/**
* Get the content type of the attachments.
*
* @param sc provides the default content type
* @return a <code>String</code> giving the content type of the attachment
* @throws AxisFault if there was an error deducing the content type from this message
*/
public String getContentType(SOAPConstants sc) throws AxisFault {
boolean soap12 = false;
if (sc != null) {
if (sc == SOAPConstants.SOAP12_CONSTANTS) {
soap12 = true;
}
} else {
// Support of SOAP 1.2 HTTP binding
SOAPEnvelope envelope = getSOAPEnvelope();
if (envelope != null) {
if (envelope.getSOAPConstants() == SOAPConstants.SOAP12_CONSTANTS) {
soap12 = true;
}
}
}
String encoding = XMLUtils.getEncoding(this, msgContext);
;
String ret = sc.getContentType() + "; charset=" + encoding.toLowerCase();
// Support of SOAP 1.2 HTTP binding
if (soap12) {
ret = HTTPConstants.HEADER_ACCEPT_APPL_SOAP + "; charset=" + encoding;
}
if (getSendType() != Attachments.SEND_TYPE_NONE
&& mAttachments != null
&& 0 != mAttachments.getAttachmentCount()) {
ret = mAttachments.getContentType();
}
return ret;
}
public Element[] testElement(Element[] bodyElems) throws Exception {
if (bodyElems == null || bodyElems.length != 1) {
throw new AxisFault("Wrong number of Elements in array!");
}
Element el = bodyElems[0];
if (el == null) {
throw new AxisFault("Null Element in array!");
}
if (!"http://db.com".equals(el.getNamespaceURI())) {
throw new AxisFault(
"Wrong namespace for Element (was \""
+ el.getNamespaceURI()
+ "\" should be "
+ "\"http://db.com\"!");
}
String xml = "<m:elementResult xmlns:m=\"http://db.com\"/>";
Document doc = XMLUtils.newDocument(new ByteArrayInputStream(xml.getBytes()));
Element result = doc.getDocumentElement();
return new Element[] {result};
}
/**
* Writes this <CODE>SOAPMessage</CODE> object to the given output stream. The externalization
* format is as defined by the SOAP 1.1 with Attachments specification.
*
* <p>If there are no attachments, just an XML stream is written out. For those messages that have
* attachments, <CODE>writeTo</CODE> writes a MIME-encoded byte stream.
*
* @param os the <CODE>OutputStream</CODE> object to which this <CODE>SOAPMessage</CODE> object
* will be written
* @throws SOAPException if there was a problem in externalizing this SOAP message
* @throws IOException if an I/O error occurs
*/
public void writeTo(java.io.OutputStream os) throws SOAPException, IOException {
// Do it the old fashion way.
if (getSendType() == Attachments.SEND_TYPE_NONE
|| mAttachments == null
|| 0 == mAttachments.getAttachmentCount()) {
try {
String charEncoding = XMLUtils.getEncoding(this, msgContext);
;
mSOAPPart.setEncoding(charEncoding);
mSOAPPart.writeTo(os);
} catch (java.io.IOException e) {
log.error(Messages.getMessage("javaIOException00"), e);
}
} else {
try {
mAttachments.writeContentToStream(os);
} catch (java.lang.Exception e) {
log.error(Messages.getMessage("exception00"), e);
}
}
}
public void testEmptyXMLNS() {
try {
MessageContext msgContext = new MessageContext(new AxisServer());
msgContext.setSOAPConstants(SOAPConstants.SOAP12_CONSTANTS);
msgContext.setProperty(Constants.MC_NO_OPERATION_OK, Boolean.TRUE);
String req =
"<xsd1:A xmlns:xsd1=\"urn:myNamespace\">"
+ "<xsd1:B>"
+ "<xsd1:C>foo bar</xsd1:C>"
+ "</xsd1:B>"
+ "</xsd1:A>";
StringWriter stringWriter = new StringWriter();
StringReader reqReader = new StringReader(req);
InputSource reqSource = new InputSource(reqReader);
Document document = XMLUtils.newDocument(reqSource);
String msgString = null;
SOAPEnvelope msg = new SOAPEnvelope(SOAPConstants.SOAP12_CONSTANTS);
RPCParam arg1 = new RPCParam("urn:myNamespace", "testParam", document.getFirstChild());
arg1.setXSITypeGeneration(Boolean.FALSE);
RPCElement body = new RPCElement("urn:myNamespace", "method1", new Object[] {arg1});
msg.addBodyElement(body);
body.setEncodingStyle(Constants.URI_LITERAL_ENC);
SerializationContext context = new SerializationContext(stringWriter, msgContext);
msg.output(context);
msgString = stringWriter.toString();
assertTrue(msgString.indexOf("xmlns=\"\"") == -1);
} catch (Exception e) {
fail(e.getMessage());
}
}
/**
* This method is called when 'Finish' button is pressed in the wizard. We will create an
* operation and run it using wizard as execution context.
*/
public boolean performFinish() {
try {
Options opts = new Options(new String[0]);
opts.setDefaultURL(serverPage.getSelectedServer() + "/services/NMRShiftDB");
Service service = new Service();
Call call = (Call) service.createCall();
call.setOperationName("doSearch");
call.setTargetEndpointAddress(new URL(opts.getURL()));
DocumentBuilder builder;
builder = DocumentBuilderFactory.newInstance().newDocumentBuilder();
SOAPBodyElement[] input = new SOAPBodyElement[1];
Document doc = builder.newDocument();
Element cdataElem;
cdataElem = doc.createElementNS("http://www.nmrshiftdb.org/ws/NMRShiftDB/", "doSearch");
Element reqElem;
reqElem = doc.createElementNS("http://www.nmrshiftdb.org/ws/NMRShiftDB/", "searchstring");
/*DocumentBuilderFactory dbf = DocumentBuilderFactory.newInstance();
DocumentBuilder db = dbf.newDocumentBuilder();
Node node = db.parse(new ByteArrayInputStream(new Convertor(true,"").cdkAtomContainerToCMLMolecule(ac).toXML().getBytes()));*/
Node node =
DOMConverter.convert(
new nu.xom.Document(new Convertor(true, "").cdkAtomContainerToCMLMolecule(ac)),
builder.getDOMImplementation())
.getFirstChild();
reqElem.appendChild(doc.importNode(node, true));
Element reqElem2;
reqElem2 = doc.createElementNS("http://www.nmrshiftdb.org/ws/NMRShiftDB/", "searchtype");
Node node2;
node2 = doc.createTextNode("--");
reqElem2.appendChild(node2);
Element reqElem3;
reqElem3 = doc.createElementNS("http://www.nmrshiftdb.org/ws/NMRShiftDB/", "searchfield");
Node node3;
node3 = doc.createTextNode(NmrshiftdbUtils.replaceSpaces(serverPage.selectedOption()));
reqElem3.appendChild(node3);
cdataElem.appendChild(reqElem);
cdataElem.appendChild(reqElem2);
cdataElem.appendChild(reqElem3);
input[0] = new SOAPBodyElement(cdataElem);
Vector elems = (Vector) call.invoke(input);
SOAPBodyElement elem = (SOAPBodyElement) elems.get(0);
Element e = elem.getAsDOM();
CMLBuilder cmlbuilder = new CMLBuilder();
CMLElement cmlElement = (CMLElement) cmlbuilder.parseString(XMLUtils.ElementToString(e));
if (cmlElement.getChildCount() > 0) {
IFolder folder = NmrshiftdbUtils.createVirtualFolder();
for (int i = 0; i < cmlElement.getChildCount(); i++) {
net.bioclipse.specmol.Activator.getDefault()
.getJavaSpecmolManager()
.saveSpecmol(
new JumboSpecmol((CMLCml) cmlElement.getChildCMLElements().get(i)),
folder.getFile(
((CMLMolecule)
cmlElement
.getChildCMLElements()
.get(i)
.getChildCMLElement("molecule", 0))
.getId()
+ "."
+ SpectrumEditor.CML_TYPE));
}
} else {
MessageDialog.openInformation(
PlatformUI.getWorkbench().getActiveWorkbenchWindow().getShell(),
"No results",
"No spectra in NMRShiftDB for this structure!");
}
} catch (Exception ex) {
LogUtils.handleException(ex, logger);
}
return true;
}
