Examples with DomDriver com.thoughtworks.xstream.io.xml.DomDriver used on opensource projects

Example 16 with DomDriver

use of com.thoughtworks.xstream.io.xml.DomDriver in project XobotOS by xamarin.

the class SharpenProject method createXStream.

private XStream createXStream() {
    XStream stream = new XStream(new DomDriver());
    stream.alias("sharpen", Remembrance.class);
    return stream;
}

Example 17 with DomDriver

use of com.thoughtworks.xstream.io.xml.DomDriver in project GDSC-SMLM by aherbert.

the class SettingsManager method createXStream.

private static XStream createXStream() {
    if (xs == null) {
        xs = new XStream(new DomDriver());
        // Map the object names/fields for a nicer configuration file
        xs.alias("gdsc.fitting.settings", GlobalSettings.class);
        xs.alias("gdsc.fitting.configuration", FitEngineConfiguration.class);
        xs.aliasField("gdsc.fitting.configuration", GlobalSettings.class, "fitEngineConfiguration");
        xs.aliasField("peakParameters", FitEngineConfiguration.class, "fitConfiguration");
        xs.aliasField("smoothing", FitEngineConfiguration.class, "smooth");
        //xs.aliasField("width0", FitConfiguration.class, "initialPeakWidth0");
        //xs.aliasField("width1", FitConfiguration.class, "initialPeakWidth1");
        //xs.aliasField("angle", FitConfiguration.class, "initialAngle");
        xs.aliasField("enableValidation", FitConfiguration.class, "fitValidation");
        xs.omitField(FitConfiguration.class, "flags");
        xs.omitField(FitConfiguration.class, "signalThreshold");
        //xs.omitField(FitConfiguration.class, "noise");
        xs.omitField(FitConfiguration.class, "enableValidation");
        xs.omitField(FitConfiguration.class, "computeResiduals");
        // Smart filter settings
        xs.omitField(FitConfiguration.class, "directFilter");
        xs.omitField(FitConfiguration.class, "dynamicPeakResult");
        xs.omitField(FitConfiguration.class, "filterResult");
        xs.omitField(FitConfiguration.class, "widthEnabled");
        xs.omitField(FitConfiguration.class, "offset");
    }
    return xs;
}

Example 18 with DomDriver

use of com.thoughtworks.xstream.io.xml.DomDriver in project GDSC-SMLM by aherbert.

the class BatchPeakFit method createXStream.

private XStream createXStream() {
    XStream xs = new XStream(new DomDriver());
    xs.alias("gdsc.fitting.batchSettings", BatchSettings.class);
    xs.alias("parameter", ParameterSettings.class);
    xs.alias("gdsc.fitting.batchRun", BatchRun.class);
    xs.omitField(FitConfiguration.class, "flags");
    xs.omitField(FitConfiguration.class, "signalThreshold");
    //xs.omitField(FitConfiguration.class, "noise");
    xs.omitField(FitConfiguration.class, "enableValidation");
    return xs;
}

Example 19 with DomDriver

use of com.thoughtworks.xstream.io.xml.DomDriver in project spatial-portal by AtlasOfLivingAustralia.

the class MapComposer method loadUserSession.

public void loadUserSession(String sessionid) {
    onClick$removeAllLayers();
    Scanner scanner = null;
    try {
        String sfld = getSettingsSupplementary().getProperty(StringConstants.ANALYSIS_OUTPUT_DIR) + "session/" + sessionid;
        File sessfolder = new File(sfld);
        if (!sessfolder.exists()) {
            showMessage("Session information does not exist. Please provide a valid session id");
            return;
        }
        scanner = new Scanner(new File(sfld + "/details.txt"));
        // first grab the zoom level and bounding box
        String[] mapdetails = scanner.nextLine().split(",");
        BoundingBox bb = new BoundingBox();
        bb.setMinLongitude(Float.parseFloat(mapdetails[1]));
        bb.setMinLatitude(Float.parseFloat(mapdetails[2]));
        bb.setMaxLongitude(Float.parseFloat(mapdetails[3]));
        bb.setMaxLatitude(Float.parseFloat(mapdetails[4]));
        openLayersJavascript.setAdditionalScript(openLayersJavascript.zoomToBoundingBox(bb, true));
        String[] scatterplotNames = null;
        while (scanner.hasNextLine()) {
            String line = scanner.nextLine();
            if (line.startsWith("scatterplotNames")) {
                scatterplotNames = line.substring(17).split("___");
            }
        }
        ArrayUtils.reverse(scatterplotNames);
        // ignore fields not found
        XStream xstream = new XStream(new DomDriver()) {

            protected MapperWrapper wrapMapper(MapperWrapper next) {
                return new MapperWrapper(next) {

                    public boolean shouldSerializeMember(Class definedIn, String fieldName) {
                        if (definedIn == Object.class || !super.shouldSerializeMember(definedIn, fieldName))
                            System.out.println("faled to read: " + definedIn + ", " + fieldName);
                        return definedIn != Object.class ? super.shouldSerializeMember(definedIn, fieldName) : false;
                    }
                };
            }

            @Override
            public Object unmarshal(HierarchicalStreamReader reader) {
                Object o = super.unmarshal(reader);
                if (o instanceof BiocacheQuery)
                    ((BiocacheQuery) o).getFullQ(false);
                return o;
            }

            @Override
            public Object unmarshal(HierarchicalStreamReader reader, Object root) {
                Object o = super.unmarshal(reader, root);
                if (o instanceof BiocacheQuery)
                    ((BiocacheQuery) o).getFullQ(false);
                return o;
            }

            @Override
            public Object unmarshal(HierarchicalStreamReader reader, Object root, DataHolder dataHolder) {
                Object o = super.unmarshal(reader, root, dataHolder);
                if (o instanceof BiocacheQuery)
                    ((BiocacheQuery) o).getFullQ(false);
                return o;
            }
        };
        PersistenceStrategy strategy = new FilePersistenceStrategy(new File(sfld), xstream);
        List list = new XmlArrayList(strategy);
        ListIterator it = list.listIterator(list.size());
        int scatterplotIndex = 0;
        while (it.hasPrevious()) {
            Object o = it.previous();
            MapLayer ml = null;
            if (o instanceof MapLayer) {
                ml = (MapLayer) o;
                LOGGER.debug("Loading " + ml.getName() + " -> " + ml.isDisplayed());
                addUserDefinedLayerToMenu(ml, false);
            } else if (o instanceof ScatterplotDataDTO) {
                ScatterplotDataDTO spdata = (ScatterplotDataDTO) o;
                loadScatterplot(spdata, "My Scatterplot " + scatterplotIndex++);
            }
            if (ml != null) {
                addUserDefinedLayerToMenu(ml, true);
            }
        }
    } catch (Exception e) {
        try {
            File f = new File("/data/sessions/" + sessionid + ".txt");
            PrintWriter pw = new PrintWriter(f);
            e.printStackTrace(pw);
            pw.close();
        } catch (Exception ex) {
        }
        LOGGER.error("Unable to load session data", e);
        showMessage("Unable to load session data");
    } finally {
        if (scanner != null) {
            scanner.close();
        }
        try {
            File f = new File("/data/sessions/ok/" + sessionid + ".txt");
            FileUtils.writeStringToFile(f, "ok");
        } catch (Exception ex) {
        }
    }
}

Example 20 with DomDriver

use of com.thoughtworks.xstream.io.xml.DomDriver in project universa by UniversaBlockchain.

the class CLIMain method updateFields.

/**
 * Update fields for specified contract.
 *
 * @param contract - contract for update.
 * @param fields   - map of field names and values.
 */
private static void updateFields(Contract contract, HashMap<String, String> fields) throws IOException {
    for (String fieldName : fields.keySet()) {
        report("update field: " + fieldName + " -> " + fields.get(fieldName));
        Binder binder = new Binder();
        Binder data = null;
        try {
            XStream xstream = new XStream(new DomDriver());
            xstream.registerConverter(new MapEntryConverter());
            xstream.alias(fieldName, Binder.class);
            data = Binder.convertAllMapsToBinders(xstream.fromXML(fields.get(fieldName)));
        } catch (Exception xmlEx) {
            // xmlEx.printStackTrace();
            try {
                Gson gson = new GsonBuilder().create();
                binder = Binder.convertAllMapsToBinders(gson.fromJson(fields.get(fieldName), Binder.class));
                data = (Binder) data.get(fieldName);
            } catch (Exception jsonEx) {
                // jsonEx.printStackTrace();
                try {
                    Yaml yaml = new Yaml();
                    data = Binder.convertAllMapsToBinders(yaml.load(fields.get(fieldName)));
                    data = (Binder) data.get(fieldName);
                } catch (Exception yamlEx) {
                    yamlEx.printStackTrace();
                }
            }
        }
        if (data != null) {
            BiDeserializer bm = DefaultBiMapper.getInstance().newDeserializer();
            binder.put("data", bm.deserialize(data));
            contract.set(fieldName, binder);
            report("update field " + fieldName + " ok");
        } else {
            report("update field " + fieldName + " error: no valid data");
        }
    }
    report("contract expires at " + DateTimeFormatter.ofPattern("yyyy-MM-dd HH:mm:ss").format(contract.getExpiresAt()));
}