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tweaks to remove warnings on osx/clang
Fixed svn properties in trunk/c++.
CVS $Log$ keyword clean-up: everything except "internal".
working refiner integration
add PSSM export
remove cn3d/ from include paths; add pragma to disable annoying msvc warning
add -n option to not show alignment window
format changes: move CVS Log to bottom of file, remove std:: from .cpp files, and use new diagnostic macros
remove seqrow export format; add choice of repeat handling for FASTA export; export rows in display order
add seqrow format export
separate save and save-as
add A2M export
reorganize handling of window titles
add alignment export
don't auto-show sequence windows
finish import/align new sequences into single-structure data; many small tweaks
make CDD annotation window non-modal; add SetWindowTitle to viewers
change bg color handling ; show geometry violations
major update - add merging, threader GUI controls
add row sorting by identifier
working undo system for >1 alignment (e.g., update window)
major changes to add initial update viewer
major rearrangement of sequence viewer code into base and derived classes
load structures from cdd's
add show/hide rows; unpack sec. struc. and domain features
create Seq-annot from BlockMultipleAlignment
fix memory problem with alignment cloning
working editor undo; dynamic slave transforms
working block boundary editing
first working editing operation
rearrange STL #includes
working conservation coloring; split and center unaligned justification
add row reordering; misc fixes
working alignment coloring
working messenger for sequence<->structure window communication
working dynamic alignment views
working generalized sequence viewer
working sequence window
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