git-svn-id: https://svn.vital-it.ch/svn/hp2c/trunk/Codeml_Variants/Fastcodeml@7105 95c5a404-1f88-0410-a6b0-c3f062b6f34a

git-svn-id: https://svn.vital-it.ch/svn/hp2c/trunk/Codeml_Variants/Fastcodeml@5494 95c5a404-1f88-0410-a6b0-c3f062b6f34a

Changed timer to return time_t
Added more catch cases
Different interface to BEB
Fixed warnings on windows
Changed BEB constructor
Partial porting to XMT
Fixed bug for testing


git-svn-id: https://svn.vital-it.ch/svn/hp2c/trunk/Codeml_Variants/Fastcodeml@4970 95c5a404-1f88-0410-a6b0-c3f062b6f34a

More on BEB computation
Changed null pointers from 0 to NULL


git-svn-id: https://svn.vital-it.ch/svn/hp2c/trunk/Codeml_Variants/Fastcodeml@4887 95c5a404-1f88-0410-a6b0-c3f062b6f34a

Removed dependencies computation from Forest and created a standalone class
Added accessors to Forest
Removed unneeded methods
Write results do nothing if file not defined
Adjusted member visibility to various variables
Removed custom code for memalign
Added more tasking


git-svn-id: https://svn.vital-it.ch/svn/hp2c/trunk/Codeml_Variants/Fastcodeml@4784 95c5a404-1f88-0410-a6b0-c3f062b6f34a

Added write results into file for database loading
Fixed various MPI problems


git-svn-id: https://svn.vital-it.ch/svn/hp2c/trunk/Codeml_Variants/Fastcodeml@4737 95c5a404-1f88-0410-a6b0-c3f062b6f34a

Added initial routine to output results in a form suitable for automatic load into the database
Inital work on BEB


git-svn-id: https://svn.vital-it.ch/svn/hp2c/trunk/Codeml_Variants/Fastcodeml@4719 95c5a404-1f88-0410-a6b0-c3f062b6f34a