changed all "ragaraja_version" to 0 and "ragaraja_instructions" to ['000', '001', '010', '011', '100', '101'] (a "safe" set of instructions which should not kill the system)
Merge branch 'master' of https://github.com/clarencecastillo/dose

# By Clarence Castillo
# Via Clarence Castillo (2) and clarencecastillo (1)
* 'master' of https://github.com/clarencecastillo/dose:
  Initial untested commit of 06_revive_simulation_01.py
  Initial commit of revive_simulation function inside dose.py
  Implemented excavate_world in simulation_calls that returns a buried World file
  Updated bury_world() function to dump the object World instead of World's ecosystem dictionary
  Fixed bug that increments generation_count twice during a single generation step
  Updated dose.py to copy the simulation file inside the simulation results directory
  Removed printing of error message when ragaraja interpreter falls into an exception
  Changed simulation files ragaraja_version to 0 and added ragaraja_instructions key in parameters to avoid possible infinite loop in ragaraja interpreter

Conflicts:
	examples/00_test_simulation.py
	examples/01_basic_functions_one_cell_deployment.py
	examples/02_basic_functions_even_deployment.py
	examples/03_no_migration_isolated_mating.py
	examples/04_adjacent_migration_isolated_mating.py
	examples/05_long_migration_isolated_mating.py
construct sim_folder parameter to be more OS friendly (using os.sep)
construct sim_folder parameter to be more OS friendly (using os.sep)
edited "simulation_name" to reflect "db"
Merge pull request #6 from mauriceling/master

1. Added "safe" set of Ragaraja instructions for use in simulations 2. Amended simulation 06 to use os.sep for OS friendly file path