translateSBML.bngl

## title: translateSBML.bngl
#  description: Demonstrates how to translate a model in SBML format (has a .xml extension) into
#               a .bngl model file. With the atomize parameter set to 1, the translator will attempt
#               to determine the molecular composition and structure of each chemical species based on 
#               several heuristic considerations (described elsewhere). With atomize=>0, the function will'
#               perform a direct translation in which each species is represented as a distinct molecule type.
#  date: 07Mar2018
#  author: Jim Faeder

# Set file argument to the name of the SBML file to be translated. In RuleBender this may be done using an 
# absolute path to the file, or a relative path that is three subdirectories up from the current directory.
#readFile({file=>"../../../test_sbml_structured_SBML.xml",atomize=>1})
#readFile({file=>"../../../BIOMD0000000569.xml",atomize=>1})
#readFile({file=>"../../../BIOMD0000000033.xml",atomize=>1})
generate_network({overwrite=>1})
simulate({method=>"ode",t_start=>0,t_end=>100,n_steps=>100})