[Biococoa-dev] Base test

[Koen van der Drift]

On Aug 15, 2004, at 12:16 PM, John Timmer wrote:

> Just for reference, I'm attaching a .h file where I was writing out  
> some of
> the things I'd thought would need to be implemented in this sort of  
> class.
> Some of them would probably work well in the base class, and I think  
> the
> method names are fairly informative.  Please use anything you think is
> appropriate.
>

Looks good John. I think the following can go in the parent class. Most  
of these are already (with a different name) in what I commited this  
morning.

/*

/////////////////////////////////////////////////////////////////////// 
/////
//  OBTAINING INFORMATION ABOUT THE SEQUENCE
/////////////////////////////////////////////////////////////////////// 
/////
- (NSArray *) sequenceBaseArray;
- (int) length;
- (BCSequenceBase *) baseAtIndex: (int)index;



/////////////////////////////////////////////////////////////////////// 
/////
//  ALTERING THE CONTENTS
/////////////////////////////////////////////////////////////////////// 
/////
- (void) setSequenceBaseArray: (NSArray *)entry;
- (void) removeBaseAtIndex: (int)index;
- (void) removeBasesInRange: (NSRange)entry;



/////////////////////////////////////////////////////////////////////// 
/////
//  DERIVING OTHER SEQUENCES
/////////////////////////////////////////////////////////////////////// 
/////
- (BCSequenceDNA *) sequenceInRange: (NSRange)entry;


Can we change the name BCSequenceBaseFoo to something else? Just as you  
commented that Symbol is confusing, I think SequenceBase is also  
confusing because (to me) it refers to DNA, not to a general building  
block.

- Koen.