I would like to write a JAX-WS web service that signs my SOAP messages using the http://www.w3.org/TR/xmldsig-core/ recommendation.
With what I found on the internet I wrote a JAX-WS handler (SOAPHandler<SOAPMessageContext>) that manages to change a copy of the SOAP request:
@Override
public boolean handleMessage(SOAPMessageContext smc) {
    Boolean outboundProperty = (Boolean) smc.get(MessageContext.MESSAGE_OUTBOUND_PROPERTY);
    SOAPMessage message = smc.getMessage();
    if (outboundProperty) {
        try {
            SOAPPart soapPart = message.getSOAPPart();
            SOAPEnvelope soapEnvelope = soapPart.getEnvelope();
            Source source = soapPart.getContent();
            Node root = null;
            Document doc22 = null;
            if (source instanceof DOMSource) {
                root = ((DOMSource) source).getNode();
            } else if (source instanceof SAXSource) {
                InputSource inSource = ((SAXSource) source).getInputSource();
                DocumentBuilderFactory dbf = DocumentBuilderFactory.newInstance();
                dbf.setNamespaceAware(true);
                DocumentBuilder db = null;
                db = dbf.newDocumentBuilder();
                doc22 = db.parse(inSource);
                root = (Node) doc22.getDocumentElement();
            }
            XMLSignatureFactory fac = XMLSignatureFactory.getInstance("DOM");
            Reference ref = fac.newReference("", fac.newDigestMethod(DigestMethod.SHA1, null),
                    Collections.singletonList(fac.newTransform(Transform.ENVELOPED, (TransformParameterSpec) null)),
                    null, null);
            SignedInfo si = fac.newSignedInfo(fac.newCanonicalizationMethod(CanonicalizationMethod.INCLUSIVE,
                    (C14NMethodParameterSpec) null),
                    fac.newSignatureMethod(SignatureMethod.RSA_SHA1, null),
                    Collections.singletonList(ref));
            // Load the KeyStore and get the signing key and certificate.
            KeyStore ks = KeyStore.getInstance("JKS");
            ks.load(new FileInputStream("client_keystore.jks"), "changeit".toCharArray());
            KeyStore.PrivateKeyEntry keyEntry =
                    (KeyStore.PrivateKeyEntry) ks.getEntry("client", new KeyStore.PasswordProtection("changeit".toCharArray()));
            X509Certificate cert = (X509Certificate) keyEntry.getCertificate();
            // Create the KeyInfo containing the X509Data.
            KeyInfoFactory kif2 = fac.getKeyInfoFactory();
            List x509Content = new ArrayList();
            x509Content.add(cert.getSubjectX500Principal().getName());
            x509Content.add(cert);
            X509Data xd = kif2.newX509Data(x509Content);
            KeyInfo ki = kif2.newKeyInfo(Collections.singletonList(xd));
            Element header = getFirstChildElement(root/*.getDocumentElement()*/);
            DOMSignContext dsc = new DOMSignContext(keyEntry.getPrivateKey(), header /*doc.getDocumentElement()*/);
            XMLSignature signature = fac.newXMLSignature(si, ki);
            signature.sign(dsc);
            //TODO: change this to update the SOAP message, not write it to disks
            OutputStream os = new FileOutputStream("out.xml");
            TransformerFactory tf = TransformerFactory.newInstance();
            Transformer trans = tf.newTransformer();
            trans.transform(new DOMSource(root), new StreamResult(os));
        } catch (Exception ex) {
            System.out.println(ex);
        }
    }
    return true;
}
But I can't figure out how to update the SOAP request?
I develop a SOAPHandler for Xml Digital Signature of Soap Request.
public class SOAPSecurityHandler implements
        LogicalHandler<LogicalMessageContext> {
    static final String KEYSTORE_FILE = "keystore_name.jks";
    static final String KEYSTORE_INSTANCE = "JKS";
    static final String KEYSTORE_PWD = "123456";
    static final String KEYSTORE_ALIAS = "keystore";
    public Set<QName> getHeaders() {
        return Collections.emptySet();
    }
    @Override
    public boolean handleMessage(LogicalMessageContext smc) {
        Boolean outboundProperty = (Boolean) smc
                .get(MessageContext.MESSAGE_OUTBOUND_PROPERTY);
        try {
            if (outboundProperty) {
                Source source = smc.getMessage().getPayload();
                Node root = null;
                root = ((DOMSource) source).getNode();
                XMLSignatureFactory fac = XMLSignatureFactory
                        .getInstance("DOM");
                Reference ref = fac.newReference("", fac.newDigestMethod(
                        DigestMethod.SHA1, null), Collections.singletonList(fac
                        .newTransform(Transform.ENVELOPED,
                                (TransformParameterSpec) null)), null, null);
                SignedInfo si = fac.newSignedInfo(fac
                        .newCanonicalizationMethod(
                                CanonicalizationMethod.INCLUSIVE,
                                (C14NMethodParameterSpec) null), fac
                        .newSignatureMethod(SignatureMethod.RSA_SHA1, null),
                        Collections.singletonList(ref));
                // Load the KeyStore and get the signing key and certificate.
                KeyStore ks = KeyStore.getInstance(KEYSTORE_INSTANCE);
                ks.load(new FileInputStream(KEYSTORE_FILE),
                        KEYSTORE_PWD.toCharArray());
                KeyStore.PrivateKeyEntry keyEntry = (KeyStore.PrivateKeyEntry) ks
                        .getEntry(
                                KEYSTORE_ALIAS,
                                new KeyStore.PasswordProtection(KEYSTORE_PWD
                                        .toCharArray()));
                X509Certificate cert = (X509Certificate) keyEntry
                        .getCertificate();
                // Create the KeyInfo containing the X509Data.
                KeyInfoFactory kif2 = fac.getKeyInfoFactory();
                List x509Content = new ArrayList();
                x509Content.add(cert.getSubjectX500Principal().getName());
                x509Content.add(cert);
                X509Data xd = kif2.newX509Data(x509Content);
                KeyInfo ki = kif2.newKeyInfo(Collections.singletonList(xd));
                Element header = DOMUtils.getFirstChildElement(root);
                DOMSignContext dsc = new DOMSignContext(
                        keyEntry.getPrivateKey(), header);
                XMLSignature signature = fac.newXMLSignature(si, ki);
                signature.sign(dsc);
            }
        } catch (Exception e) {
            e.printStackTrace();
        }
        return true;
    }
    public boolean handleFault(SOAPMessageContext smc) {
        // addDigitalSignature(smc);
        return true;
    }
    // nothing to clean up
    public void close(MessageContext messageContext) {
    }
    @Override
    public boolean handleFault(LogicalMessageContext arg0) {
        // TODO Auto-generated method stub
        return false;
    }
}
I think the problem in code of @AndrewBourgeois is the way of get Source.
Regards,
The simplest way is to use functionality integrated in application server. For example :Securing JAX-WS Web services using message-level security with WebSphere App Server
How to configure signing on WAS you can find here.
And here is WebLogic documentation about Configuring Message-Level Security.
You can try soapPart.saveChanges();
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