== <span style="font-family:arial,helvetica,sans-serif">General [[Fortran]] Tips</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Some general usage tips for coding in FORTRAN.</span>
 
 
<span style="font-family:arial,helvetica,sans-serif">GNU and intel compilers are both available on our servers. We have a very limited number of licenses for intel compilers so we suggest you to use GNU compilers for all your development.</span>
 
 
<span style="font-family:arial,helvetica,sans-serif">There is a default GNU compiler but it may be a quite old version. If you wish to use a newer version:</span>
 
<pre>module avail gcc</pre>
 
it returns the list of available versions.
 
<pre>module load gcc/4.9.0</pre>
 
<span style="font-family:arial,helvetica,sans-serif">It loads GNU compilers 4.9.0 (both Fortran, C and C++ compilers).</span>
 
 
<span style="font-family:arial,helvetica,sans-serif">Intel compilers are available by default on our UIO servers but on abel, you would need to load it:</span>
 
<pre>module load intel</pre>
 
==== <span style="font-family:arial,helvetica,sans-serif">Other Fortran materials</span> ====
 
 
*<span style="font-family:arial,helvetica,sans-serif">Gunnar Wollan has compiled a set of documents at [http://folk.uio.no/gunnarw/GEO4060/ http://folk.uio.no/gunnarw/GEO4060/] and you can also find some of his documents at [http://www.uio.no/studier/emner/matnat/geofag/GEF4510/h12/index.html http://www.uio.no/studier/emner/matnat/geofag/GEF4510/h12/index.html]</span>
 
 
*<span style="font-family:arial,helvetica,sans-serif">An interesting free tutorial at [http://www.fortrantutorial.com/ http://www.fortrantutorial.com/] You can skip the installation of silverfrost compilers if you already have a Fortran compiler installed on your machine or if you are using sverdrup.uio.no</span>
 
 
*<span style="font-family:arial,helvetica,sans-serif">The National Computational Infrastructure in Australia has class notes online for a Basic Fortran course ([http://nf.nci.org.au/training/FortranBasic/ http://nf.nci.org.au/training/FortranBasic/]) and an Advanced Fortran course ([http://nf.nci.org.au/training/FortranAdvanced/ http://nf.nci.org.au/training/FortranAdvanced/]).</span>
 
 
*<span style="font-family:arial,helvetica,sans-serif">Fortran Wiki [http://fortranwiki.org/fortran/show/HomePage http://fortranwiki.org/fortran/show/HomePage]</span>
 
 
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[Access to HPC resources]]</span> ===
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[FLEXPART Model]]</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Information and resources for running and setting up FLEXPART. Mostly geared toward the ATMOS users.</span>
 
 
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[FLEXINVERT]]</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Bayesian inversion code for use with FLEXPART</span>
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[WRFand WRF-CHEM|WRF and WRF-CHEM Models]]</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Information and resources for running and setting up WRF and WRF-CHEM.</span>
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[OpenIFS|OpenIFS ECMWF Model]]</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Information and resources for running and setting up OpenIFS (ECMWF forecast model).</span>
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[DataFormats|Data formats ]](netCDF, HDF4, HDF5, GRIB-1, GRIB-2, BUFR, etc.)</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Descriptions on how to manipulate and visualize data in these different formats.</span>
 
 
=== <span style="font-family:arial,helvetica,sans-serif">Getting data from [https://wiki.uio.no/mn/geo/geoit/index.php/ECMWF ECMWF]</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Decriptions of how to get data in various ways from the ECMWF server.</span>
 
 
=== <span style="font-family:arial,helvetica,sans-serif">[[Matlab]] (Not open source, but extensively used)</span> ===
 
 
<span style="font-family:arial,helvetica,sans-serif">Contributions from MATLAB users</span>
 
 
 
 
=== [[Metview (ECMWF visualization package)]] ===
 

Revision as of 16:41, 30 January 2015

Welcome to the Geosciences Modeling and Data Science Wiki.

Editing pages
How to
Style guide
Data
Formats
Measurements
Ordering
Re-analysis
Bias correction
Tools
Software
R
Fortran
Micmac
Python
Matlab
Excel
UiO network
Svedrup
Moulin
Abel
Nortur
Norstor
Models
ECMWF
Field of study
Hydrology
Metrology
Glaciology
Communication
Templates
Logo
Climabyte
Administration
Teaching

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.