Examples with BNGSpecies cbit.vcell.bionetgen.BNGSpecies used on opensource projects

Example 11 with BNGSpecies

use of cbit.vcell.bionetgen.BNGSpecies in project vcell by virtualcell.

the class BNGExecutorServiceMultipass method isIdentityReaction.

private static boolean isIdentityReaction(BNGReaction r) {
    // System.out.println("check if we ended up with an identity reaction because of repairing");
    if (r.getReactants().length != r.getProducts().length) {
        return false;
    }
    Set<String> reactants = new HashSet<>();
    Set<String> products = new HashSet<>();
    for (BNGSpecies reactant : r.getReactants()) {
        String rStr = reactant.getName();
        reactants.add(rStr);
    }
    for (BNGSpecies product : r.getProducts()) {
        String pStr = product.getName();
        products.add(pStr);
    }
    // extract products from reactants
    reactants.removeAll(products);
    if (reactants.size() == 0) {
        // it's identity reaction
        return true;
    }
    return false;
}