Search found 36 matches

by Diego
Thu Sep 16, 2010 2:15 pm
Forum: ROMS Problems
Topic: Surface too hot... and too salty
Replies: 0
Views: 745

Surface too hot... and too salty

After setting up a new ROMS application a saw that, after a few time steps, the surface water temperature was to high (120oC) and salinity was also too high (100 or more). The problem was that I mistakenly used an atmospheric forcing file containing a cloud-cover time-series that vary between 0 and ...
by Diego
Wed Jul 28, 2010 4:10 am
Forum: ROMS Discussion
Topic: Question about the scalar transport equation used in ROMS
Replies: 1
Views: 822

Question about the scalar transport equation used in ROMS

I am writing an ecosystem-focused manuscript (we used ROMS with BIO_FENNEL). At the moment I am writing the equations and I am a bit confused about the scalar transport equation used in ROMS. Maybe someone can help me out: Below is a general scalar transport equation commonly used by biological ocea...
by Diego
Fri Jan 08, 2010 11:42 pm
Forum: ROMS Problems
Topic: Problem reading atmospheric forcing file
Replies: 4
Views: 1511

Re: Problem reading atmospheric forcing file

My problem was only with "zeros on the output screen"... which should be solved by upgrading to the newest ROMS.

I figured that wind was actually working fine... by generating a file with rather large wind... that way the effect was evident.

Hope this helps.

Diego
by Diego
Wed Oct 07, 2009 11:47 am
Forum: ROMS Ecosystem
Topic: Problem building an Individual-Based Modeling for ROMS
Replies: 0
Views: 1878

Problem building an Individual-Based Modeling for ROMS

Hello All! I am coding a module to do individual-based modeling in ROMS. But I ran into a problem that I can't figure out. I need help from the ROMS' Gurus!!!! THE SETUP: As a simple example, I added an oyster in the middle of a 3 by 3 by 3 grid with walls on all sides. Each cell is roughly 100m x 1...
by Diego
Tue Sep 15, 2009 8:39 pm
Forum: ROMS Problems
Topic: Problem reading atmospheric forcing file
Replies: 4
Views: 1511

Re: Problem reading atmospheric forcing file

Hello all, I've been working on this "zero wind" issue for a week... So far, I think I found why ROMS outputs zeros on the screen... if found a difference between the version I am running (301 2009-01-22) and the older version where ROMS last read winds ok In get_2dflg.F ...I added: Fmin = Fval Fmax...
by Diego
Tue Sep 08, 2009 9:35 pm
Forum: ROMS Problems
Topic: Problem reading atmospheric forcing file
Replies: 4
Views: 1511

Problem reading atmospheric forcing file

Hello all, I spend most of my day trying to add atmospheric forcing to my application... and I haven't been successful... now, with a headache and a slight desire to shoot my screen... I decided it is time to ask for help. 1) I compiled ROMS using BULK_FLUXES 2) I created a forcing file (myapp_frc.n...
by Diego
Fri Aug 07, 2009 12:19 am
Forum: ROMS Tools and Techniques
Topic: EASYGRID: Grid generation for ROMS
Replies: 24
Views: 16401

Re: EASYGRID: Grid generation for ROMS

Wonderful Rachael!

I'll include this in the next update.

Thanks!

Diego
by Diego
Wed Mar 18, 2009 2:32 pm
Forum: ROMS Installation
Topic: Tutorial: Installing ROMS in Windows XP / Vista (via Cygwin)
Replies: 20
Views: 11723

Re: Tutorial: Installing ROMS in Windows XP / Vista (via Cygwin)

Hi bibi951, Follow the tutorial in WikiROMS ( https://www.myroms.org/wiki/index.php/ROMS_Cygwin#Install_Cygwin ) I originally posted the tutorial here in the forums, but then the tutorial was moved to WikiROMS where the tutorial was further refined. The tutorial in this post was kept for historical ...
by Diego
Tue Jul 22, 2008 1:04 pm
Forum: ROMS Tools and Techniques
Topic: EASYGRID: Grid generation for ROMS
Replies: 24
Views: 16401

Re: EASYGRID: Grid generation for ROMS

... the script (at least the version I have) does not work out the angle of the grid and write it on the nc file. Is there any updated version of easygrid where the angle is an output in the netcdf file? You can add the a small piece of code to easygrid so that it writes the angle to the nc file......
by Diego
Mon Jul 07, 2008 3:21 pm
Forum: ROMS Tools and Techniques
Topic: EASYGRID: Grid generation for ROMS
Replies: 24
Views: 16401

Re: EASYGRID: Grid generation for ROMS

eastwind111, ocecept: fillseg is explained in the WikiROMS page https://www.myroms.org/wiki/index.php/seagrid ...there is also a very nice movie-tutorial ("Grid Generation with SeaGRID" at: http://www.myroms.org/index.php?page=tutorials ), where the use of fillseg is explained. The way fillseg is us...
by Diego
Wed Jun 25, 2008 3:16 pm
Forum: ROMS Tools and Techniques
Topic: EASYGRID: Grid generation for ROMS
Replies: 24
Views: 16401

Re: EASYGRID: Grid generation for ROMS

Hi ufuk, I am not sure I understand your problem... For what I understood, you estimated X Y and resol and when you plug your estimated values in Easygrid, the resulting grid-plot did not look as you expected... it was too small or not quite covering the whole lake. Did I get it right? If so... you ...
by Diego
Tue Jun 24, 2008 7:35 pm
Forum: ROMS Tools and Techniques
Topic: EASYGRID: Grid generation for ROMS
Replies: 24
Views: 16401

Re: EASYGRID: Grid generation for ROMS

Hi lindseyk, Sorry for the late reply... I am just coming back from a conference trip. I tried Easygrid with your dimensions (listed above) and it worked, but the grid was all funky... Easygrid cannot handle grids over SUPER LARGE domains . However, if I take one zero off X, Y and resol (i.e. make t...
by Diego
Mon Apr 28, 2008 12:15 am
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Hi All, As promised, I summarized what I learned throughout this thread in 3 WikiROMS tutorials. Even though I did my best to test / check all I posted... I would appreciate if more senior ROMS users check this tutorials. I just don't want to spread wrong information. I also thought it may be useful...
by Diego
Sun Apr 27, 2008 7:41 pm
Forum: ROMS Tools and Techniques
Topic: EASYGRID: Grid generation for ROMS
Replies: 24
Views: 16401

EASYGRID: Grid generation for ROMS

EASYGRID is a simple matlab script to make ROMS grids. It is an austere alternative, but it fairly easy to get it up-and-running (needs MEXNC, SNCTOOLS and ROMS-Matlab-Toolkit). This Matlab script also allows the user to (1) smooth bathymetry, (2) interactively edit land/sea mask, and (3) create sim...
by Diego
Fri Apr 25, 2008 1:37 pm
Forum: ROMS FAQ
Topic: Netcdf interface for Matlab, MEXCDF
Replies: 19
Views: 22518

Hi Rouf, Unfortunately I haven't work with Seagrid (I tried, but I also ran into troubles), so I won't be able to help a lot more on this :( ...Hernan said in the begining of this thread that It uses the mexinside, mexrec, and mexsepeli programs. You need to build these programs for your computer ar...
by Diego
Thu Apr 24, 2008 2:43 pm
Forum: ROMS FAQ
Topic: Netcdf interface for Matlab, MEXCDF
Replies: 19
Views: 22518

Hi Rouf, In the matlab-toolkit that you just downloaded... there are ~28 directories and 1 file... startup.m This startup.m file contains a script that adds the path of user-specified directories to Matlab's path... kind of an automatic alternative to the Add-path GUI that you used for MEXNC and SCT...
by Diego
Thu Apr 24, 2008 2:42 am
Forum: ROMS FAQ
Topic: Netcdf interface for Matlab, MEXCDF
Replies: 19
Views: 22518

Hi Rouf,

I am new to ROMS too... but I may be able to help.

I think you need to install MEXNC for your matlab... I wrote a tutorial here: https://www.myroms.org/wiki/index.php/MEXNC

In step #5, I explained a bit how to add a directory to "Matlab's path".

I hope this helps.

Diego
by Diego
Thu Apr 17, 2008 4:13 pm
Forum: ROMS Installation
Topic: Tutorial: Installing ROMS in Windows XP / Vista (via Cygwin)
Replies: 20
Views: 11723

Hi Rouf, I think the file that is causing the error... 'C:\cygwin\ROMS\tags\roms-2.3\Lib\MCT_WRF\.svn\text-base\con.F.svn-base': Access is denied. ...is a file from an old version of ROMS (v2.3), which are located under the "tags" directory... I would suspect that you won't have problems in the futu...
by Diego
Sat Apr 12, 2008 5:51 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

I have been uploading tutorials to WikiROMS (e.g. https://www.myroms.org/wiki/index.php/MEXNC). Things were going soothly with tutorial-writing until I ran into an interesting problem... I just realize that the Matlab files that I have been using to create/read/write/manipulate/plot ROMS files are N...
by Diego
Tue Apr 08, 2008 7:52 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Aha! Found it! M_Map is a mapping package for Matlab developed by R. Pawlowicz... you can find a instruction manual and download link at: http://www.eos.ubc.ca/~rich/map.html It is bit awkward to find the different Matlab utilities that exist for ROMS (they are scattered around). You can visit WikiR...
by Diego
Tue Apr 08, 2008 2:28 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Carlos, I'm glad this thread (and associated code) has been helpful... In roms_make_simple_grid, I create the grid in a plane coordinate (in meters), then rotate the grid... and finally I estimated the lat/lon's for each grid point with respect to the bottom-left corner (user-specified parameter). I...
by Diego
Mon Apr 07, 2008 3:49 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Ruben,

Here is the varinfo_mgV3.dat file.

Let me know if it works.

Diego
by Diego
Thu Apr 03, 2008 10:07 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Ruben, sorry for taking so long... I was able to get my Matlab MEXCDF back to "not-too-bad"... but I still have troubles opening some files (but others are fine). Anyway... here is the test grid file that works (i.e. doesn't make ROMS blow-up). Also you may want to take a look to roms_make_simple_gr...
by Diego
Wed Apr 02, 2008 1:43 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Ruben, Yes I will... even better, I am planning to also post my grid-generating code (with fixes from many folks in this forum... thanks a lot!). It is nothing fancy... but it may be useful for some to have a "quick-&-dirty" alternative to Seagrid and Gridgen for quick tests. The problem is that my ...
by Diego
Sun Mar 30, 2008 6:59 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

ROMS is Running!! After a long battle with my matlab code that generates the grid, ROMS is running without blowing up (many many Thanks to John Wilkin!! for his hints, tricks and tips). The joy is big! Unfortunately, I cannot open the output .nc files using matlab's ncload... hence I haven't been ab...
by Diego
Fri Mar 28, 2008 11:47 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

John, Thanks for spending the time reviewing my case! I really appretiate it! In my code, I made the grid with cells that are exactly 100 by 100 m. Then I rotate the grid (while in meters) and finally I calculate the lat lon of every cell point with respect of the bottom-left corner of the grid (usi...
by Diego
Fri Mar 28, 2008 4:59 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

John,

I made a new initial_conditions.nc file where u, v, ubar and vbar are 0 everywhere. ROMS still BLOWS UP.

(huff... I'm running out of coffee :()
by Diego
Fri Mar 28, 2008 4:03 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Thanks jcwarner! (1) I change my depths... now they are positive (1 to 23 m). (2) I use editmask to erase 1-pixel bays... also this should have setup mask_u, mask_v and mask_psi correctly. Still blows up :( CLICK Here for the log file, which ends with... " MAIN: Abnormal termination: BLOWUP." CLICK ...
by Diego
Fri Mar 28, 2008 2:57 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

John, Thanks for the clarification... YES! all my "above-sea-level" cells are >0. Mountains go up 50 m while my deepest point only goes to -20 m. As soon as I click "submit" I will start my experimentation with Editmask. Also, when I got your reply I was analyzing grid files I found at DATA/ROMS/Gri...
by Diego
Thu Mar 27, 2008 5:40 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Hi Ruben, Joining efforts makes sense... Although I may be too new to ROMS to be helpful. I looked at your grid and I plotted mask_rho (figure below). I can see some "one-pixel-lakes" (arrow A) that I suspect could cause ROMS to blow up when trying to numerically advect things in or out of those iso...
by Diego
Wed Mar 26, 2008 5:07 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Using the formula above... I calculated dt = 7.4 seconds I adjusted (to be in the safe side) as follows: DT == 1 NDTFAST == 100 Unfortunately, ROMS is still blowing up. That means that likely my problem is in the grid, initial conditions or forcing. I will see if I can find what's the problem... mor...
by Diego
Tue Mar 25, 2008 9:00 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

I just double checked... and No. None of my depths are 0.
by Diego
Tue Mar 25, 2008 7:14 pm
Forum: ROMS Usage
Topic: Application setup. Please help!
Replies: 36
Views: 16694

Application setup. Please help!

Preamble: * I am new to ROMS - new to linux. * I got ROMS up & running and ran several test cases * I read most articles in WikiROMS, most tutorials / Webinars, most posts in this forum and the 2000 SCRUM manual. * I started with (and successfully ran) a simple 5 by 5 grid application with periodic...
by Diego
Mon Mar 24, 2008 8:48 pm
Forum: ROMS Tools and Techniques
Topic: WinSCP: Windows GUI to move & edit files on remote compu
Replies: 0
Views: 1764

WinSCP: Windows GUI to move & edit files on remote compu

Note: This is a tutorial for users that run ROMS on a remote computer (e.g. a cluster) through a local computer running Windows XP or Vista. ------------------------------------------------------ Good day all, I am new-to-ROMS and new-to-Linux... After finding that I was spending a lot of time doing...
by Diego
Thu Mar 06, 2008 4:21 pm
Forum: ROMS Installation
Topic: Tutorial: Installing ROMS in Windows XP / Vista (via Cygwin)
Replies: 20
Views: 11723

I will be glad to put this information wherever it will be most useful! I personally find that information in the 'discussion' part of WikiROMS (and ALL other WikiMedia-powered Wikis, for that matter) is a bit hard to discover. It took me many visits to the 'Built Script' wikipage before I noticed t...
by Diego
Thu Mar 06, 2008 2:06 am
Forum: ROMS Installation
Topic: Tutorial: Installing ROMS in Windows XP / Vista (via Cygwin)
Replies: 20
Views: 11723

Tutorial: Installing ROMS in Windows XP / Vista (via Cygwin)

Please use the version of this tutorial that is in the wiki. The wiki page contains corrections and extra information and can be found at: https://www.myroms.org/wiki/index.php/Tutorials This post will remain for historical reasons only. Hi All, I am new to ROMS... new to Linux... and trained as a ...