/******************************************************************************

  FILE:  adcpsect.cnt

  This control file is used with the adcpsect program
  to extract ADCP data for specified sections along a cruise track
  from a CODAS database, perform the desired calculations,
  and write the result to text and Matlab files.
  The sections are specified as time ranges.

  This particular version is used to extract
  the ship velocity relative to the reference layer.

  INPUT:  CODAS database
  OUTPUT: 1. text file (.nav file) with following columns:
             a. profile time (in decimal days)
             b. zonal velocity relative to reference layer (in m/s)
             c. meridional velocity relative to reference layer (in m/s)
          2. text file of statistics--mean (.sta file)
          3. Matlab files
             a. _uv.mat contains array "uv" with two columns for each ensemble,
                first u and then v.  The row corresponds to the depth grid.
             b. _xy.mat contains array "xyt" with a column for each ensemble,
                and three rows: longitude, latitude, decimal day;
                and vectors "z" and "zc" with the depth grid and the grid
                interval centers, respectively.
-------------------------------------------------------------------------------
  CONTROL FILE STRUCTURE:

  dbname:       < CODAS database name >
  output:       < output filename >
  step_size:    < number of profiles to advance >
  ndepth:       < number of depth bins to read and process >
  time_ranges:  < combined or separate >
  year_base=    < base year for decimal days >

  option_list:
    [ verbose ]                       { prints debugging and auxiliary output }
    [ underway?    < no | yes limit= <3> > ]                   { limit in m/s }
    [ pg_min=      <30> ]
    [ AGC_margin=  <10> ]

    [ skew_limit:
        agc_limit=  <100>
        max_velocity_difference= <0.8> ]                                { m/s }

    [ reference:       { choose only one of the following: }
        < reference_bins <5> to <20> |
          none |
          final_ship_ref |
          nav_position |
          nav_velocity |
          bottom_track |
          dir_position > ]

    [ navigation:      { output in .nav text file }
                       { choose one or more of the ff. then 'end' }
        [reference_bins <5> to <20>] {bin range; first bin is 1}
        [final_ship_ref]
        [nav_position]
        [nav_velocity]
        [bottom_track]
        [dir_position]
        end ]

    [ rotate:  < ship_coordinates | n > ]
        { where <n> is the angle in degrees, old x-axis to new x-axis }

    [ ctd:
        dbname:  < CODAS CTD database name > ]

    [ regrid:
        < integrate | interpolate | centered_average | average |
          per_grid_interval >
        < depth | svan | pot_svan | sigma_theta | sigma_t >
          { one of the last 4 only if the ctd: option has been selected }
        < grid      number= <50> origin= <16> increment= <8> |
          grid_list number= < 5> boundaries: <20> <40> <60> <80> <100> > ]

    [ contour:         { output in .con text file }
        < latitude | longitude | time >
        < middle | mean >
        minimum_npts= <10>
        units=        <0.01> ]

    [ vector:          { output in .vec text file }
        minimum_npts= <10> ]

    [ transport:       { output in .trn text file and _tr.mat Matlab Mat-file }
        minimum_npts= <10>
        units=        <1.e6>                                  { for Sverdrups }
        direction=    < all | left | right | along > ]

    [ sequential_cor:  { output in .cor text file }
        bin_range: <3> to <40> ]  { starting from 1, inclusive }

    [ ascii:           { output in .sub text file }
        [ minimum_percent= <0.50> ] { %ensembles in time range with good data }
	end ]                       { less than this, mean U/V is set to 99999 }

    [ statistics:      { output in .sta text file }
        [ mean ]
        [ variance ]
        [ extrema ]
        [ norm_extrema ]
        [ indices ]
        [ all ]
        units= <0.01>
        end ]

    [ flag_mask:
        < bit-mask > { bit-mask is any one or more of those defined in
        .              adcpflag.h; these cumulatively indicate which
        .              criteria to consider in flagging profile bins
        .              as bad prior to calculations.  Use this option
        end ]          if you want flagging other than the default ALL_BITS }

    end

  { list of YMDHMS time pairs: }
  < yy/mm/dd hh:mm:ss > to < yy/mm/dd hh:mm:ss >
  .
  .
  .
-----------------------------------------------------------------------------*/

  dbname:             ../adcpdb/ademo
  output:             ademo    /* must be <= 5 chars. for DOS */
  step_size:          1        /* must be 1 for navigation */
  ndepth:             20
  time_ranges:        separate
  year_base=          1993

  option_list:
    pg_min=           30
    navigation:
      reference_bins  5  to   20
      end
    statistics:       mean
      units=          0.01       /* cm/s instead of default m/s */
      end
    flag_mask:        ALL_BITS
      end
    end

  93/04/09 00:02:00 to 93/04/10 23:58:00

/*****************************************************************************/