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Ticket Owner Reporter Resolution Summary
#478 arango jcwarner Fixed psi mask computation
Description

During initialization, the mask at PSi_points is recomputed in metrics.F. The range for this is:

      DO j=Jstr,Jend
        DO i=Istr,Iend
          IF ((rmask...   THEN
            pmask(i,j)=1.0_r8
          ...
        END DO
      END DO

But the pmask has a range from Istr:Iend+1, and Jstr:Jend+1. So I think this range should be Istr,Iend+1 and Jstr,Jend+1.

#491 arango arango Done Allowed tilde as file name paths in the plotting package
Description

Change the drivers of the plotting package ccnt, cnt, csec, and sec to specify a tilde in the input file path. For example, we can have in the input scripts:

...
T     WRTRANG: logical switch to write out data range values and CI.
F     WRTFNAM: logical switch to write out input primary filename.
F     WRTDATE: logical switch to write out current date.
T     CST    : logical switch to read and plot coastlines and islands.
 -30.0  70.0 : bottom and top map latitudes (south values are negative).
-100.5  20.5 : left and right map longitudes (west values are negative).
~/ocean/repository/plot/Data/varid.dat
~/ocean/repository/plot/Palettes/natlan1.pal
~/ocean/repository/plot/Data/default.cnt
damee4_avg.nc
damee4_avg.nc
../Data/damee4_grid_a.nc
~/ocean/repository/plot/Data/global_low.cst

A new routine Utility/read_fname.F was added to read file names from standard input scripts. If the file name starts with ~/, replace tilde with home directory path from the HOME environmental variable:

      READ (unit,'(a)') text
      lstr=lenstr(text)
      IF (text(1:2).eq.'~/') THEN
        CALL getenv ('HOME', home)
        ldir=lenstr(home)
        file_name=home(1:ldir)//text(2:lstr)
      ELSE      
        file_name=text(1:lstr)
      END IF

I found this to be useful when working in different computers environments, provided that we have the same directory tree for the ROMS software. For example, all my ROMS software is in the following directory tree: ${HOME}/ocean/repository.

#493 arango arango Done Plotting Package scripts for the GST Algorithms
Description

Added several new scripts to facilitate the plotting of the Generalized Stability Theory (GST) algorithms using ROMS Plotting Package:

    plt_afte.sh      Adjoint Finite Time Eigenmodes (AFT_EIGENMODES)
    plt_fte.sh       Finite Time Eigenmodes (FT_EIGENMODES)
    plt_fsv.sh       Forcing Singular Vectors (FORCING_SV)
    plt_op.sh        Optimal Perturbations (OPT_PERTURBATION)
    plt_so.sh        Stochastic Optimals (SO_SEMI)

It can plot a single or multiple NetCDF files containing the eigenvectors. It is currently configured for the double gyre test case. However, Users can modify these scripts easily for the own application.

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