List<Annotation> assertions = assertionProcessor.processAnnotationFile(assertionFile);
JCas jcas = cas.getJCas();
SingleDocumentProcessor p = new SingleDocumentProcessor();
p.setContents(contents);
p.preprocess();
String [][] tokenArrays = p.getTokenArrays();
jcas.setSofaDataString(contents, "");
int sentNum = 0;
int tokNum = 0;
for (int i=0; i < tokenArrays.length; i++) {