Align two protein structures

This source code is run in the example that calculates the structure alignment of Myoglobin and Hemoglobin. See <BioJava:CookBook:PDB:align> for more information on how to calculate protein structure alignments. ```java

Structure s1 = getStructureFromFile(fileName1); Structure s2 = getStructureFromFile(fileName2);

StructurePairAligner aligner = new StructurePairAligner();

aligner.align(s1, s2); ```