/** DOCUMENT ME! */
public void loadRaids() {
File f = new File(REPO);
if (!f.exists()) {
return;
}
FileInputStream fIn = null;
ObjectInputStream oIn = null;
try {
fIn = new FileInputStream(REPO);
oIn = new ObjectInputStream(fIn);
// de-serializing object
raids = (HashMap<String, GregorianCalendar>) oIn.readObject();
} catch (IOException e) {
e.printStackTrace();
} catch (ClassNotFoundException e) {
e.printStackTrace();
} finally {
try {
oIn.close();
fIn.close();
} catch (IOException e1) {
e1.printStackTrace();
}
}
}
/**
* Copy a file from <i>source</i> to <i>target</i>.
*
* @param source the source file.
* @param target the target file.
* @throws IOException in case of a problem while coping.
*/
private void copy(File source, File target) throws IOException {
FileInputStream sourceFile = new FileInputStream(source);
FileOutputStream targetFile = new FileOutputStream(target);
byte[] buffer = new byte[sourceFile.available()];
sourceFile.read(buffer);
targetFile.write(buffer);
sourceFile.close();
targetFile.close();
}
public boolean readSrecCode(String fName) {
FileInputStream fis = null;
srec = new short[SREC_MAX_LINES][PKT_PAYLOAD_SIZE];
numLines = 1;
numPkts = 0;
try {
BufferedReader dis =
new BufferedReader(new InputStreamReader(fis = new FileInputStream(fName)));
System.out.println("--------------------------------------------------");
System.out.println("Reading file: " + fName);
// WARNING
int curByte = 0; // 16; // account for S0 line which is not parsed
while (true) {
char bline[] = dis.readLine().toUpperCase().toCharArray();
if (bline[1] == '1') {
numLines++;
if (bline.length > SREC_MAX_LINE_LEN) {
System.out.println("ERROR: SREC Read: Too many byes on line: " + numLines);
return false;
}
// srec length
int length =
Integer.parseInt(Character.toString(bline[2]) + Character.toString(bline[3]), 16) - 3;
// data
for (int i = 0, j = 8; i < length; i++, j += 2) {
if (curByte >= PKT_PAYLOAD_SIZE) {
numPkts++;
curByte = 0;
}
srec[numPkts][curByte++] =
(short)
Integer.parseInt(
Character.toString(bline[j]) + Character.toString(bline[j + 1]), 16);
imgSize++;
}
} else if (bline[1] == '2') {
numLines++;
if (bline.length > SREC_MAX_LINE_LEN) {
System.out.println("ERROR: SREC Read: Too many byes on line: " + numLines);
return false;
}
// srec length
int length =
Integer.parseInt(Character.toString(bline[2]) + Character.toString(bline[3]), 16) - 4;
// data
for (int i = 0, j = 10; i < length; i++, j += 2) {
if (curByte >= PKT_PAYLOAD_SIZE) {
numPkts++;
curByte = 0;
}
srec[numPkts][curByte++] =
(short)
Integer.parseInt(
Character.toString(bline[j]) + Character.toString(bline[j + 1]), 16);
imgSize++;
}
}
}
} catch (FileNotFoundException e) {
System.out.println("ERROR: (SREC Read) " + e);
return false;
} catch (Exception e) {
numPgs = (short) (((imgSize - 1) / BYTES_PER_PAGE) + 1);
System.out.println(
"Read END: (Lines="
+ numLines
+ ",Pages="
+ numPgs
+ ",Pkts="
+ numPkts
+ ",Size="
+ imgSize
+ ")");
System.out.println("--------------------------------------------------");
}
try {
if (fis != null) fis.close();
} catch (Exception e) {
e.printStackTrace();
}
return true;
}
/**
* Parse the section file and fill in the Dbase.
*
* @return Success code
*/
public void parse() throws Exception {
JOAParameter tempProperties[] = new JOAParameter[100];
FileInputStream in = null;
DataInputStream inData = null;
short inShort = 0;
long bytesRead = 0;
long bytesInFile = mFile.length();
short[] sarray = new short[1];
int mTotalStns = 0;
EPSProgressDialog mProgress = new EPSProgressDialog(new Frame(), mProgressStr, Color.blue);
mProgress.setVisible(true);
// Get an epic key database specific to JOA
EPIC_Key_DB mEpicKeyDB = new EPIC_Key_DB("joa_epic.key");
// Get an epic key database specific to JOA
EPIC_Key_DB mOrigEpicKeyDB = new EPIC_Key_DB("epic.key");
// create a vector for temporary storage of the dbases
Vector dBases = new Vector(100);
try {
in = new FileInputStream(mFile);
BufferedInputStream bis = new BufferedInputStream(in, 1000000);
inData = new DataInputStream(bis);
// read version
short vers = inData.readShort();
bytesRead += 2;
if (vers < 2) {
FileImportException fiex = new FileImportException();
String errStr = "Invalid version for a JOA binary file";
fiex.setErrorType(errStr);
throw fiex;
}
// read number of bytes in file description string
inShort = inData.readShort();
bytesRead += 2;
// read the file description String
byte buf[] = new byte[inShort];
inData.read(buf, 0, inShort);
String fileDescrip = new String(buf);
bytesRead += inShort;
// create a new open file object
JOADataFile of = new JOADataFile(fileDescrip);
// read the number of sections
int numSections = inData.readShort();
bytesRead += 2;
// read each section
JOASection sech;
int ord = 0;
for (int s = 0; s < numSections; s++) {
mProgress.setPercentComplete(100.0 * ((double) bytesRead / (double) bytesInFile));
// read the section header
inShort = inData.readShort();
bytesRead += 2;
byte buf1[] = new byte[inShort];
inData.read(buf1, 0, inShort);
String sectionDescrip = new String(buf1);
bytesRead += inShort;
// read the ship code
byte bufsc[] = new byte[2];
bufsc[0] = inData.readByte();
bufsc[1] = inData.readByte();
String shipCode = new String(bufsc);
bytesRead += 2;
// read num casts
int numCasts = inData.readShort();
bytesRead += 2;
// read num parameters
int numVars = inData.readShort();
bytesRead += 2;
// quality code
int qcStd = 1;
if (vers == 4) {
qcStd = inData.readShort();
bytesRead += 2;
}
// create a new section
of.mNumSections++;
sech = new JOASection(of.mNumSections, sectionDescrip, shipCode, numCasts, numVars);
if (vers == 2) {
// read the properties
byte bufv[] = new byte[4];
for (int p = 0; p < numVars; p++) {
// parameter name
inData.read(bufv, 0, 4);
String tempVar = new String(bufv);
bytesRead += 4;
// units
inShort = inData.readShort();
bytesRead += 2;
String units = null;
if (inShort > 0) {
byte buf11[] = new byte[inShort];
inData.read(buf11, 0, inShort);
units = new String(buf11);
bytesRead += inShort;
}
// convert varnames to UC
tempVar.toUpperCase();
// create new property
tempProperties[p] = new JOAParameter(tempVar, units);
// add this property to the section property list
if (tempProperties[p].mUnits == null) {
tempProperties[p].mUnits =
EPS_Util.paramNameToJOAUnits(false, tempProperties[0].mVarLabel);
}
if (tempProperties[p].mUnits == null) {
tempProperties[p].mUnits = new String("na");
}
tempProperties[p].mCastOrObs = EPSConstants.ALL_OBS;
// read the actual scale
int actScale = inData.readShort();
bytesRead += 2;
if (actScale != 0) tempProperties[p].mActScale = 1.0 / (double) actScale;
else tempProperties[p].mActScale = 1.0;
// read the actual origin
int actOrigin = inData.readShort();
tempProperties[p].mActOrigin = (double) actOrigin * tempProperties[p].mActScale;
// read reverse y
int reverseY = inData.readShort();
bytesRead += 2;
if (reverseY == 0) tempProperties[p].mReverseY = false;
else tempProperties[p].mReverseY = true;
tempProperties[p].mWasCalculated = false;
}
} else {
// read the properties
String tempVar = null;
for (int p = 0; p < numVars; p++) {
// length of parameter name
inShort = inData.readShort();
bytesRead += 2;
// parameter name
if (inShort > 0) {
byte buf13[] = new byte[inShort];
inData.read(buf13, 0, inShort);
tempVar = new String(buf13);
bytesRead += inShort;
}
// units
inShort = inData.readShort();
bytesRead += 2;
String units = null;
if (inShort > 0) {
byte buf11[] = new byte[inShort];
inData.read(buf11, 0, inShort);
units = new String(buf11);
bytesRead += inShort;
}
// convert varnames to UC
tempVar = tempVar.toUpperCase();
// create new property
tempProperties[p] = new JOAParameter(tempVar, units);
// add this property to the section property list
if (tempProperties[p].mUnits == null) {
tempProperties[p].mUnits =
EPS_Util.paramNameToJOAUnits(false, tempProperties[0].mVarLabel);
}
if (tempProperties[p].mUnits == null) {
tempProperties[p].mUnits = new String("na");
}
tempProperties[p].mCastOrObs = EPSConstants.ALL_OBS;
// read the actual scale
int actScale = inData.readShort();
bytesRead += 2;
if (actScale != 0) tempProperties[p].mActScale = 1.0 / (double) actScale;
else tempProperties[p].mActScale = 1.0;
// read the actual origin
int actOrigin = inData.readShort();
tempProperties[p].mActOrigin = (double) actOrigin * tempProperties[p].mActScale;
// read reverse y
int reverseY = inData.readShort();
bytesRead += 2;
if (reverseY == 0) tempProperties[p].mReverseY = false;
else tempProperties[p].mReverseY = true;
tempProperties[p].mWasCalculated = false;
}
}
// read the cast headers
for (int c = 0; c < numCasts; c++) {
// read station number
inShort = inData.readShort();
bytesRead += 2;
byte bufx[] = new byte[inShort];
inData.read(bufx, 0, inShort);
String stnNum = new String(bufx);
bytesRead += inShort;
// read cast number
int castNum = inData.readShort();
bytesRead += 2;
double myLat = 0.0;
double myLon = 0.0;
if (vers == 2) {
// read latitude/lon
int lat = inData.readInt();
bytesRead += 4;
int lon = inData.readInt();
bytesRead += 4;
myLat = lat * 0.001;
myLon = lon * 0.001;
} else if (vers > 2) {
// read latitude/lon
myLat = inData.readDouble();
bytesRead += 8;
myLon = inData.readDouble();
bytesRead += 4;
}
// read number of bottles
int numBottles = inData.readShort();
bytesRead += 2;
// read the date
int year = inData.readInt();
bytesRead += 4;
int month = inData.readInt();
bytesRead += 4;
int day = inData.readInt();
bytesRead += 4;
int hour = inData.readInt();
bytesRead += 4;
double min = inData.readDouble();
bytesRead += 8;
// read bottom
int bottomdbar = inData.readInt();
// read station quality
int stnQual = inData.readShort();
bytesRead += 2;
ord++;
JOAStation sh =
new JOAStation(
ord,
shipCode,
stnNum,
castNum,
myLat,
myLon,
numBottles,
year,
month,
day,
hour,
min,
bottomdbar,
stnQual);
sech.mStations.addElement(sh);
sh.setType("JOA BOTTLE");
// make a DBase object
Dbase db = new Dbase();
// add the global attributes
db.addEPSAttribute(
"CRUISE", EPCHAR, sech.mSectionDescription.length(), sech.mSectionDescription);
db.addEPSAttribute("CAST", EPCHAR, sh.mStnNum.length(), sh.mStnNum);
sarray[0] = (short) sh.mBottomDepthInDBARS;
db.addEPSAttribute("WATER_DEPTH", EPSHORT, 1, sarray);
db.addEPSAttribute("DATA_ORIGIN", EPCHAR, sech.mShipCode.length(), sech.mShipCode);
String dType = sh.getType();
if (dType == null) dType = "UNKN";
db.addEPSAttribute("DATA_TYPE", EPCHAR, dType.length(), dType);
sarray[0] = (short) stnQual;
db.addEPSAttribute("STN_QUALITY", EPSHORT, 1, sarray);
db.setDataType("JOA BOTTLE");
// add to temporary collection
dBases.addElement(db);
}
int start = mTotalStns;
int end = sech.mStations.size() + mTotalStns;
for (int sc = start; sc < end; sc++) {
mProgress.setPercentComplete(100.0 * ((double) bytesRead / (double) bytesInFile));
// get a dBase
Dbase db = (Dbase) dBases.elementAt(sc);
// get a station
JOAStation sh = (JOAStation) sech.mStations.elementAt(sc - start);
// create an array of arrays to store the data
double[][] va = new double[sech.mNumVars][sh.mNumBottles];
int[][] qc = new int[sech.mNumVars][sh.mNumBottles];
short[] bqc = new short[sh.mNumBottles];
int presPos = 0;
// read the bottles
for (int b = 0; b < sh.mNumBottles; b++) {
// read the bottle quality code
bqc[b] = inData.readShort();
bytesRead += 2;
for (int v = 0; v < sech.mNumVars; v++) {
// store the position of the PRES variable
if (tempProperties[v].mVarLabel.equals("PRES")) presPos = v;
// get the measured parameter
double dVarVal = EPSConstants.MISSINGVALUE;
try {
dVarVal = inData.readDouble();
} catch (IOException e) {
FileImportException fiex = new FileImportException();
String errStr =
"Error reading the parameter data. "
+ "\n"
+ "Bottle #"
+ b
+ " Parameter #"
+ v;
fiex.setErrorType(errStr);
throw fiex;
}
bytesRead += 8;
// store the value in the multidimensional array
va[v][b] = dVarVal;
// get the quality flag
short flag = (short) EPSConstants.MISSINGVALUE;
try {
flag = inData.readShort();
} catch (IOException e) {
FileImportException fiex = new FileImportException();
String errStr =
"Error reading the parameter quality code. "
+ "\n"
+ "Bottle #"
+ b
+ " Parameter #"
+ v;
fiex.setErrorType(errStr);
throw fiex;
}
bytesRead += 2;
qc[v][b] = flag;
} // for v
} // for b
// add the bottle quality codes as an attribute
db.addEPSAttribute("BOTTLE_QUALITY_CODES", EPSHORT, sh.mNumBottles, bqc);
// create the axes time = 0, depth = 1, lat = 2, lon = 3
Axis timeAxis = new Axis();
Axis zAxis = new Axis();
Axis latAxis = new Axis();
Axis lonAxis = new Axis();
// time axis
timeAxis.setName("time");
timeAxis.setTime(true);
timeAxis.setUnlimited(false);
timeAxis.setAxisType(EPTAXIS);
timeAxis.setLen(1);
int hour = 0;
if (sh.mHour != EPSConstants.MISSINGVALUE) hour = sh.mHour;
double mins = 0;
if (sh.mMinute != EPSConstants.MISSINGVALUE) mins = sh.mMinute;
// make the time axis units
String date = "days since ";
int min = (int) mins;
double fmin = mins - min;
int secs = (int) (fmin * 60.0);
double fsec = (fmin * 60.0) - secs;
int msec = (int) (fsec * 1000.0);
String fs = String.valueOf(fsec);
fs = fs.substring(fs.indexOf(".") + 1, fs.length()).trim();
int f = 0;
if (fs != null && fs.length() > 0) f = Integer.valueOf(fs).intValue();
// sprintf(time_string,"%04d-%02d-%02d %02d:%02d:%02d.%03d",yr,mon,day,hr,min,sec,f);
String frmt =
new String(
"{0,number,####}-{1,number,00}-{2,number,00} {3,number,00}:{4,number,00}:{5,number,00}.{6,number,000}");
MessageFormat msgf = new MessageFormat(frmt);
Object[] objs = {
new Integer(sh.mYear),
new Integer(sh.mMonth),
new Integer(sh.mDay),
new Integer(hour),
new Integer(min),
new Integer(secs),
new Integer(f)
};
StringBuffer out = new StringBuffer();
msgf.format(objs, out, null);
String time_string = new String(out);
date = date + time_string;
timeAxis.addAttribute(0, "units", EPCHAR, date.length(), date);
timeAxis.setUnits(date);
GeoDate gd = null;
try {
gd = new GeoDate(sh.mMonth, sh.mDay, sh.mYear, hour, min, secs, msec);
GeoDate[] ta = {gd};
MultiArray tma = new ArrayMultiArray(ta);
timeAxis.setData(tma);
db.setAxis(timeAxis);
} catch (Exception ex) {
GeoDate[] ta = {new GeoDate()};
MultiArray tma = new ArrayMultiArray(ta);
timeAxis.setData(tma);
db.setAxis(timeAxis);
}
// add the time axes variable
EPSVariable var = new EPSVariable();
var.setOname("time");
var.setDtype(EPDOUBLE);
var.setVclass(Double.TYPE);
var.addAttribute(0, "units", EPCHAR, date.length(), date);
var.setUnits(date);
double[] vta = {0.0};
MultiArray vtma = new ArrayMultiArray(vta);
try {
var.setData(vtma);
} catch (Exception ex) {
}
db.addEPSVariable(var);
// z axis
zAxis.setName("depth");
zAxis.setTime(false);
zAxis.setUnlimited(false);
zAxis.setLen(sh.mNumBottles);
zAxis.setAxisType(EPZAXIS);
zAxis.addAttribute(0, "FORTRAN_format", EPCHAR, 5, "f10.1");
zAxis.addAttribute(1, "units", EPCHAR, 4, "dbar");
zAxis.setUnits("dbar");
zAxis.setFrmt("f10.1");
// zAxis.addAttribute(2, "type", EPCHAR, 0, "");
sarray[0] = 1;
zAxis.addAttribute(2, "epic_code", EPSHORT, 1, sarray);
double[] za = new double[sh.mNumBottles];
for (int b = 0; b < sh.mNumBottles; b++) {
za[b] = va[presPos][b];
}
MultiArray zma = new ArrayMultiArray(za);
zAxis.setData(zma);
db.setAxis(zAxis);
// add the z axes variables
var = new EPSVariable();
var.setOname("depth");
var.setDtype(EPDOUBLE);
var.setVclass(Double.TYPE);
var.addAttribute(0, "FORTRAN_format", EPCHAR, 5, "f10.1");
var.addAttribute(1, "units", EPCHAR, 4, "dbar");
var.setUnits("dbar");
var.setFrmt("f10.1");
// var.addAttribute(2, "type", EPCHAR, 0, "");
sarray[0] = 1;
var.addAttribute(2, "epic_code", EPSHORT, 1, sarray);
MultiArray zvma = new ArrayMultiArray(za);
try {
var.setData(zvma);
} catch (Exception ex) {
}
db.addEPSVariable(var);
// lat axis
latAxis.setName("latitude");
latAxis.setTime(false);
latAxis.setUnlimited(false);
latAxis.setLen(1);
latAxis.setAxisType(EPYAXIS);
latAxis.addAttribute(0, "FORTRAN_format", EPCHAR, 5, "f10.4");
latAxis.addAttribute(1, "units", EPCHAR, 7, "degrees");
latAxis.setUnits("degrees");
latAxis.setFrmt("f10.4");
// latAxis.addAttribute(2, "type", EPCHAR, 0, "");
sarray[0] = 500;
latAxis.addAttribute(2, "epic_code", EPSHORT, 1, sarray);
double lat = sh.mLat;
double[] la = {lat};
MultiArray lma = new ArrayMultiArray(la);
latAxis.setData(lma);
db.setAxis(latAxis);
// add the y axes variable
var = new EPSVariable();
var.setOname("latitude");
var.setDtype(EPDOUBLE);
var.setVclass(Double.TYPE);
var.addAttribute(0, "FORTRAN_format", EPCHAR, 5, "f10.4");
var.addAttribute(1, "units", EPCHAR, 7, "degrees");
var.setUnits("degrees");
var.setFrmt("f10.4");
// var.addAttribute(2, "type", EPCHAR, 0, "");
sarray[0] = 500;
var.addAttribute(2, "epic_code", EPSHORT, 1, sarray);
MultiArray yvma = new ArrayMultiArray(la);
try {
var.setData(yvma);
} catch (Exception ex) {
}
db.addEPSVariable(var);
// lon axis
lonAxis.setName("longitude");
lonAxis.setTime(false);
lonAxis.setUnlimited(false);
lonAxis.setLen(1);
lonAxis.setAxisType(EPXAXIS);
lonAxis.addAttribute(0, "FORTRAN_format", EPCHAR, 5, "f10.4");
lonAxis.addAttribute(1, "units", EPCHAR, 7, "degrees");
lonAxis.setUnits("degrees");
lonAxis.setFrmt("f10.4");
// lonAxis.addAttribute(2, "type", EPCHAR, 0, "");
sarray[0] = 502;
lonAxis.addAttribute(2, "epic_code", EPSHORT, 1, sarray);
double lon = sh.mLon;
double[] lla = {lon};
lma = new ArrayMultiArray(lla);
lonAxis.setData(lma);
db.setAxis(lonAxis);
// add the x axes variable
var = new EPSVariable();
var.setOname("longitude");
var.setDtype(EPDOUBLE);
var.setVclass(Double.TYPE);
var.addAttribute(0, "FORTRAN_format", EPCHAR, 5, "f10.4");
var.addAttribute(1, "units", EPCHAR, 7, "degrees");
var.setUnits("degrees");
var.setFrmt("f10.4");
// var.addAttribute(2, "type", EPCHAR, 0, "");
sarray[0] = 502;
var.addAttribute(2, "epic_code", EPSHORT, 1, sarray);
MultiArray xvma = new ArrayMultiArray(lla);
try {
var.setData(xvma);
} catch (Exception ex) {
}
db.addEPSVariable(var);
// add the measured variables
for (int v = 0; v < sech.mNumVars; v++) {
// if (presPos == v)
// continue;
// create an array of measured EPSVariables for this database
EPSVariable epsVar = new EPSVariable();
// initialize the new EPSVariables
// look this variable up in JOA EPIC_Key. find matching entry in original EPIC Key
String oname = tempProperties[v].mVarLabel;
String sname = null;
String lname = null;
String gname = null;
String units = null;
String ffrmt = null;
int keyID = -99;
int type = -99;
try {
keyID = mEpicKeyDB.findKey(tempProperties[v].mVarLabel);
Key key = mOrigEpicKeyDB.findKey(keyID);
gname = key.getGname();
sname = key.getSname();
lname = key.getLname();
units = key.getUnits();
ffrmt = key.getFrmt();
type = key.getType();
} catch (Exception e) {
lname = tempProperties[v].mVarLabel;
gname = tempProperties[v].mVarLabel;
sname = tempProperties[v].mVarLabel;
units = tempProperties[v].mUnits;
}
// make a new variable
epsVar = new EPSVariable();
epsVar.setOname(oname);
epsVar.setSname(sname);
epsVar.setLname(lname);
epsVar.setGname(gname);
epsVar.setDtype(EPDOUBLE);
epsVar.setVclass(Double.TYPE);
int numAttributes = 0;
if (ffrmt != null) {
epsVar.addAttribute(numAttributes++, "FORTRAN_format", EPCHAR, ffrmt.length(), ffrmt);
epsVar.setFrmt(ffrmt);
}
if (units != null && units.length() > 0) {
epsVar.addAttribute(numAttributes++, "units", EPCHAR, units.length(), units);
epsVar.setUnits(units);
}
if (keyID >= 0) {
sarray[0] = (short) type;
// epsVar.addAttribute(numAttributes++, "type", EPSHORT, 1, sarray);
}
if (keyID >= 0) {
sarray[0] = (short) keyID;
epsVar.addAttribute(numAttributes++, "epic_code", EPSHORT, 1, sarray);
}
// add the quality code attribute
String qcVar = oname + "_QC";
epsVar.addAttribute(numAttributes++, "OBS_QC_VARIABLE", EPCHAR, qcVar.length(), qcVar);
// connect variable to axis
epsVar.setDimorder(0, 0);
epsVar.setDimorder(1, 1);
epsVar.setDimorder(2, 2);
epsVar.setDimorder(3, 3);
epsVar.setT(timeAxis);
epsVar.setZ(zAxis);
epsVar.setY(latAxis);
epsVar.setX(lonAxis);
// set the data
// create storage for the measured variables
double[][][][] vaa = new double[1][sh.mNumBottles][1][1];
for (int b = 0; b < sh.mNumBottles; b++) {
vaa[0][b][0][0] = va[v][b];
}
MultiArray mdma = new ArrayMultiArray(vaa);
try {
epsVar.setData(mdma);
} catch (Exception ex) {
System.out.println("throwing");
}
// add the variable to the database
db.addEPSVariable(epsVar);
// create the quality code variable
epsVar = new EPSVariable();
epsVar.setOname(oname + "_QC");
epsVar.setSname(sname + "_QC");
epsVar.setLname(sname + "_QC");
epsVar.setGname(sname + "_QC");
epsVar.setDtype(EPSHORT);
epsVar.setVclass(Short.TYPE);
// connect variable to axis
epsVar.setDimorder(0, 0);
epsVar.setDimorder(1, 1);
epsVar.setDimorder(2, 2);
epsVar.setDimorder(3, 3);
epsVar.setT(timeAxis);
epsVar.setZ(zAxis);
epsVar.setY(latAxis);
epsVar.setX(lonAxis);
// set the data
// create storage for the qc variables
short[][][][] qcaa = new short[1][sh.mNumBottles][1][1];
for (int b = 0; b < sh.mNumBottles; b++) {
qcaa[0][b][0][0] = (short) qc[v][b];
}
MultiArray qcma = new ArrayMultiArray(qcaa);
try {
epsVar.setData(qcma);
} catch (Exception ex) {
System.out.println("throwing");
}
// add the qc variable to the database
db.addEPSVariable(epsVar);
} // for v
}
mTotalStns += numCasts;
} // for sc
// read the file comments
StringBuffer sb = null;
while (true) {
try {
// read continuation line
inShort = inData.readShort();
bytesRead += 2;
if (inShort == 1) {
// read number of bytes in file description string
inShort = inData.readShort();
bytesRead += 2;
// read the file description String
byte buf2[] = new byte[inShort];
inData.read(buf2, 0, inShort);
String commentLine = new String(buf2);
bytesRead += inShort;
if (sb == null) sb = new StringBuffer(commentLine);
else sb.append(commentLine);
}
} catch (IOException e) {
break;
}
} // while true
if (sb != null) {
// make attributes for the comments
mOwnerDBase.setDataComment(new String(sb));
}
// make a sub database in the dbase
mOwnerDBase.createSubEntries(mTotalStns, mFile.getName());
for (int d = 0; d < mTotalStns; d++) {
Dbase db = (Dbase) dBases.elementAt(d);
mOwnerDBase.addSubEntry(db);
}
mProgress.setPercentComplete(100.0);
mProgress.setVisible(false);
mProgress.dispose();
in.close();
} catch (IOException e) {
mProgress.setVisible(false);
mProgress.dispose();
throw e;
}
}
public void run() {
int i,
j,
storedValues,
sleepTime = 3000,
timeoutCtr = 0,
lastFlags = -1,
trackCnt = 0,
lastLocMethod = -5;
String bssid;
WMapEntry currEntry;
DataOutputStream out;
FileInputStream in;
while (running) {
try {
if (scanData.getNoGPSExitInterval() > 0) {
if (System.currentTimeMillis() > lastGPSTime + scanData.getNoGPSExitInterval()) {
break;
}
}
if (ScanService.scanData.getThreadMode() == OWMapAtAndroid.THREAD_MODE_UPLOAD) {
if ((m_uploadThread != null) && (m_uploadThread.isUploading()))
OWMapAtAndroid.sendMessage(
ScannerHandler.MSG_SIMPLE_ALERT,
0,
0,
getResources().getText(R.string.upload_in_progress));
else m_uploadThread = new UploadThread(scanData, this, SP, false, notification, null);
ScanService.scanData.setThreadMode(OWMapAtAndroid.THREAD_MODE_SCAN);
} else {
if ((posState == 0) && (scanData != null) && (scanData.isScanningEnabled())) {
posState = 1;
timeoutCtr = 0;
if (scanData.getFlags() != lastFlags) {
if ((scanData.getFlags() & OWMapAtAndroid.FLAG_NO_NET_ACCESS) == 0)
scanData.getWifiManager().createWifiLock(WifiManager.WIFI_MODE_FULL, "OpenWLANMap");
else
scanData
.getWifiManager()
.createWifiLock(WifiManager.WIFI_MODE_SCAN_ONLY, "OpenWLANMap");
lastFlags = scanData.getFlags();
}
if ((scanData.getFlags() & OWMapAtAndroid.FLAG_NO_NET_ACCESS) == 0)
myWLocate.wloc_request_position(WLocate.FLAG_NO_IP_LOCATION);
else {
myWLocate.wloc_request_position(
WLocate.FLAG_NO_NET_ACCESS | WLocate.FLAG_NO_IP_LOCATION);
// stopGoogleLocation();
}
} else if (!scanData.isScanningEnabled()) {
try {
trackCnt += 1500;
Thread.sleep(1500);
} catch (InterruptedException ie) {
}
}
if (posState == 1) {
// sleep while waiting for result
try {
trackCnt += 2500;
java.lang.Thread.sleep(2500); // is interrupted from result handler
timeoutCtr++;
if (timeoutCtr > 3) {
timeoutCtr = 0;
posState = 0;
}
} catch (InterruptedException ie) {
}
}
if ((posState == 2) || (posState == 100)) {
loc_info locationInfo;
NetworkInfo mWifi = connManager.getNetworkInfo(ConnectivityManager.TYPE_WIFI);
locationInfo = myWLocate.last_location_info();
if (lastLocMethod != locationInfo.lastLocMethod) {
scanData.getmView().setMode(locationInfo.lastLocMethod);
scanData.getmView().postInvalidate();
lastLocMethod = locationInfo.lastLocMethod;
}
if (posState == 100) locationInfo.lastLocMethod = -1;
OWMapAtAndroid.sendMessage(
OWMapAtAndroid.ScannerHandler.MSG_UPD_LOC_STATE,
(int) (lastRadius * 1000),
locationInfo.lastLocMethod,
locationInfo);
if (SP.getBoolean("autoConnect", false)) {
if (!mWifi.isConnected()) {
for (i = 0; i < locationInfo.wifiScanResult.size(); i++) {
ScanResult result;
result = locationInfo.wifiScanResult.get(i);
result.capabilities = result.capabilities.toUpperCase(Locale.US);
if ((isFreeHotspot(result) & WMapEntry.FLAG_IS_FREIFUNK) != 0) {
// auto-connect to this open network
WifiConfiguration wifiConfig = new WifiConfiguration();
wifiConfig.BSSID = result.BSSID;
wifiConfig.priority = 1;
wifiConfig.allowedKeyManagement.set(KeyMgmt.NONE);
wifiConfig.allowedGroupCiphers.set(WifiConfiguration.GroupCipher.TKIP);
wifiConfig.allowedAuthAlgorithms.set(WifiConfiguration.AuthAlgorithm.OPEN);
wifiConfig.allowedKeyManagement.set(WifiConfiguration.KeyMgmt.NONE);
wifiConfig.status = WifiConfiguration.Status.ENABLED;
int netId = scanData.getWifiManager().addNetwork(wifiConfig);
scanData.getWifiManager().enableNetwork(netId, true);
}
}
}
}
if ((posValid)
&& (locationInfo.wifiScanResult != null)
&& (locationInfo.wifiScanResult.size() > 0)) {
boolean foundExisting;
for (i = 0; i < locationInfo.wifiScanResult.size(); i++) {
ScanResult result;
result = locationInfo.wifiScanResult.get(i);
bssid = result.BSSID.replace(":", "").replace(".", "").toUpperCase(Locale.US);
if (bssid.equalsIgnoreCase("000000000000")) break;
foundExisting = false;
scanData.getLock().lock();
for (j = 0; j < scanData.getWmapList().size(); j++) {
currEntry = scanData.getWmapList().elementAt(j);
if (currEntry.getBSSID().equalsIgnoreCase(bssid)) {
currEntry.setPos(lastLat, lastLon);
foundExisting = true;
break;
}
}
if (!foundExisting) {
String lowerSSID;
storedValues = scanData.incStoredValues();
scanData.getmView().setValue(storedValues);
scanData.getmView().postInvalidate();
currEntry = new WMapEntry(bssid, result.SSID, lastLat, lastLon, storedValues);
lowerSSID = result.SSID.toLowerCase(Locale.US);
if ((lowerSSID.endsWith("_nomap"))
|| // Google unsubscibe option
(lowerSSID.contains("iphone"))
|| // mobile AP
(lowerSSID.contains("android"))
|| // mobile AP
(lowerSSID.contains("motorola"))
|| // mobile AP
(lowerSSID.contains("deinbus.de"))
|| // WLAN network on board of German bus
(lowerSSID.contains("fernbus"))
|| // WLAN network on board of German bus
(lowerSSID.contains("flixbus"))
|| // WLAN network on board of German bus
(lowerSSID.contains("ecolines"))
|| // WLAN network on board of German bus
(lowerSSID.contains("eurolines_wifi"))
|| // WLAN network on board of German bus
(lowerSSID.contains("contiki-wifi"))
|| // WLAN network on board of bus
(lowerSSID.contains("guest@ms "))
|| // WLAN network on Hurtigruten ships
(lowerSSID.contains("admin@ms "))
|| // WLAN network on Hurtigruten ships
(lowerSSID.contains("nsb_interakti"))
|| // WLAN network in NSB trains
(lowerSSID.equals("southwestwifi"))) // WLAN network on Southwest flights
currEntry.setFlags(currEntry.getFlags() | WMapEntry.FLAG_IS_NOMAP);
else currEntry.setFlags(currEntry.getFlags() | isFreeHotspot(result));
if (isFreeHotspot(currEntry.getFlags())) scanData.incFreeHotspotWLANs();
scanData.getWmapList().add(currEntry);
if ((scanData.getUploadThres() > 0)
&& (storedValues > scanData.getUploadThres())) {
if ((m_uploadThread == null) || (!m_uploadThread.isUploading())) {
if (mWifi.isConnected()) {
m_uploadThread =
new UploadThread(scanData, this, SP, true, notification, mWifi);
}
}
}
}
result.capabilities = result.capabilities.toUpperCase(Locale.US);
scanData.getLock().unlock();
}
}
scanData.getLock().lock();
for (j = 0; j < scanData.getWmapList().size(); j++) {
currEntry = scanData.getWmapList().elementAt(j);
if ((currEntry.getLastUpdate() + OWMapAtAndroid.RECV_TIMEOUT
< System.currentTimeMillis())
&& ((currEntry.getFlags() & WMapEntry.FLAG_IS_VISIBLE) == 0)) {
scanData.getWmapList().remove(j);
if (currEntry.posIsValid()) {
int padBytes = 0, k;
try {
in = scanData.getCtx().openFileInput(OWMapAtAndroid.WSCAN_FILE);
padBytes = in.available() % 28;
in.close();
if (padBytes > 0) padBytes = 28 - padBytes;
} catch (IOException ioe) {
ioe.printStackTrace();
}
try {
out =
new DataOutputStream(
scanData
.getCtx()
.openFileOutput(
OWMapAtAndroid.WSCAN_FILE,
Context.MODE_PRIVATE | Context.MODE_APPEND));
if (padBytes > 0) for (k = 0; k < padBytes; k++) out.writeByte(0);
out.write(currEntry.getBSSID().getBytes(), 0, 12);
if ((currEntry.getFlags() & WMapEntry.FLAG_IS_NOMAP) != 0) {
out.writeDouble(0.0);
out.writeDouble(0.0);
} else {
out.writeDouble(currEntry.getLat());
out.writeDouble(currEntry.getLon());
}
out.close();
} catch (IOException ioe) {
ioe.printStackTrace();
}
if ((currEntry.getFlags()
& (WMapEntry.FLAG_IS_FREIFUNK | WMapEntry.FLAG_IS_NOMAP))
== WMapEntry.FLAG_IS_FREIFUNK) {
padBytes = 0;
try {
in = scanData.getCtx().openFileInput(OWMapAtAndroid.WFREI_FILE);
padBytes = in.available() % 12;
in.close();
if (padBytes > 0) padBytes = 12 - padBytes;
} catch (IOException ioe) {
ioe.printStackTrace();
}
try {
out =
new DataOutputStream(
scanData
.getCtx()
.openFileOutput(
OWMapAtAndroid.WFREI_FILE,
Context.MODE_PRIVATE | Context.MODE_APPEND));
if (padBytes > 0) for (k = 0; k < padBytes; k++) out.writeByte(0);
out.write(currEntry.getBSSID().getBytes(), 0, 12);
out.close();
} catch (IOException ioe) {
ioe.printStackTrace();
}
}
}
}
// flushData(false);
}
scanData.getLock().unlock();
m_lastSpeed = locationInfo.lastSpeed;
if (!SP.getBoolean("adaptiveScanning", true)) sleepTime = 500;
else if (locationInfo.lastSpeed > 90) sleepTime = 350;
else if (locationInfo.lastSpeed < 0)
sleepTime = 1300; // no speed information, may be because of WLAN localisation
else if (locationInfo.lastSpeed < 6) sleepTime = 2500; // user seems to walk
else {
double f;
f = 1.0 - (locationInfo.lastSpeed / 90.0);
sleepTime = (int) ((1000.0 * f) + 350);
}
try {
trackCnt += sleepTime;
java.lang.Thread.sleep(sleepTime); // sleep between scans
} catch (InterruptedException ie) {
}
posState = 0;
}
}
} catch (NullPointerException npe) // in case the parent activity dies too fast
{
npe.printStackTrace();
}
if ((trackCnt > 500000) && (lastLat != 0) && (lastLon != 0)) {
if (SP.getBoolean("track", false)) new UploadPositionTask().execute(null, null, null);
trackCnt = 0;
}
}
onDestroy(); // remove all resources (in case the thread was stopped due to some other reason
}
/** @param args */
public static void main(String[] args) {
try {
// force dot as decimal separator
Locale.setDefault(new Locale("en", "US"));
// Get current time
long start = System.currentTimeMillis();
RinexNavigation navigationIn =
new RinexNavigation(RinexNavigation.IGN_NAVIGATION_HOURLY_ZIM2);
FileInputStream fis = new FileInputStream(".\\data\\aphemeris.dat");
// FileInputStream fis = new FileInputStream(".\\data\\assistnow.dat");
DataInputStream dis = new DataInputStream(fis);
String msg = null;
try {
msg = dis.readUTF();
while (msg != null) {
System.out.println("Msg:[" + msg + "]");
if (msg.equalsIgnoreCase(Streamable.MESSAGE_OBSERVATIONS)) {
Observations o = new Observations(dis, false);
} else if (msg.equalsIgnoreCase(Streamable.MESSAGE_EPHEMERIS)) {
EphGps eph1 = new EphGps(dis, false);
System.out.println(
"found sat" + eph1.getSatID() + " time:" + eph1.getRefTime().getGpsTime());
EphGps eph2 =
navigationIn.findEph(
eph1.getRefTime().getMsec(), eph1.getSatID(), eph1.getSatType());
// Compare
if (eph2 != null) {
double ms = eph1.getRefTime().getGpsTime() - eph2.getRefTime().getGpsTime();
System.out.println(" time dif:" + (ms / 1000) + "s " + (ms % 1000) + "ms");
;
equalDouble("Af0", eph1.getAf0(), eph2.getAf0());
equalDouble("Af1", eph1.getAf1(), eph2.getAf1());
equalDouble("Af2", eph1.getAf2(), eph2.getAf2());
equalDouble("Cic", eph1.getCic(), eph2.getCic());
equalDouble("Cis", eph1.getCis(), eph2.getCis());
equalDouble("Crc", eph1.getCrc(), eph2.getCrc());
equalDouble("Crs", eph1.getCrs(), eph2.getCrs());
equalDouble("Cuc", eph1.getCuc(), eph2.getCuc());
equalDouble("Cus", eph1.getCus(), eph2.getCus());
equalDouble("DeltaN", eph1.getDeltaN(), eph2.getDeltaN());
equalDouble("E", eph1.getE(), eph2.getE());
equalDouble("FitInt", eph1.getFitInt(), eph2.getFitInt());
equalDouble("I0", eph1.getI0(), eph2.getI0());
equalDouble("iDot", eph1.getiDot(), eph2.getiDot());
equalDouble("M0", eph1.getM0(), eph2.getM0());
equalDouble("Omega", eph1.getOmega(), eph2.getOmega());
equalDouble("Omega0", eph1.getOmega0(), eph2.getOmega0());
equalDouble("OmegaDot", eph1.getOmegaDot(), eph2.getOmegaDot());
equalDouble("RootA", eph1.getRootA(), eph2.getRootA());
equalDouble("Tgd", eph1.getTgd(), eph2.getTgd());
equalDouble("Toc", eph1.getToc(), eph2.getToc());
equalDouble("Toe", eph1.getToe(), eph2.getToe());
equalDouble("Iodc", eph1.getIodc(), eph2.getIodc());
equalDouble("Iode", eph1.getIode(), eph2.getIode());
equalDouble("L2Code", eph1.getL2Code(), eph2.getL2Code());
equalDouble("L2Flag", eph1.getL2Flag(), eph2.getL2Flag());
equalDouble("SvAccur", eph1.getSvAccur(), eph2.getSvAccur());
equalDouble("SvHealth", eph1.getSvHealth(), eph2.getSvHealth());
} else {
System.out.println(
"EPH 2 not found for " + eph1.getSatID() + " at " + eph1.getRefTime());
}
} else if (msg.equalsIgnoreCase(Streamable.MESSAGE_OBSERVATIONS_SET)) {
ObservationSet eps = new ObservationSet(dis, false);
// nothing to do with ?
} else if (msg.equalsIgnoreCase(Streamable.MESSAGE_IONO)) {
IonoGps iono = new IonoGps(dis, false);
// addIonospheric(iono);
} else if (msg.equalsIgnoreCase(Streamable.MESSAGE_COORDINATES)) {
Coordinates c = Coordinates.readFromStream(dis, false);
// setDefinedPosition(c);
} else {
System.out.println("Unknow Msg:[" + msg + "]");
}
msg = dis.readUTF();
}
} catch (EOFException eof) {
// ok
}
fis.close();
try {
navigationIn.release(true, 10000);
} catch (InterruptedException ie) {
ie.printStackTrace();
}
// Get and display elapsed time
int elapsedTimeSec = (int) Math.floor((System.currentTimeMillis() - start) / 1000);
int elapsedTimeMillisec =
(int) ((System.currentTimeMillis() - start) - elapsedTimeSec * 1000);
System.out.println(
"\nElapsed time (read + proc + display + write): "
+ elapsedTimeSec
+ " seconds "
+ elapsedTimeMillisec
+ " milliseconds.");
} catch (Exception e) {
e.printStackTrace();
}
}