- Known Issues/bugs
- Setup/Subana windows do not check validity or existence of parameters yet
- analysis name does not seem to always appear in title bar of
Connection window
- connection view fails to redraw on own after some events
(user can force a redrawn by clicking on the bar toggle)
- resizing connection window before having an analysis crashes
- setup window does not check if all needed inputs are there
- MacOS X
- drawing of lines off (fltk implementation problem)
- runs from harddrive root dir, and saves analyses there...
- Mussa build 014
- added Annotations window
- displays all unique annots
(Only uses the first column of annot ids after start & end indices)
- allows selecting display colors each annot listed
- available under View menu
- added Sequence Copy window
- enter seq #, start and end indices to display sequence
- sequence buffer can selected and copied from
- available under View menu
- bug fixes
- Analysis->Do/Load/Setup/Sub no longer crashes if cancelled/window closed
- fixed file path issues with loading .mupa or analysis saves
- mainly problem with OS X, which "runs" from harddrive root directory
(note, still saves analyses at the root dir...)
- problem on linux in some cases when switched build 013 save method
(tho I didn't realize since I could run from any directory)
- Mussa build 012/013
- finished seqcomp pairwise saving/loading code
- can now set a higher threshold than initial analysis hard threshold
- changed save format so all file go in a directory of analysis name
- Mussa build 011
- added Sub Analysis window
- can choose sub regions of the sequences
- can set new window and threshold settings
- available under Analysis menu
- new menu - 'View'
- moved bar/line toggle here as toggle checks
- add simple motif search entry as well (can still middle click for it)
- made sequence view resizable and scale correctly
- Mussa build 010
- Analysis setup window to interactively create analysis without
needing to make a .mupa configuration file
- added Analysis setup window under file menu
- Mussa windows now include the name of the analysis in title bar
- Sequence window clears previous scroll offset when new
alignment choosen
- Near term
features to add
- intergrate Cartwheel pairwise analyses fetching
- finish FSA window combiner (to condense more overlapping windows)
- ability to harvest all conserved seq to a file (needs above)
- convert & integrate conservation statistic tools from python
- allow setup window to load .mupa files
- Longer term goals (these involve deeper design decisions yet to be
made)
- interactive annotations
- zoom on connection view (how this will work has to be decided)
- allow variable length window comparisons (eg nongapped blast
results)
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