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