These PCC code values will change once we get the basic segmenter
working so we can take advantage of 16-bit image data.  Model 1 is the
current  8-bit model documented
in the Reference Manual The new scheme might be:

[Proposed model 2] PCC image coding scheme for 16-bit images 
-------------------------------------------------------------
 BKGRD_CODE           0           - background pixel
 UNLABELED_CC_CODE    1           - unlabeled central core pixel
 MIN_CC_CODE          2           - minimum labeled central core pixel
 MAX_CC_CODE          29999       - maximum labeled central core pixel
 PCC_BASE_CODE        30000       - guard region splitting previously 
                                    merged spots
 MIN_PCC_CODE         30002       - min. labeled prop. central core pixel
 MAX_PCC_CODE         59999       - max. labeled prop. central core pixel
 KILL_SPOT_CODE       65534       - deleted spot in central core 
                                    if NEQ sizing (0 if -noDelete). 
 ISOLATED_PIXEL_CODE  65535       - isolated pixel or non 
                                    4-ngh connected pixel
 
[Proposed model 3] PCC Design using a 32-bit fbl.cc value
---------------------------------------------------------

This segmented PCC encoding model can handle more than 32K spots that
Model 2 handles. If we will be using input data with more than 32K
spots this may be a better model.  Instead of coding the CC and PCC by
an offset, we allocate specific bits for setting/testing

   ISOLATED_PIXEL_MASK  01000   for isolated pixels (i.e. spots)
   KILL_SPOT_MASK       0400    for killed spots
   PCC_MASK             0200    for PCC pixels

Then we use a segmented cc counter consisting of 

   ccSubId              0177 LSB

This cycles in the range of either 2:99 or 1:127 (the former is
easier to map to the CC image). This is added to the generation number

   ccGenNbr             22 most significant bits of 32-bit CC int word

The ccGenNbr is incremented when the ccSubId cycles from 99 back to 2.
2**22 is 4,194,304 so that should be large enough for any gel!
GGGR all code to make the changes.
 
Given a (int)cc, the three fields are decoded as:
 
   ccSubId   = (cc & 0177);
   ccGenNbr  = (cc >> 10);
   ccFullNbr =  (ccGenNbr << 7) | ccSubId;
 
We can also continue using 
  BKGRD_CODE           0           - background pixel
  UNLABELED_CC_CODE    1           - unlabeled central core pixel
where we just set all other bits to 0.
 
------------------------------------------------------
|   ccGenNbr   | isolated | killed | PCC   | ccSubID |
|              | pixel    | spot   |       |         |
------------------------------------------------------
    22-bits       1-bit     1-bit    1-bit    7-bits

Contact us

Seg2Dgel is a contributed program available at open2dprot.sourceforge.net/Seg2Dgel

Revised: 10/04/2005