Ocean Modeling Discussion

drewa

I thought I was good to go with the install but I'll look into it more. Thanks

drewa

I can't seem to get ROMS run on both processors. It successfully runs on one but I want to use both. I've tried compiling and running both the INLET_TEST and UPWELLING test case with different results.

To compile, I'm using the bash script and have set the parallel flag to 1 in the file. I compile ...

drewa

I found part of my problem. I missed the scale in NCView (it's very small 10^-5). Gotta look into getting the water surface moving.

drewa

I have what I think is an odd problem.

I am simulating a simple planar shore. It goes from ~-8m deep to ~+2m and extends offshore ~1.8 km. I am simulating tides via ANA_FSOBC. (See below for my *.h file contents)

I have been having trouble getting meaningful results from my simulations, so to ...

drewa

I approached our IT department about getting a dedicated server for ROMS runs. They want to know what type of system they should start looking into, so I thought that I would ask y'all what has and hasn't worked well for you. We're not looking for an exotic server (mainframe, cluster etc) but ...

drewa

John,
Thanks for that. I'm glad to know that I can (maybe) stop banging my head trying to get those numbers down.

What has creeped up now that I have freshwater coming in (thanks for that), I get unrealistic high salinities and temperature (salt goes negative as well). I've looked around the ...

drewa

I have noticed that the stiffness numbers I get for a grid that has dry cells are quite high but if I only use the portion of the grid that is wet, things are generally fine. Is this an artifact of simply having dry cells or are my grids really messed up?[/img]

drewa

John,
Thanks for the threads about how to distribute freshwater loadings and making the Wiki page to put that info in one place. It helps with understanding things a bit better.

I still don't seem to be able to get freshwater into my system. I have tried inverting things so that the initial ...

drewa

I'm working on adding a point source (a river) to a test grid. In my input file (estuary.in) I added:

#define UV_PSOURCE /* use to turn ON or OFF point Sources/Sinks */
#define Q_PSOURCE /* use to turn ON or OFF mass point Sources */
#define ANA_PSOURCE /* use if analytical point Sources/Sinks ...

drewa

Thanks a lot. That did the trick.

drewa

I am trying to plot results from a wet/dry simulation via Matlab R2007b. I want a filled contour plot of zeta (show the colorbar as well), a line contour of h, and then lay mask out the dry areas. I'm a bit stuck on how to code the masking. I've tried doing a masking but I not sure on how to have no ...

drewa

BINGO! When I renamed the Functionals directory, the build.bash couldn't find the analytical.f and module.mk files. Putting them into the Functionals directory cleared things up. It's all good in modeling world now.

drewa

I've been trying to understand where the functionals are called in the build.bash and makefile. What I've done is make Projects/ocean_upwelling and Projects/cblast directories. They both successfully compile using build.bash. I'm compiling using g95 and Cygwin (Win XP).

I wanted to start working on ...

drewa

I changed that part of the code (and subsequent others) from "UPWELLING" to "TEST" thinking that it should run with those changes. That's where I'm a bit confused that it doesn't run. I must be missing another change that needs to be made but I can't find it.

drewa

I had missed that path change. Thanks for the help. The test cases now work. Which brings up another issue.

I copied the upwelling directory and all its contents to another directory TEST to test and see if I can start modifying things so I can start playing with my objective.

My file tree is ...

drewa

Thanks guys. I'm trying to learn to love vi but I confess that I often punt to Multi-Edit every once in a while. The suggestions y'all had were great and the upwelling case works as it should. Of course the next thing is to try another one and then start modifying things.

I took Hernan's ...

drewa

Worked like a charm. A text editor I have (Multi-edit) can save as unix files too. Thanks.

drewa

Thanks to Diego's excellent write up on installation under XP/Cygwin, I put it on my main laptop and had it successfully test the upwelling case. I was setting up a "Projects" directory to keep things neat following the Hetland's directions from his movie. I've moved the files (makefile, upwelling.h ...

drewa

I've been working on generating a grid using the ROMSgui interface. I'm using Matlab R2007b and have installed what I believe I need to (netcdf, mexnc, etc). I've also added the Presto (and sub-directories) and mex_matlab_linux32 to my path.

I've gone through the steps outlined in the tutorial and ...

drewa

Thanks again Kate. That really clears things up for me.

drewa

Finally, I have compiled both versions of ROMS (ROMS and ROMS_AGRIF) and am starting to play around with the test cases. I've started with the 'upwelling' test case for the ROMS version and have a simple question:
Where are the NetCDF input files (ocean_grd.nc, ocean_ini.nc, ocean_itl.nc...)?

The ...

drewa

i found some path errors. looks ok for now

drewa

Thanks to all who helped me getting netCDF and ifort up and going. I am now trying to get the AGRIF version compiled. I have made some changes to the jobcomp file to try and get things going but I'm a bit stumped now.

I'm using the ifort compiler and netCDF 3.6.2.

The changes I made are:

set ...

drewa

baum, thanks for that suggestion. Cleaning up the make for netCDF and ROMS made all the difference in the world. I had a feeling that there were things from earlier attempts that might have been holding things up.

The make clean and make distclean did the trick. Ya hoo! Everyone, thank you so very ...

drewa

Thanks a lot. I think that I'm getting closer. I was able to get through configure, make, make check , and make install . The configure that went through was:

./configure FC=/opt/intel/fc/10.0.026/bin/ifort FC90=/opt/intel/fc/10.0.026/bin/ifort CPPFLAGS=-DpgiFortran

Now the ROMS make isn't ...

drewa

I changed the F90 to FC in the configure line but netCDF is still not installing. I get through the configure with what seems to me to be no problems (i.e. nothing glaring wrong in the config.log file other than it choking on the GNU Fortran and GNU Fortran 77 compilers).

Where it now goes south is ...

drewa

Nganju and Kate, I thought that I was specifying the compiler like this in the configure:

./configure FC90=/opt/intel/fc/10.0.026/ifort

but I did see ifort = no in the long list of things that scroll by. I have turned off all other fortran compilers, hoping that it would only see the ifort ...

drewa

I have installed Intel ifort 10.0.026 on a Ubuntu system. It tests fine with a "hello world" program and I added the path to 'ifort' into .bashrc. I believe I built netCDF 3.6.2 correctly (i.e. the nctest seems to work). I compiled it via:

./configure FC90=/opt/intel/fc/10.0.026/ifort

The make ...

drewa

I'm having a bit of trouble with the m_pack viz package which I assume relates to my version of Matlab (R2007b) under Ubuntu 7.1. Has anyone seen these errors and figured out a good work around (I do have Mexnc installed)?

??? Error using ==> feval
Invalid MEX-file
'/home/drew/Programs/Matlab75 ...

drewa

I've just started playing around with ROMS and have a question. What are the differences (capabilities, equations, input, output) between the MyROMS version and the AGRIF version? From what I've been able to figure out, the AGRIF version can do nesting more easily than the MyROMS version and there ...

drewa

Thanks. Good to know that others have looked at it on small scales.

drewa

Thanks, I got it up and going.

drewa

I'm playing around trying to get Python (with numpy, matplotlib, and python-netcdf4) up and going. I'm working on it both under Windows XP (via Cygwin) and Ubuntu (through VMWare). Have many of y'all had much success using it under either environment? Any tips on getting it up and going? Thanks.

drewa

I'm trying to install on a Laptop running Windows, using VMWare and Ubuntu Linux. We have run into a problem and are a bit stuck. The error we get is:

jars@jars-desktop:~/trunk$ make
makefile:226: INCLUDING FILE Build/make_macros.mk WHICH CONTAINS APPLICATION-DEPENDENT MAKE DEFINITIONS
gfortran ...

drewa

I'm looking at using ROMS to model an estuary in southern California. Most of the applications I've seen are generally large scale. I assume that it can be scaled down to an estuary (~1 km x ~1 km with an offshore grid ~10x that size) but before I get too far along that path, I thought I'd see if ...

Ocean Modeling Discussion

Search found 35 matches

Cygwin with 2 processors

odd problem

server recommendations?

Wet/dry stiffness

Point source definitions

Matlab and wet/dry masking

functional path

Cygwin build.bash or build.sh

Seagrid error

Test cases

ROMS_Agrif installation

netCDF 3.6.2, Ubuntu 7.10, 32bit, Intel Fortran

m_pack visualization

ROMS and AGRIF ROMS

Python visualization

Linux laptop install

Spatial scales