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Ticket Summary Owner Type Priority Milestone Component
#5 Configure a mussa analysis from the Gui king defect major Bionic Mussa Qt Gui
#20 Toggle Motif Button Implementation king defect minor Few Small Repairs Qt Gui
#32 The trac pages should become the main mussa website king task major Bionic Mussa other
#56 Define analysis should include scroll area when SequenceWidget count >= 3 king defect minor Few Small Repairs Qt Gui
#68 The web site should have the Caltech and possibly BMNC logo king major Few Small Repairs Qt Gui
#96 Save to image broken king defect minor Few Small Repairs Qt Gui
#97 Help > Mussa Manual... should have warning dialog upon error king defect minor Few Small Repairs Qt Gui
#135 Win32: Save as not working... causes crash. king defect critical Few Small Repairs Qt Gui
#146 Win32: Create new analysis mystery crash king defect blocker Few Small Repairs Qt Gui
#152 Update mussa_manual.adp to latest tutorial version king task minor document_1.0 other
#153 Allow users to specify the file load file mask king task trivial document_1.0 Qt Gui
#156 Mussa manual - meta ticket king task major document_1.0 other
#157 Mussa manual: document 'save to image' feature king task major document_1.0 other
#160 error: default argument for parameter of type ‘MussaRef’ has type ‘int’ king defect major Few Small Repairs Qt Gui
#161 Add link to smn1 example data (since the UCSC tutorial is based on it) king task major document_1.0 other
#162 Mussa manual: Update major new features section king task minor document_1.0 other
#164 Include a section on creating a .mupa file using the smn1 data. king task major document_1.0 other
#166 Update Mussa summary screenshot to latest version king task major document_1.0 other
#167 Add an "Understanding Mussa" section to manual. king task major document_1.0 other
#168 Mussa manual: Update Mac OS X install instructions king task major document_1.0 other
#169 Update "New Analysis" section as the Dialog box has changed. king task major document_1.0 other
#170 After implementing ticket:164, update 'Load Mupa' section to link to SMN1 example .mupa. king task major document_1.0 other
#171 Remove the "Motif Toggle" button from manual. king defect major document_1.0 other
#172 Update "Dynamic Threshold" section as the widget has changed. king enhancement major document_1.0 other
#173 Update "Sequence Information Bar" section, as it has changed in latest version. king enhancement minor document_1.0 other
#175 Document new 'save motifs' feature. king task major document_1.0 other
#176 Document 'Save Analysis' and 'Save Analysis As' features. king task major document_1.0 other
#178 Update all screenshots to latest version of Mussa. king task major document_1.0 other
#179 Add a section on "File > New Mussa Window" feature. king task major document_1.0 other
#181 Update 'Load a mussa parameter file' section king task major document_1.0 other
#185 Update "Load an analysis" section (text/screenshots) king task major document_1.0 other
#189 Document "save on close" section after close of ticket:187 king task major document_1.0 other
#190 Update 'save motifs' section after close of ticket #188. king task minor document_1.0 other
#191 Update "Motif Dialog" section king enhancement major document_1.0 other
#196 Motif editor: document how to delete a motif king enhancement major document_1.0 other
#213 Document how to deselect tracks/paths king task minor document_1.0 Qt Gui
#214 Document why sub-analysis exists king enhancement minor document_1.0 other
#223 Set the Window Icon to be the Mussa icon king enhancement trivial release_1.0 Qt Gui
#225 Document mussagl command line option king task minor document_1.0 Qt Gui
#227 Document Python useage in Mussagl king task major document_1.0 Qt Gui
#240 When there are no matches, mussa doesn't seem to display anything king defect minor release_1.1 Qt Gui
#246 Add "What's this?" documentation to as many elements of the GUI as possible. king enhancement major release_1.1 Qt Gui
#251 Save to image crash king defect major release_1.1 Qt Gui
#252 Make scroll wheel work king enhancement major release_1.1 Qt Gui
#254 Sub-analysis failing to draw paths on init king defect minor release_1.1 Qt Gui
#257 Saving analysis saves at current threshold king defect major release_1.1 Qt Gui
#1 Annotation color mapper diane critical Bionic Mussa core
#2 Connection view diane task major Bionic Mussa core
#3 View descriptions diane defect major Bionic Mussa Qt Gui
#4 Aligned sequence view diane critical Bionic Mussa Qt Gui
#10 Integrate motifs with annotations diane defect major Standing on our heads core
#12 modify motifs attached to an analysis diane task major Bionic Mussa Qt Gui
#14 Motifs need to be creatable and editable from within the GUI diane defect major Bionic Mussa Qt Gui
#15 Unify build system diane defect major Few Small Repairs core
#16 figure out how to get selections to work with new segment based drawing diane defect major Bionic Mussa Qt Gui
#19 I broke the scrollbar too diane defect major Bionic Mussa Qt Gui
#22 default size hint broken diane defect trivial Few Small Repairs Qt Gui
#23 The threshold widget was broken too diane defect major Bionic Mussa Qt Gui
#24 Clean up the signals and slots diane defect minor Few Small Repairs Qt Gui
#25 broke motif colors diane defect major Bionic Mussa Qt Gui
#26 SubAnalysis mode diane enhancement critical Few Small Repairs Qt Gui
#27 Collect example sequences diane enhancement minor other
#31 Threshold Widget should use spinboxes diane major Few Small Repairs Qt Gui
#33 changing threshold can cause the UI to freeze diane defect major Standing on our heads Qt Gui
#34 Unused variable 'max_range' in 'void ScrollableSequenceBrowser::updateScrollBar()' diane defect minor Few Small Repairs Qt Gui
#35 Zoom Icon diane minor Few Small Repairs Qt Gui
#36 Make zoom widget make sense diane defect major Bionic Mussa Qt Gui
#37 Skateboard Shoes diane defect
#38 Loading a new analysis while an alignment window was open causes segfault diane defect major Bionic Mussa Qt Gui
#39 sidebar rendering problems diane major Few Small Repairs Qt Gui
#40 MussaAlignedWindow, left sequence position doesn't get initial value set diane minor Bionic Mussa Qt Gui
#41 Selection box jumps slightly to the right of the rubber band diane task minor Bionic Mussa Qt Gui
#42 when resizing you should see more basepairs, not make them bigger. diane defect minor Bionic Mussa Qt Gui
#43 After scrolling a sequence browser window, selection boxes break diane defect minor Few Small Repairs Qt Gui
#44 Computation of reverse compliment colors is buggy diane critical Few Small Repairs Qt Gui
#45 recreate os x bless script diane task major Bionic Mussa Qt Gui
#46 link in icons diane defect minor Few Small Repairs Qt Gui
#47 OS X OpenGL rendering problems diane defect
#49 QAssistant Mussa Docs diane defect critical Few Small Repairs core
#50 Switch to using Qt4.1 resources (automatically compiles resources into binary). diane defect minor Few Small Repairs Qt Gui
#51 Copying sequence might be useful diane enhancement major Few Small Repairs Qt Gui
#52 Saved analysis needs to keep widow size and threshold for threshold widget diane defect minor Few Small Repairs Qt Gui
#53 Copy an example into the os x dmg diane trivial Few Small Repairs other
#55 Somehow when reloading an analysis it needs to save threshold / window size diane defect critical Few Small Repairs Qt Gui
#57 Define analysis is annoying diane critical Few Small Repairs Qt Gui
#58 why does mussa take so long to recompute a large nway? diane defect major Few Small Repairs Qt Gui
#59 the washed out sequence should actually be partially transparent. diane defect major Few Small Repairs Qt Gui
#60 sequence alignment view needs zoom diane defect trivial Few Small Repairs core
#62 Aligning sequence that has a reverse compliment doesn't fully align correctly diane defect blocker Few Small Repairs Qt Gui
#63 with two sequences the align sequence view doesn't show any connections diane defect critical Few Small Repairs Qt Gui
#64 Occasionally ConservedPath crashes diane minor Few Small Repairs Qt Gui
#66 The annotation for myogenin needs to be checked. diane major Few Small Repairs Qt Gui
#67 You should be able to open multiple analyses diane major Standing on our heads Qt Gui
#69 motifs may not be rendering corectly diane critical Few Small Repairs Qt Gui
#70 Need to be able to save screenshots in View Alignment Page diane major Few Small Repairs Qt Gui
#71 AnnotationColors don't always color motifs correctly diane defect critical Few Small Repairs Qt Gui
#72 Myogenin human mouse rat cow chicken files are odd diane critical Bionic Mussa core
#73 Performance problems doing analysis diane defect major Few Small Repairs Qt Gui
#74 On OSX when maxmizing the sidebar stays on the GL canvas diane defect trivial Few Small Repairs Qt Gui
#75 The scrollbar navigation when zoomed in jumps too far diane defect critical Few Small Repairs Qt Gui
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