@@ -53,8 +53,10 @@ public class SideCompoundsScan extends AbstractMet4jApplication {
@Option(name="-er",aliases={"--edgeRedundancy"},usage="flag as side compound any compound with a number of redundancy in incident edges (parallel edges connecting to the same neighbor) above the given threshold")
publicdoubleparallelEdge=Double.NaN;
@Option(name="-m",aliases={"--merge"},usage="Degree and other graph measures are shared between compounds in different compartments. Requires consistent and unambiguous naming in SBML.")
publicBooleanmerge=false;
enumstrategy{by_name,by_id}
@Option(name="-m",aliases={"--merge"},usage="Degree is shared between compounds in different compartments. "+
"Use names if consistent and unambiguous across compartments, or identifiers if compartment suffix is present (id in form \"xxx_y\" with xxx as base identifier and y as compartment label).")