Example usage for com.fasterxml.jackson.core JsonParser getText

Introduction

In this page you can find the example usage for com.fasterxml.jackson.core JsonParser getText.

Prototype

public abstract String getText() throws IOException, JsonParseException;

Source Link

Document

Method for accessing textual representation of the current token; if no current token (before first call to #nextToken , or after encountering end-of-input), returns null.

Usage

From source file:org.helm.notation2.wsadapter.MonomerWSLoader.java

/**
 * Private routine to deserialize monomer Store JSON. This is done manually to
 * give more freedom regarding data returned by the webservice.
 *
 * @param parser the JSONParser containing JSONData.
 * @param attachmentDB the attachments stored in the Toolkit
 * @return Map containing monomers//from   www .  ja v  a 2  s .  com
 *
 * @throws JsonParseException
 * @throws IOException
 * @throws EncoderException
 */
private Map<String, Monomer> deserializeMonomerStore(JsonParser parser, Map<String, Attachment> attachmentDB)
        throws JsonParseException, IOException, EncoderException {
    Map<String, Monomer> monomers = new HashMap<String, Monomer>();
    Monomer currentMonomer = null;

    parser.nextToken();
    while (parser.hasCurrentToken()) {
        String fieldName = parser.getCurrentName();
        JsonToken token = parser.getCurrentToken();

        if (JsonToken.START_OBJECT.equals(token)) {
            currentMonomer = new Monomer();
        } else if (JsonToken.END_OBJECT.equals(token)) {
            monomers.put(currentMonomer.getAlternateId(), currentMonomer);
        }

        if (fieldName != null) {
            switch (fieldName) {
            // id is first field
            case "id":
                parser.nextToken();
                currentMonomer.setId(Integer.parseInt(parser.getText()));
                break;
            case "alternateId":
                parser.nextToken();
                currentMonomer.setAlternateId(parser.getText());
                break;
            case "naturalAnalog":
                parser.nextToken();
                currentMonomer.setNaturalAnalog(parser.getText());
                break;
            case "name":
                parser.nextToken();
                currentMonomer.setName(parser.getText());
                break;
            case "canSMILES":
                parser.nextToken();
                currentMonomer.setCanSMILES(parser.getText());
                break;
            case "molfile":
                parser.nextToken();
                currentMonomer.setMolfile(MolfileEncoder.decode(parser.getText()));
                break;
            case "monomerType":
                parser.nextToken();
                currentMonomer.setMonomerType(parser.getText());
                break;
            case "polymerType":
                parser.nextToken();
                currentMonomer.setPolymerType(parser.getText());
                break;
            case "attachmentList":
                currentMonomer.setAttachmentList(deserializeAttachmentList(parser, attachmentDB));
                break;
            case "newMonomer":
                parser.nextToken();
                currentMonomer.setNewMonomer(Boolean.parseBoolean(parser.getText()));
                break;
            case "adHocMonomer":
                parser.nextToken();
                currentMonomer.setAdHocMonomer(Boolean.parseBoolean(parser.getText()));
                break;
            default:
                break;
            }
        }
        parser.nextToken();
    }

    return monomers;
}

---

From source file:com.github.heuermh.personalgenome.client.converter.JacksonPersonalGenomeConverter.java

List<Ancestry> parseSubPopulation(final String id, final List<Ancestry> ancestries, final JsonParser parser)
        throws IOException {
    String label = null;//from w ww  .  j av a 2  s .  com
    double proportion = 0.0d;
    double unassigned = 0.0d;
    List<Ancestry> subPopulations = new ArrayList<Ancestry>();
    while (parser.nextToken() != JsonToken.END_ARRAY) {
        while (parser.nextToken() != JsonToken.END_OBJECT) {
            String field = parser.getCurrentName();
            parser.nextToken();

            if ("label".equals(field)) {
                label = parser.getText();
            } else if ("proportion".equals(field)) {
                proportion = Double.parseDouble(parser.getText());
            } else if ("unassigned".equals(field)) {
                unassigned = Double.parseDouble(parser.getText());
            } else if ("sub_populations".equals(field)) {
                subPopulations = parseSubPopulation(id, subPopulations, parser);
            }
        }
        Ancestry ancestry = new Ancestry(id, label, proportion, unassigned, subPopulations);
        ancestries.add(ancestry);
        label = null;
        proportion = 0.0d;
        unassigned = 0.0d;
        subPopulations.clear();
    }
    return ancestries;
}

---

From source file:org.h2gis.drivers.geojson.GeoJsonReaderDriver.java

/**
 * Read the first feature to create the table
 * @param jp/*w  ww  . j  a v a  2  s  .  com*/
 */
private void readFeatures(JsonParser jp, String geomType, StringBuilder metadataBuilder)
        throws IOException, SQLException {
    jp.nextToken(); // START_ARRAY [
    JsonToken token = jp.nextToken(); // START_OBJECT {
    if (token != JsonToken.END_ARRAY) {
        jp.nextToken(); // FIELD_NAME type"name"
        jp.nextToken(); // VALUE_STRING Feature
        geomType = jp.getText();
        if (geomType.equalsIgnoreCase(GeoJsonField.FEATURE)) {
            jp.nextToken(); // FIELD_NAME geometry
            String firstField = jp.getText();
            if (firstField.equalsIgnoreCase(GeoJsonField.GEOMETRY)) {
                parseGeometryMetadata(jp, metadataBuilder);
                hasGeometryField = true;
                fieldIndex++;
                jp.nextToken();//END_OBJECT } geometry
            } else if (firstField.equalsIgnoreCase(GeoJsonField.PROPERTIES)) {
                fieldIndex = parseMetadataProperties(jp, metadataBuilder, fieldIndex);
                hasProperties = true;
            }
            // If there is only one geometry field in the feature them the next
            // token corresponds to the end object of the feature.
            jp.nextToken();
            if (jp.getCurrentToken() != JsonToken.END_OBJECT) {
                String secondParam = jp.getText();
                if (secondParam.equalsIgnoreCase(GeoJsonField.GEOMETRY)) {
                    parseGeometryMetadata(jp, metadataBuilder);
                    hasGeometryField = true;
                    fieldIndex++;
                    jp.nextToken();//END_OBJECT } geometry;
                } else if (secondParam.equalsIgnoreCase(GeoJsonField.PROPERTIES)) {
                    fieldIndex = parseMetadataProperties(jp, metadataBuilder, fieldIndex);
                    hasProperties = true;
                }
                jp.nextToken(); //END_OBJECT } feature
            }
            if (!hasProperties) {
                metadataBuilder.append("ID INT, PRIMARY KEY (ID)");
                fieldIndex++;
            }
            metadataBuilder.append(")");
        } else {
            throw new SQLException("Malformed GeoJSON file. Expected 'Feature', found '" + geomType + "'");
        }
    }
}

---

From source file:com.google.openrtb.json.OpenRtbNativeJsonReader.java

protected void readReqImageField(JsonParser par, NativeRequest.Asset.Image.Builder image, String fieldName)
        throws IOException {
    switch (fieldName) {
    case "type": {
        ImageAssetType value = ImageAssetType.valueOf(par.getIntValue());
        if (checkEnum(value)) {
            image.setType(value);/*from  w ww .  j a  v a2s .  co m*/
        }
    }
        break;
    case "w":
        image.setW(par.getIntValue());
        break;
    case "h":
        image.setH(par.getIntValue());
        break;
    case "wmin":
        image.setWmin(par.getIntValue());
        break;
    case "hmin":
        image.setHmin(par.getIntValue());
        break;
    case "mimes":
        for (startArray(par); endArray(par); par.nextToken()) {
            image.addMimes(par.getText());
        }
        break;
    default:
        readOther(image, par, fieldName);
    }
}

---

From source file:org.h2gis.drivers.geojson.GeoJsonReaderDriver.java

/**
 * Parses the first GeoJSON feature to create the PreparedStatement.
 *
 * @throws SQLException/* ww  w  . j  a  v  a  2  s. c  om*/
 * @throws IOException
 */
private boolean parseMetadata() throws SQLException, IOException {
    FileInputStream fis = null;
    StringBuilder metadataBuilder = new StringBuilder();
    try {
        fis = new FileInputStream(fileName);
        this.fc = fis.getChannel();
        this.fileSize = fc.size();
        // Given the file size and an average node file size.
        // Skip how many nodes in order to update progression at a step of 1%
        readFileSizeEachNode = Math.max(1, (this.fileSize / AVERAGE_NODE_SIZE) / 100);
        nodeCountProgress = 0;

        JsonParser jp = jsFactory.createParser(fis);
        metadataBuilder.append("CREATE TABLE ");
        metadataBuilder.append(tableLocation);
        metadataBuilder.append(" (");

        jp.nextToken();//START_OBJECT
        jp.nextToken(); // field_name (type)
        jp.nextToken(); // value_string (FeatureCollection)
        String geomType = jp.getText();

        if (geomType.equalsIgnoreCase(GeoJsonField.FEATURECOLLECTION)) {
            jp.nextToken(); // FIELD_NAME features
            String firstParam = jp.getText();
            //Read the CRS
            if (firstParam.equalsIgnoreCase(GeoJsonField.CRS)) {
                parsedSRID = readCRS(jp);
                readFeatures(jp, geomType, metadataBuilder);
            } else if (firstParam.equalsIgnoreCase(GeoJsonField.FEATURES)) {
                readFeatures(jp, geomType, metadataBuilder);
            } else {
                throw new SQLException(
                        "Malformed GeoJSON file. Expected 'features', found '" + firstParam + "'");
            }
        } else {
            throw new SQLException(
                    "Malformed GeoJSON file. Expected 'FeatureCollection', found '" + geomType + "'");
        }
        jp.close();
    } catch (FileNotFoundException ex) {
        throw new SQLException(ex);

    } finally {
        try {
            if (fis != null) {
                fis.close();
            }
        } catch (IOException ex) {
            throw new IOException(ex);
        }
    }

    // Now we create the table if there is at leat one geometry field.
    if (hasGeometryField) {
        Statement stmt = connection.createStatement();
        stmt.execute(metadataBuilder.toString());
        stmt.close();

        if (fieldIndex > 0) {
            StringBuilder insert = new StringBuilder("INSERT INTO ").append(tableLocation)
                    .append(" VALUES ( ?");
            for (int i = 1; i < fieldIndex; i++) {
                insert.append(",?");
            }
            insert.append(");");
            preparedStatement = connection.prepareStatement(insert.toString());
            return true;
        }
    } else {
        throw new SQLException("The first feature must contains a geometry field.");
    }
    return false;
}

---

From source file:com.github.heuermh.personalgenome.client.converter.JacksonPersonalGenomeConverter.java

/**
 * Parse the specified input stream and return a user.
 *
 * @param inputStream input stream/*from   w  ww.j  a  va 2 s .com*/
 * @return the specified input stream parsed into a user
 */
@Override
public User parseUser(final InputStream inputStream) {
    checkNotNull(inputStream);
    JsonParser parser = null;
    try {
        parser = jsonFactory.createParser(inputStream);
        parser.nextToken();

        String id = null;
        String profileId = null;
        boolean genotyped = false;
        List<Profile> profiles = new ArrayList<Profile>();

        while (parser.nextToken() != JsonToken.END_OBJECT) {
            String field = parser.getCurrentName();
            parser.nextToken();
            if ("id".equals(field)) {
                id = parser.getText();
            } else if ("profiles".equals(field)) {
                while (parser.nextToken() != JsonToken.END_ARRAY) {
                    while (parser.nextToken() != JsonToken.END_OBJECT) {
                        String profileField = parser.getCurrentName();
                        parser.nextToken();
                        if ("id".equals(profileField)) {
                            profileId = parser.getText();
                        } else if ("genotyped".equals(profileField)) {
                            genotyped = parser.getBooleanValue();
                        }
                    }
                    profiles.add(new Profile(profileId, genotyped));
                }
            }
        }
        return new User(id, profiles);
    } catch (IOException e) {
        logger.warn("could not parse user", e);
    } finally {
        try {
            inputStream.close();
        } catch (Exception e) {
            // ignored
        }
        try {
            parser.close();
        } catch (Exception e) {
            // ignored
        }
    }
    return null;
}

---

From source file:com.github.heuermh.personalgenome.client.converter.JacksonPersonalGenomeConverter.java

@Override
public Genotype parseGenotypes(final InputStream inputStream) {
    checkNotNull(inputStream);/*from  w  w w. ja  va 2 s  . c  o m*/
    JsonParser parser = null;
    try {
        parser = jsonFactory.createParser(inputStream);
        parser.nextToken();

        String id = null;
        String location = null;
        String interpretation = null;
        Map<String, String> values = new HashMap<String, String>();

        while (parser.nextToken() != JsonToken.END_OBJECT) {
            String field = parser.getCurrentName();
            parser.nextToken();

            if ("id".equals(field)) {
                id = parser.getText();
            } else {
                location = field;
                interpretation = parser.getText();
                values.put(location, interpretation);
            }
        }
        return new Genotype(id, values);
    } catch (IOException e) {
        logger.warn("could not parse genotypes");
    } finally {
        try {
            inputStream.close();
        } catch (Exception e) {
            // ignored
        }
        try {
            parser.close();
        } catch (Exception e) {
            // ignored
        }
    }
    return null;
}

---

From source file:org.helm.notation2.wsadapter.MonomerWSLoader.java

/**
 * Private routine to deserialize a JSON containing attachment data. This is
 * done manually to give more freedom regarding data returned by the
 * webservice.//from   w  ww . j a  v a 2s.c o  m
 *
 * @param parser the JSONParser containing JSONData.
 * @param attachmentDB the attachments stored in the Toolkit
 * @return List containing attachments
 *
 * @throws JsonParseException
 * @throws IOException
 */
private List<Attachment> deserializeAttachmentList(JsonParser parser, Map<String, Attachment> attachmentDB)
        throws JsonParseException, IOException {
    List<Attachment> attachments = new ArrayList<Attachment>();
    Attachment currentAttachment = null;

    while (!JsonToken.END_ARRAY.equals(parser.nextToken())) {

        String fieldName = parser.getCurrentName();
        JsonToken token = parser.getCurrentToken();

        if (JsonToken.START_OBJECT.equals(token)) {
            currentAttachment = new Attachment();
        } else if (JsonToken.END_OBJECT.equals(token)) {
            currentAttachment.setCapGroupSMILES(
                    attachmentDB.get(currentAttachment.getAlternateId()).getCapGroupSMILES());
            attachments.add(currentAttachment);
        }

        if (fieldName != null) {
            switch (fieldName) {
            case "id":
                parser.nextToken();
                currentAttachment.setId(Integer.parseInt(parser.getText()));
                break;
            case "alternateId":
                parser.nextToken();
                currentAttachment.setAlternateId(parser.getText());
                break;
            case "label":
                parser.nextToken();
                currentAttachment.setLabel(parser.getText());
                break;
            case "capGroupName":
                parser.nextToken();
                currentAttachment.setCapGroupName(parser.getText());
                break;
            case "capGroupSMILES":
                parser.nextToken();
                currentAttachment.setCapGroupSMILES(parser.getText());
                break;
            default:
                break;
            }
        }

    }

    return attachments;
}

---

From source file:org.h2gis.drivers.geojson.GeoJsonReaderDriver.java

/**
 * We skip the CRS because it has been already parsed.
 * /* www  . j a v  a2 s  .  c o m*/
 *
 * @param jp
 */
private String skipCRS(JsonParser jp) throws IOException {
    jp.nextToken(); //START_OBJECT {
    jp.skipChildren();
    /* jp.nextToken();// crs type
     jp.nextToken(); // crs name
     jp.nextToken(); // crs properties
     jp.nextToken(); //START_OBJECT {
     jp.nextToken(); // crs name
     jp.nextToken(); // crs value
     jp.nextToken(); //END_OBJECT }
     jp.nextToken(); //END_OBJECT }*/
    jp.nextToken(); //Go to features
    return jp.getText();
}

---

From source file:com.github.heuermh.personalgenome.client.converter.JacksonPersonalGenomeConverter.java

@Override
public List<Carrier> parseCarriers(final InputStream inputStream) {
    checkNotNull(inputStream);/*from  w  w w .  j a  va 2 s .  co m*/
    JsonParser parser = null;
    try {
        parser = jsonFactory.createParser(inputStream);
        parser.nextToken();

        String id = null;
        String reportId = null;
        String description = null;
        int mutations = 0;
        List<Carrier> carriers = new ArrayList<Carrier>();
        while (parser.nextToken() != JsonToken.END_OBJECT) {
            String field = parser.getCurrentName();
            parser.nextToken();

            if ("id".equals(field)) {
                id = parser.getText();
            } else if ("carriers".equals(field)) {
                while (parser.nextToken() != JsonToken.END_ARRAY) {
                    while (parser.nextToken() != JsonToken.END_OBJECT) {
                        String carrierField = parser.getCurrentName();
                        parser.nextToken();

                        if ("report_id".equals(carrierField)) {
                            reportId = parser.getText();
                        } else if ("description".equals(carrierField)) {
                            description = parser.getText();
                        } else if ("mutations".equals(carrierField)) {
                            mutations = Integer.parseInt(parser.getText());
                        }
                    }
                    carriers.add(new Carrier(id, reportId, description, mutations));
                    reportId = null;
                    description = null;
                    mutations = 0;
                }
            }
        }
        return carriers;
    } catch (IOException e) {
        logger.warn("could not parse carriers", e);
    } finally {
        try {
            inputStream.close();
        } catch (Exception e) {
            // ignored
        }
        try {
            parser.close();
        } catch (Exception e) {
            // ignored
        }
    }
    return null;
}

---

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