def determineTasks(genotypes):
global TASKS
# Initialize task list
if TASKS == []:
TASKS = avida.get_tasks()
# If genotypes is a single genotype, convert to a list
try:
iter(genotypes)
except:
genotypes = [genotypes]
# Copy the sequences of each genotype into a new sequence string list
# because avida.calc_info takes in a list of sequence strings
seqs = [genotype.sequence for genotype in genotypes]
# Get task list
seqs_info = avida.get_info(seqs, ['task_list'])
task_list = seqs_info['task_list']
# Update each genotype with its tasks
for genotype, tasks in zip(genotypes, task_list):
genotype.setTasks(tasks)
def measureFitness(genotypes, environmentFileName = None):
# If genotypes is a single genotype, convert to a list
if not isinstance(genotypes, list):
genotypes = [genotypes]
# Copy the sequences of each genotype into a new sequence string list
# because avida.calc_info takes in a list of sequence strings
seqs = [genotype.sequence for genotype in genotypes]
# Get fitnesses and viability
avida.set_environment(environmentFileName)
seqs_info = avida.get_info(seqs, ['fitness', 'viable'])
fitnesses = seqs_info['fitness']
viability = seqs_info['viable']
avida.reset_environment()
# Update each genotype, ensuring unviable sequences have 0 fitness
for genotype, fitness, viable in zip(genotypes, fitnesses, viability):
genotype.fitness = fitness * viable
