Examples with Transformer javax.xml.transform.Transformer used on opensource projects

Example 56 with Transformer

use of javax.xml.transform.Transformer in project goci by EBISPOT.

the class ChromosomeRenderlet method render.

public void render(RenderletNexus nexus, C context, E entity) {
    int position = getPosition();
    int height = SVGCanvas.canvasHeight;
    int width = SVGCanvas.canvasWidth;
    double chromWidth = (double) width / 12;
    double chromHeight = (double) height / 2;
    double xCoordinate;
    double yCoordinate = 0;
    if (position < 12) {
        xCoordinate = position * chromWidth;
    } else {
        xCoordinate = (position - 12) * chromWidth;
        yCoordinate = (double) height / 2;
    }
    InputStream in = null;
    try {
        in = getSVGFile().openStream();
        DocumentBuilderFactory dbf = DocumentBuilderFactory.newInstance();
        DocumentBuilder db = dbf.newDocumentBuilder();
        Document chromSVG = db.parse(in);
        Element root = chromSVG.getDocumentElement();
        Element g = (Element) root.getElementsByTagName("g").item(0).cloneNode(true);
        setChromBands(g, nexus);
        StringBuilder builder = new StringBuilder();
        builder.append("translate(");
        builder.append(Double.toString(xCoordinate));
        builder.append(",");
        builder.append(Double.toString(yCoordinate));
        builder.append(")");
        g.setAttribute("transform", builder.toString());
        g.setAttribute("gwasname", getName());
        g.removeAttribute("title");
        SVGArea currentArea = new SVGArea(xCoordinate, yCoordinate, chromWidth, chromHeight, 0);
        TransformerFactory transFactory = TransformerFactory.newInstance();
        Transformer transformer = transFactory.newTransformer();
        StringWriter buffer = new StringWriter();
        transformer.setOutputProperty(OutputKeys.OMIT_XML_DECLARATION, "yes");
        transformer.transform(new DOMSource(g), new StreamResult(buffer));
        String str = buffer.toString();
        RenderingEvent<E> event = new RenderingEvent<E>(entity, str, currentArea, this);
        nexus.renderingEventOccurred(event);
    } catch (ParserConfigurationException e) {
        throw new RuntimeException("Failed to read in template chromosome SVG from original resource", e);
    } catch (SAXException e) {
        throw new RuntimeException("Failed to read in template chromosome SVG from original resource", e);
    } catch (IOException e) {
        throw new RuntimeException("Failed to render chromosome SVG", e);
    } catch (TransformerConfigurationException e) {
        throw new RuntimeException("Failed to render chromosome SVG", e);
    } catch (TransformerException e) {
        throw new RuntimeException("Failed to render chromosome SVG", e);
    } finally {
        if (in != null) {
            try {
                in.close();
            } catch (IOException e) {
            // tried our best!
            }
        }
    }
}

Example 57 with Transformer

use of javax.xml.transform.Transformer in project OpenAM by OpenRock.

the class ValidationErrorHandler method print.

/**
     * Prints a Node tree recursively.
     * @param node A DOM tree Node
     * @param encoding character encoding
     * @return An xml String representation of the DOM tree.
     */
public static String print(Node node, String encoding) {
    if (node == null) {
        return null;
    }
    try {
        TransformerFactory tFactory = TransformerFactory.newInstance();
        Transformer transformer = tFactory.newTransformer();
        transformer.setOutputProperty("omit-xml-declaration", "yes");
        transformer.setOutputProperty("encoding", encoding);
        DOMSource source = new DOMSource(node);
        ByteArrayOutputStream os = new ByteArrayOutputStream(2000);
        StreamResult result = new StreamResult(os);
        transformer.transform(source, result);
        return os.toString(encoding);
    } catch (Exception e) {
        return null;
    }
}

Example 58 with Transformer

use of javax.xml.transform.Transformer in project OpenAM by OpenRock.

the class Client method sendRequest.

/**
     * Sends a request to a SOAP endpoint and returns the response. The server
     * only contains one servlet for different web services. So the SOAP
     * endpoint URL has format 'servlet_URL/key'.
     *
     * @param req the request message.
     * @param connectTo the SOAP endpoint URL
     * @param certAlias the cert alias of a client certificate
     * @param soapAction the SOAPAction header
     * @return a response from the SOAP endpoint
     * @throws SOAPFaultException if a SOAP Fault occurs
     * @throws SOAPBindingException if a error occurs while processing,
     *                                 sending or receiving Message
     */
public static Message sendRequest(Message req, String connectTo, String certAlias, String soapAction) throws SOAPBindingException, SOAPFaultException {
    URLConnection con = null;
    try {
        con = getConnection(connectTo, certAlias);
    } catch (Exception e) {
        Utils.debug.error("Client:sendRequest", e);
        throw new SOAPBindingException(e.getMessage());
    }
    if (soapAction == null || soapAction.length() == 0) {
        soapAction = "";
    }
    con.setRequestProperty(SOAPBindingConstants.SOAP_ACTION_HEADER, soapAction);
    Document doc = null;
    int securityProfileType = req.getSecurityProfileType();
    if (securityProfileType == Message.ANONYMOUS || securityProfileType == Message.BEARER_TOKEN) {
        doc = req.toDocument(true);
    } else {
        Element sigElem = SecurityUtils.signMessage(req);
        if (sigElem == null) {
            String msg = Utils.bundle.getString("cannotSignRequest");
            Utils.debug.error("Client.sendRequest: " + msg);
            throw new SOAPBindingException(msg);
        }
        doc = sigElem.getOwnerDocument();
    }
    if (Utils.debug.messageEnabled()) {
        Utils.debug.message("Client.sendRequest: signed request\n" + req);
    }
    OutputStream os = null;
    try {
        os = con.getOutputStream();
        Transformer transformer = XMLUtils.getTransformerFactory().newTransformer();
        transformer.setOutputProperty("omit-xml-declaration", "yes");
        transformer.transform(new DOMSource(doc.getDocumentElement()), new StreamResult(os));
    } catch (Exception e) {
        Utils.debug.error("Client:sendRequest", e);
        throw new SOAPBindingException(e.getMessage());
    } finally {
        if (os != null) {
            try {
                os.close();
            } catch (Exception e) {
                Utils.debug.error("Client:sendRequest", e);
            }
        }
    }
    Message resp = null;
    InputStream is = null;
    try {
        is = con.getInputStream();
        resp = new Message(is);
        if (resp.getSOAPFault() != null) {
            throw new SOAPFaultException(resp);
        }
        Utils.enforceProcessingRules(resp, req.getCorrelationHeader().getMessageID(), false);
    } catch (IOException e) {
        Utils.debug.error("Client:sendRequest", e);
        throw new SOAPBindingException(e.getMessage());
    } finally {
        if (is != null) {
            try {
                is.close();
            } catch (Exception e) {
                Utils.debug.error("Client:sendRequest", e);
            }
        }
    }
    resp.setProtocol(con.getURL().getProtocol());
    if (resp.getSecurityProfileType() != Message.ANONYMOUS && !SecurityUtils.verifyMessage(resp)) {
        String msg = Utils.bundle.getString("cannotVerifySignature");
        Utils.debug.error("Client.sendRequest: " + msg);
        throw new SOAPBindingException(msg);
    }
    return resp;
}

Example 59 with Transformer

use of javax.xml.transform.Transformer in project OpenAM by OpenRock.

the class XMLResourceExceptionHandler method write.

@Override
public void write(MessageContext context, AuthenticationException exception) {
    Reject.ifNull(exception);
    try {
        ResourceException jre;
        if (exception instanceof AuthenticationFailedException) {
            jre = new PermanentException(Status.UNAUTHORIZED.getCode(), exception.getMessage(), null);
        } else if (exception.getCause() instanceof ResourceException) {
            jre = (ResourceException) exception.getCause();
        } else {
            LOGGER.error(exception.getMessage(), exception);
            jre = new InternalServerErrorException("Authentication Failed", exception);
        }
        AuditTrail auditTrail = context.getAuditTrail();
        List<Map<String, Object>> failureReasonList = auditTrail.getFailureReasons();
        if (failureReasonList != null && !failureReasonList.isEmpty()) {
            jre.setDetail(json(object(field("failureReasons", failureReasonList))));
        }
        Response response = context.getResponse();
        response.setStatus(Status.valueOf(jre.getCode()));
        context.<Response>getResponse().getHeaders().put(ContentTypeHeader.valueOf(MediaType.XML_UTF_8.toString()));
        ByteArrayOutputStream outputStream = new ByteArrayOutputStream();
        Transformer transformer = XMLUtils.getTransformerFactory().newTransformer();
        transformer.transform(new DOMSource(asXMLDOM(jre.includeCauseInJsonValue().toJsonValue().asMap())), new StreamResult(outputStream));
        response.getEntity().setBytes(outputStream.toByteArray());
    } catch (TransformerException e1) {
        throw new IllegalStateException("Could not write XML to response", e1);
    }
}

Example 60 with Transformer

use of javax.xml.transform.Transformer in project opennms by OpenNMS.

the class XmlSystemReportFormatter method write.

@Override
public void write(final SystemReportPlugin plugin) {
    if (!hasDisplayable(plugin))
        return;
    if (m_handler == null) {
        try {
            StreamResult streamResult = new StreamResult(getOutputStream());
            SAXTransformerFactory tf = (SAXTransformerFactory) SAXTransformerFactory.newInstance();
            m_handler = tf.newTransformerHandler();
            Transformer serializer = m_handler.getTransformer();
            serializer.setOutputProperty(OutputKeys.CDATA_SECTION_ELEMENTS, "entry");
            m_handler.setResult(streamResult);
        } catch (final Exception e) {
            LOG.error("Unable to create XML stream writer.", e);
            m_handler = null;
        }
        try {
            m_handler.startDocument();
            m_handler.startElement("", "", "systemReportPlugins", null);
        } catch (final Exception e) {
            LOG.warn("Unable to start document.", e);
            m_handler = null;
        }
    }
    if (m_handler == null) {
        LOG.warn("Unable to write, no handler defined!");
        return;
    }
    try {
        AttributesImpl atts = new AttributesImpl();
        atts.addAttribute("", "", "name", "CDATA", plugin.getName());
        atts.addAttribute("", "", "description", "CDATA", plugin.getDescription());
        m_handler.startElement("", "", "plugin", atts);
        for (final Map.Entry<String, Resource> entry : plugin.getEntries().entrySet()) {
            final boolean displayable = isDisplayable(entry.getValue());
            atts = new AttributesImpl();
            atts.addAttribute("", "", "key", "CDATA", entry.getKey());
            if (!displayable) {
                atts.addAttribute("", "", "skipped", "CDATA", "true");
            }
            m_handler.startElement("", "", "entry", atts);
            if (displayable) {
                final String value = getResourceText(entry.getValue());
                if (value != null) {
                    m_handler.startCDATA();
                    m_handler.characters(value.toCharArray(), 0, value.length());
                    m_handler.endCDATA();
                }
            }
            m_handler.endElement("", "", "entry");
        }
        m_handler.endElement("", "", "plugin");
    } catch (final Exception e) {
        LOG.warn("An error occurred while attempting to write XML data.", e);
    }
}