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draw a grey background to a track
[mussa.git]
/
alg
/
test
/
2007-04-13
Diane Trout
set annotation draw function by type
tree
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commitdiff
2007-04-13
Diane Trout
Mark real sequence instead of Ns
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commitdiff
2007-04-11
Diane Trout
show where the Ns are
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commitdiff
2007-04-09
Diane Trout
add function for marking 'N' regions
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commitdiff
2007-04-09
Diane Trout
add draw function pointer to drawable
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commitdiff
2007-04-06
Diane Trout
remove annot class in favor of SeqSpan
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commitdiff
2007-04-06
Diane Trout
Add getdefault to Annotations
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commitdiff
2007-04-04
Diane Trout
fix uninitialized pointer
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commitdiff
2007-04-03
Diane Trout
fix problems with motif changes not showing up in seque...
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commitdiff
2007-03-30
Diane Trout
incorporate drawable and annotations
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commitdiff
2007-03-30
Diane Trout
create class to hold drawing information
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commitdiff
2007-03-30
Diane Trout
create a metadata holding class
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commitdiff
2007-03-27
Diane Trout
Handle subseq when the parent is on the minus strand
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commitdiff
2007-03-24
Diane Trout
move strand into seqspan
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commitdiff
2007-03-21
Diane Trout
Missed part of "Store Sequence sequence location in...
tree
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commitdiff
2007-03-21
Diane Trout
Move alphabet type into SeqString
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commitdiff
2007-03-20
Diane Trout
Store Sequence sequence location in a shared_ptr class
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commitdiff
2007-02-20
Diane Trout
more error messages for loading an annotation.
tree
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commitdiff
2007-01-04
Diane Trout
conditionally build the paircomp tests
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commitdiff
2007-01-04
Diane Trout
paircomp used the string find_first_not_of
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commitdiff
2007-01-04
Diane Trout
split unittests into seperate executables
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commitdiff
2006-12-14
Diane Trout
len(mussa.paths()) should equal the number of found...
tree
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commitdiff
2006-10-30
Diane Trout
include filename in unparsable annotation error message
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commitdiff
2006-10-30
Diane Trout
report filename for invalid fasta files
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commitdiff
2006-10-20
Diane Trout
add nl to end of 3 files
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commitdiff
2006-10-20
Diane Trout
copy motifs to a new subanalysis
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commitdiff
2006-10-19
Diane Trout
fix motif loader under release build
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commitdiff
2006-10-19
Diane Trout
Sequence::rev_comp works on subsequences
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commitdiff
2006-10-18
Diane Trout
add to_upper_case to some sequence unittests
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commitdiff
2006-10-17
Diane Trout
remove old code
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commitdiff
2006-10-17
Diane Trout
don't link against X11 on OS X
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commitdiff
2006-10-14
Diane Trout
don't seqcomp sequences that are too small
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commitdiff
2006-10-14
Diane Trout
add operator< to ConservedPath
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commitdiff
2006-10-12
Diane Trout
does createLocalAlignment work for a 3 way?
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commitdiff
2006-10-11
Diane Trout
add Mussa::save_motif()
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commitdiff
2006-10-11
Diane Trout
throw errors when spirit parsing fails
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commitdiff
2006-10-11
Diane Trout
a title of path("/my/silly/path") doesn't work on windows
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commitdiff
2006-10-10
Diane Trout
implement alphabet for sequence
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commitdiff
2006-10-05
Diane Trout
draw link lines with a width
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commitdiff
2006-10-04
Diane Trout
fixes for Mussa::load_motif
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commitdiff
2006-10-03
Diane Trout
Add window titles
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commitdiff
2006-09-19
Diane Trout
catch possible segfault with get_sequence()
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commitdiff
2006-09-15
Diane Trout
keep track of a subsequences parent
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commitdiff
2006-09-15
Diane Trout
report our "start/stop" location on a subsequence
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commitdiff
2006-09-15
Diane Trout
make our Color class serializable
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commitdiff
2006-09-14
Diane Trout
Implement an optional name in the motif parser
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commitdiff
2006-09-12
Diane Trout
track where our analysis is saved and if the analysis...
tree
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commitdiff
2006-09-09
Diane Trout
make really sure load_mupa has a file to parse.
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commitdiff
2006-09-07
Diane Trout
Figured out how to serialize a shared_ptr<string>
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commitdiff
2006-08-30
Diane Trout
use shared_ptr to store the sequence string
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commitdiff
2006-08-29
Diane Trout
go back to sequence being its own class
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commitdiff
2006-08-24
Diane Trout
update sequence serialization to support the xml archive
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commitdiff
2006-08-23
Diane Trout
Allow changing the name for a sequence in the sequence...
tree
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commitdiff
2006-08-12
Diane Trout
Fix merge issues with the win32 library patch
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commitdiff
2006-08-12
Brandon King
Reorder libraries for win32
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commitdiff
2006-08-12
Brandon King
Tell unittests to use native file convention for EXAMPL...
tree
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commitdiff
2006-08-10
Diane Trout
Let the annotation parser skip html tags
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commitdiff
2006-08-09
Diane Trout
Implement serialize for sequence
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commitdiff
2006-08-09
Diane Trout
start breaking save out from Mussa::analyze()
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commitdiff
2006-08-09
Diane Trout
add dirty flag
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commitdiff
2006-07-28
Diane Trout
Use CMAKE_BINARY_DIR instead of the very wrong MUSSA_BI...
tree
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commitdiff
2006-07-27
Diane Trout
add annot and motif classes to python interface
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commitdiff
2006-07-21
Diane Trout
Build universal binaries on OS X
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commitdiff
2006-07-01
Diane Trout
make sure subsequences have a species name
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commitdiff
2006-07-01
Diane Trout
Implement UI for subanalysis mode
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commitdiff
2006-06-30
Diane Trout
store motifs as sequences instead of strings
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commitdiff
2006-06-29
Diane Trout
set_motifs should erase the previous motifs
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commitdiff
2006-06-29
Diane Trout
update the annotation grammer to make species name...
tree
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commitdiff
2006-06-23
Diane Trout
Getting closer to a subanalysis mode
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commitdiff
2006-06-21
Diane Trout
More progress toward subanalysis
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commitdiff
2006-06-20
Diane Trout
extend annotation names and types to allow punctuation
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commitdiff
2006-06-17
Diane Trout
make Sequence a subclass of std::string
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commitdiff
2006-06-10
Diane Trout
partial implementation of sequence track copy
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commitdiff
2006-06-09
Diane Trout
More robust eol handling for Sequence::load_fasta
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commitdiff
2006-06-08
Diane Trout
improve fasta parsing
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commitdiff
2006-06-06
Diane Trout
keep track of how far through a seqcomp we've gotten
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commitdiff
2006-05-27
Diane Trout
add callback for tracking analysis progress
tree
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commitdiff
2006-05-27
Diane Trout
rename [gset_soft_thres to [gs]et_soft_threshold]
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commitdiff
2006-05-20
Diane Trout
ticket:62 fix local alignment
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commitdiff
2006-05-17
Diane Trout
finish implementing annotation by sequence
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commitdiff
2006-05-17
Diane Trout
switch to a character based spirit parser
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commitdiff
2006-05-17
Diane Trout
try to read fasta blocks in the annotation file
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commitdiff
2006-05-17
Diane Trout
use spirit parser for reading annot file
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commitdiff
2006-05-16
Diane Trout
add annotations by sequence string
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commitdiff
2006-04-13
Diane Trout
fix ticket:83 throw an error when we don't have a fasta...
tree
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commitdiff
2006-04-12
Diane Trout
ticket:85 fix, extend code crashes with 1 path
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commitdiff
2006-04-11
Diane Trout
minor fixes for older buildsystems
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commitdiff
2006-04-08
Diane Trout
rename _LIB to _LIBRARY to be more consistent with...
tree
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commitdiff
2006-04-07
Diane Trout
make include gl.h multiplatform
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commitdiff
2006-04-07
Diane Trout
switch to using boost::filesystem
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commitdiff
2006-04-06
Diane Trout
cmake setupfiles
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commitdiff
2006-03-29
Diane Trout
make annotations big enough to show up
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commitdiff
2006-03-29
Diane Trout
View sequence alignment at non default thresholds
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commitdiff
2006-03-28
Diane Trout
recover threshold and window size
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commitdiff
2006-03-28
Diane Trout
improve os x makefiles
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commitdiff
2006-03-21
Diane Trout
provide a user interface to edit motifs
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commitdiff
2006-03-20
Diane Trout
Mussa aligned sequence view seems to work
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commitdiff
2006-03-18
Diane Trout
center on path
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commitdiff
2006-03-18
Diane Trout
define window for showing a mussa alignment
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commitdiff
2006-03-17
Diane Trout
refactored PathScene into SequenceBrowserWidget
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commitdiff
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