Ocean Modeling Discussion

agpc

Hi Dr. Wilkin,
I know that but the lat, lon, depth variables in the USeast_bath.m are double format. Does I use the double command to change the format of these variables?
Besides that, I found the ans parameter in this file too. How can I create this value?
Thank you!

agpc

Hi everyone, I'm studying to create the nesting ROMS grids following the user manual, but I don't know how to create the bath.mat file similar to the USeast.mat file. I've tried using the extract.m program in the rutgers directory but it just created the x, y, z variables. Please help me create this ...

agpc

Hi Robertson, Thank you for your explanation. I've used the "module purge" command to clear all of my environment variables, then I loaded the netcdf, hdf5, NCAR_ROOT libaries with GNU compilers and recompiled this package. Finally, I could run it successfully. [cloud@igplogin ROMS_output]$ ./csecG ...

agpc

Hi Robertson,
I think my NCARG_ROOT environment variable set to gfortran (GNU). I'm not sure about that, so can you tell me how to examine it.

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[cloud@igplogin src]$ printenv NCARG_ROOT
/work/apps/gnu_4.8.5/ncl_ncarg/6.3.0

agpc

Hi Robertson,
I've tried to use the netcdf library with version 2016, however, it still failed.
I attach the compilers file in this post.
Please help me to find the solution for this.
Thank you!

agpc

Hi John, I've changed my script.in following your suggestion, but it failed. The error I got in the last post still occurred. MCT::m_SparseMatrixPlus::initFromRoot_:: FATAL--length of vector y different from row count of sMat.Length of y = 184275 Number of rows in sMat = 183400 038.MCT(MPEU)::die ...

agpc

Hi John, Here is my script.in file: $INPUTS ! ! Input file for scrip_coawst. ! The $INPUTS line is required at the top of this file. ! Edit this file to enter the correct information below. ! Then run this program as "scrip_coawst scrip_coawst_sandy.in" ! ! 1) Enter name of output netcdf4 file ...

agpc

Hi Robertson, I used your command and this is my result: [cloud@igplogin src]$ ldd csecG linux-vdso.so.1 => (0x00007fff491b3000) /work/apps/intel/compiler/2020/compilers_and_libraries_2020.0.166/linux/compiler/lib/intel64_lin/libirc.so (0x00002b57bb3c2000) libX11.so.6 => /lib64/libX11.so.6 ...

agpc

Hi John,
I've attached all of my namelist option in this post.
Please help me to find a solution for this problem.
Thank you very much!

agpc

Hi John, I've set up my namelist file like that: #With ROMS model Lm == 523 ! Number of I-direction INTERIOR RHO-points -2 Mm == 349 ! Number of J-direction INTERIOR RHO-points -2 #With SWAN model && KEYWORDS TO CREATE AND READ COMPUTATIONAL GRID && CGRID CURVILINEAR 524 350 EXC 9.999000e+003 9 ...

agpc

Hi Kate, I've refreshed and recompiled the ROMS plotting package. And the problem I got is: [cloud@igplogin ROMS_output]$ ./csecG < csec.in Program received signal SIGSEGV: Segmentation fault - invalid memory reference. Backtrace for this error: #0 0x2AFD81A82697 #1 0x2AFD81A82CDE #2 0x2AFD8251533F ...

agpc

Hi Robertson, Following your recommend, I've recompile this package with PLT_DEBUG turned on. However, I had the same problem with the last post. [cloud@igplogin ROMS_output]$ ./csecG < csec.in Plottable Fields in Primary NetCDF File: --------------------------------------- ocean_avg1_00001.nc ...

agpc

Hi John, I've used Matlab to display the size of my ROMS grid: >> netcdf_load('ROMS_COAWST_grd1.nc') >> size(h) ans = 525 351 The result is equal to the size of the SWAN model which I set up in my namelist file. However, it still failed when I changed the grid of SWAN model was the same as the ROMS ...

agpc

Hi John, I have changed the size of SWAN model with total number of points (swan_numx=525 swan_numy=351), however it failed. The coawst.out file is displayed that: =================================================================================== = BAD TERMINATION OF ONE OF YOUR APPLICATION ...

agpc

Hi Robertson, Thank you for your reply. Following your suggestion, I can fix the last error. However, I had a problem: [cloud@igplogin ROMS_output]$ ./csec < csec.in Plottable Fields in Primary NetCDF File: --------------------------------------- ocean_avg1_00001.nc Program received signal SIGSEGV ...

agpc

Hi John,
I've tried many times to fix it but it didn't work.
Please help me to solve this problem.
I attached all of my namelist and the log files in this post.
Thank you very much!

agpc

Hi everyone, I'm a new user of the coawst model. I've been making bathy data from scratch following the guide in the website "https://www.myroms.org/wiki/seagrid". However, when I used the join_cst command, it failed. My error is that: K>> coast_new=join_cst(coast,.0001); % join coastline segments ...

agpc

Hi Robertson,
After I changed the error which you mentioned, the error still happened.

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[cloud@igplogin ROMS_output]$ ./csec < csec.in 
At line 576 of file csec.f90 (unit = 5, file = 'stdin')
Fortran runtime error: Bad integer for item 1 in list input

agpc

Hi everyone, I had a problem when running the COAWST model, this problem is presented in the below: Fatal error in MPI_Recv: Other MPI error, error stack: MPI_Recv(186).............: MPI_Recv(buf=0x7ffdaaeef83c, count=1, MPI_INTEGER, src=0, tag=0, comm=0x84000002, status=0x47a6940) failed dequeue ...

agpc

Hi everyone, I've compiled successfully the roms plot package and there are four programs, including ccnt, cnt, csec and sec in the PLT_BINDIR. When I used this package to plot the ROMS output, it reported that: [cloud@igplogin ROMS_output]$ ./csec < csec.in At line 576 of file csec.f90 (unit = 5 ...

agpc

Hi Robertson,
Following your suggestion, I can compile this package successfully.
Thank you very much!
Bests,
Manh,

agpc

Hi Kate,
I have an error with the plotting package which is related to GNU:

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makefile:31: *** This makefile requires one of GNU make version 3.80 3.81 3.82..  Stop.

Please help me to address it.
Bests,
Manh,

agpc

Hi everyone, I'm a new user of COAWST mode. Currently, I'm studying how to run COAWST with real-time data for forecasting purposes. At the moment, I follow your guide on the manual of the model and I can perform some simulation cases. However, I have a problem when using the roms_master_climatology ...

agpc

Hi Kate, Thank you for your reply. I found in your link and I add "-lm" in the LIBS line, however it still wrong. /usr/bin/cpp -P -traditional -I/work/apps/gnu_4.8.5/netcdf/4.3.3.1/include -DLINUX -DX86_64 -DGFORTRAN -DNCARG630 -Drmdocinc -IInclude -IUtility Drivers/cnt.F > Build_plt/cnt.f90 Bin/cpp ...

agpc

Hi Ivica,
I mean that can you give your scripts on pyNGL?
Besides, I don't have the CGOA_grid_3.nc file to know what exactly in this file.
Thank you very much!
Bests,

agpc

Dear Ivica,
Can you kindly give me some scripts to plot the output of the ROMS model.
I've tried to compile the plotting package of ROMS but it still failed.
Thank you very much!
Best regards,
Manh

agpc

Hi Kate,
Can you kindly give my your NCL scripts to plot the output of the ROMS model.
I can not to connect to the link "http://people.arsc.edu/~kate/NCL/"
Here is my email address "ntmanh18196@gmail.com".
Thank you very much!
Bests,
Manh,

agpc

Hi Kate, I found the issue that related to the conflict with each library in my set-up. /usr/bin/ld: warning: libmpi.so.12, needed by /work/apps/gnu_4.8.5/mvapich2/2.3.2/lib/libmpifort.so, may conflict with libmpi.so.40 /usr/bin/ld: warning: libgfortran.so.3, needed by /work/apps/gnu_4.8.5/mvapich2 ...

agpc

Hi Kate, I have added the freetype library on my compiler file, however it still failed. Anyway, I have tried 2 methods to compile this package. The first is that I used all of library from conda. The problem is presented in the below: The Open MPI wrapper compiler was unable to find the specified ...

agpc

Hi Kate, Following your suggesion, I add -lcairo in the lib, however it still failed. cd Build_plt; /work/apps/gnu_4.8.5/mvapich2/2.3.2/bin/mpif90 -c -g -fbounds-check cnt.f90 /work/apps/gnu_4.8.5/mvapich2/2.3.2/bin/mpif90 -g -fbounds-check Build_plt/cnt.o Build_plt/cpmpxy2d.o Build_plt/mapeod.o ...

agpc

Hi Robertson, Following your suggestion, I set my LD_LIBRARY_PATH and LIBRARY_PATH environment variables with X11 and Netcdf, mpich libraries. However, it reported that: /work/users/cloud/user/manh/COAWST/COAWST_Nonesting/plot/src/Build_plt/hbackground.f90:656: undefined reference to `mapchi_' /work ...

agpc

Hi Kate, I have a problem with install plot package. The error is presented below: /usr/bin/ld: Warning: size of symbol `mapcm1_' changed from 28 in Build_plt/libUTIL.a(hbackground.o) to 40 in /work/apps/gnu_4.8.5/ncl_ncarg/6.3.0/lib/libncarg.a(mapbd.o) /usr/bin/ld: Warning: size of symbol `mapcm2 ...

agpc

Hi John, I got this error when I set-up my the namelist file of SWAN model. In the case that I fix my bdy data, the error doesn't occur. My set-up is that: & Boundary files **************************************** BOUND SHAPESPEC JONSWAP PEAK DSPR DEGREES BOUNDSPEC SEGMENT IJ 0 0 0 219 CONSTANT PAR ...

agpc

Hi John,
My script run successfully with sandy case but it doesn't work for my case. So I think this error comes from my ROMS's domains.
In this post, I attach all of my nc files in my project.
Can you define my problem?
Thank you very much!
Manh

agpc

Hi everyone, I have a problem when running Coawst model is that: orrtl: severe (194): Run-Time Check Failure. The variable 'bcfile_$DORDER' is being used in 'swanpre2.f90(3963,23)' without being defined Image PC Routine Line Source coawstM 0000000000BB50EC bcfile_ 3963 swanpre2.f90 coawstM ...

agpc

Hi John,
Finally, I can fix it.
Thank you very much!
-Manh

agpc

Hi everyone, I have a problem which is related to run the script_coawst program. When I ran this program, it displayed that: [cloud@igplogin SCRIP_COAWST]$ ./scrip_coawst scrip_coawst_sarika.in ================================================ Read input_file for SCRIP_COAWST Wrapper ...

agpc

Hi John, Thank you for your suggestion. I had changed my time vars in my clm.nc file to: ocean_time = 57678, 57679 ; zeta_time = 57678, 57679 ; v2d_time = 57678, 57679 ; v3d_time = 57678, 57679 ; salt_time = 57678, 57679 ; temp_time = 57678, 57679 ; and my bdy.nc file to: zeta_time = 57678, 57679 ...

agpc

Hi John, This is my result: [cloud@igplogin Sarika]$ ncks -v v2d_time merged_coawst_bdy.nc v2d_time: type NC_DOUBLE, 1 dimension, 3 attributes, compressed? no, chunked? no, packed? no v2d_time size (RAM) = 2*sizeof(NC_DOUBLE) = 2*8 = 16 bytes v2d_time dimension 0: v2d_time, size = 2 NC_DOUBLE ...

agpc

Hi John, Here is my bdy.nc file: [cloud@igplogin Sarika]$ ncdump -c merged_coawst_bdy.nc netcdf merged_coawst_bdy { dimensions: xpsi = 299 ; xrho = 300 ; xu = 299 ; xv = 300 ; epsi = 219 ; erho = 220 ; eu = 220 ; ev = 219 ; s_rho = 16 ; zeta_time = 2 ; v2d_time = 2 ; v3d_time = 2 ; salt_time = 2 ...

agpc

Hi John, Thank you for your suggestion. I changed my ROMS namelist file and the problem was solved. However, I had another issue is that: MULTIFILE_INFO_S2D - Error while processing lateral boundary multi-files: data does not include initialization time = 2174-09-15 00:00:00.00 ****-**-** 00:00:00 ...

agpc

HI John, The line 2198 of read_phypar.f90 is: CALL edit_file_struct (ng, OutFiles, QCK) The line 212 of edit_multifile.f90 is "end if" which located below: IF (associated(S(ng)%files)) deallocate (S(ng)%files) ! allocate ( S(ng)%Nrec(Nfiles) ) allocate ( S(ng)%time_min(Nfiles) ) allocate ( S(ng ...

agpc

Hi John,
In this post, I give you all of my output files.
I hope it is enough to determine what is going wrong.
Thank you very much!

agpc

Hi John, Thank you for your help. I changed my ROMS's namelist file following your suggestion, however it still errored: DYNAMICS OPTION: Eulerian Mass Coordinate =================================================================================== = BAD TERMINATION OF ONE OF YOUR APPLICATION ...

agpc

Hi Kate, The line in my code is "fname=BRY(i,ng)%files(ifile)", it is displayed clearly below: IF (ObcData(ng)) THEN DO i=1,nBCfiles(ng) DO ifile=1,BRY(i,ng)%Nfiles fname=BRY(i,ng)%files(ifile) IF (.not.find_file(ng, fname, 'BRYNAME')) GO TO 30 IF (ifile.eq.1) THEN WRITE (out,230) ' Input Boundary ...

agpc

Hi everyone, When I run the coawst model it reported that: forrtl: severe (174): SIGSEGV, segmentation fault occurred Image PC Routine Line Source coawstM 0000000003C4696A Unknown Unknown Unknown libpthread-2.17.s 00002B4CA7C955D0 Unknown Unknown Unknown coawstM 000000000091D1D2 read_phypar_ 3082 ...

agpc

Hi John, This is my swan's namelist file: && KEYWORDS TO CREATE AND READ COMPUTATIONAL GRID && CGRID CURVILINEAR 299 219 EXC 9.999000e+003 9.999000e+003 CIRCLE 36 0.04 1.0 24 READGRID COORDINATES 1 'Projects/Sarika/swan_coord.grd' 4 0 0 FREE && KEYWORDS TO CREATE AND READ BATHYMETRY GRID && INPGRID ...

agpc

Hi John, I see the information in the COAWST manual like that: If not coupled to wrf, you need to download wind data from somewhere and create an ascii wind forcing file. See the SWAN manual as to the format. In my case, I ran SWAN with WRF, so I do not need the winds data, right? So, can I do to ...

agpc

Hi everyone, I have a problem when I run the COAWST model with WRF+ROMS+SWAN coupling option. The PRINT01-001 file displayed that: &COMPUTE STAT 20161016.000000 COMPUTE NONSTAT 20161016.000000 30 MIN 20161018.000000 ** Warning : Quadruplets will be updated per iteration ** Warning : instead of per ...

agpc

Hi everyone, Thank you for your help. My problem is definded in the differences of the Theta_S, Theta_B, minimum depth of ROMS grid and ROMS namelist file. After I recreate all of the input and namelist file, unfortunately it reported that: Found Error: 01 Line: 351 Source: ROMS/Nonlinear/main3d.F ...

agpc

Hi all, 1. I had a problem when recompiling COAWST model with USE_DEBUG option but it failded. The error is that: fort: warning #10182: disabling optimization; runtime debug checks enabled swanpre1.f90(4637): error #7938: Character length argument mismatch. ['(I6)'] CHARS(1) = NUMSTR(ISTAT,RNAN,'(I6 ...

agpc

Hi Kate,
I'm sorry if my question is quite stupid. I mean your suggestion is that I recompile model with USE_DEBUG option in coawst.bash file, isn't it? I'm a beginner, so I know not much about this model.
Many thanks!
-manh

agpc

Hi John,
Thank you for your suggestion, however when I deleted all of TAB, the error still occurred.
Can you kindly give me any suggestions?
I also post my issue on your github site.
Many thanks!

agpc

Dear everyone, I'm a beginner of COAWST model. Currently, I'm running COAWST (WRF+ROMS+SWAN) with nonesting option. In this case, I used WRF with 2 domains, ROMS and SWAN with 1 domain. My error is displayed below: [cloud@igplogin COAWST_Nonesting]$ mpirun -np 9 ./coawstM Projects/Sarika/coupling ...

agpc

Hi all, I have a problem when running the coawst model with nonesting option. The detail of this issue is presented below: [cloud@igplogin COAWST_NONESTING]$ mpirun -np 3 ./coawstM Projects/Sarika/coupling_sarika.in Coupled Input File name = Projects/Sarika/coupling_sarika.in Coupled Input File name ...

agpc

Hi everyone, I have a problem when using the extract_bath.m program. The detail of issue is presented below: >> extract_bath Unrecognized function or variable 'h'. Error in extract_bath (line 54) zbathy=reshape(h,1,prod(size(h)))'; I also attached my the extract_bath.m and x_etopo.m program in this ...

agpc

Hi Steve
Would you mind sharing your script with me, ntmanh18196@gmail.com.
I also have a problem with the ncei_2roms.m script.
Thank you very much!

agpc

Hi everyone, I'm a new user of Matlab. When I run the roms_clm_roms_master_climatology_coawst_mw.m program it fails. The detail is displayed below: Error using netcdflib The NetCDF library encountered an error during execution of 'putVarDouble' function - 'Numeric conversion not representable (NC ...

agpc

Dear all, I'm the beginner of the coawst model and Matlab. I followed the coawst's user guide to create a roms grid, however when I opened matlab and typed the command below: netcdf_load('wrfinput_d01') it reported: Unrecognized function or variable 'netcdf_load'" Please help me to address this ...

agpc

Hi jcwarner, I run coawstM program to run the WRF model however when I submitted a job or ran with command mpirun the model system didn't work. The error was displayed below: [weather@igplogin COAWST]$ mpirun -np 20 ./coawstM > wrf_run1.out ./coawstM: symbol lookup error: ./coawstM: undefined symbol ...

agpc

Hi jcwarner, I run test case with NAM and RTG_SST data (included in ftp://ftp.ncep.noaa.gov/pub/data/nccf/com/gfs/prod/) from 2020-08-01-00 to 2020-08-02-00, however when I run ./metgrid.exe, my model displayed: [weather@igplogin WPS]$ ./metgrid.exe Processing domain 1 of 2 Processing 2020-08-01_00 ...

agpc

Hi Jcwarner and Robertson, Thank you for your useful suggestions. I followed your suggestions and recompiled COAWST model with netcdf-Intel libs, I did not see any errors in ROMS, however it couldn't produce a wrf.exe file. ls main/ convert_em.F Makefile module_wrf_top.o real_em.F tc_em.F wrf.F ...

agpc

Dear all, I've been installing COAWST model followed COAWST_User_Manual with Sandy Project, details are described in the attach files (coawst.bash). However, this process has some problems: get_sparse_matrix.f90:(.text+0xd5): undefined reference to `netcdf_mp_nf90_open_' and these errors are ...

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