# 
# @file    multi_example3.cs
# @brief   multi create example
# @author  Sarah Keating
# @author  Frank Bergmann
# 
# <!--------------------------------------------------------------------------
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# information about SBML, and the latest version of libSBML.
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# Copyright (C) 2009-2013 jointly by the following organizations:
#     1. California Institute of Technology, Pasadena, CA, USA
#     2. EMBL European Bioinformatics Institute (EMBL-EBI), Hinxton, UK
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# Copyright (C) 2006-2008 by the California Institute of Technology,
#     Pasadena, CA, USA 
# 
# Copyright (C) 2002-2005 jointly by the following organizations:
#     1. California Institute of Technology, Pasadena, CA, USA
#     2. Japan Science and Technology Agency, Japan
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# This library is free software; you can redistribute it and/or modify it
# under the terms of the GNU Lesser General Public License as published by
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# in the file named "LICENSE.txt" included with this software distribution
# and also available online as http://sbml.org/software/libsbml/license.html
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# 
# 
from libsbml import * 

sbmlns = SBMLNamespaces(3,1,"multi",1);

# create the document

document = SBMLDocument(sbmlns);

# set the required attribute to True
docPlug = document.getPlugin("multi");
docPlug.setRequired(True);


# create the Model

model=document.createModel();

# create the compartments

c = model.createCompartment();
c.setId("membrane");
c.setConstant(True);

# set the multi attribute isType via the compartmentPlugin
compPlug = c.getPlugin("multi");
compPlug.setIsType(True);

# create the speciesTypes

modelPlug = model.getPlugin("multi");

st = modelPlug.createMultiSpeciesType();
st.setId("stX");
st.setCompartment("membrane");

# create species
s = model.createSpecies();
s.setId("s1");
s.setCompartment("membrane");
s.setBoundaryCondition(False);
s.setHasOnlySubstanceUnits(False);
s.setConstant(False);

# set the multi attribute speciesType via the compartmentPlugin
spPlug = s.getPlugin("multi");
spPlug.setSpeciesType("stX");

# create species feature
sf = spPlug.createSpeciesFeature();
sf.setSpeciesFeatureType("a");
sf.setOccur(1);
sf.setComponent("b");

sfv = sf.createSpeciesFeatureValue();
sfv.setValue("c");

# create a subListOfSpeciesFeatures
subloSF = spPlug.createSubListOfSpeciesFeatures();
subloSF.setRelation(Relation_fromString("and"));

# add speciesFeatures to the subList
sf1 = SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a1");
sf1.setOccur(1);
sf1.setComponent("b1");

sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c1");

subloSF.appendAndOwn(sf1);

sf1 = SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a2");
sf1.setOccur(1);
sf1.setComponent("b2");

sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c2");

subloSF.appendAndOwn(sf1);

# create a second subListOfSpeciesfeatures
subloSF = spPlug.createSubListOfSpeciesFeatures();
subloSF.setRelation(Relation_fromString("or"));

sf1 = SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a3");
sf1.setOccur(1);
sf1.setComponent("b3");

sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c3");

subloSF.appendAndOwn(sf1);

sf1 = SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a4");
sf1.setOccur(1);
sf1.setComponent("b4");

sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c4");

subloSF.appendAndOwn(sf1);

writeSBML(document,"multi_example3.xml");

