#226 |
QtTest is now a framework
|
diane
|
defect
|
major
|
release_1.1
|
other
|
#207 |
Reenable GUI tests
|
diane
|
defect
|
major
|
unit tests
|
Qt Gui
|
#171 |
Remove the "Motif Toggle" button from manual.
|
king
|
defect
|
major
|
document_1.0
|
other
|
#239 |
Report error when trying to load a directory as an annotation.
|
diane
|
defect
|
major
|
release_1.1
|
core
|
#211 |
Report how many basepairs are copied
|
diane
|
enhancement
|
major
|
release_1.1
|
Qt Gui
|
#78 |
Reverse compliment alignment lines dont seem to match up
|
diane
|
|
critical
|
Few Small Repairs
|
core
|
#110 |
Running a subanalysis with nothing loaded causes the program to crash
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#130 |
Save is relative to the current directory
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#188 |
Save motifs action does not append .mtl or .txt by default
|
diane
|
enhancement
|
minor
|
release_1.0
|
Qt Gui
|
#96 |
Save to image broken
|
king
|
defect
|
minor
|
Few Small Repairs
|
Qt Gui
|
#251 |
Save to image crash
|
king
|
defect
|
major
|
release_1.1
|
Qt Gui
|
#52 |
Saved analysis needs to keep widow size and threshold for threshold widget
|
diane
|
defect
|
minor
|
Few Small Repairs
|
Qt Gui
|
#257 |
Saving analysis saves at current threshold
|
king
|
defect
|
major
|
release_1.1
|
Qt Gui
|
#41 |
Selection box jumps slightly to the right of the rubber band
|
diane
|
task
|
minor
|
Bionic Mussa
|
Qt Gui
|
#183 |
Seqcomp is case sensitive
|
diane
|
defect
|
major
|
release_1.0
|
core
|
#138 |
Sequence view window needs a title
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#223 |
Set the Window Icon to be the Mussa icon
|
king
|
enhancement
|
trivial
|
release_1.0
|
Qt Gui
|
#111 |
Set zero/alignment point for a sequence
|
diane
|
enhancement
|
critical
|
release_1.1
|
Qt Gui
|
#133 |
Should be able to save motifs
|
diane
|
enhancement
|
critical
|
Few Small Repairs
|
core
|
#37 |
Skateboard Shoes
|
diane
|
defect
|
|
|
|
#55 |
Somehow when reloading an analysis it needs to save threshold / window size
|
diane
|
defect
|
critical
|
Few Small Repairs
|
Qt Gui
|
#147 |
Sometimes the width of a quadrallateral is too small
|
diane
|
defect
|
trivial
|
Few Small Repairs
|
Qt Gui
|
#192 |
Steven can't save with mussa
|
diane
|
defect
|
major
|
release_1.0
|
Qt Gui
|
#254 |
Sub-analysis failing to draw paths on init
|
king
|
defect
|
minor
|
release_1.1
|
Qt Gui
|
#26 |
SubAnalysis mode
|
diane
|
enhancement
|
critical
|
Few Small Repairs
|
Qt Gui
|
#109 |
Subanalysis sequence list wasn't being cleared
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#129 |
Subseq doesn't support trees correctly
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#50 |
Switch to using Qt4.1 resources (automatically compiles resources into binary).
|
diane
|
defect
|
minor
|
Few Small Repairs
|
Qt Gui
|
#84 |
The analysis title should report what file you loaded
|
diane
|
|
trivial
|
Standing on our heads
|
Qt Gui
|
#66 |
The annotation for myogenin needs to be checked.
|
diane
|
|
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
|
#75 |
The scrollbar navigation when zoomed in jumps too far
|
diane
|
defect
|
critical
|
Few Small Repairs
|
Qt Gui
|
#127 |
The sidebar layout isn't right after loading a second analysis into the same window
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#23 |
The threshold widget was broken too
|
diane
|
defect
|
major
|
Bionic Mussa
|
Qt Gui
|
#32 |
The trac pages should become the main mussa website
|
king
|
task
|
major
|
Bionic Mussa
|
other
|
#68 |
The web site should have the Caltech and possibly BMNC logo
|
king
|
|
major
|
Few Small Repairs
|
Qt Gui
|
#31 |
Threshold Widget should use spinboxes
|
diane
|
|
major
|
Few Small Repairs
|
Qt Gui
|
#20 |
Toggle Motif Button Implementation
|
king
|
defect
|
minor
|
Few Small Repairs
|
Qt Gui
|
#118 |
Tracks need an edit properites option.
|
diane
|
enhancement
|
major
|
Few Small Repairs
|
Qt Gui
|
#15 |
Unify build system
|
diane
|
defect
|
major
|
Few Small Repairs
|
core
|
#34 |
Unused variable 'max_range' in 'void ScrollableSequenceBrowser::updateScrollBar()'
|
diane
|
defect
|
minor
|
Few Small Repairs
|
Qt Gui
|
#172 |
Update "Dynamic Threshold" section as the widget has changed.
|
king
|
enhancement
|
major
|
document_1.0
|
other
|
#185 |
Update "Load an analysis" section (text/screenshots)
|
king
|
task
|
major
|
document_1.0
|
other
|
#191 |
Update "Motif Dialog" section
|
king
|
enhancement
|
major
|
document_1.0
|
other
|
#169 |
Update "New Analysis" section as the Dialog box has changed.
|
king
|
task
|
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
|
#102 |
Update "blocking the gui" comment in --no-gui mode.
|
diane
|
enhancement
|
trivial
|
Few Small Repairs
|
core
|
#181 |
Update 'Load a mussa parameter file' section
|
king
|
task
|
major
|
document_1.0
|
other
|
#190 |
Update 'save motifs' section after close of ticket #188.
|
king
|
task
|
minor
|
document_1.0
|
other
|
#166 |
Update Mussa summary screenshot to latest version
|
king
|
task
|
major
|
document_1.0
|
other
|
#178 |
Update all screenshots to latest version of Mussa.
|
king
|
task
|
major
|
document_1.0
|
other
|
#152 |
Update mussa_manual.adp to latest tutorial version
|
king
|
task
|
minor
|
document_1.0
|
other
|
#217 |
Use QtDesktopServices for openURL
|
diane
|
enhancement
|
major
|
release_1.1
|
Qt Gui
|
#3 |
View descriptions
|
diane
|
defect
|
major
|
Bionic Mussa
|
Qt Gui
|
#206 |
We need some way of indicating Ns
|
diane
|
enhancement
|
critical
|
release_1.1
|
Qt Gui
|
#131 |
When closing an analysis window, cancel doesn't prevent the close
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#240 |
When there are no matches, mussa doesn't seem to display anything
|
king
|
defect
|
minor
|
release_1.1
|
Qt Gui
|
#158 |
When unable to parse a fasta file report its name
|
diane
|
enhancement
|
critical
|
release_1.1
|
Qt Gui
|
#134 |
Width of seqcomp match line is wrong
|
diane
|
defect
|
blocker
|
Few Small Repairs
|
Qt Gui
|
#146 |
Win32: Create new analysis mystery crash
|
king
|
defect
|
blocker
|
Few Small Repairs
|
Qt Gui
|
#135 |
Win32: Save as not working... causes crash.
|
king
|
defect
|
critical
|
Few Small Repairs
|
Qt Gui
|
#120 |
Windows doesn't have python installed by default
|
diane
|
enhancement
|
major
|
Few Small Repairs
|
Qt Gui
|
#67 |
You should be able to open multiple analyses
|
diane
|
|
major
|
Standing on our heads
|
Qt Gui
|
#215 |
You should be able to paste into the motif editor
|
diane
|
enhancement
|
critical
|
release_1.1
|
Qt Gui
|
#35 |
Zoom Icon
|
diane
|
|
minor
|
Few Small Repairs
|
Qt Gui
|
#143 |
add command line option to annotate an analysis with a motif file.
|
diane
|
enhancement
|
major
|
Few Small Repairs
|
Qt Gui
|
#125 |
autodetect if python needs -lutil
|
diane
|
defect
|
major
|
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
|
#22 |
default size hint broken
|
diane
|
defect
|
trivial
|
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
|
#16 |
figure out how to get selections to work with new segment based drawing
|
diane
|
defect
|
major
|
Bionic Mussa
|
Qt Gui
|
#244 |
len(mussa.paths()) returns number of tracks, not the number of paths found
|
diane
|
defect
|
major
|
release_1.1
|
python interface
|
#46 |
link in icons
|
diane
|
defect
|
minor
|
Few Small Repairs
|
Qt Gui
|
#12 |
modify motifs attached to an analysis
|
diane
|
task
|
major
|
Bionic Mussa
|
Qt Gui
|
#69 |
motifs may not be rendering corectly
|
diane
|
|
critical
|
Few Small Repairs
|
Qt Gui
|
#85 |
mussagl quits, just like i will AGAIN soon.
|
diane
|
defect
|
critical
|
Few Small Repairs
|
core
|
#154 |
off by one error when drawing segments
|
diane
|
defect
|
blocker
|
Few Small Repairs
|
Qt Gui
|
#91 |
quits
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#94 |
quits at viewing allignment
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#45 |
recreate os x bless script
|
diane
|
task
|
major
|
Bionic Mussa
|
Qt Gui
|
#210 |
see about removing some of the wasted border width on the sidebars
|
diane
|
enhancement
|
trivial
|
release_1.1
|
Qt Gui
|
#60 |
sequence alignment view needs zoom
|
diane
|
defect
|
trivial
|
Few Small Repairs
|
core
|
#235 |
set version to 1.0 in version.h
|
diane
|
task
|
major
|
release_1.0
|
other
|
#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
|
#180 |
shipit script on os x needs to validate the archive
|
diane
|
defect
|
major
|
release_1.0
|
other
|
#39 |
sidebar rendering problems
|
diane
|
|
major
|
Few Small Repairs
|
Qt Gui
|
#216 |
subanalysis doesn't call setSoftThreshold to after finishing analysis
|
diane
|
defect
|
major
|
release_1.0
|
Qt Gui
|
#208 |
the alg unittest executable needs to be broken up
|
diane
|
enhancement
|
major
|
unit tests
|
core
|
#90 |
the arrow keys aren't connected to the scrollbar
|
diane
|
defect
|
critical
|
|
python interface
|
#128 |
the editable sequence name only shows the end of long names.
|
diane
|
defect
|
trivial
|
Few Small Repairs
|
Qt Gui
|
#121 |
the load_mupa function choaks when given something other than a file
|
diane
|
defect
|
major
|
|
core
|
#197 |
the subanalysis when using the original mck example draws lines off the sequence.
|
diane
|
defect
|
major
|
release_1.0
|
Qt Gui
|
#59 |
the washed out sequence should actually be partially transparent.
|
diane
|
defect
|
major
|
Few Small Repairs
|
Qt Gui
|
#194 |
use window feedback to show that there are unsaved changes
|
diane
|
enhancement
|
trivial
|
release_1.1
|
Qt Gui
|
#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
|
#42 |
when resizing you should see more basepairs, not make them bigger.
|
diane
|
defect
|
minor
|
Bionic Mussa
|
Qt Gui
|
#58 |
why does mussa take so long to recompute a large nway?
|
diane
|
defect
|
major
|
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
|