| 2007-12-19 |
Michael Andreen | More help output
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commit | commitdiff | tree |
| 2007-12-19 |
Michael Andreen | License and minor installation instructions
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commit | commitdiff | tree |
| 2007-12-19 |
Michael Andreen | Only build tests if we have cppunit available
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commit | commitdiff | tree |
| 2007-12-19 |
Michael Andreen | Check for TR1 or Boost
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commit | commitdiff | tree |
| 2007-12-19 |
Michael Andreen | Make it possible to build statically against the included...
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commit | commitdiff | tree |
| 2007-12-05 |
Michael Andreen | add an option to print the permutation
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commit | commitdiff | tree |
| 2007-10-30 |
Michael Andreen | Introduce -i for only identifying the model, excluding...
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commit | commitdiff | tree |
| 2007-10-29 |
Michael Andreen | changed name to GERMS
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commit | commitdiff | tree |
| 2007-10-29 |
Michael Andreen | more ignores
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commit | commitdiff | tree |
| 2007-10-29 |
Michael Andreen | Small optimization in sort()
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commit | commitdiff | tree |
| 2007-09-14 |
Michael Andreen | Only headers and exclude tests + minor report update
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commit | commitdiff | tree |
| 2007-08-29 |
Michael Andreen | Added a Whirl model, which favors reversals, instead...
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commit | commitdiff | tree |
| 2007-08-29 |
Michael Andreen | DOC: more doxygen documentation
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commit | commitdiff | tree |
| 2007-08-28 |
Michael Andreen | bad testcase
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commit | commitdiff | tree |
| 2007-08-28 |
Michael Andreen | BUGFIX: forgot to set parent to 0 on child when removing...
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commit | commitdiff | tree |
| 2007-08-23 |
Michael Andreen | Added more doxygen documentation
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commit | commitdiff | tree |
| 2007-08-22 |
Michael Andreen | added .gitignore files
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commit | commitdiff | tree |
| 2007-08-16 |
Michael Andreen | calculate the proper distance, with hurdles
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commit | commitdiff | tree |
| 2007-08-16 |
Michael Andreen | shortBranches
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commit | commitdiff | tree |
| 2007-08-16 |
Michael Andreen | have all tests enabled
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commit | commitdiff | tree |
| 2007-08-16 |
Michael Andreen | count leaves
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commit | commitdiff | tree |
| 2007-08-16 |
Michael Andreen | make the componenttree a minimal unoriented tree
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commit | commitdiff | tree |
| 2007-08-15 |
Michael Andreen | more complete test
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commit | commitdiff | tree |
| 2007-08-15 |
Michael Andreen | inital commit of componenttree with associated changes
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commit | commitdiff | tree |
| 2007-08-14 |
Michael Andreen | updated comments
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commit | commitdiff | tree |
| 2007-08-14 |
Michael Andreen | possible to chose a model
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commit | commitdiff | tree |
| 2007-08-14 |
Michael Andreen | modelFactory method, to help create models
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commit | commitdiff | tree |
| 2007-08-14 |
Michael Andreen | scoring function for Zipper model
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commit | commitdiff | tree |
| 2007-08-13 |
Michael Andreen | don't really need print the gene order
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commit | commitdiff | tree |
| 2007-08-13 |
Michael Andreen | calculate the avg score for the model
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commit | commitdiff | tree |
| 2007-08-13 |
Michael Andreen | some comments
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commit | commitdiff | tree |
| 2007-08-03 |
Michael Andreen | give access to reverse action members, and calculate...
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commit | commitdiff | tree |
| 2007-08-03 |
Michael Andreen | a little more refactoring, name might just as well...
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commit | commitdiff | tree |
| 2007-08-03 |
Michael Andreen | genesorter now uses models to score actions, specific...
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commit | commitdiff | tree |
| 2007-08-03 |
Michael Andreen | started a refactoring with Model class to score different...
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commit | commitdiff | tree |
| 2007-08-01 |
Michael Andreen | had a nice idea
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commit | commitdiff | tree |
| 2007-08-01 |
Michael Andreen | Only show models with positive score, and convert the...
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commit | commitdiff | tree |
| 2007-07-30 |
Michael Andreen | adding command line options
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commit | commitdiff | tree |
| 2007-06-30 |
Michael Andreen | a little performance tuning
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commit | commitdiff | tree |
| 2007-06-30 |
Michael Andreen | don't print as much
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commit | commitdiff | tree |
| 2007-06-27 |
Michael Andreen | toString for actions
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commit | commitdiff | tree |
| 2007-06-25 |
Michael Andreen | better main program
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | cast to size_t instead of asuming unsigned long
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | added a test case with hurdles
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | renamed a function and removed some debug output
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | sorting without hurdles seems to work
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | minor change
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | good to have a inversion distance function
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | minor things
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | nicer with size_t for cycles, they can't be negative...
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | copy constructor and assignment constructor
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | better if SortAction takes care of the shared_ptr,...
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | we need a list of smart pointers
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commit | commitdiff | tree |
| 2007-06-24 |
Michael Andreen | setting up things for implementing the sorting
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commit | commitdiff | tree |
| 2007-06-21 |
Michael Andreen | ModelIdentifier::identify implemented and passes test
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commit | commitdiff | tree |
| 2007-06-21 |
Michael Andreen | initial commit of the modelidentifier files
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commit | commitdiff | tree |
| 2007-06-20 |
Michael Andreen | a little cleanup and minor fix
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commit | commitdiff | tree |
| 2007-06-20 |
Michael Andreen | findComponents implemented and passes test
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commit | commitdiff | tree |
| 2007-06-20 |
Michael Andreen | Forgot to update the comment
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commit | commitdiff | tree |
| 2007-06-20 |
Michael Andreen | findIntervalsAtPoitns is now O(n)
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commit | commitdiff | tree |
| 2007-06-20 |
Michael Andreen | findIntervals is now O(n)
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commit | commitdiff | tree |
| 2007-06-20 |
Michael Andreen | moved a function and added comment
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commit | commitdiff | tree |
| 2007-06-19 |
Michael Andreen | first point in points is now a dummy so indexes matches...
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commit | commitdiff | tree |
| 2007-06-19 |
Michael Andreen | countCycles implemented and passess test
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commit | commitdiff | tree |
| 2007-06-19 |
Michael Andreen | better use debug information at this stage
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commit | commitdiff | tree |
| 2007-06-19 |
Michael Andreen | findIntervalAtPoints implemnted and passes test
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commit | commitdiff | tree |
| 2007-06-19 |
Michael Andreen | findIntervals implemented and passing test
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commit | commitdiff | tree |
| 2007-06-19 |
Michael Andreen | adding countCycles, findComponents, findIntervals declaratio...
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commit | commitdiff | tree |
| 2007-06-18 |
Michael Andreen | longest increasing and decreasing subsequences
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commit | commitdiff | tree |
| 2007-06-18 |
Michael Andreen | robinson schensted algorithm implemented
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commit | commitdiff | tree |
| 2007-06-18 |
Michael Andreen | more documentation
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commit | commitdiff | tree |
| 2007-06-18 |
Michael Andreen | GeneOrder::reverse implemented
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commit | commitdiff | tree |
| 2007-06-18 |
Michael Andreen | some cleanup, documentation, begin() and end() methods
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | cmake testing
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | qt tester optional
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | need the dir too
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | library path is good
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | assignment works
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | copy constructor works
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | constructor for GeneOrder done
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | put executables in the right place
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | need a main file
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | a bit nicer
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | some more changes
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | some initial tests
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | lower case is nicer
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | link with fann
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commit | commitdiff | tree |
| 2007-06-14 |
Michael Andreen | some build tools
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commit | commitdiff | tree |
| 2007-06-12 |
Michael Andreen | some initial commits
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commit | commitdiff | tree |
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