replace the invocation of the old parser with the new parser
Minor refactoring: further exposing the fact the current annotation code
just is not right - not doing what it appears to do. See issue #3.
redo annotation. initial work.
minor refactoring and correcting the comments
refactoring
Move the utility functions that are only used by specific classes to
their users - one for CNKBUI; one for HierarchicalClusteringComputation.
Both are annotation-related and pending further cleaning-up. Issue #3.
main change for issue #5: simplify usage of DSGeneMarker
main change for issue #5: simplify usage of DSGeneMarker
short-term fix for stopping depending on the old annotation code #3
minor improvement of exception handling. see issue #7
major modification for issue #3
add an exception output for the cover-all catching cluase
refactoring so to handle CNKB result largely the same way as other
result types. also avoid the unnecessary conversion to and from byte
array.
replace one case of deserializeDataSet, see issue #10. This also
significantly improves the performance problem reported in issue #6.
Replace another case of deserializeDataSet. See #10. Although this is
not targeting GUI performance directly, it already made tabular view
much faster.
Replace another case of deserializeDataSet. #10. This is a simple and
clean example of how we get rid of unncessary dependency on bison data.
replace one case of deserializeDataSet; remove much nonsense code for
pdb data type and markus component using it; remove overall unncessary
dependency on bison types. #10
fix a synchronization problem reported in a comment in issue #8
restore the chain information code that was temporarily taken out for
the earlier change
fix markus result GUI that stopped working due to earlier changes