private void exportCsvFile(File destFile, ExportConfig exportConfig) throws ExportFileException {
CSVWriter csvWriter = null;
try {
csvWriter = new CSVWriter(new FileWriterWithEncoding(destFile, "gbk"));
List<Map> list = this.listAllAsMap(exportConfig.getSearchCondition());
String[] line = null;
line =
new String[] {
"机房名称", "场地号", "模块号", "框号 ", "槽号", "端口号", "设备号", "是否反极", "产品号码", "MDF横列(不准)",
};
csvWriter.writeNext(line);
MapValueGetter mvg = null;
for (Map map : list) {
mvg = new MapValueGetter(map);
line =
new String[] {
mvg.getAsString("jfmc"),
mvg.getAsIntegerString("cdh"),
mvg.getAsIntegerString("mkh"),
mvg.getAsIntegerString("kh"),
mvg.getAsIntegerString("ch"),
mvg.getAsIntegerString("dkh"),
mvg.getAsIntegerString("sbh"),
mvg.getAsTrimedString("fj"),
mvg.getAsTrimedString("dhhm"),
mvg.getAsTrimedString("hl"),
};
csvWriter.writeNext(line);
}
csvWriter.flush();
csvWriter.close();
} catch (IOException e) {
throw new ExportFileException(e);
} finally {
if (csvWriter != null) {
try {
csvWriter.close();
} catch (IOException e) {
}
}
}
}
@Override
protected Boolean doInBackground(final String... args) {
File dbFile = getDatabasePath("person.db");
Log.v(TAG, "Db path is: " + dbFile); // get the path of db
File exportDir = new File(Environment.getExternalStorageDirectory(), "");
if (!exportDir.exists()) {
exportDir.mkdirs();
}
file = new File(exportDir, "PersonCSV.csv");
try {
file.createNewFile();
CSVWriter csvWrite = new CSVWriter(new FileWriter(file));
// ormlite core method
List<Person> listdata = dbhelper.GetDataPerson();
Person person = null;
// this is the Column of the table and same for Header of CSV
// file
String arrStr1[] = {"First Name", "Last Name", "Address", "Email"};
csvWrite.writeNext(arrStr1);
if (listdata.size() > 1) {
for (int index = 0; index < listdata.size(); index++) {
person = listdata.get(index);
String arrStr[] = {
person.getFirtname(), person.getLastname(), person.getAddress(), person.getEmail()
};
csvWrite.writeNext(arrStr);
}
}
// sqlite core query
/*
* SQLiteDatabase db = DBob.getReadableDatabase(); //Cursor
* curCSV=mydb.rawQuery("select * from " + TableName_ans,null);
* Cursor curCSV =
* db.rawQuery("SELECT * FROM table_ans12",null);
* csvWrite.writeNext(curCSV.getColumnNames());
*
* while(curCSV.moveToNext()) {
*
* String arrStr[] ={curCSV.getString(0),curCSV.getString(1)};
* curCSV.getString(2),curCSV.getString(3),curCSV.getString(4)
* csvWrite.writeNext(arrStr);
*
* }
*/
csvWrite.close();
return true;
} catch (IOException e) {
Log.e("MainActivity", e.getMessage(), e);
return false;
}
}
/**
* Write the List as a CSV string. The List will contain Maps Each string in this array represents
* a field in the CSV file.
*
* @param l the List of Maps
* @throws Exception
*/
protected void write(List l) throws Exception {
try {
int rowPos = 0;
for (Iterator i = l.iterator(); i.hasNext(); ) {
writeRow((Map) i.next(), rowPos);
}
} finally {
writer.close();
}
}
@Override
public Data[] execute() throws AlgorithmExecutionException {
LogService logger = getLogger();
Data inputData = getInputData();
logger.log(LogService.LOG_INFO, "Creating PostScript..");
CSVWriter csvWriter = null;
try {
File barSizesFile =
FileUtilities.createTemporaryFileInDefaultTemporaryDirectory("barSizes", CSV_FILE_SUFFIX);
csvWriter = new CSVWriter(new FileWriter(barSizesFile));
String[] header = new String[] {"Record Name", "Width", "Height", "Area (Width x Height)"};
csvWriter.writeNext(header);
String postScriptCode = createPostScriptCode(csvWriter);
csvWriter.close();
File temporaryPostScriptFile =
writePostScriptCodeToTemporaryFile(postScriptCode, "horizontal-line-graph");
return formOutData(temporaryPostScriptFile, barSizesFile, inputData);
} catch (IOException e) {
String message =
String.format("An error occurred when creating %s.", getLabel(inputData.getMetadata()));
message += e.getMessage();
throw new AlgorithmExecutionException(message, e);
} catch (PostScriptCreationException e) {
String exceptionMessage =
String.format(
"An error occurred when creating the PostScript for the %s.",
getLabel(inputData.getMetadata()) + e.getMessage());
throw new AlgorithmExecutionException(exceptionMessage, e);
} finally {
if (csvWriter != null) {
try {
csvWriter.close();
} catch (IOException e) {
throw new AlgorithmExecutionException(e.getMessage(), e);
}
}
}
}
@Override
public void runTool(CommandLine line) throws Exception {
// keep it light and fast
System.setProperty("cassandra.readcl", "ONE");
startSpring();
setVerbose(line);
applyOrgId(line);
prepareBaseOutputFileName(line);
outputDir = createOutputParentDir();
LOG.info("Export directory: {}", outputDir.getAbsolutePath());
// create writer
applyStartTime(line);
applyEndTime(line);
LOG.error("startTime: {}, endTime: {}", startTime, endTime);
if (startTime.getTime() >= endTime.getTime()) {
LOG.error("startTime must be before endTime. exiting.");
System.exit(1);
}
// create "modified" query to select data
StringBuilder builder = new StringBuilder();
builder.append("modified >= ").append(startTime.getTime()).append(" and ");
builder.append("modified <= ").append(endTime.getTime());
String queryString = builder.toString();
// create writer
String dateString = DATE_FORMAT.format(new Date());
String fileName = outputDir.getAbsolutePath() + "/" + dateString + ".csv";
FileWriter fw = new FileWriter(fileName);
writer = new CSVWriter(fw, SEPARATOR, CSVWriter.NO_QUOTE_CHARACTER, '\'');
try {
writeMetadata();
writeHeaders();
// Loop through the organizations
Map<UUID, String> organizations = getOrganizations();
for (Entry<UUID, String> orgIdAndName : organizations.entrySet()) {
exportApplicationsForOrg(orgIdAndName, queryString);
}
} finally {
writer.close();
}
// now that file is written, copy it to S3
if (line.hasOption("upload")) {
LOG.info("Copy to S3");
copyToS3(fileName);
}
}
public void saveToFile(String saveFilePath) {
try {
CSVWriter writer = new CSVWriter(new FileWriter(saveFilePath, true));
writer.writeNext(
new String[] {
section.getSubTitle(), apiElement.getAPIElementName(), Boolean.toString(label)
});
writer.close();
} catch (IOException e) {
// TODO Auto-generated catch block
e.printStackTrace();
}
}
// Write master list of point of interest objects out as a CSV file
public void saveCSVFile(String fileName, List<ParsedPointOfInterest> myList) throws IOException {
FileOutputStream output = openFileOutput(fileName, MODE_PRIVATE);
OutputStreamWriter writer = new OutputStreamWriter(output);
CSVWriter csvWriter = new CSVWriter(writer);
String columns[];
for (ParsedPointOfInterest poi : myList) {
columns = poi.getColumns();
csvWriter.writeNext(columns);
}
writer.close();
csvWriter.flush();
csvWriter.close();
}
private byte[] createCSVInputStream(
EventEx event,
List<Pair<EventTicket, EventTicketHolderList>> ticketAndHolders,
Map<String, List<String>> userTicketInfoMap)
throws IOException {
ByteArrayOutputStream baos = new ByteArrayOutputStream();
CSVWriter writer = new CSVWriter(new OutputStreamWriter(baos, Charset.forName("UTF-8")));
writeHeader(writer, event);
for (int i = 0; i < ticketAndHolders.size(); ++i) {
EventTicket ticket = ticketAndHolders.get(i).getFirst();
EventTicketHolderList list = ticketAndHolders.get(i).getSecond();
writeTicket(writer, event, ticket, list, i, userTicketInfoMap);
}
writer.flush();
writer.close();
return baos.toByteArray();
}
public void save() throws IOException {
FileOutputStream output = null;
try {
output = new FileOutputStream(file);
OutputStreamWriter streamWriter = new OutputStreamWriter(output, "utf-8");
BufferedWriter writer = new BufferedWriter(streamWriter);
CSVWriter csv = new CSVWriter(writer);
synchronized (this) {
for (Map.Entry<String, NamedLocation> entry : locs.entrySet()) {
NamedLocation warp = entry.getValue();
csv.writeNext(
new String[] {
warp.getName(),
warp.getWorldName() != null
? warp.getWorldName()
: warp.getLocation().getWorld().getName(),
warp.getCreatorName(),
String.valueOf(warp.getLocation().getX()),
String.valueOf(warp.getLocation().getY()),
String.valueOf(warp.getLocation().getZ()),
String.valueOf(warp.getLocation().getPitch()),
String.valueOf(warp.getLocation().getYaw()),
});
}
}
csv.flush();
csv.close();
} finally {
if (output != null) {
try {
output.close();
} catch (IOException e) {
}
}
}
}
@Override
public Writable serialize(Object obj, ObjectInspector objInspector) throws SerDeException {
final StructObjectInspector outputRowOI = (StructObjectInspector) objInspector;
final List<? extends StructField> outputFieldRefs = outputRowOI.getAllStructFieldRefs();
if (outputFieldRefs.size() != numCols) {
throw new SerDeException(
"Cannot serialize the object because there are "
+ outputFieldRefs.size()
+ " fields but the table has "
+ numCols
+ " columns.");
}
// Get all data out.
for (int c = 0; c < numCols; c++) {
final Object field = outputRowOI.getStructFieldData(obj, outputFieldRefs.get(c));
final ObjectInspector fieldOI = outputFieldRefs.get(c).getFieldObjectInspector();
// The data must be of type String
final StringObjectInspector fieldStringOI = (StringObjectInspector) fieldOI;
// Convert the field to Java class String, because objects of String
// type
// can be stored in String, Text, or some other classes.
outputFields[c] = fieldStringOI.getPrimitiveJavaObject(field);
}
final StringWriter writer = new StringWriter();
final CSVWriter csv = newWriter(writer, separatorChar, quoteChar, escapeChar);
try {
csv.writeNext(outputFields);
csv.close();
return new Text(writer.toString());
} catch (final IOException ioe) {
throw new SerDeException(ioe);
}
}
@Override
public void writeTo(
SearchResponse searchResponse,
Class<?> type,
Type genericType,
Annotation[] annotations,
MediaType mediaType,
MultivaluedMap<String, Object> httpHeaders,
OutputStream entityStream)
throws IOException, WebApplicationException {
final CSVWriter csvWriter =
new CSVWriter(new OutputStreamWriter(entityStream, StandardCharsets.UTF_8));
final ImmutableSortedSet<String> sortedFields =
ImmutableSortedSet.copyOf(
Iterables.concat(searchResponse.fields(), Lists.newArrayList("source", "timestamp")));
// write field headers
csvWriter.writeNext(sortedFields.toArray(new String[sortedFields.size()]));
// write result set in same order as the header row
final String[] fieldValues = new String[sortedFields.size()];
for (ResultMessageSummary message : searchResponse.messages()) {
int idx = 0;
// first collect all values from the current message
for (String fieldName : sortedFields) {
final Object val = message.message().get(fieldName);
fieldValues[idx++] = ((val == null) ? null : val.toString().replaceAll("\n", "\\\\n"));
fieldValues[idx++] = ((val == null) ? null : val.toString().replaceAll("\r", "\\\\r"));
}
// write the complete line, some fields might not be present in the message, so there might be
// null values
csvWriter.writeNext(fieldValues);
}
if (csvWriter.checkError()) {
LOG.error(
"Encountered unspecified error when writing message result as CSV, result is likely malformed.");
}
csvWriter.close();
}
public static void calculateOverlap(String file1, String file2, String outFile)
throws IOException {
CSVReader csvReader = new CSVReader(new FileReader(new File(file1)));
List<String[]> file1Lines = csvReader.readAll();
csvReader.close();
csvReader = new CSVReader(new FileReader(new File(file2)));
List<String[]> file2Lines = csvReader.readAll();
Map<String, Object> cache = new HashMap<String, Object>();
csvReader.close();
for (String[] columns : file2Lines) {
cache.put(columns[0], null);
}
CSVWriter csvWriter = new CSVWriter(new FileWriter(new File(outFile)));
for (String[] columns : file1Lines) {
if (cache.containsKey(columns[0])) {
csvWriter.writeNext(new String[] {columns[0], "MATCH"});
} else {
csvWriter.writeNext(new String[] {columns[0], "NO_MATCH"});
}
}
csvWriter.flush();
csvWriter.close();
}
public void write(String file, String databaseName) {
String queryString = "jdbc:sqlite:" + databaseName + ".db";
try {
Class.forName("org.sqlite.JDBC");
} catch (ClassNotFoundException e) {
// TODO Auto-generated catch block
e.printStackTrace();
}
try {
Connection conn = DriverManager.getConnection(queryString);
// String extension = ".csv";
CSVWriter writer;
try {
writer = new CSVWriter(new FileWriter(file), GraphicalInterface.getSplitCharacter());
String headerNames = "";
// start with 1 to avoid reading database id
for (int i = 1; i < GraphicalInterfaceConstants.REACTIONS_COLUMN_NAMES.length; i++) {
headerNames += GraphicalInterfaceConstants.REACTIONS_COLUMN_NAMES[i] + "#";
}
ReactionsMetaColumnManager reactionsMetaColumnManager = new ReactionsMetaColumnManager();
int metaColumnCount =
reactionsMetaColumnManager.getMetaColumnCount(
LocalConfig.getInstance().getDatabaseName());
for (int j = 1; j < metaColumnCount + 1; j++) {
headerNames +=
reactionsMetaColumnManager.getColumnName(
LocalConfig.getInstance().getDatabaseName(), j)
+ "#";
}
String[] header = (headerNames.substring(0, headerNames.length() - 1)).split("#");
writer.writeNext(header);
int numReactions = GraphicalInterface.reactionsTable.getModel().getRowCount();
for (int n = 0; n < numReactions; n++) {
int viewRow = GraphicalInterface.reactionsTable.convertRowIndexToModel(n);
String knockout = "false";
String fluxValue = "0.0";
String reactionAbbreviation = " ";
String reactionName = " ";
String reactionString = " ";
String reversible = " ";
String lowerBound = "-999999";
String upperBound = "999999";
String objective = "0.0";
String meta1 = " ";
String meta2 = " ";
String meta3 = " ";
String meta4 = " ";
String meta5 = " ";
String meta6 = " ";
String meta7 = " ";
String meta8 = " ";
String meta9 = " ";
String meta10 = " ";
String meta11 = " ";
String meta12 = " ";
String meta13 = " ";
String meta14 = " ";
String meta15 = " ";
// check if null before toString() to avoid null pointer error
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.KO_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.KO_COLUMN)
.toString()
.length()
> 0) {
knockout =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.KO_COLUMN);
} else {
knockout = "false";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.FLUX_VALUE_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.FLUX_VALUE_COLUMN)
.toString()
.length()
> 0) {
fluxValue =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.FLUX_VALUE_COLUMN);
} else {
fluxValue = "0.0";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_ABBREVIATION_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_ABBREVIATION_COLUMN)
.toString()
.length()
> 0) {
reactionAbbreviation =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.REACTION_ABBREVIATION_COLUMN);
} else {
reactionAbbreviation = " ";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_NAME_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_NAME_COLUMN)
.toString()
.length()
> 0) {
reactionName =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_NAME_COLUMN);
} else {
reactionName = " ";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_STRING_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_STRING_COLUMN)
.toString()
.length()
> 0) {
reactionString =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_STRING_COLUMN);
} else {
reactionString = " ";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REVERSIBLE_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REVERSIBLE_COLUMN)
.toString()
.length()
> 0) {
reversible =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REVERSIBLE_COLUMN);
} else {
reversible = " ";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.LOWER_BOUND_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.LOWER_BOUND_COLUMN)
.toString()
.length()
> 0) {
lowerBound =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.LOWER_BOUND_COLUMN);
} else {
lowerBound = "-999999";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.UPPER_BOUND_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.UPPER_BOUND_COLUMN)
.toString()
.length()
> 0) {
upperBound =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.UPPER_BOUND_COLUMN);
} else {
upperBound = "999999";
}
}
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.BIOLOGICAL_OBJECTIVE_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.BIOLOGICAL_OBJECTIVE_COLUMN)
.toString()
.length()
> 0) {
objective =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.BIOLOGICAL_OBJECTIVE_COLUMN);
} else {
objective = "0.0";
}
}
String metaString = "";
if (metaColumnCount > 0) {
// check if null before toString() to avoid null pointer error
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META1_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META1_COLUMN)
.toString()
.length()
> 0) {
meta1 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META1_COLUMN);
}
}
metaString += meta1 + "#";
}
if (metaColumnCount > 1) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META2_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META2_COLUMN)
.toString()
.length()
> 0) {
meta2 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META2_COLUMN);
}
}
metaString += meta2 + "#";
}
if (metaColumnCount > 2) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META3_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META3_COLUMN)
.toString()
.length()
> 0) {
meta3 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META3_COLUMN);
}
}
metaString += meta3 + "#";
}
if (metaColumnCount > 3) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META4_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META4_COLUMN)
.toString()
.length()
> 0) {
meta4 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META4_COLUMN);
}
}
metaString += meta4 + "#";
}
if (metaColumnCount > 4) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META5_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META5_COLUMN)
.toString()
.length()
> 0) {
meta5 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META5_COLUMN);
}
}
metaString += meta5 + "#";
}
if (metaColumnCount > 5) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META6_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META6_COLUMN)
.toString()
.length()
> 0) {
meta6 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META6_COLUMN);
}
}
metaString += meta6 + "#";
}
if (metaColumnCount > 6) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META7_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META7_COLUMN)
.toString()
.length()
> 0) {
meta7 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META7_COLUMN);
}
}
metaString += meta7 + "#";
}
if (metaColumnCount > 7) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META8_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META8_COLUMN)
.toString()
.length()
> 0) {
meta8 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META8_COLUMN);
}
}
metaString += meta8 + "#";
}
if (metaColumnCount > 8) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META9_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META9_COLUMN)
.toString()
.length()
> 0) {
meta9 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META9_COLUMN);
}
}
metaString += meta9 + "#";
}
if (metaColumnCount > 9) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META10_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META10_COLUMN)
.toString()
.length()
> 0) {
meta10 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.REACTION_META10_COLUMN);
}
}
metaString += meta10 + "#";
}
if (metaColumnCount > 10) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META11_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META11_COLUMN)
.toString()
.length()
> 0) {
meta11 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.REACTION_META11_COLUMN);
}
}
metaString += meta11 + "#";
}
if (metaColumnCount > 11) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META12_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META12_COLUMN)
.toString()
.length()
> 0) {
meta12 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.REACTION_META12_COLUMN);
}
}
metaString += meta12 + "#";
}
if (metaColumnCount > 12) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META13_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META13_COLUMN)
.toString()
.length()
> 0) {
meta13 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.REACTION_META13_COLUMN);
}
}
metaString += meta13 + "#";
}
if (metaColumnCount > 13) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META14_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META14_COLUMN)
.toString()
.length()
> 0) {
meta14 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.REACTION_META14_COLUMN);
}
}
metaString += meta14 + "#";
}
if (metaColumnCount > 14) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META15_COLUMN)
!= null) {
if (GraphicalInterface.reactionsTable
.getModel()
.getValueAt(viewRow, GraphicalInterfaceConstants.REACTION_META15_COLUMN)
.toString()
.length()
> 0) {
meta15 =
(String)
GraphicalInterface.reactionsTable
.getModel()
.getValueAt(
viewRow, GraphicalInterfaceConstants.REACTION_META15_COLUMN);
}
}
metaString += meta15 + "#";
}
if (metaString.length() > 0) {
String[] entries =
(knockout
+ "#"
+ fluxValue
+ "#"
+ reactionAbbreviation
+ "#"
+ reactionName
+ "#"
+ reactionString
+ "#"
+ reversible
+ "#"
+ lowerBound
+ "#"
+ upperBound
+ "#"
+ objective
+ "#"
+ metaString.substring(0, metaString.length() - 1))
.split("#");
writer.writeNext(entries);
} else {
String[] entries =
(knockout
+ "#"
+ fluxValue
+ "#"
+ reactionAbbreviation
+ "#"
+ reactionName
+ "#"
+ reactionString
+ "#"
+ reversible
+ "#"
+ lowerBound
+ "#"
+ upperBound
+ "#"
+ objective)
.split("#");
writer.writeNext(entries);
}
}
writer.close();
conn.close();
} catch (IOException e) {
// TODO Auto-generated catch block
e.printStackTrace();
}
} catch (SQLException e) {
// TODO Auto-generated catch block
e.printStackTrace();
}
}
public static void exportCsv(String unitId) throws IOException {
Phone p = Phone.find("unitId = ?", unitId).first();
if (p == null) index(true);
List<Route> routes = Route.find("phone = ?", p).fetch();
File outputDirectory =
new File(Play.configuration.getProperty("application.exportDataDirectory"), unitId);
File outputZipFile =
new File(
Play.configuration.getProperty("application.exportDataDirectory"), unitId + ".zip");
// write routes
File routesFile = new File(outputDirectory, unitId + "_routes.csv");
File stopsFile = new File(outputDirectory, unitId + "_stops.csv");
if (!outputDirectory.exists()) {
outputDirectory.mkdir();
}
if (outputZipFile.exists()) {
outputZipFile.delete();
}
FileWriter routesCsv = new FileWriter(routesFile);
CSVWriter rotuesCsvWriter = new CSVWriter(routesCsv);
FileWriter stopsCsv = new FileWriter(stopsFile);
CSVWriter stopsCsvWriter = new CSVWriter(stopsCsv);
String[] routesHeader =
"unit_id, route_id, route_name, route_description, field_notes, vehicle_type, vehicle_capacity, start_capture"
.split(",");
String[] stopsHeader =
"route_id, stop_sequence, lat, lon, travel_time, dwell_time, board, alight".split(",");
rotuesCsvWriter.writeNext(routesHeader);
stopsCsvWriter.writeNext(stopsHeader);
for (Route r : routes) {
String[] routeData = new String[routesHeader.length];
routeData[0] = unitId;
routeData[1] = r.id.toString();
routeData[2] = r.routeLongName;
routeData[3] = r.routeDesc;
routeData[4] = r.routeNotes;
routeData[5] = r.vehicleType;
routeData[6] = r.vehicleCapacity;
routeData[7] = (r.captureTime != null) ? r.captureTime.toGMTString() : "";
rotuesCsvWriter.writeNext(routeData);
List<TripPatternStop> stops = TripPatternStop.find("pattern.route = ?", r).fetch();
for (TripPatternStop s : stops) {
String[] stopData = new String[stopsHeader.length];
stopData[0] = r.id.toString();
stopData[1] = s.stopSequence.toString();
stopData[2] = "" + s.stop.location.getCoordinate().y;
stopData[3] = "" + s.stop.location.getCoordinate().x;
stopData[4] = "" + s.defaultTravelTime;
stopData[5] = "" + s.defaultDwellTime;
stopData[6] = "" + s.board;
stopData[7] = "" + s.alight;
stopsCsvWriter.writeNext(stopData);
}
}
rotuesCsvWriter.flush();
rotuesCsvWriter.close();
stopsCsvWriter.flush();
stopsCsvWriter.close();
DirectoryZip.zip(outputDirectory, outputZipFile);
FileUtils.deleteDirectory(outputDirectory);
redirect("/public/data/exports/" + unitId + ".zip");
}
/**
* reads in time plan file, including start, end, depart, arrive, origin,destination, time of
* walk, drive and transit, store them into a map. the key of this map is a describe of this time
* plan, for example from which hotspots to which streets block vice verse, the value is the time
* plan.
*/
public void readFile(String travelCostFilePath, HouseholdPool householdPool) {
String pattern = "\\d+";
final int hholdColumn = 0;
final int personColumn = 1;
final int tripColumn = 3;
// final int modeColumn = 10;
final int originColumn = 7;
final int destinationColumn = 8;
// final int purposeColumn = 9;
final int walkTimeColumn = 19;
final int driveTimeColumn = 20;
final int transitTimeColumn = 21;
final int waitTimeColumn = 22;
final int otherTimeColumn = 23;
final int costColumn = 25;
// =======2nd row
final int legTypeColumn = 1;
final int legIdColumn = 2;
final int legTimeColumn = 3;
String[] nextline;
CSVReader csvReader = null;
CSVWriter csvWriter = null;
if (logger.isTraceEnabled()) {
logger.trace("Dumping household pool");
for (Map.Entry<Integer, Household> household : householdPool.getHouseholds().entrySet()) {
logger.trace("Household: " + household.getKey());
logger.trace(household.getValue().toString());
}
}
String[] headings = {
"household id",
"person id",
"trip id",
"pirpose",
"mode",
"total travel time",
"income",
"travel cost"
};
try {
// Skip first two lines as they are headers.
csvReader =
new CSVReader(
new BufferedReader(new FileReader(new File(timePlanFilePath))),
'\t',
CSVParser.DEFAULT_QUOTE_CHARACTER,
2);
csvWriter = new CSVWriter(new BufferedWriter(new FileWriter(travelCostFilePath)));
csvWriter.writeNext(headings);
double[] legs = new double[2];
int lastHholdID = 0;
// get the last household ID in the pool to determine trips started within the study area.
for (Household household : main.getHouseholdPool().getHouseholds().values()) {
if (household.getId() > lastHholdID) {
lastHholdID = household.getId();
}
}
while ((nextline = csvReader.readNext()) != null) {
if (nextline[0].matches(pattern)) {
// ========trips time=====
if (legs[0] != 0) {
ArrayList<Double> trips = (ArrayList<Double>) linksTripsTime.get((int) legs[0]);
if (trips == null) {
ArrayList<Double> temp = new ArrayList<>();
temp.add(legs[1]);
linksTripsTime.put((int) legs[0], temp);
} else {
trips.add(legs[1]);
}
}
legs[0] = legs[1] = 0;
// ======time plan=====
/*
* Only read Time plan with trips that have Origin inside
* study area, which means all trips with ID less than or
* equal to "maxID" in HholdPool. The other trips with ID,
* which is greater than "maxID" in HholdPool, have Origin
* outside study area
*/
if (Integer.parseInt(nextline[hholdColumn].trim()) <= lastHholdID) {
TimePlan timePlan = new TimePlan();
String editedValue = nextline[originColumn].replace("\"", "").trim();
timePlan.setOrigin(Integer.parseInt(editedValue));
editedValue = nextline[destinationColumn].replace("\"", "").trim();
timePlan.setDestination(Integer.parseInt(editedValue));
editedValue = nextline[walkTimeColumn].replace("\"", "").trim();
timePlan.setWalkTime(Double.parseDouble(editedValue));
editedValue = nextline[driveTimeColumn].replace("\"", "").trim();
timePlan.setDriveTime(Double.parseDouble(editedValue));
editedValue = nextline[transitTimeColumn].replace("\"", "").trim();
timePlan.setTransitTime(Double.parseDouble(editedValue));
editedValue = nextline[waitTimeColumn].replace("\"", "").trim();
timePlan.setWaitTime(Double.parseDouble(editedValue));
editedValue = nextline[otherTimeColumn].replace("\"", "").trim();
timePlan.setWaitTime(Double.parseDouble(editedValue));
editedValue = nextline[hholdColumn].replace("\"", "").trim();
int hhold = Integer.parseInt(editedValue);
timePlan.setHhold(hhold);
editedValue = nextline[personColumn].replace("\"", "").trim();
int person = Integer.parseInt(editedValue);
timePlan.setPerson(person);
editedValue = nextline[tripColumn].replace("\"", "").trim();
int trip = Integer.parseInt(editedValue);
timePlan.setTrip(trip);
timePlan.setStart(0);
timePlan.setEnd(0);
timePlan.setDepart(0);
timePlan.setArrive(0);
/* save successful into Hash Map */
String hhPersonTrip = String.valueOf(hhold) + "_" + person + "_" + trip;
// logger.debug(hhPersonTrip);
// for testing only if commented
try {
int mode = main.getHmHhPersonTripTravelMode().get(hhPersonTrip);
timePlan.setMode(TravelModes.classify(mode));
} catch (Exception e) {
logger.error("Exception caught", e);
logger.debug(hhPersonTrip);
}
String label = generateLabel(timePlan.getOrigin(), timePlan.getDestination());
timePlan.setParkingFee(new BigDecimal(Double.parseDouble(nextline[costColumn])));
if (main.getHmHhPersonTripTravelMode().get(hhPersonTrip) != null) {
timePlan.setCost(
travelModeSelection
.calculateCost(
TravelModes.classify(
main.getHmHhPersonTripTravelMode()
.get(String.valueOf(hhold) + "_" + person + "_" + trip)),
timePlan)
.doubleValue());
}
TimePlan storedTimePlan = timePlanMap.get(label);
if (storedTimePlan == null) {
timePlanMap.put(label, timePlan);
} else {
timePlanMap.put(label, compareCost(timePlan, storedTimePlan));
}
// store travel cost of each individual in the csv files
// for testing only if commented
// logger.debug(householdPool.getByID(hhold));
//
// Household household = householdPool.getByID(hhold);
//
// if (household != null) {
// if (household.getResidents().size() > (person - 1)) {
// storeTravelCost(
// household.getResidents()
// .get(person - 1).getIncome(),
// timePlan, csvWriter);
// } else {
// logger.warn("Individual with ID: " + person + "
// doesn't exist in household: " + hhold + ". Skipping entry");
// }
// } else {
// logger.warn("Household with ID: " + hhold + " doesn't
// exist in Pool. Skipping entry");
// }
/*
* setup Delta FixedCost & Variable Cost for new Travel
* Mode Choice design
*/
setupDeltaFixedCostVariableCost(timePlan, hhPersonTrip);
}
} else {
if (nextline[legTypeColumn].contains("LINK")) {
if (legs[0] == 0) {
legs[0] = Math.abs(Double.parseDouble(nextline[legIdColumn]));
legs[1] = Double.parseDouble(nextline[legTimeColumn]);
} else {
if (legs[1] < Double.parseDouble(nextline[legTimeColumn])) {
legs[0] = Math.abs(Double.parseDouble(nextline[legIdColumn]));
legs[1] = Double.parseDouble(nextline[legTimeColumn]);
}
}
}
}
}
} catch (FileNotFoundException e) {
logger.error("Exception caught", e);
} catch (IOException e) {
logger.error("Exception caught", e);
} finally {
try {
if (csvReader != null) {
csvReader.close();
}
if (csvWriter != null) {
csvWriter.close();
}
} catch (IOException e) {
logger.error("Exception caught", e);
}
}
}
/** Dumps the results as a series of KML's..one per trip */
public void writeKMLandCSV() {
String csv_header =
"INDEX,DATE,TIME,SECONDS_SINCE_MIDNIGHT,TRIP_ID,DIR,SPEED,LAT,LONG,ALT,EXITS,ENTRANCES";
try {
CSVWriter writer = new CSVWriter(new FileWriter("bus_data.csv"), ',');
// Write the header
String[] entries = csv_header.split(",");
writer.writeNext(entries);
// Setup some style
LineStyle lineStyle = new LineStyle();
lineStyle.setColor("ff005555");
lineStyle.setWidth(5.0);
IconStyle peopleIconStyle = new IconStyle();
// Icon peopleIcon = new Icon();
// peopleIcon.setHref("http://maps.google.com/mapfiles/kml/man.png");
peopleIconStyle.setIconHref("http://maps.google.com/mapfiles/kml/shapes/man.png");
peopleIconStyle.setScale(1.50);
IconStyle wpIconStyleNorth = new IconStyle();
// wpIcon.setHref("http://maps.google.com/mapfiles/kml/paddle/red-stars.png");
// wpIconStyleNorth.setIconHref("http://maps.google.com/mapfiles/kml/shapes/placemark_circle.png");
wpIconStyleNorth.setIconHref("http://maps.google.com/mapfiles/ms/micons/green-dot.png");
wpIconStyleNorth.setScale(0.50);
IconStyle wpIconStyleSouth = new IconStyle();
// wpIcon.setHref("http://maps.google.com/mapfiles/kml/paddle/red-stars.png");
wpIconStyleSouth.setIconHref("http://maps.google.com/mapfiles/ms/micons/yellow-dot.png");
wpIconStyleSouth.setScale(0.50);
Style style_lineStyle = new Style();
style_lineStyle.setLineStyle(lineStyle);
Style style_peopleIconStyle = new Style();
style_peopleIconStyle.setId("peopleIcon");
style_peopleIconStyle.setIconStyle(peopleIconStyle);
Style style_wpIconStyleNorth = new Style();
style_wpIconStyleNorth.setId("wpIconNorth");
style_wpIconStyleNorth.setIconStyle(wpIconStyleNorth);
Style style_wpIconStyleSouth = new Style();
style_wpIconStyleSouth.setId("wpIconSouth");
style_wpIconStyleSouth.setIconStyle(wpIconStyleSouth);
Kml[] kml = new Kml[tripCounter];
Document[] document = new Document[tripCounter];
Folder[] northFolders = new Folder[tripCounter];
Folder[] southFolders = new Folder[tripCounter];
Folder[] peopleFolders = new Folder[tripCounter];
// Folder[] tracksFolders = new Folder[tripCounter];
for (int i = 0; i < tripCounter; i++) {
kml[i] = new Kml();
kml[i].setXmlIndent(true);
document[i] = new Document();
document[i].addStyleSelector(style_lineStyle);
document[i].addStyleSelector(style_peopleIconStyle);
document[i].addStyleSelector(style_wpIconStyleNorth);
document[i].addStyleSelector(style_wpIconStyleSouth);
kml[i].setFeature(document[i]);
northFolders[i] = new Folder();
northFolders[i].setName("North Route");
southFolders[i] = new Folder();
southFolders[i].setName("South Route");
peopleFolders[i] = new Folder();
peopleFolders[i].setName("People");
// tracksFolders[i] = new Folder();
// tracksFolders[i].setName("Tracks");
document[i].addFeature(northFolders[i]);
document[i].addFeature(southFolders[i]);
document[i].addFeature(peopleFolders[i]);
// document[i].addFeature(tracksFolders[i]);
}
double[] lowerKey = new double[1];
double[] upperKey = new double[1];
lowerKey[0] = firstTime;
upperKey[0] = lastTime;
Object[] foo = geoRecords.range(lowerKey, upperKey);
for (int i = 0; i < foo.length; i++) {
GeoRecord nextRecord = (GeoRecord) foo[i];
int tripNumber = nextRecord.getTripId();
// System.out.println(foo[i]);
if (nextRecord.getDirection().equals("N")) {
northFolders[tripNumber - 1].addFeature(nextRecord.toKML());
} else {
southFolders[tripNumber - 1].addFeature(nextRecord.toKML());
}
if (nextRecord.getAssociatedPeople().size() > 0) {
peopleFolders[tripNumber - 1].addFeature(nextRecord.toKMLWithPeople());
}
// Write CSV entry
String csvLine = nextRecord.toCSV();
String[] entries2 = csvLine.split(",");
writer.writeNext(entries2);
}
// Write the KML files
for (int i = 0; i < tripCounter; i++) {
kml[i].createKml("bus_route" + i + ".kml");
}
// Close the csv writer
writer.close();
} catch (Exception e) {
System.err.println(e);
}
}
/** {@inheritDoc} */
@Override
public void onDataWriterException(final DataWriterException e) {
CSVWriter writer = null;
if (e.getErrorId().equalsIgnoreCase("SINGLE_ROW")) {
try {
String path =
GAPageViewDataExceptionHandler.getErrorFilePath(
e.getTableDefinition().getProperty("relativePath"),
e.getTableDefinition().getProperty("startDate"));
File file = FileSystem.getDefault().getFile("logs/" + path, true, true);
writer = new CSVWriter(new FileWriter(file, true));
Map<String, Object> row = (Map<String, Object>) e.getData().get("row");
Object[] values = row.values().toArray();
Object[] keys = row.keySet().toArray();
String[] stringValues = new String[values.length];
String[] headerValue = new String[keys.length];
for (int i = 0; i < stringValues.length; i++) {
stringValues[i] = (values[i] != null) ? values[i].toString() : null;
headerValue[i] = (keys[i] != null) ? keys[i].toString() : null;
}
if (!header) {
writer.writeNext(headerValue);
writer.flush();
header = true;
}
String data = stringValues[stringValues.length - 1] + " " + e.getData().get("e");
stringValues[stringValues.length - 1] = data;
writer.writeNext(stringValues);
writer.flush();
writer.close();
} catch (Exception ee) {
logger.error(ee.getMessage());
}
} else if (e.getErrorId().equalsIgnoreCase("BATCH_READ")) {
try {
String path =
GAPageViewDataExceptionHandler.getErrorFilePath(
e.getTableDefinition().getProperty("relativePath"),
e.getTableDefinition().getProperty("startDate"));
File file = FileSystem.getDefault().getFile("logs/" + path, true, true);
writer = new CSVWriter(new FileWriter(file, true));
String[] row = (String[]) e.getData().get("row");
String[] headerRow = (String[]) e.getData().get("header");
if (!header) {
writer.writeNext(headerRow);
header = true;
}
String data = row[row.length - 1] + e.getData().get("e");
row[row.length - 1] = data;
writer.writeNext(row);
writer.flush();
writer.close();
} catch (Exception exceptionObject) {
logger.error(exceptionObject.getMessage());
}
} else if (e.getErrorId().equalsIgnoreCase("ROW_UPDATE")) {
String[] headerValue = null;
try {
String path =
GAPageViewDataExceptionHandler.getErrorFilePath(
e.getTableDefinition().getProperty("relativePath"),
e.getTableDefinition().getProperty("startDate"));
File file = FileSystem.getDefault().getFile("logs/" + path, true, true);
writer = new CSVWriter(new FileWriter(file, true));
Collection<Map<String, Object>> batch =
(Collection<Map<String, Object>>) e.getData().get("batch");
super.writerFailedCount = writerFailedCount + batch.size();
List<String[]> rows = new ArrayList<String[]>(batch.size());
for (Map<String, Object> row : batch) {
Object[] values = row.values().toArray();
Object[] keys = row.keySet().toArray();
String[] stringValues = new String[values.length];
headerValue = new String[keys.length];
for (int i = 0; i < stringValues.length; i++) {
boolean exceptionFlag = false;
stringValues[i] = (values[i] != null) ? values[i].toString() : null;
headerValue[i] = (keys[i] != null) ? keys[i].toString() : null;
}
rows.add(stringValues);
}
if (!header) {
writer.writeNext(headerValue);
writer.flush();
header = true;
}
writer.writeAll(rows);
writer.flush();
writer.close();
} catch (Exception exceptionObject) {
logger.error(exceptionObject.getMessage(), exceptionObject);
}
} else if (e.getErrorId().equalsIgnoreCase("BATCH_UPDATE")) {
String[] headerValue = null;
try {
String path =
GAPageViewDataExceptionHandler.getErrorFilePath(
e.getTableDefinition().getProperty("relativePath"),
e.getTableDefinition().getProperty("startDate"));
File file = FileSystem.getDefault().getFile("logs/" + path, true, true);
writer = new CSVWriter(new FileWriter(file, true));
Collection<Map<String, Object>> batch =
(Collection<Map<String, Object>>) e.getData().get("batch");
super.writerFailedCount = writerFailedCount + batch.size();
List<String[]> rows = new ArrayList<String[]>(batch.size());
for (Map<String, Object> row : batch) {
Object[] values = row.values().toArray();
Object[] keys = row.keySet().toArray();
String[] stringValues = new String[values.length];
headerValue = new String[keys.length];
for (int i = 0; i < stringValues.length; i++) {
stringValues[i] = (values[i] != null) ? values[i].toString() : null;
headerValue[i] = (keys[i] != null) ? keys[i].toString() : null;
}
rows.add(stringValues);
}
if (!header) {
writer.writeNext(headerValue);
writer.flush();
header = true;
}
writer.writeAll(rows);
writer.flush();
writer.close();
} catch (IOException e1) {
logger.warn("GAEventDataExceptionHandler onDataWriterException() " + e.getMessage());
}
} else if (e.getErrorId().equalsIgnoreCase("ROW_DUPLICATE")) {
String[] headerValue = null;
try {
String path =
GAPageViewDataExceptionHandler.getErrorFilePath(
e.getTableDefinition().getProperty("relativePath"),
e.getTableDefinition().getProperty("startDate"));
File file = FileSystem.getDefault().getFile("logs/" + path, true, true);
writer = new CSVWriter(new FileWriter(file, true));
Collection<Map<String, Object>> batch =
(Collection<Map<String, Object>>) e.getData().get("batch");
super.writerFailedCount = writerFailedCount + batch.size();
List<String[]> rows = new ArrayList<String[]>(batch.size());
for (Map<String, Object> row : batch) {
Object[] values = row.values().toArray();
Object[] keys = row.keySet().toArray();
String[] stringValues = new String[values.length];
headerValue = new String[keys.length];
for (int i = 0; i < stringValues.length; i++) {
stringValues[i] = (values[i] != null) ? values[i].toString() : null;
headerValue[i] = (keys[i] != null) ? keys[i].toString() : null;
}
String data = stringValues[stringValues.length - 1] + " " + e.getData().get("e");
stringValues[stringValues.length - 1] = data;
rows.add(stringValues);
}
if (!header) {
writer.writeNext(headerValue);
writer.flush();
header = true;
}
writer.writeAll(rows);
writer.flush();
writer.close();
} catch (IOException e1) {
logger.warn("GAEventDataExceptionHandler onDataWriterException() " + e.getMessage());
}
}
super.onDataWriterException(e, false);
}
public static void main(String args[]) {
//
// Sets paths for our dev systems based on Windows/Linux
boolean isWindows = System.getProperty("os.name").toLowerCase().contains("windows");
boolean isMacOsX = System.getProperty("os.name").toLowerCase().contains("mac os x");
String subjRootDir;
if (isWindows) {
subjRootDir = "C:\\sideprojects\\TrackIt\\experiments\\feb2012\\";
Util.dPrintln("Detected Windows-based operating system");
} else if (isMacOsX) {
subjRootDir = "/Users/spook/code/TrackIt/sample/sample_data_August_2013";
Util.dPrintln("Detected Mac OS X as operating system");
} else {
// subjRootDir = "/home/spook/sideprojects/TrackIt/experiments/feb2012/";
// subjRootDir = "/usr0/home/jpdicker/Dropbox/organized_DirectTrackIt Files";
// subjRootDir = "/usr0/home/jpdicker/Dropbox/Gold Standard";
subjRootDir = "/usr0/home/jpdicker/Dropbox/Moving Eyes 2012-2013 New Numbers";
// subjRootDir = "/usr0/home/jpdicker/code/TrackIt/sample/sample_data_August_2013";
Util.dPrintln("Detected *nix-based operating system");
}
// Start traversal at root. This root is organized as follows:
// root -> {Subject1 -> {tobii1, tobbi2, ..}, Subject2 -> {tobii1, tobii2, ..}, ..}
File rootDir = new File(subjRootDir);
if (!rootDir.isDirectory()) {
Util.dPrintln("Need root directory for files; path not directory: " + subjRootDir);
return;
}
// Lets the user loop through different time offsets
Vector<Long> timeOffsets = new Vector<Long>();
for (Long offset = 0L; offset <= 0L; offset += 100L) {
timeOffsets.add(offset);
}
// Lets the user loop through different fixation thresholds (for FixationPointScorer)
Vector<Double> fixationThresholds = new Vector<Double>();
fixationThresholds.add(150.0);
fixationThresholds.add(200.0);
fixationThresholds.add(250.0);
fixationThresholds.add(300.0);
for (Double fixationThreshold : fixationThresholds) {
for (Long offset : timeOffsets) {
PilotOutputRecord recorder = new PilotOutputRecord();
for (File subjectDir : rootDir.listFiles()) {
// Skip any non-directory files sitting around at the subject directory level
if (!subjectDir.isDirectory()) {
Util.dPrintln(subjectDir.getAbsolutePath() + " is not a directory; skipping.");
continue;
}
String subjectID = subjectDir.getName();
// First, load the "gold standards" (e.g., the .csv files) representing the actual
// trajectories of the
// distractors and targets from Track-It
//
// Load the actual trajectories for each object in this task, taken straight from Track-It
Map<String, Experiment> goldStandards = new HashMap<String, Experiment>();
for (String goldPath : subjectDir.list()) {
// Ignore non-Track-It files
if (!goldPath.endsWith(".csv")) {
continue;
}
Experiment goldExperiment = null;
try {
Util.dPrintln("Attempting to load gold standard data from " + goldPath);
goldExperiment = Loader.loadGoldStandard(new File(subjectDir, goldPath));
} catch (IOException e) {
System.err.println("IO Error loading gold standard file " + goldPath);
e.printStackTrace();
return;
}
Util.dPrintln("Loaded " + goldPath);
Util.dPrintln("Found " + goldExperiment.getNumTrials() + " trials total.");
// Map the identifier (filename except .csv) to the Experiment
String goldID = goldPath.substring(0, goldPath.lastIndexOf('.')).toUpperCase();
goldStandards.put(goldID, goldExperiment);
}
// Second, go through each Track-It file in the directory and compare it against the
// proper gold
// standard that has (hopefully) been loaded and mapped in the goldStandards HashMap.
// Unlike with the old
// version, we'll need to compare timestamps in Track-It to timestamps in Tobii to
// synchronize the data
for (String subjEventPath : subjectDir.list()) {
// Ignore non-Tobii files
if (!subjEventPath.endsWith(".tsv")) {
continue;
}
// Ignore non-Tobii Event-Map files
int eventDataIndex = subjEventPath.lastIndexOf("-Event-Data");
if (eventDataIndex < 0) {
continue;
}
// If the file is a Tobii Event Map file, find its matching
// All Data file and move on to loading both
String allDataPrefix = subjEventPath.substring(0, eventDataIndex) + "-All-Data";
String subjDataPath = null;
for (String candSubjDataPath : subjectDir.list()) {
if (candSubjDataPath.startsWith(allDataPrefix)) {
subjDataPath = candSubjDataPath;
break;
}
}
// If we couldn't find a match to this Event Data, tell the user and skip
if (subjDataPath == null) {
Util.dPrintln("Couldn't find a match to expected Event Data file " + subjEventPath);
return;
}
// Now try to match the Tobii data file to the pre-loaded gold standard file from
// Track-It\
// We assume that a file named 02_MackJ_AllSame_01_02-All-Data.tsv matches with a
// file named
// 02_MackJ_AllSame_01_02.csv from Track-It.
String goldID = subjEventPath.substring(0, subjEventPath.indexOf('-')).toUpperCase();
if (!goldStandards.containsKey(goldID)) {
Util.dPrintln(
"Couldn't find a matching Track-It file for Tobii file "
+ subjEventPath.toUpperCase()
+ "; we expected "
+ goldID
+ ".csv");
return;
}
Experiment goldExperiment = goldStandards.get(goldID);
// Try to figure out what type of trial this is (ALL DIFF A, ALL SAME B, etc)
PilotOutputRecord.TRIAL_TYPE trialType =
PilotOutputRecord.TRIAL_TYPE.inferTrialType(subjEventPath);
if (trialType.equals(PilotOutputRecord.TRIAL_TYPE.UNKNOWN)) {
Util.dPrintln(
"Couldn't discern what type of trial (e.g., ALL DIFF A, ALL SAME B) this was from the Event Data file "
+ subjEventPath);
return;
} else {
Util.dPrintln(
"I think I've found trial type " + trialType + " from filename " + subjEventPath);
}
File subjEventFile = new File(subjectDir, subjEventPath);
File subjDataFile = new File(subjectDir, subjDataPath);
//
// Grab the overview event data for a single user
TobiiEventMap eventMap = null;
try {
Util.dPrintln("Attempting to load trial data from subject path " + subjEventPath);
eventMap = Loader.loadTobiiEvent3(subjEventFile);
} catch (IOException e) {
System.err.println("IO Error loading event data file " + subjEventPath);
e.printStackTrace();
return;
}
Util.dPrintln("Loaded event data from file " + subjEventPath);
//
// Grab the overview event data for a single user
TobiiData subjectData = null;
try {
Util.dPrintln("Attempting to load Tobii data chunk from " + subjDataPath);
subjectData = Loader.loadTobiiData3(subjDataFile, eventMap);
} catch (IOException e) {
System.err.println("Error loading Tobii data chunk from " + subjDataPath);
e.printStackTrace();
return;
}
Util.dPrintln("Loaded Tobii data chunk from " + subjDataPath);
//
// Score the subject's curves against the gold standard
Util.dPrintln("Comparing subject's trajectory against gold standard.");
// long offset = 000; // in ms
PointComparator f = new DeltaOffsetPointComparator(offset);
double exponent = 2.0;
DistanceFunction dist = new EuclideanDistanceFunction();
// DistanceFunction dist = new FalloffDistanceFunction(exponent);
Scorer scorer = new FixationPointScorer(f, dist, fixationThreshold);
// Scorer scorer = new PointByPointScorer(f, dist);
// Record ALL score data in separate files, if desired
boolean recordEverything = false;
Map<Integer, List<Double>> recordMap = null;
if (recordEverything) {
recordMap = new HashMap<Integer, List<Double>>();
}
// Requires that a subject's eyes be tracked by Tobii for at least X% of the time; else,
// score = NaN
double lookThreshold = 0.0;
// if(goldExperiment.getTrials().size() != 3) {
// System.out.println(goldExperiment);
// System.exit(-1);
// }
Map<Integer, SingleRunScore> scores =
scorer.scoreSubject(goldExperiment, subjectData, recordMap, lookThreshold);
// Possibly record every single score in a separate file
if (recordEverything) {
try {
for (Integer trialID : scores.keySet()) {
CSVWriter writer =
new CSVWriter(
new FileWriter(
new File(
"exact_"
+ trialType
+ "_"
+ subjectID
+ "_"
+ trialID
+ "_"
+ System.currentTimeMillis()
+ ".csv")));
for (Double score : recordMap.get(trialID)) {
if (score == null) {
// For now, record invalid looks as negative score
// score = -1.0;
Util.dPrintln("Null score for subject " + subjectID + " on trial " + trialID);
continue;
}
writer.writeNext(new String[] {String.valueOf(score)});
}
writer.close();
}
} catch (IOException e) {
e.printStackTrace();
}
}
// Record the subject's score in our map of scores, for charting later
recorder.addHeader("scorer", scorer.getClass().getName());
recorder.addHeader("offset", offset + " ms");
recorder.addHeader("exponent", String.valueOf(exponent));
recorder.addHeader("comparator function", f.getClass().getName());
recorder.addHeader("distance function", dist.getClass().getName());
recorder.addHeader("scorer", scorer.getClass().getName());
recorder.addHeader("fixationThreshold", String.valueOf(fixationThreshold));
recorder.addHeader("lookThreshold", String.valueOf(lookThreshold) + " %");
recorder.addScore(trialType, subjectID, scores);
} // end of individual subject's listing loop
// For printing purposes, make sure we fill in any Tobii files that were missing with NaN
// scores
recorder.fakeMissedTobiiTests(subjectID);
} // end of root directory listing loop
// Write all our records to a .csv file
try {
recorder.writeToCSV(
"eyetrack_offset_" + offset.toString() + "_" + System.currentTimeMillis() + ".csv");
} catch (IOException e) {
e.printStackTrace();
}
} // end of time offsets outer loop
} // end of fixation thresholds outer loop
return;
}
/**
* Extract trips among travel modes: BUS, LIGHT RAIL, CAR_DRIVER, CAR_PASSENGER in order to write
* into CSV file and database.
*
* @param timePlanFileName
* @param tripFileName
*/
public ArrayList<String[]> postProcessTIMEPLANS(String timePlanFileName, String tripFileName) {
ArrayList<String[]> outputLineArrayList = new ArrayList<>();
final String[] outputHeader = {"HHOLD,PERSON,TRIP,MODE,DEPART,PURPOSE,TRIP_LENGTH"};
try {
String[] line;
// HashMap<String, String> hmHHoldPersonTripMode = new HashMap<>();
//
// /* A - PROCESS THE TRIPS FILE */
// CSVReader csvReader = new CSVReader(new BufferedReader(new FileReader(tripFileName)),
// '\t');
//
// // skip the header rows
// csvReader.readNext();
//
// while ((line = csvReader.readNext()) != null) {
// String hHold = line[0];
// String person = line[1];
// String trip = line[2];
// String mode = line[4];
//
// String hHoldPersonTrip = hHold + "_" + person + "_" + trip;
// hmHHoldPersonTripMode.put(hHoldPersonTrip,
// TravelModes.classify(Integer.parseInt(mode)).getTranssimsName());
// }
// csvReader.close();
/* B - PROCESS THE TIMEPLANS FILE */
CSVReader csvReader =
new CSVReader(new BufferedReader(new FileReader(timePlanFileName)), '\t');
CSVWriter csvWriter =
new CSVWriter(
new BufferedWriter(new FileWriter(timePlanFileName + "_new.csv")),
CSVWriter.DEFAULT_SEPARATOR,
CSVWriter.NO_QUOTE_CHARACTER);
// skip the 2 header rows
String[] firstHeaderLine = csvReader.readNext();
csvReader.readNext();
// write the header for .csv output file
csvWriter.writeNext(outputHeader);
// int lastHholdID = 0;
// // get the last household ID in the pool to determine trips started within the study
// area.
// for (Household household : main.getHouseholdPool().getHouseholds().values()) {
// if (household.getId() > lastHholdID) {
// lastHholdID = household.getId();
// }
// }
while ((line = csvReader.readNext()) != null) {
// only save the overall rows not the leg rows
if (line.length == firstHeaderLine.length) {
String hHold = line[0];
String person = line[1];
String trip = line[3];
String depart = line[16];
String purpose = line[9];
String tripLength = line[24];
String hHoldPersonTrip = hHold + "_" + person + "_" + trip;
String purposeString = getPurposeString(Integer.parseInt(purpose));
// only save and write the travel modes: BUS, LIGHT RAIL,
// CAR_DRIVER, CAR_PASSENGER
// if (!mode.equalsIgnoreCase("WALK")
// && !mode.equalsIgnoreCase("HOV4")
// && !mode.equalsIgnoreCase("BIKE")) {
// mode = hmHHoldPersonTripMode.get(hHoldPersonTrip);
int modeTransimInteger =
ModelMain.getInstance().getHmHhPersonTripTravelMode().get(hHoldPersonTrip);
String mode = TravelModes.classify(modeTransimInteger).getTranssimsName();
String[] outputLine = {hHold, person, trip, mode, depart, purposeString, tripLength};
csvWriter.writeNext(outputLine);
outputLineArrayList.add(outputLine);
}
}
// }
// logger.debug("");
csvReader.close();
csvWriter.close();
} catch (Exception e) { // Catch exception if any
logger.error("Exception caught", e);
}
return outputLineArrayList;
}
public boolean saveAsCSVFile(File file) {
if (this.type == Statement.Type.Unknown) {
return false;
}
boolean status = false;
FileOutputStream fileOutputStream = null;
OutputStreamWriter outputStreamWriter = null;
CSVWriter csvwriter = null;
try {
fileOutputStream = new FileOutputStream(file);
outputStreamWriter = new OutputStreamWriter(fileOutputStream, Charset.forName("UTF-8"));
csvwriter = new CSVWriter(outputStreamWriter);
for (Map.Entry<String, String> metadata : metadatas.entrySet()) {
String key = metadata.getKey();
String value = metadata.getValue();
String output = key + "=" + value;
csvwriter.writeNext(new String[] {output});
}
// Do not obtain "type" through statements, as there is possible that
// statements is empty.
final List<String> strings =
Statement.typeToStrings(this.getType(), this.getGUIBundleWrapper());
final int columnCount = strings.size();
String[] datas = new String[columnCount];
// First row. Print out table header.
for (int i = 0; i < columnCount; i++) {
datas[i] = strings.get(i);
}
csvwriter.writeNext(datas);
final int rowCount = statements.size();
for (int i = 0; i < rowCount; i++) {
for (int j = 0; j < columnCount; j++) {
// Value shouldn't be null, as we prevent atom with null value.
final String value = statements.get(i).getAtom(j).getValue().toString();
datas[j] = value;
}
csvwriter.writeNext(datas);
}
status = true;
} catch (IOException ex) {
log.error(null, ex);
} finally {
if (csvwriter != null) {
try {
csvwriter.close();
} catch (IOException ex) {
log.error(null, ex);
}
}
org.yccheok.jstock.gui.Utils.close(outputStreamWriter);
org.yccheok.jstock.gui.Utils.close(fileOutputStream);
}
return status;
}
public void close() throws IOException {
logFW_count.close();
logFile_count.close();
logFW_names.close();
logFile_names.close();
}