add sparse stoichiometry matrix

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1267 c0027639-9190-0b57-01eb-f09a03790dae
Merge branch 'gfeature-llvm' into gdevelop

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1272 c0027639-9190-0b57-01eb-f09a03790dae
ran Linux tests with llvm merge

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1273 c0027639-9190-0b57-01eb-f09a03790dae
model data state saving is now part of ExecutableModel interface

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1274 c0027639-9190-0b57-01eb-f09a03790dae
clean up major wastefulness

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1275 c0027639-9190-0b57-01eb-f09a03790dae
ran Linux tests

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1276 c0027639-9190-0b57-01eb-f09a03790dae
sensible naming for ExecutableModel methods, restore test suites that were evidently deleted with Wrappers rename

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1277 c0027639-9190-0b57-01eb-f09a03790dae
ran linux tests

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/develop@1278 c0027639-9190-0b57-01eb-f09a03790dae
Merge branch 'gdevelop' into gfeature-llvm

git-svn-id: https://roadrunnerlib.googlecode.com/svn/branches/feature-llvm@1279 c0027639-9190-0b57-01eb-f09a03790dae