Maciej Kulawik committed [2f674b]

fix threshold setting in web

Maciej Kulawik committed [6714c1]

Add new algorithms to web

Maciej Kulawik committed [ae81ab]

add final experiments

Maciej Kulawik committed [0c5157]

add NoSearchMarkersSearcher, add some missing files

Maciej Kulawik committed [d3f357]

add IterativeMarkersDefiner

Maciej Kulawik committed [cef35e]

IterativeMarkersDefiner draft

Maciej Kulawik committed [36c9dd]

Fix issue with duplications

Maciej Kulawik committed [bc0fb5]

[exp] add new exp framework draft

Maciej Kulawik committed [cf8d3a]

experiments' scripts

Maciej Kulawik committed [72993f]

#610 Fix corner case in Diff, use Diff in DiffDetector

Maciej Kulawik committed [41e0bd]

#610 Add simple diff implementation

Maciej Kulawik committed [951dad]

#604 Enable command halting while executing ChunkedXcorr algorithm (also while openmp is used)

Maciej Kulawik committed [0853af]

#598 Integrate BlastMarkersSearcher with web interface, #604 Add command halting

Maciej Kulawik committed [b2a55e]

Add blast-like markers searcher

Maciej Kulawik committed [cdf026]

#574 Add rearrangement position to gff-like file.

Maciej Kulawik committed [205e89]

Remove searching for inversed markers in base sequence

Maciej Kulawik committed [4d5d19]

#574 Add some tests for DiffDetector

Maciej Kulawik committed [b04261]

#574 Reimplemnt DiffDetector, add rearrangements positions. For now only transpositions and duplications are supported.

Maciej Kulawik committed [b21e7b]

#574 DiffDetector - add inversions support

Maciej Kulawik committed [54f989]

#574 DiffDetector - add deletions support

Maciej Kulawik committed [f96733]

#573 Change extension of markers, fix bug in AllAtOnceMarkersDefiner::sieveCandidates

Maciej Kulawik committed [0f2648]

Parallize ChunkedXcorr::getMarkersSignals

Maciej Kulawik committed [6e2fad]

Change factors type from doubleto float in FFT

Maciej Kulawik committed [b17d25]

#460 Fix defining of multiple markers at once

Maciej Kulawik committed [35c0ed]

#460 Add some comments to DiffDetector

Maciej Kulawik committed [f80b67]

#420 Use multiple threads in ChunkedXcorr::search

Maciej Kulawik committed [4f304c]

#460 Add tests for CircosKaryotypeSaver and CircosSegdupSaver, add some comments

Maciej Kulawik committed [3df8b5]

#460 Move CachedMarkersSearcher to separate file, add tests for CachedMarkersSearcher, add some documentation

Maciej Kulawik committed [d3ad9f]

#460 Fix progress in MarkersSearcher, add removing zip file in command callback in genomecmp/views.py

Maciej Kulawik committed [5ceb55]

#460 Fix number of defined markers by InGroupsMarkerDefiner and OneByOneMarkersDefiner

Maciej Kulawik committed [4fdb1a]

#460 change version to 1.0, add ben to allowed hosts

Maciej Kulawik committed [8827cd]

#460 Add InGroupsMarkersSearcher, add SequenceFileValidator, fix FastaFileParser

Maciej Kulawik committed [f36569]

#460 rename directories: calc -> calc_old, calc_new -> calc

Maciej Kulawik committed [585129]

#460 Use new gencmp library in web

Maciej Kulawik committed [62e8df]

#460 Add KnuthMorrisPratt

Maciej Kulawik committed [ce9991]

#460 Add OneByOneMarkersDefiner

Maciej Kulawik committed [9f1287]

#460 Add ChunkedXcorr

Maciej Kulawik committed [af5b20]

#460 Add TempFilenameManager

Maciej Kulawik committed [2cfc4c]

#460 Add circos data savers, add some missing files

Maciej Kulawik committed [a00144]

#460 Fix progress

Maciej Kulawik committed [04e385]

#460 Add some DiffDetector tests

Maciej Kulawik committed [9b2dd0]

#460 Add DiffDetector, add searching of inversed markers in MarkersBasedRearrangementsDetector

Maciej Kulawik committed [a0f122]

#460 add InGroupsMarkersDefiner, add SimpleMarkersSearcher

Maciej Kulawik committed [bd883d]

#460 Add comments to FFT and FFTPlans.

Maciej Kulawik committed [ea49d2]

#460 Fix CommandManagerPy python api

Maciej Kulawik committed [3c577f]

#460 add FastXcorr, FFT, FFTPlans, RecursiveRadix2FFT

Maciej Kulawik committed [390133]

#460 Add CachedMarkerSearcher, move caching tracking methods to this class from MarkerSearcher

Maciej Kulawik committed [fee29d]

#460 fixes inspired by cppcheck

Maciej Kulawik committed [0d50ae]

#460 fix subprogress in GenomeComparator and MarkersSearcher, add logger init to tests

Maciej Kulawik committed [6437ef]

#460 Change Marker::Locations to std::map, add caching tracking option to MarkersSearcher, add some comments

Maciej Kulawik committed [cd283b]

#460 Add MarkersBasedRearrangementsDetector, fix typo

Maciej Kulawik committed [ffb933]

#460 remove GenomeComparator::getSplitedProgress

Maciej Kulawik committed [b9fed3]

#460 Change python callback wrapping

Maciej Kulawik committed [dcd0c5]

#460 Add boost python api draft, add PyCallbackResultsProcessor, use boost::shared_ptr for storing base classes pointers

Maciej Kulawik committed [1e6d3d]

#460 Add CommandManager

Maciej Kulawik committed [7b8fdc]

#460 Comment CallbackResultsProcessor and CallbackData, add unit tests for the classes

Maciej Kulawik committed [fd366c]

#460 Add BaseToComparedPlan unit tests, comment BaseToComparedPlan

Maciej Kulawik committed [3f9a45]

#460 Further refactoring. Split GenomeComparator.h into separate files for each major class.

Maciej Kulawik committed [595f1c]

#460 Add PyCallbackResultsProcessor

Maciej Kulawik committed [6b2b37]

#460 Add BaseToComparedPlan, remove NamedSequencesById i.a. from parsers

Maciej Kulawik committed [200ccc]

#460 add TwoSequenceFilesLoader, remove unique_ptrs in sequence file parsers

Maciej Kulawik committed [0908fb]

#460 Add new c++ library draft

rnowak2 committed [703645]

doxyfile, change project name

genomecmp released /README.md

Maciej Kulawik committed [f1a9dc]

init revision, from antakya.ise.pw.edu.pl, change version to 0.4