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cmake was trying to link -loptimized
[mussa.git]
/
alg
/
sequence.cpp
2007-02-20
Diane Trout
more error messages for loading an annotation.
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2007-01-04
Diane Trout
paircomp used the string find_first_not_of
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2006-10-30
Diane Trout
include filename in unparsable annotation error message
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2006-10-30
Diane Trout
report filename for invalid fasta files
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2006-10-20
Diane Trout
copy motifs to a new subanalysis
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2006-10-19
Diane Trout
fix motif loader under release build
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2006-10-19
Diane Trout
Sequence::rev_comp works on subsequences
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2006-10-17
Diane Trout
force loaded sequence to uppercase
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2006-10-11
Diane Trout
throw errors when spirit parsing fails
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2006-10-10
Diane Trout
implement alphabet for sequence
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2006-09-19
Diane Trout
catch possible segfault with get_sequence()
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2006-09-15
Diane Trout
keep track of a subsequences parent
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2006-09-15
Diane Trout
report our "start/stop" location on a subsequence
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2006-09-15
Diane Trout
use an enum instead of a bool for strandedness
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2006-09-14
Diane Trout
make sure we show the start of our sequence name
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2006-09-08
Diane Trout
subsequences now use offsets into the shared_ptr seq_string
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2006-09-08
Diane Trout
catch a few more potential unchecked shared_ptr derefer...
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2006-09-07
Diane Trout
remove commented out string conversion
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2006-09-07
Diane Trout
Figured out how to serialize a shared_ptr<string>
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2006-09-07
Diane Trout
go back to using const char * in seqcomp
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2006-08-30
Diane Trout
use shared_ptr to store the sequence string
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2006-08-29
Diane Trout
put basepair alphabets into the Sequence class
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2006-08-29
Diane Trout
go back to sequence being its own class
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2006-08-10
Diane Trout
Let the annotation parser skip html tags
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2006-08-09
Diane Trout
Implement serialize for sequence
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2006-07-27
Diane Trout
add annot and motif classes to python interface
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2006-07-01
Diane Trout
make sure subsequences have a species name
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2006-07-01
Diane Trout
Implement UI for subanalysis mode
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2006-06-30
Diane Trout
fix boost::python sequence interface
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2006-06-30
Diane Trout
store motifs as sequences instead of strings
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2006-06-29
Diane Trout
set_motifs should erase the previous motifs
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2006-06-29
Diane Trout
allow specifying a name for a sequence
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2006-06-29
Diane Trout
update the annotation grammer to make species name...
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2006-06-23
Diane Trout
Getting closer to a subanalysis mode
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2006-06-21
Diane Trout
More progress toward subanalysis
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2006-06-20
Diane Trout
extend annotation names and types to allow punctuation
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2006-06-17
Diane Trout
make Sequence a subclass of std::string
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2006-06-10
Diane Trout
partial implementation of sequence track copy
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2006-06-09
Diane Trout
More robust eol handling for Sequence::load_fasta
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2006-06-08
Diane Trout
improve fasta parsing
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2006-05-18
Diane Trout
expose more of the sequence class to python
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2006-05-17
Diane Trout
finish implementing annotation by sequence
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2006-05-17
Diane Trout
switch to a character based spirit parser
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2006-05-17
Diane Trout
try to read fasta blocks in the annotation file
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2006-05-17
Diane Trout
use spirit parser for reading annot file
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2006-05-16
Diane Trout
add annotations by sequence string
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2006-04-13
Diane Trout
the fasta error message should include the filename
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2006-04-13
Diane Trout
fix ticket:83 throw an error when we don't have a fasta...
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2006-04-07
Diane Trout
switch to using boost::filesystem
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2006-03-23
Diane Trout
better sidebar rendering
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2006-03-22
Diane Trout
finish dialog box to setup an analysis
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2006-03-19
Diane Trout
draw alignment lines
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2006-03-15
Diane Trout
make the path view independent of type of connection
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2006-03-14
Diane Trout
load and display a motif list
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2006-03-14
Diane Trout
attach motifs to a sequence object
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2006-03-12
Diane Trout
There can be only one (filename convention)
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