id Summary Owner Type Priority Component Version 62 Aligning sequence that has a reverse compliment doesn't fully align correctly diane defect blocker Qt Gui 92 Allow one to temporarily disable a motif diane defect blocker core 99 Percent threshold shouldn't be editable. diane enhancement blocker Qt Gui 134 Width of seqcomp match line is wrong diane defect blocker Qt Gui 146 Win32: Create new analysis mystery crash king defect blocker Qt Gui 154 off by one error when drawing segments diane defect blocker Qt Gui 26 SubAnalysis mode diane enhancement critical Qt Gui 44 Computation of reverse compliment colors is buggy diane critical Qt Gui 49 QAssistant Mussa Docs diane defect critical core 55 Somehow when reloading an analysis it needs to save threshold / window size diane defect critical Qt Gui 57 Define analysis is annoying diane critical Qt Gui 63 with two sequences the align sequence view doesn't show any connections diane defect critical Qt Gui 69 motifs may not be rendering corectly diane critical Qt Gui 71 AnnotationColors don't always color motifs correctly diane defect critical Qt Gui 75 The scrollbar navigation when zoomed in jumps too far diane defect critical Qt Gui 78 Reverse compliment alignment lines dont seem to match up diane critical core 83 Mussa should complain about misformatted fasta files instead of crashing. diane defect critical core 85 mussagl quits, just like i will AGAIN soon. diane defect critical core 107 Motifs don't show up on the Mussa Aligned Sequence window anymore. diane defect critical Qt Gui 122 Motif editor needs to support more than 10 motifs diane enhancement critical Qt Gui 133 Should be able to save motifs diane enhancement critical core 135 Win32: Save as not working... causes crash. king defect critical Qt Gui 144 IUPAC codes are destroyed by the sequence normalization code diane defect critical Qt Gui 15 Unify build system diane defect major core 31 Threshold Widget should use spinboxes diane major Qt Gui 39 sidebar rendering problems diane major Qt Gui 51 Copying sequence might be useful diane enhancement major Qt Gui 58 why does mussa take so long to recompute a large nway? diane defect major Qt Gui 59 the washed out sequence should actually be partially transparent. diane defect major Qt Gui 66 The annotation for myogenin needs to be checked. diane major Qt Gui 68 The web site should have the Caltech and possibly BMNC logo king major Qt Gui 70 Need to be able to save screenshots in View Alignment Page diane major Qt Gui 73 Performance problems doing analysis diane defect major Qt Gui 86 Progresss bar diane defect major Qt Gui 91 quits diane defect major Qt Gui 94 quits at viewing allignment diane defect major Qt Gui 101 On windows, the file browse button doesn't remember the previous path diane enhancement major Qt Gui 104 Loading a different analysis while a MussaAlignedWindow was open caused a crash diane defect major Qt Gui 109 Subanalysis sequence list wasn't being cleared diane defect major Qt Gui 110 Running a subanalysis with nothing loaded causes the program to crash diane defect major Qt Gui 114 Location analyses are saved to is ill-defined on OS X. diane defect major Qt Gui 116 Perhaps the motif file should have a name field. diane enhancement major core 118 Tracks need an edit properites option. diane enhancement major Qt Gui 119 Add dependencies to MussaglBuild page diane task major other 120 Windows doesn't have python installed by default diane enhancement major Qt Gui 125 autodetect if python needs -lutil diane defect major Qt Gui 126 Figure out how to get the spirit parsers to report parse errors diane defect major core 127 The sidebar layout isn't right after loading a second analysis into the same window diane defect major Qt Gui 129 Subseq doesn't support trees correctly diane defect major Qt Gui 130 Save is relative to the current directory diane defect major Qt Gui 131 When closing an analysis window, cancel doesn't prevent the close diane defect major Qt Gui 132 Make open saved analysis open a new window diane enhancement major Qt Gui 138 Sequence view window needs a title diane defect major Qt Gui 139 Edit motif window looses motif information when closed diane defect major Qt Gui 140 Load Motifs doesn't do anything diane defect major Qt Gui 142 It'd be really useful to trigger a subanalysis from an aligned sequence view. diane enhancement major Qt Gui 143 add command line option to annotate an analysis with a motif file. diane enhancement major Qt Gui 150 Example data for 1.0 release diane task major Qt Gui 151 Crash is possible when creating a subanalysis smaller than the window diane defect major Qt Gui 160 error: default argument for parameter of type ‘MussaRef’ has type ‘int’ king defect major Qt Gui 20 Toggle Motif Button Implementation king defect minor Qt Gui 24 Clean up the signals and slots diane defect minor Qt Gui 34 Unused variable 'max_range' in 'void ScrollableSequenceBrowser::updateScrollBar()' diane defect minor Qt Gui 35 Zoom Icon diane minor Qt Gui 43 After scrolling a sequence browser window, selection boxes break diane defect minor Qt Gui 46 link in icons diane defect minor Qt Gui 50 Switch to using Qt4.1 resources (automatically compiles resources into binary). diane defect minor Qt Gui 52 Saved analysis needs to keep widow size and threshold for threshold widget diane defect minor Qt Gui 56 Define analysis should include scroll area when SequenceWidget count >= 3 king defect minor Qt Gui 64 Occasionally ConservedPath crashes diane minor Qt Gui 95 Annotations masked out when motif defined and then undefined. diane defect minor Qt Gui 96 Save to image broken king defect minor Qt Gui 97 Help > Mussa Manual... should have warning dialog upon error king defect minor Qt Gui 103 Motifs need a name field diane enhancement minor Qt Gui 115 The create an analysis screen create the sequences in the reverse order. diane defect minor Qt Gui 148 setup_analysis dialog should make sure that the threshold is not greater than the window size. diane defect minor Qt Gui 22 default size hint broken diane defect trivial Qt Gui 53 Copy an example into the os x dmg diane trivial other 60 sequence alignment view needs zoom diane defect trivial core 74 On OSX when maxmizing the sidebar stays on the GL canvas diane defect trivial Qt Gui 76 Qt 4.1.1 crashes on barbara's computer diane defect trivial Qt Gui 102 "Update ""blocking the gui"" comment in --no-gui mode." diane enhancement trivial core 128 the editable sequence name only shows the end of long names. diane defect trivial Qt Gui 147 Sometimes the width of a quadrallateral is too small diane defect trivial Qt Gui 149 "Handle "" in motif names" diane defect trivial Qt Gui