void IsisMain() {
// Get user interface
UserInterface &ui = Application::GetUserInterface();
// Open the shift definitions file
Pvl shiftdef;
if (ui.WasEntered("SHIFTDEF")) {
shiftdef.Read(ui.GetFilename("SHIFTDEF"));
}
else {
shiftdef.AddObject(PvlObject("Hiccdstitch"));
}
PvlObject &stitch = shiftdef.FindObject("Hiccdstitch", Pvl::Traverse);
// Open the first cube. It will be matched to the second input cube.
HiJitCube trans;
CubeAttributeInput &attTrans = ui.GetInputAttribute("FROM");
vector<string> bandTrans = attTrans.Bands();
trans.SetVirtualBands(bandTrans);
trans.OpenCube(ui.GetFilename("FROM"), stitch);
// Open the second cube, it is held in place. We will be matching the
// first to this one by attempting to compute a sample/line translation
HiJitCube match;
CubeAttributeInput &attMatch = ui.GetInputAttribute("MATCH");
vector<string> bandMatch = attMatch.Bands();
match.SetVirtualBands(bandMatch);
match.OpenCube(ui.GetFilename("MATCH"), stitch);
// Ensure only one band
if ((trans.Bands() != 1) || (match.Bands() != 1)) {
string msg = "Input Cubes must have only one band!";
throw Isis::iException::Message(Isis::iException::User,msg,_FILEINFO_);
}
// Now test compatability (basically summing)
trans.Compatable(match);
// Determine intersection
if (!trans.intersects(match)) {
string msg = "Input Cubes do not overlap!";
throw Isis::iException::Message(Isis::iException::User,msg,_FILEINFO_);
}
// Get overlapping regions of each cube
HiJitCube::Corners fcorns, mcorns;
trans.overlap(match, fcorns);
match.overlap(trans, mcorns);
#if defined(ISIS_DEBUG)
cout << "FROM Poly: " << trans.PolyToString() << std::endl;
cout << "MATCH Poly: " << match.PolyToString() << std::endl;
cout << "From Overlap: (" << fcorns.topLeft.sample << ","
<< fcorns.topLeft.line << "), ("
<< fcorns.lowerRight.sample << ","
<< fcorns.lowerRight.line << ")\n" ;
cout << "Match Overlap: (" << mcorns.topLeft.sample << ","
<< mcorns.topLeft.line << "), ("
<< mcorns.lowerRight.sample << ","
<< mcorns.lowerRight.line << ")\n" ;
#endif
// We need to get a user definition of how to auto correlate around each
// of the grid points.
Pvl regdef;
Filename regFile(ui.GetFilename("REGDEF"));
regdef.Read(regFile.Expanded());
AutoReg *ar = AutoRegFactory::Create(regdef);
double flines(fcorns.lowerRight.line - fcorns.topLeft.line + 1.0);
double fsamps(fcorns.lowerRight.sample - fcorns.topLeft.sample + 1.0);
// We want to create a grid of control points that is N rows by M columns.
// Get row and column variables, if not entered, default to 1% of the input
// image size
int rows(1), cols(1);
if (ui.WasEntered("ROWS")) {
rows = ui.GetInteger("ROWS");
}
else {
rows = (int)(((flines - 1.0) / ar->SearchChip()->Lines()) + 1);
}
cols = ui.GetInteger("COLUMNS");
if (cols == 0) {
cols = (int)(((fsamps - 1.0) / ar->SearchChip()->Samples()) + 1);
}
// Calculate spacing for the grid of points
double lSpacing = floor(flines / rows);
double sSpacing = floor(fsamps / cols);
#if defined(ISIS_DEBUG)
cout << "# Samples in Overlap: " << fsamps << endl;
cout << "# Lines in Overlap : " << flines << endl;
cout << "# Rows: " << rows << endl;
cout << "# Columns: " << cols << endl;
cout << "Line Spacing: " << lSpacing << endl;
cout << "Sample Spacing: " << sSpacing << endl;
#endif
// Display the progress...10% 20% etc.
Progress prog;
prog.SetMaximumSteps(rows * cols);
prog.CheckStatus();
// Initialize control point network
ControlNet cn;
cn.SetType(ControlNet::ImageToImage);
cn.SetUserName(Application::UserName());
cn.SetCreatedDate(iTime::CurrentLocalTime());
// Get serial numbers for input cubes
string transSN = SerialNumber::Compose(trans, true);
string matchSN = SerialNumber::Compose(match, true);
cn.SetTarget(transSN);
cn.SetDescription("Records s/c jitter between two adjacent HiRISE images");
// Set up results parameter saves
JitterParms jparms;
jparms.fromCorns = fcorns;
jparms.fromJit = trans.GetInfo();
jparms.matchCorns = mcorns;
jparms.matchJit = match.GetInfo();
jparms.regFile = regFile.Expanded();
jparms.cols = cols;
jparms.rows = rows;
jparms.lSpacing = lSpacing;
jparms.sSpacing = sSpacing;
jparms.nSuspects = 0;
// Loop through grid of points and get statistics to compute
// translation values
RegList reglist;
double fline0(fcorns.topLeft.line-1.0), fsamp0(fcorns.topLeft.sample-1.0);
double mline0(mcorns.topLeft.line-1.0), msamp0(mcorns.topLeft.sample-1.0);
for (int r=0; r<rows; r++) {
int line = (int)(lSpacing / 2.0 + lSpacing * r + 0.5);
for (int c=0; c<cols; c++) {
int samp = (int)(sSpacing / 2.0 + sSpacing * c + 0.5);
ar->PatternChip()->TackCube(msamp0+samp, mline0+line);
ar->PatternChip()->Load(match);
ar->SearchChip()->TackCube(fsamp0+samp, fline0+line);
ar->SearchChip()->Load(trans);
// Set up ControlMeasure for cube to translate
ControlMeasure cmTrans;
cmTrans.SetCubeSerialNumber(transSN);
cmTrans.SetCoordinate(msamp0+samp, mline0+line,
ControlMeasure::Unmeasured);
cmTrans.SetChooserName("hijitreg");
cmTrans.SetReference(false);
// Set up ControlMeasure for the pattern/Match cube
ControlMeasure cmMatch;
cmMatch.SetCubeSerialNumber(matchSN);
cmMatch.SetCoordinate(fsamp0+samp, fline0+line,
ControlMeasure::Automatic);
cmMatch.SetChooserName("hijitreg");
cmMatch.SetReference(true);
// Match found
if (ar->Register()==AutoReg::Success) {
RegData reg;
reg.fLine = fline0 + line;
reg.fSamp = fsamp0 + samp;
reg.fLTime = trans.getLineTime(reg.fLine);
reg.mLine = mline0 + line;
reg.mSamp = msamp0 + samp;
reg.mLTime = match.getLineTime(reg.mLine);
reg.regLine = ar->CubeLine();
reg.regSamp = ar->CubeSample();
reg.regCorr = ar->GoodnessOfFit();
if (fabs(reg.regCorr) > 1.0) jparms.nSuspects++;
double sDiff = reg.fSamp - reg.regSamp;
double lDiff = reg.fLine - reg.regLine;
jparms.sStats.AddData(&sDiff,(unsigned int)1);
jparms.lStats.AddData(&lDiff,(unsigned int)1);
// Record the translation in the control point
cmTrans.SetCoordinate(ar->CubeSample(), ar->CubeLine(),
ControlMeasure::Automatic);
cmTrans.SetError(sDiff, lDiff);
cmTrans.SetGoodnessOfFit(ar->GoodnessOfFit());
// Reread the chip location centering the offset and compute
// linear regression statistics
try {
Chip &pchip(*ar->PatternChip());
Chip fchip(pchip.Samples(), pchip.Lines());
fchip.TackCube(ar->CubeSample(), ar->CubeLine());
fchip.Load(trans);
// Writes correlated chips to files for visual inspection
#if defined(ISIS_DEBUG)
ostringstream tstr;
tstr << "R" << r << "C" << c << "_chip.cub";
string fcname("from" + tstr.str());
string mcname("match" + tstr.str());
pchip.Write(mcname);
fchip.Write(fcname);
#endif
MultivariateStatistics mstats;
for (int line = 1 ; line <= fchip.Lines() ; line++) {
for(int sample = 1; sample < fchip.Samples(); sample++) {
double fchipValue = fchip.GetValue(sample,line);
double pchipValue = pchip.GetValue(sample,line);
mstats.AddData(&fchipValue, &pchipValue, 1);
}
}
// Get regression and correlation values
mstats.LinearRegression(reg.B0, reg.B1);
reg.Bcorr = mstats.Correlation();
if (IsSpecial(reg.B0)) throw 1;
if (IsSpecial(reg.B1)) throw 2;
if (IsSpecial(reg.Bcorr)) throw 3;
}
catch (...) {
// If fails, flag this condition
reg.B0 = 0.0;
reg.B1= 0.0;
reg.Bcorr = 0.0;
}
reglist.push_back(reg);
}
// Add the measures to a control point
string str = "Row " + iString(r) + " Column " + iString(c);
ControlPoint cp(str);
cp.SetType(ControlPoint::Tie);
cp.Add(cmTrans);
cp.Add(cmMatch);
if (!cmTrans.IsMeasured()) cp.SetIgnore(true);
cn.Add(cp);
prog.CheckStatus();
}
}
// If flatfile was entered, create the flatfile
// The flatfile is comma seperated and can be imported into an excel
// spreadsheet
if (ui.WasEntered("FLATFILE")) {
string fFile = ui.GetFilename("FLATFILE");
ofstream os;
string fFileExpanded = Filename(fFile).Expanded();
os.open(fFileExpanded.c_str(),ios::out);
dumpResults(os, reglist, jparms, *ar);
}
// If a cnet file was entered, write the ControlNet pvl to the file
if (ui.WasEntered("CNETFILE")) {
cn.Write(ui.GetFilename("CNETFILE"));
}
// Don't need the cubes opened anymore
trans.Close();
match.Close();
// Write translation to log
PvlGroup results("AverageTranslation");
if (jparms.sStats.ValidPixels() > 0) {
double sTrans = (int)(jparms.sStats.Average() * 100.0) / 100.0;
double lTrans = (int)(jparms.lStats.Average() * 100.0) / 100.0;
results += PvlKeyword ("Sample",sTrans);
results += PvlKeyword ("Line",lTrans);
results += PvlKeyword ("NSuspects",jparms.nSuspects);
}
else {
results += PvlKeyword ("Sample","NULL");
results += PvlKeyword ("Line","NULL");
}
Application::Log(results);
// add the auto registration information to print.prt
PvlGroup autoRegTemplate = ar->RegTemplate();
Application::Log(autoRegTemplate);
return;
}
/**
* FindCnetRef traverses all the control points and measures in the network and checks for
* valid Measure which passes the Emission Incidence Angle, DN value tests and chooses the
* measure with the best Resolution criteria as the reference. Creates a new control network
* with these adjustments.
*
* @author Sharmila Prasad (5/25/2010)
* @history 2010-10-04 Sharmila Prasad - Modified for Binary CNet (Edit Lock)
*
* @param pNewNet - Modified output Control Net
*
*/
void CnetRefByResolution::FindCnetRef(ControlNet &pNewNet) {
// Process each existing control point in the network
int iPointsModified = 0;
int iMeasuresModified = 0;
int iRefChanged = 0;
//Status Report
mStatus.SetText("Choosing Reference by Resolution...");
mStatus.SetMaximumSteps(pNewNet.GetNumPoints());
mStatus.CheckStatus();
//mPvlLog += GetStdOptions();
for (int point = 0; point < pNewNet.GetNumPoints(); ++point) {
ControlPoint *newPnt = pNewNet.GetPoint(point);
bool bError = false;
// Create a copy of original control point
const ControlPoint origPnt(*newPnt);
mdResVector.clear();
// Logging
PvlObject pvlPointObj("PointDetails");
pvlPointObj += Isis::PvlKeyword("PointId", newPnt->GetId());
// Edit Lock Option
bool bPntEditLock = newPnt->IsEditLocked();
if (!bPntEditLock) {
newPnt->SetDateTime(Application::DateTime());
}
else {
pvlPointObj += Isis::PvlKeyword("Reference", "No Change, PointEditLock");
}
int iNumMeasuresLocked = newPnt->GetNumLockedMeasures();
bool bRefLocked = newPnt->GetRefMeasure()->IsEditLocked();
int numMeasures = newPnt->GetNumMeasures();
int iRefIndex = -1;
if (newPnt->IsReferenceExplicit())
iRefIndex = newPnt->IndexOfRefMeasure();
QString istrTemp;
std::vector <PvlGroup> pvlGrpVector;
int iBestIndex = 0;
// Only perform the interest operation on points of type "Free" and
// Points having atleast 1 measure and Point is not Ignored
// Check for EditLock in the Measures and also verfify that
// only a Reference Measure can be Locked else error
if (!newPnt->IsIgnored() && newPnt->GetType() == ControlPoint::Free && numMeasures > 0 &&
(iNumMeasuresLocked == 0 || (iNumMeasuresLocked > 0 && bRefLocked))) {
int iNumIgnore = 0;
QString istrTemp;
for (int measure = 0; measure < newPnt->GetNumMeasures(); ++measure) {
ControlMeasure *newMsr = newPnt->GetMeasure(measure);
bool bMeasureLocked = newMsr->IsEditLocked();
double dSample = newMsr->GetSample();
double dLine = newMsr->GetLine();
QString sn = newMsr->GetCubeSerialNumber();
if (!bPntEditLock && !bMeasureLocked) {
newMsr->SetDateTime(Application::DateTime());
newMsr->SetChooserName("Application cnetref(Resolution)");
}
// Log
PvlGroup pvlMeasureGrp("MeasureDetails");
pvlMeasureGrp += Isis::PvlKeyword("SerialNum", sn);
pvlMeasureGrp += Isis::PvlKeyword("OriginalLocation", LocationString(dSample, dLine));
if (bMeasureLocked)
pvlMeasureGrp += Isis::PvlKeyword("EditLock", "True");
if (!newMsr->IsIgnored()) {
Cube *measureCube = mCubeMgr.OpenCube(mSerialNumbers.FileName(sn));
MeasureValidationResults results =
ValidStandardOptions(newMsr, measureCube, &pvlMeasureGrp);
if (!results.isValid()) {
if (bPntEditLock) {
pvlMeasureGrp += Isis::PvlKeyword("UnIgnored", "Failed Validation Test but not Ignored as Point EditLock is True");
}
else if (bMeasureLocked) {
pvlMeasureGrp += Isis::PvlKeyword("UnIgnored", "Failed Validation Test but not Ignored as Measure EditLock is True");
}
else {
pvlMeasureGrp += Isis::PvlKeyword("Ignored", "Failed Validation Test");
newMsr->SetIgnored(true);
iNumIgnore++;
}
} // valid measure
else {
if (!bPntEditLock && !bRefLocked) {
newMsr->SetType(ControlMeasure::Candidate);
newMsr->SetIgnored(false);
mdResVector.push_back(mdResolution);
}
}
} // Ignore == false
else {
pvlMeasureGrp += Isis::PvlKeyword("Ignored", "Originally Ignored");
iNumIgnore++;
}
if (newMsr != origPnt.GetMeasure(measure)) {
iMeasuresModified++;
}
//newPnt.UpdateMeasure(newMsr); // Redesign fixed this
pvlGrpVector.push_back(pvlMeasureGrp);
}// end Measure
if ((newPnt->GetNumMeasures() - iNumIgnore) < 2) {
if (bPntEditLock) {
pvlPointObj += Isis::PvlKeyword("UnIgnored", "Good Measures less than 2 but not Ignored as Point EditLock is True");
}
else {
newPnt->SetIgnored(true);
pvlPointObj += Isis::PvlKeyword("Ignored", "Good Measures less than 2");
}
}
// Set the Reference if the Point is unlocked and Reference measure is unlocked
if (!newPnt->IsIgnored() && !bPntEditLock && !bRefLocked) {
iBestIndex = GetReferenceByResolution(newPnt);
if (iBestIndex >= 0 && !newPnt->GetMeasure(iBestIndex)->IsIgnored()) {
newPnt->SetRefMeasure(iBestIndex);
//newPnt.UpdateMeasure(cm); // Redesign fixed this
pvlGrpVector[iBestIndex] += Isis::PvlKeyword("Reference", "true");
}
else {
if (iBestIndex < 0 && meType == Range) {
pvlPointObj += Isis::PvlKeyword("NOTE", "No Valid Measures within the Resolution Range. Reference defaulted to the first Measure");
}
iBestIndex = 0;
newPnt->SetRefMeasure(iBestIndex);
//newPnt.UpdateMeasure(cm); // Redesign fixed this
// Log info, if Point not locked, apriori source == Reference and a new reference
if (iRefIndex != iBestIndex &&
newPnt->GetAprioriSurfacePointSource() == ControlPoint::SurfacePointSource::Reference) {
pvlGrpVector[iBestIndex] += Isis::PvlKeyword("AprioriSource", "Reference is the source and has changed");
}
}
}
for (int i = 0; i < newPnt->GetNumMeasures(); i++) {
pvlPointObj += pvlGrpVector[i];
}
} // end Free
else {
int iComment = 0;
if (numMeasures == 0) {
QString sComment = "Comment";
sComment += QString(++iComment);
pvlPointObj += Isis::PvlKeyword(sComment, "No Measures in the Point");
}
if (newPnt->IsIgnored()) {
QString sComment = "Comment";
sComment += QString(++iComment);
pvlPointObj += Isis::PvlKeyword(sComment, "Point was originally Ignored");
}
if (newPnt->GetType() == ControlPoint::Fixed) {
QString sComment = "Comment";
sComment += QString(++iComment);
pvlPointObj += Isis::PvlKeyword(sComment, "Fixed Point");
}
else if (newPnt->GetType() == ControlPoint::Constrained) {
QString sComment = "Comment";
sComment += QString(++iComment);
pvlPointObj += Isis::PvlKeyword(sComment, "Constrained Point");
}
if (iNumMeasuresLocked > 0 && !bRefLocked) {
pvlPointObj += Isis::PvlKeyword("Error", "Point has a Measure with EditLock set to true "
"but the Reference is not Locked");
bError = true;
}
else {
for (int measure = 0; measure < newPnt->GetNumMeasures(); measure++) {
ControlMeasure *cm = newPnt->GetMeasure(iBestIndex);
cm->SetDateTime(Application::DateTime());
cm->SetChooserName("Application cnetref(Resolution)");
//newPnt.UpdateMeasure(cm); // Redesign fixed this
}
}
}
if (*newPnt != origPnt) {
iPointsModified++;
}
if (!bError && !newPnt->IsIgnored() && newPnt->IsReferenceExplicit() && iBestIndex != iRefIndex
&& !bPntEditLock && !bRefLocked) {
iRefChanged++;
PvlGroup pvlRefChangeGrp("ReferenceChangeDetails");
if (iRefIndex >= 0) {
pvlRefChangeGrp += Isis::PvlKeyword("PrevSerialNumber",
origPnt.GetMeasure(iRefIndex)->GetCubeSerialNumber());
pvlRefChangeGrp += Isis::PvlKeyword("PrevResolution", toString(mdResVector[iRefIndex]));
istrTemp = QString((int)origPnt.GetMeasure(iRefIndex)->GetSample());
istrTemp += ",";
istrTemp += QString((int)origPnt.GetMeasure(iRefIndex)->GetLine());
pvlRefChangeGrp += Isis::PvlKeyword("PrevLocation", istrTemp);
}
else {
pvlRefChangeGrp += Isis::PvlKeyword("PrevReference", "Not Set");
}
pvlRefChangeGrp += Isis::PvlKeyword("NewSerialNumber",
newPnt->GetMeasure(iBestIndex)->GetCubeSerialNumber());
QString sKeyName = "NewHighestResolution";
if (meType == Low) {
sKeyName = "NewLeastResolution";
}
else if (meType == Mean) {
pvlRefChangeGrp += Isis::PvlKeyword("MeanResolution", toString(GetMeanResolution()));
sKeyName = "NewResolutionNeartoMean";
}
else if (meType == Nearest) {
sKeyName = "NewResolutionNeartoValue";
}
else if (meType == Range) {
sKeyName = "NewResolutionInRange";
}
pvlRefChangeGrp += Isis::PvlKeyword(sKeyName, toString(mdResVector[iBestIndex]));
istrTemp = QString((int)newPnt->GetMeasure(iBestIndex)->GetSample());
istrTemp += ",";
istrTemp += QString((int)newPnt->GetMeasure(iBestIndex)->GetLine());
pvlRefChangeGrp += Isis::PvlKeyword("NewLocation", istrTemp);
pvlPointObj += pvlRefChangeGrp;
}
else {
pvlPointObj += Isis::PvlKeyword("Reference", "No Change");
}
//pNewNet.UpdatePoint(newPnt); // Redesign fixed this
mPvlLog += pvlPointObj;
mStatus.CheckStatus();
}// end Point
// CnetRef Change Statistics
mStatisticsGrp += Isis::PvlKeyword("PointsModified", toString(iPointsModified));
mStatisticsGrp += Isis::PvlKeyword("ReferenceChanged", toString(iRefChanged));
mStatisticsGrp += Isis::PvlKeyword("MeasuresModified", toString(iMeasuresModified));
mPvlLog += mStatisticsGrp;
}
void IsisMain() {
UserInterface &ui = Application::GetUserInterface();
FileList addList(ui.GetFileName("ADDLIST"));
bool log = false;
FileName logFile;
if (ui.WasEntered("LOG")) {
log = true;
logFile = ui.GetFileName("LOG");
}
Pvl results;
results.setName("cnetadd_Results");
PvlKeyword added("FilesAdded");
PvlKeyword omitted("FilesOmitted");
PvlKeyword pointsModified("PointsModified");
bool checkMeasureValidity = ui.WasEntered("DEFFILE");
ControlNetValidMeasure validator;
if (checkMeasureValidity) {
Pvl deffile(ui.GetFileName("DEFFILE"));
validator = ControlNetValidMeasure(deffile);
}
SerialNumberList *fromSerials = ui.WasEntered("FROMLIST") ?
new SerialNumberList(ui.GetFileName("FROMLIST")) : new SerialNumberList();
ControlNet inNet = ControlNet(ui.GetFileName("CNET"));
inNet.SetUserName(Application::UserName());
inNet.SetModifiedDate(iTime::CurrentLocalTime()); //This should be done in ControlNet's Write fn
QString retrievalOpt = ui.GetString("RETRIEVAL");
PvlKeyword duplicates("DupSerialNumbers");
if (retrievalOpt == "REFERENCE") {
FileList list1(ui.GetFileName("FROMLIST"));
SerialNumberList addSerials(ui.GetFileName("ADDLIST"));
//Check for duplicate files in the lists by serial number
for (int i = 0; i < addSerials.Size(); i++) {
// Check for duplicate SNs accross the lists
if (fromSerials->HasSerialNumber(addSerials.SerialNumber(i))) {
duplicates.addValue(addSerials.FileName(i));
}
// Check for duplicate SNs within the addlist
for (int j = i + 1; j < addSerials.Size(); j++) {
if (addSerials.SerialNumber(i) == addSerials.SerialNumber(j)) {
QString msg = "Add list files [" + addSerials.FileName(i) + "] and [";
msg += addSerials.FileName(j) + "] share the same serial number.";
throw IException(IException::User, msg, _FILEINFO_);
}
}
}
// Get the lat/long coords from the existing reference measure
setControlPointLatLon(*fromSerials, inNet);
}
else {
for (int cp = 0; cp < inNet.GetNumPoints(); cp++) {
// Get the surface point from the current control point
ControlPoint *point = inNet.GetPoint(cp);
SurfacePoint surfacePoint = point->GetBestSurfacePoint();
if (!surfacePoint.Valid()) {
QString msg = "Unable to retreive lat/lon from Control Point [";
msg += point->GetId() + "]. RETREIVAL=POINT cannot be used unless ";
msg += "all Control Points have Latitude/Longitude keywords.";
throw IException(IException::User, msg, _FILEINFO_);
}
g_surfacePoints[point->GetId()] = surfacePoint;
}
}
FileName outNetFile(ui.GetFileName("ONET"));
Progress progress;
progress.SetText("Adding Images");
progress.SetMaximumSteps(addList.size());
progress.CheckStatus();
STRtree coordTree;
QList<ControlPoint *> pointList;
bool usePolygon = ui.GetBoolean("POLYGON");
if (usePolygon) {
for (int cp = 0; cp < inNet.GetNumPoints(); cp++) {
ControlPoint *point = inNet.GetPoint(cp);
SurfacePoint surfacePoint = g_surfacePoints[point->GetId()];
Longitude lon = surfacePoint.GetLongitude();
Latitude lat = surfacePoint.GetLatitude();
Coordinate *coord = new Coordinate(lon.degrees(), lat.degrees());
Envelope *envelope = new Envelope(*coord);
coordTree.insert(envelope, point);
}
}
else {
for (int cp = 0; cp < inNet.GetNumPoints(); cp++) {
pointList.append(inNet.GetPoint(cp));
}
}
// Loop through all the images
for (int img = 0; img < addList.size(); img++) {
Cube cube;
cube.open(addList[img].toString());
Pvl *cubepvl = cube.label();
QString sn = SerialNumber::Compose(*cubepvl);
Camera *cam = cube.camera();
// Loop through all the control points
QList<ControlPoint *> validPoints = usePolygon ?
getValidPoints(cube, coordTree) : pointList;
bool imageAdded = false;
for (int cp = 0; cp < validPoints.size(); cp++) {
ControlPoint *point = validPoints[cp];
// If the point is locked and Apriori source is "AverageOfMeasures"
// then do not add the measures.
if (point->IsEditLocked() &&
point->GetAprioriSurfacePointSource() ==
ControlPoint::SurfacePointSource::AverageOfMeasures) {
continue;
}
if (point->HasSerialNumber(sn)) continue;
// Only use the surface point's latitude and longitude, rely on the DEM
// for computing the radius. We do this because otherwise we will receive
// inconsistent results from successive runs of this program if the
// different DEMs are used, or the point X, Y, Z was generated from the
// ellipsoid.
SurfacePoint surfacePoint = g_surfacePoints[point->GetId()];
if (cam->SetGround(
surfacePoint.GetLatitude(), surfacePoint.GetLongitude())) {
// Make sure the samp & line are inside the image
if (cam->InCube()) {
ControlMeasure *newCm = new ControlMeasure();
newCm->SetCoordinate(cam->Sample(), cam->Line(), ControlMeasure::Candidate);
newCm->SetAprioriSample(cam->Sample());
newCm->SetAprioriLine(cam->Line());
newCm->SetCubeSerialNumber(sn);
newCm->SetDateTime();
newCm->SetChooserName("Application cnetadd");
// Check the measure for DEFFILE validity
if (checkMeasureValidity) {
if (!validator.ValidEmissionAngle(cam->EmissionAngle())) {
//TODO: log that it was Emission Angle that failed the check
newCm->SetIgnored(true);
}
else if (!validator.ValidIncidenceAngle(cam->IncidenceAngle())) {
//TODO: log that it was Incidence Angle that failed the check
newCm->SetIgnored(true);
}
else if (!validator.ValidResolution(cam->resolution())) {
//TODO: log that it was Resolution that failed the check
newCm->SetIgnored(true);
}
else if (!validator.PixelsFromEdge((int)cam->Sample(), (int)cam->Line(), &cube)) {
//TODO: log that it was Pixels from Edge that failed the check
newCm->SetIgnored(true);
}
else {
Portal portal(1, 1, cube.pixelType());
portal.SetPosition(cam->Sample(), cam->Line(), 1);
cube.read(portal);
if (!validator.ValidDnValue(portal[0])) {
//TODO: log that it was DN that failed the check
newCm->SetIgnored(true);
}
}
}
point->Add(newCm); // Point takes ownership
// Record the modified Point and Measure
g_modifications[point->GetId()].insert(newCm->GetCubeSerialNumber());
newCm = NULL; // Do not delete because the point has ownership
if (retrievalOpt == "POINT" && point->GetNumMeasures() == 1)
point->SetIgnored(false);
imageAdded = true;
}
}
}
cubepvl = NULL;
cam = NULL;
if (log) {
PvlKeyword &logKeyword = (imageAdded) ? added : omitted;
logKeyword.addValue(addList[img].baseName());
}
progress.CheckStatus();
}
if (log) {
// Add the list of modified points to the output log file
QList<QString> modifiedPointsList = g_modifications.keys();
for (int i = 0; i < modifiedPointsList.size(); i++)
pointsModified += modifiedPointsList[i];
results.addKeyword(added);
results.addKeyword(omitted);
results.addKeyword(pointsModified);
if (duplicates.size() > 0) {
results.addKeyword(duplicates);
}
results.write(logFile.expanded());
}
// List the modified points
if (ui.WasEntered("MODIFIEDPOINTS")) {
FileName pointList(ui.GetFileName("MODIFIEDPOINTS"));
// Set up the output file for writing
std::ofstream out_stream;
out_stream.open(pointList.expanded().toAscii().data(), std::ios::out);
out_stream.seekp(0, std::ios::beg); //Start writing from beginning of file
QList<QString> modifiedPointsList = g_modifications.keys();
for (int i = 0; i < modifiedPointsList.size(); i++)
out_stream << modifiedPointsList[i].toStdString() << std::endl;
out_stream.close();
}
// Modify the inNet to only have modified points/measures
if (ui.GetString("EXTRACT") == "MODIFIED") {
for (int cp = inNet.GetNumPoints() - 1; cp >= 0; cp--) {
ControlPoint *point = inNet.GetPoint(cp);
// If the point was not modified, delete
// Even get rid of edit locked points in this case
if (!g_modifications.contains(point->GetId())) {
point->SetEditLock(false);
inNet.DeletePoint(cp);
}
// Else, remove the unwanted measures from the modified point
else {
for (int cm = point->GetNumMeasures() - 1; cm >= 0; cm--) {
ControlMeasure *measure = point->GetMeasure(cm);
// Even get rid of edit locked measures in this case
if (point->GetRefMeasure() != measure &&
!g_modifications[point->GetId()].contains(
measure->GetCubeSerialNumber())) {
measure->SetEditLock(false);
point->Delete(cm);
}
}
}
}
}
// Generate the TOLIST if wanted
if (ui.WasEntered("TOLIST")) {
SerialNumberList toList;
SerialNumberList addSerials(ui.GetFileName("ADDLIST"));
const QList<QString> snList = inNet.GetCubeSerials();
for (int i = 0; i < snList.size(); i++) {
QString sn = snList[i];
if (addSerials.HasSerialNumber(sn))
toList.Add(addSerials.FileName(sn));
else if (fromSerials->HasSerialNumber(sn))
toList.Add(fromSerials->FileName(sn));
}
IString name(ui.GetFileName("TOLIST"));
std::fstream out_stream;
out_stream.open(name.c_str(), std::ios::out);
out_stream.seekp(0, std::ios::beg); //Start writing from beginning of file
for (int f = 0; f < (int) toList.Size(); f++)
out_stream << toList.FileName(f) << std::endl;
out_stream.close();
}
inNet.Write(outNetFile.expanded());
delete fromSerials;
}
void IsisMain() {
// Get user interface
UserInterface &ui = Application::GetUserInterface();
bool register_ignored = ui.GetBoolean("REGISTERIGNOREDONLY");
// Open the files list in a SerialNumberList for
// reference by SerialNumber
SerialNumberList files(ui.GetFilename("FILES"));
// Create a ControlNet from the input file
ControlNet inNet(ui.GetFilename("CNET"));
// Create an AutoReg from the template file
Pvl pvl(ui.GetFilename("TEMPLATE"));
AutoReg *ar = AutoRegFactory::Create(pvl);
// Create the output ControlNet
ControlNet outNet;
outNet.SetType(inNet.Type());
outNet.SetUserName(Application::UserName());
outNet.SetDescription(inNet.Description());
outNet.SetCreatedDate(iTime::CurrentLocalTime());
outNet.SetTarget(inNet.Target());
outNet.SetNetworkId(inNet.NetworkId());
Progress progress;
progress.SetMaximumSteps(inNet.Size());
progress.CheckStatus();
int ignored=0, unmeasured=0, registered=0, unregistered=0, validated=0;
CubeManager cubeMgr;
cubeMgr.SetNumOpenCubes(50);
// Register the points and create a new
// ControlNet containing the refined measurements
for (int i=0; i<inNet.Size(); i++) {
ControlPoint &inPoint = inNet[i];
ControlPoint outPoint;
outPoint.SetType(inPoint.Type());
outPoint.SetId(inPoint.Id());
outPoint.SetUniversalGround(inPoint.UniversalLatitude(), inPoint.UniversalLongitude(), inPoint.Radius());
outPoint.SetHeld(inPoint.Held());
outPoint.SetIgnore(inPoint.Ignore());
// CHECK TO SEE IF THE CONTROL POINT SHOULD BE REGISTERED
// "Ignore" point and we are not registering ignored
if (inPoint.Ignore() && !register_ignored){
ignored++;
// add "Ignored" to network only if indicated
if (ui.GetBoolean("OUTPUTIGNORED")) {
// only include appropriate control measures
for (int j = 0; j < inPoint.Size(); j++) {
if (inPoint[j].IsMeasured()){
outPoint.Add(inPoint[j]);
}
else{
unmeasured++;
if (ui.GetBoolean("OUTPUTUNMEASURED")){
outPoint.Add(inPoint[j]);
}
}
}
// only add this point if OUTPUTIGNORED
outNet.Add(outPoint);
}
// go to next control point
continue;
}
// Not "Ignore" point (i.e. "valid") and we are only registering "Ignored"
else if (!inPoint.Ignore() && register_ignored) {
// add all "valid" points to network
// only include appropriate control measures
for (int j = 0; j < inPoint.Size(); j++) {
if (inPoint[j].IsMeasured()){
outPoint.Add(inPoint[j]);
}
else{
unmeasured++;
if (ui.GetBoolean("OUTPUTUNMEASURED")) {
outPoint.Add(inPoint[j]);
}
}
}
// add this point since it is not ignored
outNet.Add(outPoint);
// go to next control point
continue;
}
// "Ignore" point or "valid" point to be registered
else { // if ( (inPoint.Ignore() && register_ignored) || (!inPoint.Ignore() && !register_ignored ) ) {
if (inPoint.Ignore()) { outPoint.SetIgnore(false); }
ControlMeasure &patternCM = inPoint[inPoint.ReferenceIndex()];
Cube &patternCube = *cubeMgr.OpenCube(files.Filename(patternCM.CubeSerialNumber()));
ar->PatternChip()->TackCube(patternCM.Sample(), patternCM.Line());
ar->PatternChip()->Load(patternCube);
if (patternCM.IsValidated()) validated++;
if (!patternCM.IsMeasured()) continue;
if(!patternCM.IsReference()) {
patternCM.SetReference(true);
patternCM.SetChooserName("Application pointreg");
patternCM.SetDateTime();
}
outPoint.Add(patternCM);
// reset goodMeasureCount for this point before looping measures
int goodMeasureCount = 0;
// Register all the unvalidated measurements
for (int j = 0; j < inPoint.Size(); j++) {
// don't register the reference, go to next measure
if (j == inPoint.ReferenceIndex()){
if (!inPoint[j].Ignore()) goodMeasureCount++;
continue;
}
// if the measurement is valid, keep it as is and go to next measure
if (inPoint[j].IsValidated()) {
validated++;
outPoint.Add(inPoint[j]);
if (!inPoint[j].Ignore()) goodMeasureCount++;
continue;
}
// if the point is unmeasured, add to output only if necessary and go to next measure
if (!inPoint[j].IsMeasured()) {
unmeasured++;
if (ui.GetBoolean("OUTPUTUNMEASURED")) {
outPoint.Add(inPoint[j]);
}
continue;
}
ControlMeasure searchCM = inPoint[j];
// refresh pattern cube pointer to ensure it stays valid
Cube &patternCube = *cubeMgr.OpenCube(files.Filename(patternCM.CubeSerialNumber()));
Cube &searchCube = *cubeMgr.OpenCube(files.Filename(searchCM.CubeSerialNumber()));
ar->SearchChip()->TackCube(searchCM.Sample(), searchCM.Line());
try {
ar->SearchChip()->Load(searchCube,*(ar->PatternChip()),patternCube);
// If the measurements were correctly registered
// Write them to the new ControlNet
AutoReg::RegisterStatus res = ar->Register();
double score1, score2;
ar->ZScores(score1, score2);
searchCM.SetZScores(score1, score2);
if(res == AutoReg::Success) {
registered++;
searchCM.SetType(ControlMeasure::Automatic);
searchCM.SetError(searchCM.Sample() - ar->CubeSample(), searchCM.Line() - ar->CubeLine());
searchCM.SetCoordinate(ar->CubeSample(),ar->CubeLine());
searchCM.SetGoodnessOfFit(ar->GoodnessOfFit());
searchCM.SetChooserName("Application pointreg");
searchCM.SetDateTime();
searchCM.SetIgnore(false);
outPoint.Add(searchCM);
goodMeasureCount++;
}
// Else use the original marked as "Estimated"
else {
unregistered++;
searchCM.SetType(ControlMeasure::Estimated);
if(res == AutoReg::FitChipToleranceNotMet) {
searchCM.SetError(inPoint[j].Sample() - ar->CubeSample(), inPoint[j].Line() - ar->CubeLine());
searchCM.SetGoodnessOfFit(ar->GoodnessOfFit());
}
searchCM.SetChooserName("Application pointreg");
searchCM.SetDateTime();
searchCM.SetIgnore(true);
outPoint.Add(searchCM);
}
} catch (iException &e) {
e.Clear();
unregistered++;
searchCM.SetType(ControlMeasure::Estimated);
searchCM.SetChooserName("Application pointreg");
searchCM.SetDateTime();
searchCM.SetIgnore(true);
outPoint.Add(searchCM);
}
}
// Jeff Anderson put in this test (Dec 2, 2008) to allow for control
// points to be good so long as at least two measure could be
// registered. When a measure can't be registered to the reference then
// that measure is set to be ignored where in the past the whole point
// was ignored
if (goodMeasureCount < 2) {
if (!outPoint.Held() && outPoint.Type() != ControlPoint::Ground) {
outPoint.SetIgnore(true);
}
}
// Otherwise, ignore=false. This is already set at the beginning of the registration process
// Check to see if the control point has now been assigned
// to "ignore". If not, add it to the network. If so, only
// add it to the output if the OUTPUTIGNORED parameter is selected
// 2008-11-14 Jeannie Walldren
if (!outPoint.Ignore()) {
outNet.Add(outPoint);
}
else{
ignored++;
if (ui.GetBoolean("OUTPUTIGNORED")) outNet.Add(outPoint);
}
}
progress.CheckStatus();
}
// If flatfile was entered, create the flatfile
// The flatfile is comma seperated and can be imported into an excel
// spreadsheet
if (ui.WasEntered("FLATFILE")) {
string fFile = Filename(ui.GetFilename("FLATFILE")).Expanded();
ofstream os;
os.open(fFile.c_str(),ios::out);
os << "PointId,OriginalMeasurementSample,OriginalMeasurementLine," <<
"RegisteredMeasurementSample,RegisteredMeasurementLine,SampleDifference," <<
"LineDifference,ZScoreMin,ZScoreMax,GoodnessOfFit" << endl;
os << NULL8 << endl;
for (int i=0; i<outNet.Size(); i++) {
// get point from output control net and its
// corresponding point from input control net
ControlPoint outPoint = outNet[i];
ControlPoint *inPoint = inNet.Find(outPoint.Id());
if (outPoint.Ignore()) continue;
for (int i = 0; i<outPoint.Size();i++) {
// get measure and find its corresponding measure from input net
ControlMeasure cmTrans = outPoint[i];
ControlMeasure cmOrig = (*inPoint)[cmTrans.CubeSerialNumber()];
double inSamp = cmOrig.Sample();
double inLine = cmOrig.Line();
double outSamp = cmTrans.Sample();
double outLine = cmTrans.Line();
double sampErr = cmTrans.SampleError();
double lineErr = cmTrans.LineError();
double zScoreMin = cmTrans.GetZScoreMin();
if (fabs(zScoreMin) <= DBL_EPSILON || zScoreMin == NULL8) zScoreMin = 0;
double zScoreMax = cmTrans.GetZScoreMax();
if (fabs(zScoreMax) <= DBL_EPSILON || zScoreMax == NULL8) zScoreMax = 0;
double goodnessOfFit = cmTrans.GoodnessOfFit();
if (fabs(goodnessOfFit) <= DBL_EPSILON || goodnessOfFit == NULL8) goodnessOfFit = 0;
string pointId = outPoint.Id();
os << pointId << "," << inSamp << ","
<< inLine << "," << outSamp << ","
<< outLine << "," << sampErr << ","
<< lineErr << "," << zScoreMin << ","
<< zScoreMax << "," << goodnessOfFit << endl;
}
}
}
PvlGroup pLog("Points");
pLog+=PvlKeyword("Ignored", ignored);
Application::Log(pLog);
PvlGroup mLog("Measures");
mLog+=PvlKeyword("Validated", validated);
mLog+=PvlKeyword("Registered", registered);
mLog+=PvlKeyword("Unregistered", unregistered);
mLog+=PvlKeyword("Unmeasured", unmeasured);
Application::Log(mLog);
// Log Registration Statistics
Pvl arPvl = ar->RegistrationStatistics();
for(int i = 0; i < arPvl.Groups(); i++) {
Application::Log(arPvl.Group(i));
}
// add the auto registration information to print.prt
PvlGroup autoRegTemplate = ar->RegTemplate();
Application::Log(autoRegTemplate);
outNet.Write(ui.GetFilename("TO"));
delete ar;
}
