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Ticket Summary Owner Type Priority Milestone Component
#3 View descriptions diane defect major Bionic Mussa Qt Gui
#5 Configure a mussa analysis from the Gui king defect major Bionic Mussa Qt Gui
#10 Integrate motifs with annotations diane defect major Standing on our heads core
#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
#20 Toggle Motif Button Implementation king defect minor Few Small Repairs 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
#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
#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
#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
#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
#52 Saved analysis needs to keep widow size and threshold for threshold widget diane defect minor Few Small Repairs Qt Gui
#55 Somehow when reloading an analysis it needs to save threshold / window size diane defect critical Few Small Repairs Qt Gui
#56 Define analysis should include scroll area when SequenceWidget count >= 3 king defect minor 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
#71 AnnotationColors don't always color motifs correctly diane defect critical Few Small Repairs Qt Gui
#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
#76 Qt 4.1.1 crashes on barbara's computer diane defect trivial Few Small Repairs Qt Gui
#83 Mussa should complain about misformatted fasta files instead of crashing. diane defect critical Few Small Repairs core
#85 mussagl quits, just like i will AGAIN soon. diane defect critical Few Small Repairs core
#86 Progresss bar diane defect major Few Small Repairs Qt Gui
#90 the arrow keys aren't connected to the scrollbar diane defect critical python interface
#91 quits diane defect major Few Small Repairs Qt Gui
#92 Allow one to temporarily disable a motif diane defect blocker Few Small Repairs core
#93 Allow opening two analyses at once. diane defect blocker Qt Gui
#94 quits at viewing allignment diane defect major Few Small Repairs Qt Gui
#95 Annotations masked out when motif defined and then undefined. diane defect minor 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
#104 Loading a different analysis while a MussaAlignedWindow was open caused a crash diane defect major Few Small Repairs Qt Gui
#105 Load Analysis should spawn a new window diane defect minor Standing on our heads Qt Gui
#107 Motifs don't show up on the Mussa Aligned Sequence window anymore. diane defect critical Few Small Repairs Qt Gui
#109 Subanalysis sequence list wasn't being cleared diane defect major Few Small Repairs Qt Gui
#110 Running a subanalysis with nothing loaded causes the program to crash diane defect major Few Small Repairs Qt Gui
#113 For some reason on Ali's machine cmake is linking in X11 diane defect major Qt Gui
#114 Location analyses are saved to is ill-defined on OS X. diane defect major Few Small Repairs Qt Gui
#115 The create an analysis screen create the sequences in the reverse order. diane defect minor Few Small Repairs Qt Gui
#117 Perhaps our fasta loading file loader could detect if we're being fed an html file. diane defect major Qt Gui
#121 the load_mupa function choaks when given something other than a file diane defect major core
#125 autodetect if python needs -lutil diane defect major Few Small Repairs Qt Gui
#126 Figure out how to get the spirit parsers to report parse errors diane defect major Few Small Repairs core
#127 The sidebar layout isn't right after loading a second analysis into the same window diane defect major Few Small Repairs Qt Gui
#128 the editable sequence name only shows the end of long names. diane defect trivial Few Small Repairs Qt Gui
#129 Subseq doesn't support trees correctly diane defect major Few Small Repairs Qt Gui
#130 Save is relative to the current directory diane defect major Few Small Repairs Qt Gui
#131 When closing an analysis window, cancel doesn't prevent the close diane defect major Few Small Repairs Qt Gui
#134 Width of seqcomp match line is wrong diane defect blocker Few Small Repairs Qt Gui
#135 Win32: Save as not working... causes crash. king defect critical Few Small Repairs Qt Gui
#138 Sequence view window needs a title diane defect major Few Small Repairs Qt Gui
#139 Edit motif window looses motif information when closed diane defect major Few Small Repairs Qt Gui
#140 Load Motifs doesn't do anything diane defect major Few Small Repairs Qt Gui
#144 IUPAC codes are destroyed by the sequence normalization code diane defect critical Few Small Repairs Qt Gui
#146 Win32: Create new analysis mystery crash king defect blocker Few Small Repairs Qt Gui
#147 Sometimes the width of a quadrallateral is too small diane defect trivial Few Small Repairs Qt Gui
#148 setup_analysis dialog should make sure that the threshold is not greater than the window size. diane defect minor Few Small Repairs Qt Gui
#149 Handle " in motif names diane defect trivial Few Small Repairs Qt Gui
#151 Crash is possible when creating a subanalysis smaller than the window diane defect major Few Small Repairs Qt Gui
#154 off by one error when drawing segments diane defect blocker Few Small Repairs Qt Gui
#160 error: default argument for parameter of type ‘MussaRef’ has type ‘int’ king defect major Few Small Repairs Qt Gui
#163 Motif loading doesn't work with release builds diane defect major release_1.0 Qt Gui
#171 Remove the "Motif Toggle" button from manual. king defect major document_1.0 other
#180 shipit script on os x needs to validate the archive diane defect major release_1.0 other
#183 Seqcomp is case sensitive diane defect major release_1.0 core
#184 Dont link against X11 on OS X diane defect major release_1.0 other
#187 Editing a motif does not set dirty flag. diane defect minor release_1.0 Qt Gui
#192 Steven can't save with mussa diane defect major release_1.0 Qt Gui
#195 Disable motif and closing motif editor causes loss of motifs. diane defect critical release_1.1 Qt Gui
#197 the subanalysis when using the original mck example draws lines off the sequence. diane defect major release_1.0 Qt Gui
#199 After [451] I noticed that subanalyses didn't seem to have motif information diane defect major release_1.0 Qt Gui
#200 Pushing the threshold change button too fast will cause mussa to crash diane defect major release_1.0 Qt Gui
#207 Reenable GUI tests diane defect major unit tests Qt Gui
#216 subanalysis doesn't call setSoftThreshold to after finishing analysis diane defect major release_1.0 Qt Gui
#226 QtTest is now a framework diane defect major release_1.1 other
#233 when first displaying mussa the tracks aren't sized to the available viewport on os x diane defect major release_1.1 Qt Gui
#237 Crashing with invalid file name diane defect major release_1.1 Qt Gui
#239 Report error when trying to load a directory as an annotation. diane defect major release_1.1 core
#240 When there are no matches, mussa doesn't seem to display anything king defect minor release_1.1 Qt Gui
#244 len(mussa.paths()) returns number of tracks, not the number of paths found diane defect major release_1.1 python interface
#250 Cmake build failure: /usr/bin/ld: cannot find -loptimized diane defect blocker release_1.1 Qt Gui
#251 Save to image crash king defect major release_1.1 Qt Gui
#254 Sub-analysis failing to draw paths on init king defect minor release_1.1 Qt Gui
#255 Even telling cmake to use python2.3 mussa still builds against 2.5 diane defect major release_1.1 python interface
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