Re: [Biojava-l] FramedFeature interface

2001-09-02 Thread Hilmar Lapp
--- "Schreiber, Mark" <[EMAIL PROTECTED]> wrote: > Hi - > > Below is a work up for a possible FramedFeature interface > > Any comments? > Just a note for the integer codes: Bioperl as well as many other bioinformatics applications use frames [+/-]0..2 instead of 1..3. -hilmar = --

[Biojava-l] FramedFeature interface

2001-09-02 Thread Schreiber, Mark
Hi - Below is a work up for a possible FramedFeature interface Any comments? /* *BioJava development code * * This code may be freely distributed and modified under the * terms of the GNU Lesser General Public Licence. This should * be distributed with the code. If yo

[Biojava-l] Frames

2001-09-02 Thread Schreiber, Mark
Hi - Is there any type of feature that handles frames? GFFEntrySets seem to containt the idea but loose the frame info when they annotate the Sequence object. Although it is possible to assign a frame based on the position of the feature if the frame is specified by the GFFEntrySet it seems a wa

Re: [Biojava-l] Possible missync between AssembledSymbolList and SimpleAssembly

2001-09-02 Thread Thomas Down
On Sun, Sep 02, 2001 at 12:22:31PM +0100, David Huen wrote: > I have been getting a compilation error with the current CVS checkout > which seems to arise from a parameter list change in the former. > > Changing line 198 in the latter from:- > assembly.putComponent(loc, cf); > to:- >

[Biojava-l] Possible missync between AssembledSymbolList and SimpleAssembly

2001-09-02 Thread David Huen
I have been getting a compilation error with the current CVS checkout which seems to arise from a parameter list change in the former. Changing line 198 in the latter from:- assembly.putComponent(loc, cf); to:- assembly.putComponent( cf); seems to fix it sensibly (location is