protected void buildClassLevelAnnotations(
ClassFile classFile, ClassFile templateClassFile, ConstPool constantPool)
throws NotFoundException {
List<?> templateAttributes = templateClassFile.getAttributes();
Iterator<?> templateItr = templateAttributes.iterator();
Annotation templateEntityListeners = null;
while (templateItr.hasNext()) {
Object object = templateItr.next();
if (AnnotationsAttribute.class.isAssignableFrom(object.getClass())) {
AnnotationsAttribute attr = (AnnotationsAttribute) object;
Annotation[] items = attr.getAnnotations();
for (Annotation annotation : items) {
String typeName = annotation.getTypeName();
if (typeName.equals(EntityListeners.class.getName())) {
templateEntityListeners = annotation;
}
}
}
}
if (templateEntityListeners != null) {
AnnotationsAttribute annotationsAttribute =
new AnnotationsAttribute(constantPool, AnnotationsAttribute.visibleTag);
List<?> attributes = classFile.getAttributes();
Iterator<?> itr = attributes.iterator();
Annotation existingEntityListeners = null;
while (itr.hasNext()) {
Object object = itr.next();
if (AnnotationsAttribute.class.isAssignableFrom(object.getClass())) {
AnnotationsAttribute attr = (AnnotationsAttribute) object;
Annotation[] items = attr.getAnnotations();
for (Annotation annotation : items) {
String typeName = annotation.getTypeName();
if (typeName.equals(EntityListeners.class.getName())) {
logger.debug(
"Stripping out previous EntityListeners annotation at the class level - will merge into new EntityListeners");
existingEntityListeners = annotation;
continue;
}
annotationsAttribute.addAnnotation(annotation);
}
itr.remove();
}
}
Annotation entityListeners =
getEntityListeners(constantPool, existingEntityListeners, templateEntityListeners);
annotationsAttribute.addAnnotation(entityListeners);
classFile.addAttribute(annotationsAttribute);
}
}
private void addOutputArg(List<String> args, Object object) {
if (!(object instanceof String))
throw new IllegalArgumentException("Only a single output file can be specified");
String value = (String) object;
args.add("-o");
if (value.endsWith(".vcf")) {
args.add(value);
try {
ConstPool constPool = annotatedWalker.getClassFile().getConstPool();
AnnotationsAttribute att =
new AnnotationsAttribute(constPool, AnnotationsAttribute.visibleTag);
Annotation ann = new Annotation(Output.class.getName(), constPool);
att.addAnnotation(ann);
CtClass writerClass = pool.get(VCFWriter.class.getName());
CtField field = new CtField(writerClass, "out", annotatedWalker);
field.setModifiers(Modifier.PUBLIC);
field.getFieldInfo().addAttribute(att);
annotatedWalker.addField(field);
} catch (NotFoundException e) {
throw new RuntimeException(e);
} catch (CannotCompileException e) {
throw new RuntimeException(e);
}
} else throw new IllegalArgumentException("Only VCF files are supported as output files");
}
public void testJIRA256() throws Exception {
// CtClass ec = sloader.get("test5.Entity");
CtClass cc = sloader.makeClass("test5.JIRA256");
ClassFile ccFile = cc.getClassFile();
ConstPool constpool = ccFile.getConstPool();
AnnotationsAttribute attr =
new AnnotationsAttribute(constpool, AnnotationsAttribute.visibleTag);
javassist.bytecode.annotation.Annotation entityAnno =
new javassist.bytecode.annotation.Annotation("test5.Entity", constpool);
// = new javassist.bytecode.annotation.Annotation(constpool, ec);
entityAnno.addMemberValue(
"value", new javassist.bytecode.annotation.ArrayMemberValue(constpool));
attr.addAnnotation(entityAnno);
ccFile.addAttribute(attr);
cc.writeFile();
Object o = make(cc.getName());
assertTrue(o.getClass().getName().equals("test5.JIRA256"));
java.lang.annotation.Annotation[] annotations = o.getClass().getDeclaredAnnotations();
assertEquals(1, annotations.length);
}
private void addVCFArg(List<String> args, Object object) {
List<String> vcfs = new ArrayList<String>();
if (object instanceof String) {
vcfs.addAll(Arrays.asList(((String) object).split(",")));
} else if (object instanceof List) {
vcfs.add((String) object);
}
int count = 1;
for (String vcf : vcfs) {
args.add("--vcf" + count);
args.add(vcf);
try {
ConstPool constPool = annotatedWalker.getClassFile().getConstPool();
AnnotationsAttribute att =
new AnnotationsAttribute(constPool, AnnotationsAttribute.visibleTag);
Annotation ann = new Annotation(Input.class.getName(), constPool);
MemberValue fullName = new StringMemberValue("vcf" + count, constPool);
ann.addMemberValue("fullName", fullName);
att.addAnnotation(ann);
RodBinding<VariantContext> dummy =
new RodBinding<VariantContext>(VariantContext.class, "vcf", vcf, "VCF", null);
CtClass rodClass = pool.get(dummy.getClass().getName());
// If there are multiple vcfs, we number each one - vcf1, vcf2, ...
// if there is only one, we just call it "vcf"
CtField field =
new CtField(rodClass, vcfs.size() > 1 ? "vcf" + count : "vcf", annotatedWalker);
field.setModifiers(Modifier.PUBLIC);
field.getFieldInfo().addAttribute(att);
SignatureAttribute sig =
new SignatureAttribute(
constPool,
"Lorg/broadinstitute/sting/commandline/RodBinding<Lorg/broadinstitute/sting/utils/variantcontext/VariantContext;>;;");
field.getFieldInfo().addAttribute(sig);
annotatedWalker.addField(field);
if (config.containsKey("out")) {
VCFHeaderInitializer vcfInit = new VCFHeaderInitializer(this);
this.injections.get("initializers").add(vcfInit);
}
} catch (CannotCompileException e) {
throw new RuntimeException(e);
} catch (NotFoundException e) {
throw new RuntimeException(e);
}
++count;
}
}
public byte[] transform(
ClassLoader loader,
String className,
Class<?> classBeingRedefined,
ProtectionDomain protectionDomain,
byte[] classfileBuffer)
throws IllegalClassFormatException {
if (infos.isEmpty()) {
return null;
}
String convertedClassName = className.replace('/', '.');
SingleTableInheritanceInfo key = new SingleTableInheritanceInfo();
key.setClassName(convertedClassName);
int pos = infos.indexOf(key);
if (pos >= 0) {
try {
if (LOG.isDebugEnabled()) {
LOG.debug("Converting " + convertedClassName + " to a SingleTable inheritance strategy.");
}
SingleTableInheritanceInfo myInfo = infos.get(pos);
ClassFile classFile =
new ClassFile(new DataInputStream(new ByteArrayInputStream(classfileBuffer)));
ConstPool constantPool = classFile.getConstPool();
AnnotationsAttribute annotationsAttribute =
new AnnotationsAttribute(constantPool, AnnotationsAttribute.visibleTag);
List<?> attributes = classFile.getAttributes();
Iterator<?> itr = attributes.iterator();
while (itr.hasNext()) {
Object object = itr.next();
if (AnnotationsAttribute.class.isAssignableFrom(object.getClass())) {
AnnotationsAttribute attr = (AnnotationsAttribute) object;
Annotation[] items = attr.getAnnotations();
for (Annotation annotation : items) {
String typeName = annotation.getTypeName();
if (!typeName.equals(Inheritance.class.getName())
&& ((myInfo.getDiscriminatorName() == null
&& !typeName.equals(Table.class.getName()))
|| myInfo.getDiscriminatorName() != null)) {
annotationsAttribute.addAnnotation(annotation);
}
}
itr.remove();
}
}
Annotation inheritance = new Annotation(Inheritance.class.getName(), constantPool);
ClassPool pool = ClassPool.getDefault();
pool.importPackage("javax.persistence");
pool.importPackage("java.lang");
EnumMemberValue strategy =
(EnumMemberValue)
Annotation.createMemberValue(constantPool, pool.makeClass("InheritanceType"));
strategy.setType(InheritanceType.class.getName());
strategy.setValue(InheritanceType.SINGLE_TABLE.name());
inheritance.addMemberValue("strategy", strategy);
annotationsAttribute.addAnnotation(inheritance);
if (myInfo.getDiscriminatorName() != null) {
Annotation discriminator =
new Annotation(DiscriminatorColumn.class.getName(), constantPool);
StringMemberValue name = new StringMemberValue(constantPool);
name.setValue(myInfo.getDiscriminatorName());
discriminator.addMemberValue("name", name);
EnumMemberValue discriminatorType =
(EnumMemberValue)
Annotation.createMemberValue(constantPool, pool.makeClass("DiscriminatorType"));
discriminatorType.setType(DiscriminatorType.class.getName());
discriminatorType.setValue(myInfo.getDiscriminatorType().name());
discriminator.addMemberValue("discriminatorType", discriminatorType);
IntegerMemberValue length = new IntegerMemberValue(constantPool);
length.setValue(myInfo.getDiscriminatorLength());
discriminator.addMemberValue("length", length);
annotationsAttribute.addAnnotation(discriminator);
}
classFile.addAttribute(annotationsAttribute);
ByteArrayOutputStream bos = new ByteArrayOutputStream();
DataOutputStream os = new DataOutputStream(bos);
classFile.write(os);
os.close();
return bos.toByteArray();
} catch (Exception ex) {
ex.printStackTrace();
throw new IllegalClassFormatException(
"Unable to convert "
+ convertedClassName
+ " to a SingleTable inheritance strategy: "
+ ex.getMessage());
}
} else {
return null;
}
}