README

README 

+++++++++++++++++++++++++++++++++++++++
+ FORMAT *.fasta for Needleman Wunsch +
+++++++++++++++++++++++++++++++++++++++

+++++++++++++++ START OF FILE  ## no newline allowed
>header1    ## newline allowed
SEQUENCE   ## newline allowed, characters that occur in the *.matrix file are allowed

>header2
SEQUENCE

>header3...  ##the rest of the sequences will not be considered!
...

++++++++++++++++++++++++++++++++++++++++
+ FORMAT *.matrix for Needleman Wunsch +
++++++++++++++++++++++++++++++++++++++++
  
EXAMPLE: all tab delimited \t
++++++++++++++++++++++++++++++++++++++++++ START OF FILE ## no newline
	A	C	G	T
A	10	-5	-5	-5
C	-5	10	-5	-5	
G	-5	-5	10	-5
T	-5	-5	-5	10



++++++++++++++++++++++++++++++++++++++++++++++
+ FORMAT *.asp for Manhattan Tourist Problem + 
++++++++++++++++++++++++++++++++++++++++++++++

EXAMPLE: values in matrix are tab delimited \t, no blank lines!
DIMENSION: size (n & m) of matrix is variable, 
BUT: G-diag: n x n G_right: m x n G_down: n x m
+++++++++++++++++++++++++++++++++++++++++ START OF FILE ## no newline 
G_down: 5 6
  0.32   0.60   0.76   0.73   0.80   0.56
  0.97   0.43   0.50   0.25   0.89   0.20
  0.39   0.42   0.31   0.94   0.31   0.21
  0.20   0.81   0.41   0.96   0.90   0.83
  0.86   0.15   0.49   0.70   0.54   0.84
--- ## these lines are ignored 
G_right: 6 5
  0.32   0.60   0.76   0.73   0.80
  0.97   0.43   0.50   0.25   0.89
  0.39   0.42   0.31   0.94   0.31
  0.20   0.81   0.41   0.96   0.90
  0.86   0.15   0.49   0.70   0.54
  0.20   0.81   0.41   0.96   0.90
---
G_diag: 5 5
  0.32   0.60   0.76   0.73   0.80
  0.97   0.43   0.50   0.25   0.89
  0.39   0.42   0.31   0.94   0.31
  0.20   0.81   0.41   0.96   0.90
  0.86   0.15   0.49   0.70   0.54
---
### file should stop here!