id Summary Owner Type Priority Milestone Component 30 "Allow ""leave one out"" nway transitive searches" diane enhancement blocker release_1.2 core 81 Storing and searching metadata diane enhancement blocker from __future__ import magic Qt Gui 77 Font needs to be better... diane enhancement critical Standing on our heads Qt Gui 82 Unit test python API diane enhancement critical unit tests Qt Gui 98 QtAssistant needs to be put in the right place on os x. diane enhancement critical Standing on our heads Qt Gui 100 There should be some way to display the annotation name with the annotation track diane enhancement critical Standing on our heads Qt Gui 108 Cancel on the progress bar should do something diane enhancement critical Standing on our heads Qt Gui 220 mussa command line seems to be broken... diane defect critical core 249 darcs tag mussa_1.1.0 diane defect critical release_1.1 Qt Gui 263 Compile warnings must die! diane defect critical release_1.1 Qt Gui 6 Analysis saving is smelly diane task major Standing on our heads core 7 Reuse seqcomps diane enhancement major Standing on our heads core 8 Per species thresholds diane enhancement major from __future__ import magic core 9 Connect to cartwheel diane enhancement major Standing on our heads Qt Gui 13 AnnotationColor mapper needs a user interface diane enhancement major Standing on our heads Qt Gui 17 Allow user to specify an offset for base pair location label diane enhancement major Standing on our heads Qt Gui 21 Implement a better way of handling the GL selection buffer diane task major Standing on our heads core 28 Allow user to force a loaded sequence to be reverse complimented. diane enhancement major from __future__ import magic Qt Gui 61 For mac users it'd be useful to make double clicking on a data file actually load mussagl diane enhancement major Standing on our heads Qt Gui 65 It'd be neat if you could select a region and go to ucsc diane enhancement major Standing on our heads Qt Gui 80 Difference between analyses diane enhancement major from __future__ import magic Qt Gui 87 Autodetect threshold diane enhancement major from __future__ import magic Qt Gui 106 Figure out how to test copySelectedTracks diane enhancement major unit tests core 141 Vector output diane enhancement major Standing on our heads Qt Gui 145 Use titus' paircomp and motility diane enhancement major Standing on our heads core 198 Document the multi add to sub-analysis feature. king task major document_1.1 Qt Gui 201 Run analyses in worker thread diane enhancement major Standing on our heads core 202 Investigate SIP instead of boost::python king task major Standing on our heads Qt Gui 203 Unit test the code that generates all the mussa filename diane enhancement major unit tests core 204 When you resize a mussa window, resize the drawing too. diane enhancement major Standing on our heads Qt Gui 205 Add button for autofitting sequence to window diane enhancement major release_1.2 Qt Gui 209 Extend the command line parsing to allow fully specifying an analysis diane enhancement major Standing on our heads Qt Gui 218 Qt4.2 has a platform independent way to place Ok/Cancel buttons in dialog diane enhancement major release_1.2 Qt Gui 219 Reordering sequences in an analysis would be really nice diane enhancement major from __future__ import magic Qt Gui 221 Discover/document effect of ordering species on analysis run times. king task major document_1.1 core 222 Allow hyperlink annotations for CDS to PyMol rendering of protein structure diane enhancement major from __future__ import magic Qt Gui 224 Define a common base class between MussaWindow and MussAlignedWindow diane enhancement major Standing on our heads Qt Gui 228 Allow more vertical collapse of description widgets diane enhancement major release_1.2 Qt Gui 232 Document the report bp copied number. king task major document_1.1 Qt Gui 234 Document * in title when there are unsaved changes king task major document_1.1 Qt Gui 238 Set left offset graphically diane enhancement major from __future__ import magic Qt Gui 241 One of the annotations needed is to show where the start of the gene is diane enhancement major release_1.2 Qt Gui 242 make really sure people understand how repeatmasking prevents motifs from being shown. diane defect major document_1.1 Qt Gui 245 Implement back_inserter for sequence type diane enhancement major from __future__ import magic core 248 Test latest build on all platforms diane task major release_1.1 Qt Gui 258 document new escape to clear selection king task major document_1.1 Qt Gui 264 Document sequence properties king task major document_1.1 other 266 Sub-analysis drawing bug (see attached screenshots) diane defect major release_1.1 Qt Gui 267 Sequence View soft threshold control non-responsive diane defect major release_1.1 Qt Gui 268 files that lack a new line would make the mupa parser choke diane defect major Qt Gui 11 create unifed sequence type diane enhancement minor Standing on our heads core 18 segments should indicate if they're both forward and reveresed diane enhancement minor from __future__ import magic core 29 Connect to Core Match diane enhancement minor Standing on our heads core 48 Automate win32 installer build diane enhancement minor other 54 Allow compressing repeat regions diane enhancement minor from __future__ import magic Qt Gui 112 Sequence logo diane enhancement minor from __future__ import magic Qt Gui 123 Allow hiding sidebars diane enhancement minor release_1.2 Qt Gui 124 report patch version diane enhancement minor release_1.2 core 136 allow absolute positioning diane enhancement minor Standing on our heads Qt Gui 155 Include a simple repeat filter diane enhancement minor from __future__ import magic core 159 Create track macro to display changelog with build numbers king task minor from __future__ import docs other 165 Include a section on creating a motif list file using the smn1 data. king task minor from __future__ import docs other 230 shipit script should ship source distribution too. diane enhancement minor release_1.2 other 231 Document copy and paste into motif editor now functional. king task minor document_1.1 Qt Gui 253 Show conserved window on local alignment display diane enhancement minor Standing on our heads Qt Gui 262 ThresholdWidget.reset() SIGNAL/SLOTS issue. diane defect minor release_1.2 Qt Gui 89 Blast to find mussa regions diane enhancement trivial Standing on our heads core 193 Changing a species name doesn't set dirty flag. diane enhancement trivial release_1.2 Qt Gui