MERGE OpenMD development branch 1465:1781 into trunk
Almost all of the changes necessary to create OpenMD out of our old project (OOPSE-4)
adding testcase for zipstream
fix a bug in SectionParser (lineNo is not updated)
Adding unit test for random number generator
fixed compilation problem
Change the name of test case
adding testcase for random number generator
*** empty log message ***
replace misuse of using namespace std in header files
spell check
add PolynomialTestCase
Addint StringTokenizerTestCase
mess up ......
these core classes get compiled
more work on Molecule class
rewrite Molecule class.
Remove some deprecated files
More painful reconstruction is coming !!!
More work on StuntDouble, Atom, DirectionalAtom and RigidBody
Done with combination
ReplaceWildCard is working
STL next_permutation like next_combination is working
next_combination in progress
adding next_combination test case
STL Compatible combination sequence generator
bug fixed in GenerateCombination.hpp
a STL next_permutaion like next_combination function.
no message
ReplaceWildCard(recursive version) is working, need refactoring. An iterative version is on the way
ReplaceWildCard in progress
Adding Test Case for ReplaceWildCard
adding ReplaceWildCard.hpp, need test
DataStorage passes unit test
Snaphot and SnapshotTestCase in progress
add getArray function to RectMatrix and Vector classes
adding GenericFactory Test Case. GenericFactory now can bed used to creat ForcefieldFactory and IntegratorFactory etc.
Refactoring in progress
more work in Snapshot
Snapshot and SnapshotManager in progress
adding test case for Snapshot and snapshotManager.
remove some junk files
remove backup of GenericData.hpp
GenericData and PropertyMap pass unit test.
adding generic data test case
Math library pass the unit test
*** empty log message ***
except diagonalize(), all of functions in math library pass the test
more bugs get fixed at math library
more bugs are fixed in Vector class
fix some bugs in RectMatrixTestCase
implement more test cases
more tests on math library
adding more testing units
adding vector test case
adding test file
forget to use namespace oopse
adding ifstrstream test case
adding Makefile
adding test case for ifstrstream
add ifstrstreamTestCase
add SquareMatrixTestCase class
adding testing unit