/**
* Calculates the lat/lon of the ControlNet.
*
* @param incubes The filename of the list of cubes in the ControlNet
* @param cnet The filename of the ControlNet
*/
void setControlPointLatLon(SerialNumberList &snl, ControlNet &cnet) {
CubeManager manager;
manager.SetNumOpenCubes(50); //Should keep memory usage to around 1GB
Progress progress;
progress.SetText("Calculating Lat/Lon");
progress.SetMaximumSteps(cnet.GetNumPoints());
progress.CheckStatus();
for (int cp = 0; cp < cnet.GetNumPoints(); cp++) {
ControlPoint *point = cnet.GetPoint(cp);
ControlMeasure *cm = point->GetRefMeasure();
Cube *cube = manager.OpenCube(snl.FileName(cm->GetCubeSerialNumber()));
try {
cube->camera()->SetImage(cm->GetSample(), cm->GetLine());
g_surfacePoints[point->GetId()] = cube->camera()->GetSurfacePoint();
}
catch (IException &e) {
QString msg = "Unable to create camera for cube file [";
msg += snl.FileName(cm->GetCubeSerialNumber()) + "]";
throw IException(e, IException::Unknown, msg, _FILEINFO_);
}
cube = NULL; //Do not delete, manager still has ownership
progress.CheckStatus();
}
manager.CleanCubes();
}
/**
* This method performs pass1 on one image. It analyzes each framelet's
* statistics and populates the necessary global variable.
*
* @param progress Progress message
* @param theCube Current cube that needs processing
*
* @return bool True if the file contains a valid framelet
*/
bool CheckFramelets(string progress, Cube &theCube) {
bool foundValidFramelet = false;
LineManager mgr(theCube);
Progress prog;
prog.SetText(progress);
prog.SetMaximumSteps(theCube.Lines());
prog.CheckStatus();
vector<double> frameletAvgs;
// We need to store off the framelet information, because if no good
// framelets were found then no data should be added to the
// global variable for framelets, just files.
vector< pair<int,double> > excludedFrameletsTmp;
Statistics frameletStats;
for(int line = 1; line <= theCube.Lines(); line++) {
if((line-1) % numFrameLines == 0) {
frameletStats.Reset();
}
mgr.SetLine(line);
theCube.Read(mgr);
frameletStats.AddData(mgr.DoubleBuffer(), mgr.size());
if((line-1) % numFrameLines == numFrameLines-1) {
if(IsSpecial(frameletStats.StandardDeviation()) ||
frameletStats.StandardDeviation() > maxStdev) {
excludedFrameletsTmp.push_back(
pair<int,double>((line-1)/numFrameLines, frameletStats.StandardDeviation())
);
}
else {
foundValidFramelet = true;
}
frameletAvgs.push_back(frameletStats.Average());
}
prog.CheckStatus();
}
inputFrameletAverages.push_back(frameletAvgs);
if(foundValidFramelet) {
for(unsigned int i = 0; i < excludedFrameletsTmp.size(); i++) {
excludedFramelets.insert(pair< pair<int,int>, double>(
pair<int,int>(currImage, excludedFrameletsTmp[i].first),
excludedFrameletsTmp[i].second
)
);
}
}
return foundValidFramelet;
}
/**
* Finds and writes all input cubes contained within the given Control Network
* to the output file list
*
* @param cnet The Control Network to list the filenames contained within
* @param sn2file The map for converting the Control Network's serial numbers
* to filenames
*/
void WriteCubeOutList( ControlNet cnet, map<iString,iString> sn2file ) {
UserInterface &ui = Application::GetUserInterface();
if( ui.WasEntered("TOLIST") ) {
Progress p;
p.SetText("Writing Cube List");
try {
p.SetMaximumSteps(cnet.Size());
p.CheckStatus();
} catch( iException &e ) {
e.Clear();
string msg = "The provided filters have resulted in an empty Control Network.";
throw Isis::iException::Message(Isis::iException::User,msg, _FILEINFO_);
}
set<iString> outputsn;
for( int cp = 0; cp < cnet.Size(); cp ++ ) {
for( int cm = 0; cm < cnet[cp].Size(); cm ++ ) {
outputsn.insert( cnet[cp][cm].CubeSerialNumber() );
}
p.CheckStatus();
}
std::string toList = ui.GetFilename("TOLIST");
ofstream out_stream;
out_stream.open(toList.c_str(), std::ios::out);
out_stream.seekp(0,std::ios::beg); //Start writing from beginning of file
for( set<iString>::iterator sn = outputsn.begin(); sn != outputsn.end(); sn ++ ) {
if( !sn2file[(*sn)].empty() ) {
out_stream << sn2file[(*sn)] << endl;
}
}
out_stream.close();
}
}
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;
}
void IsisMain() {
UserInterface &ui = Application::GetUserInterface();
Cube cube;
cube.open(ui.GetFileName("FROM"), "rw");
// Make sure cube has been run through spiceinit
try {
cube.camera();
}
catch(IException &e) {
string msg = "Spiceinit must be run before initializing the polygon";
throw IException(e, IException::User, msg, _FILEINFO_);
}
Progress prog;
prog.SetMaximumSteps(1);
prog.CheckStatus();
QString sn = SerialNumber::Compose(cube);
ImagePolygon poly;
if(ui.WasEntered("MAXEMISSION")) {
poly.Emission(ui.GetDouble("MAXEMISSION"));
}
if(ui.WasEntered("MAXINCIDENCE")) {
poly.Incidence(ui.GetDouble("MAXINCIDENCE"));
}
if(ui.GetString("LIMBTEST") == "ELLIPSOID") {
poly.EllipsoidLimb(true);
}
int sinc = 1;
int linc = 1;
IString incType = ui.GetString("INCTYPE");
if(incType.UpCase() == "VERTICES") {
poly.initCube(cube);
sinc = linc = (int)(0.5 + (((poly.validSampleDim() * 2) +
(poly.validLineDim() * 2) - 3.0) /
ui.GetInteger("NUMVERTICES")));
if (sinc < 1.0 || linc < 1.0)
sinc = linc = 1.0;
}
else if (incType.UpCase() == "LINCSINC"){
sinc = ui.GetInteger("SINC");
linc = ui.GetInteger("LINC");
}
else {
string msg = "Invalid INCTYPE option[" + incType + "]";
throw IException(IException::Programmer, msg, _FILEINFO_);
}
bool precision = ui.GetBoolean("INCREASEPRECISION");
try {
poly.Create(cube, sinc, linc, 1, 1, 0, 0, 1, precision);
}
catch (IException &e) {
QString msg = "Cannot generate polygon for [" + ui.GetFileName("FROM") + "]";
throw IException(e, IException::User, msg, _FILEINFO_);
}
if(ui.GetBoolean("TESTXY")) {
Pvl cubeLab(ui.GetFileName("FROM"));
PvlGroup inst = cubeLab.findGroup("Instrument", Pvl::Traverse);
QString target = inst["TargetName"];
PvlGroup radii = Projection::TargetRadii(target);
Pvl map(ui.GetFileName("MAP"));
PvlGroup &mapping = map.findGroup("MAPPING");
if(!mapping.hasKeyword("TargetName"))
mapping += Isis::PvlKeyword("TargetName", target);
if(!mapping.hasKeyword("EquatorialRadius"))
mapping += Isis::PvlKeyword("EquatorialRadius", (QString)radii["EquatorialRadius"]);
if(!mapping.hasKeyword("PolarRadius"))
mapping += Isis::PvlKeyword("PolarRadius", (QString)radii["PolarRadius"]);
if(!mapping.hasKeyword("LatitudeType"))
mapping += Isis::PvlKeyword("LatitudeType", "Planetocentric");
if(!mapping.hasKeyword("LongitudeDirection"))
mapping += Isis::PvlKeyword("LongitudeDirection", "PositiveEast");
if(!mapping.hasKeyword("LongitudeDomain"))
mapping += Isis::PvlKeyword("LongitudeDomain", "360");
if(!mapping.hasKeyword("CenterLatitude"))
mapping += Isis::PvlKeyword("CenterLatitude", "0");
if(!mapping.hasKeyword("CenterLongitude"))
mapping += Isis::PvlKeyword("CenterLongitude", "0");
sinc = poly.getSinc();
linc = poly.getLinc();
bool polygonGenerated = false;
while (!polygonGenerated) {
Projection *proj = NULL;
geos::geom::MultiPolygon *xyPoly = NULL;
try {
proj = ProjectionFactory::Create(map, true);
xyPoly = PolygonTools::LatLonToXY(*poly.Polys(), proj);
polygonGenerated = true;
}
catch (IException &e) {
if (precision && sinc > 1 && linc > 1) {
sinc = sinc * 2 / 3;
linc = linc * 2 / 3;
poly.Create(cube, sinc, linc);
}
else {
delete proj;
delete xyPoly;
e.print(); // This should be a NAIF error
QString msg = "Cannot calculate XY for [";
msg += ui.GetFileName("FROM") + "]";
throw IException(e, IException::User, msg, _FILEINFO_);
}
}
delete proj;
delete xyPoly;
}
}
cube.deleteBlob("Polygon", sn);
cube.write(poly);
if(precision) {
PvlGroup results("Results");
results.addKeyword(PvlKeyword("SINC", toString(sinc)));
results.addKeyword(PvlKeyword("LINC", toString(linc)));
Application::Log(results);
}
Process p;
p.SetInputCube("FROM");
p.WriteHistory(cube);
cube.close();
prog.CheckStatus();
}
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();
// Get necessary variables from the user
double latStart = ui.GetDouble("STARTLAT");
double lonStart = ui.GetDouble("STARTLON");
double latEnd = ui.GetDouble("ENDLAT");
double lonEnd = ui.GetDouble("ENDLON");
double latSpacing = ui.GetDouble("LATSPACING");
double lonSpacing = ui.GetDouble("LONSPACING");
double latInc = ui.GetDouble("LATINCREMENT");
double lonInc = ui.GetDouble("LONINCREMENT");
// Get mapfile, add values for range and create projection
QString mapFile = ui.GetFileName("MAPFILE");
Pvl p(mapFile);
PvlGroup &mapping = p.findGroup("Mapping", Pvl::Traverse);
if(mapping.hasKeyword("MinimumLatitude")) {
mapping.deleteKeyword("MinimumLatitude");
}
if(mapping.hasKeyword("MaximumLatitude")) {
mapping.deleteKeyword("MaximumLatitude");
}
if(mapping.hasKeyword("MinimumLongitude")) {
mapping.deleteKeyword("MinimumLongitude");
}
if(mapping.hasKeyword("MaximumLongitude")) {
mapping.deleteKeyword("MaximumLongitude");
}
mapping += PvlKeyword("MinimumLatitude", toString(latStart));
mapping += PvlKeyword("MaximumLatitude", toString(latEnd));
mapping += PvlKeyword("MinimumLongitude", toString(lonStart));
mapping += PvlKeyword("MaximumLongitude", toString(lonEnd));
TProjection *proj;
try {
proj = (TProjection *) ProjectionFactory::Create(p);
}
catch(IException &e) {
QString msg = "Cannot create grid - MapFile [" + mapFile +
"] does not contain necessary information to create a projection";
throw IException(e, IException::User, msg, _FILEINFO_);
}
// Write grid to well known text output
QString out = FileName(ui.GetFileName("TO")).expanded();
std::ofstream os;
os.open(out.toAscii().data(), std::ios::out);
// Display the progress...10% 20% etc.
Progress prog;
int steps = (int)(abs((latEnd - latStart) / latSpacing) +
abs((lonEnd - lonStart) / lonSpacing) + 0.5) + 3;
prog.SetMaximumSteps(steps);
prog.CheckStatus();
/**
* Initialize document. GML is XML-based, so we need the necessary XML headers. These
* are necessary for the GML file to be recognized.
*/
os << "<?xml version=\"1.0\" encoding=\"utf-8\" ?>" << endl;
os << "<ogr:FeatureCollection " << endl <<
"xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\"" << endl <<
"xsi:schemaLocation=\"http://org.maptools.org/\"" << endl <<
"xmlns:ogr=\"http://org.maptools.org/\"" << endl <<
"xmlns:gml=\"http://www.opengis.net/gml\">" << endl;
/**
* Draw the interior longitude lines by looping through the longitude
* range and drawing across each latitude line using the longitude increment. The first
* and last line will be skipped for now.
*/
for(double j = lonStart + lonSpacing; j < lonEnd; j += lonSpacing) {
StartNewLine(os);
for(double k = latStart; k <= latEnd; k += lonInc) {
proj->SetGround(k, j);
AddPointToLine(os, proj->XCoord(), proj->YCoord());
}
EndLine(os);
prog.CheckStatus();
}
/**
* Draw the exterior longitude boundary lines. This happens by drawing just the first and
* last longitude lines.
*/
for(double r = lonStart; r <= lonEnd; r += (lonEnd - lonStart)) {
StartNewLine(os);
for(double s = latStart; s <= latEnd; s += lonInc) {
proj->SetGround(s, r);
AddPointToLine(os, proj->XCoord(), proj->YCoord());
}
EndLine(os);
prog.CheckStatus();
}
/**
* Draw the interior latitude lines by looping through the latitude
* range and drawing across each longitude line using the latitude increment. The first
* and last line will be skipped for now.
*/
for(double i = latStart + latSpacing; i < latEnd; i += latSpacing) {
// Get Latitude Line
StartNewLine(os);
for(double l = lonStart; l <= lonEnd; l += latInc) {
proj->SetGround(i, l);
AddPointToLine(os, proj->XCoord(), proj->YCoord());
}
EndLine(os);
prog.CheckStatus();
}
/**
* Draw the exterior latitude boundary lines. This happens by drawing just the first and
* last longitude lines.
*/
for(double m = latStart; m <= latEnd; m += (latEnd - latStart)) {
StartNewLine(os);
for(double n = lonStart; n <= lonEnd; n += latInc) {
proj->SetGround(m, n);
AddPointToLine(os, proj->XCoord(), proj->YCoord());
}
EndLine(os);
prog.CheckStatus();
}
/**
* Draw the bounding box using a series of lines.
*/
if(ui.GetBoolean("BOUNDED")) {
double minX, maxX, minY, maxY;
proj->XYRange(minX, maxX, minY, maxY);
StartNewLine(os);
AddPointToLine(os, minX, minY);
AddPointToLine(os, minX, maxY);
EndLine(os);
StartNewLine(os);
AddPointToLine(os, minX, maxY);
AddPointToLine(os, maxX, maxY);
EndLine(os);
StartNewLine(os);
AddPointToLine(os, maxX, minY);
AddPointToLine(os, maxX, maxY);
EndLine(os);
StartNewLine(os);
AddPointToLine(os, minX, minY);
AddPointToLine(os, maxX, minY);
EndLine(os);
}
os << "</ogr:FeatureCollection>" << endl;
// add mapping to print.prt
PvlGroup projMapping = proj->Mapping();
Application::Log(projMapping);
}
/**
* Constructs an OverlapStatistics object. Compares the two input cubes and
* finds where they overlap.
*
* @param x The first input cube
* @param y The second input cube
* @param progressMsg (Default value of "Gathering Overlap Statistics") Text
* for indicating progress during statistic gathering
* @param sampPercent (Default value of 100.0) Sampling percent, or the percentage
* of lines to consider during the statistic gathering procedure
*
* @throws Isis::iException::User - All images must have the same number of
* bands
*/
OverlapStatistics::OverlapStatistics(Isis::Cube &x, Isis::Cube &y,
std::string progressMsg, double sampPercent) {
// Test to ensure sampling percent in bound
if (sampPercent <= 0.0 || sampPercent > 100.0) {
string msg = "The sampling percent must be a decimal (0.0, 100.0]";
throw iException::Message(iException::Programmer,msg,_FILEINFO_);
}
p_sampPercent = sampPercent;
// Extract filenames and band number from cubes
p_xFile = x.Filename();
p_yFile = y.Filename();
// Make sure number of bands match
if (x.Bands() != y.Bands()) {
string msg = "Number of bands do not match between cubes [" +
p_xFile.Name() + "] and [" + p_yFile.Name() + "]";
throw iException::Message(iException::User,msg,_FILEINFO_);
}
p_bands = x.Bands();
p_stats.resize(p_bands);
//Create projection from each cube
Projection *projX = x.Projection();
Projection *projY = y.Projection();
// Test to make sure projection parameters match
if (*projX != *projY) {
string msg = "Mapping groups do not match between cubes [" +
p_xFile.Name() + "] and [" + p_yFile.Name() + "]";
throw iException::Message(iException::Programmer,msg,_FILEINFO_);
}
// Figure out the x/y range for both images to find the overlap
double Xmin1 = projX->ToProjectionX(0.5);
double Ymax1 = projX->ToProjectionY(0.5);
double Xmax1 = projX->ToProjectionX(x.Samples()+0.5);
double Ymin1 = projX->ToProjectionY(x.Lines()+0.5);
double Xmin2 = projY->ToProjectionX(0.5);
double Ymax2 = projY->ToProjectionY(0.5);
double Xmax2 = projY->ToProjectionX(y.Samples()+0.5);
double Ymin2 = projY->ToProjectionY(y.Lines()+0.5);
// Find overlap
if ((Xmin1<Xmax2) && (Xmax1>Xmin2) && (Ymin1<Ymax2) && (Ymax1>Ymin2)) {
double minX = Xmin1 > Xmin2 ? Xmin1 : Xmin2;
double minY = Ymin1 > Ymin2 ? Ymin1 : Ymin2;
double maxX = Xmax1 < Xmax2 ? Xmax1 : Xmax2;
double maxY = Ymax1 < Ymax2 ? Ymax1 : Ymax2;
// Find Sample range of the overlap
p_minSampX = (int)(projX->ToWorldX(minX) + 0.5);
p_maxSampX = (int)(projX->ToWorldX(maxX) + 0.5);
p_minSampY = (int)(projY->ToWorldX(minX) + 0.5);
p_maxSampY = (int)(projY->ToWorldX(maxX) + 0.5);
p_sampRange = p_maxSampX - p_minSampX + 1;
// Test to see if there was only sub-pixel overlap
if (p_sampRange <= 0) return;
// Find Line range of overlap
p_minLineX = (int)(projX->ToWorldY(maxY) + 0.5);
p_maxLineX = (int)(projX->ToWorldY(minY) + 0.5);
p_minLineY = (int)(projY->ToWorldY(maxY) + 0.5);
p_maxLineY = (int)(projY->ToWorldY(minY) + 0.5);
p_lineRange = p_maxLineX - p_minLineX + 1;
// Print percent processed
Progress progress;
progress.SetText(progressMsg);
int linc = (int)(100.0 / sampPercent + 0.5); // Calculate our line increment
// Define the maximum number of steps to be our line range divided by the
// line increment, but if they do not divide evenly, then because of
// rounding, we need to do an additional step for each band
int maxSteps = (int)(p_lineRange / linc + 0.5);
if (p_lineRange % linc != 0) maxSteps += 1;
maxSteps *= p_bands;
progress.SetMaximumSteps(maxSteps);
progress.CheckStatus();
// Collect and store off the overlap statistics
for (int band=1; band<=p_bands; band++) {
Brick b1(p_sampRange,1,1,x.PixelType());
Brick b2(p_sampRange,1,1,y.PixelType());
int i=0;
while (i<p_lineRange) {
b1.SetBasePosition(p_minSampX,(i+p_minLineX),band);
b2.SetBasePosition(p_minSampY,(i+p_minLineY),band);
x.Read(b1);
y.Read(b2);
p_stats[band-1].AddData(b1.DoubleBuffer(), b2.DoubleBuffer(), p_sampRange);
// Make sure we consider the last line
if (i+linc > p_lineRange-1 && i != p_lineRange-1) {
i = p_lineRange-1;
progress.AddSteps(1);
}
else i+=linc; // Increment the current line by our incrementer
progress.CheckStatus();
}
}
}
}
void IsisMain(){
Process p;
// Reset all the stats objects because they are global
latStat.Reset();
lonStat.Reset();
resStat.Reset();
sampleResStat.Reset();
lineResStat.Reset();
aspectRatioStat.Reset();
phaseStat.Reset();
emissionStat.Reset();
incidenceStat.Reset();
localSolarTimeStat.Reset();
localRaduisStat.Reset();
northAzimuthStat.Reset();
UserInterface &ui = Application::GetUserInterface();
Cube *icube = p.SetInputCube("FROM");
Camera *cam = icube->Camera();
// Cube cube;
// cube.Open(ui.GetFilename("FROM"));
// Camera *cam = cube.Camera();
int eband = cam->Bands();
// if the camera is band independent that only run one band
if (cam->IsBandIndependent()) eband = 1;
int linc = ui.GetInteger("LINC");
int sinc = ui.GetInteger("SINC");
int pTotal = eband * ((cam->Lines()-2) / linc + 2) ;
Progress progress;
progress.SetMaximumSteps(pTotal);
progress.CheckStatus();
for (int band=1; band<=eband; band++) {
cam->SetBand(band);
for (int line=1; line<(int)cam->Lines(); line=line+linc) {
for (int sample=1; sample< cam->Samples(); sample=sample+sinc) {
buildStats(cam, sample, line);
}
//set the sample value to the last sample and run buildstats
int sample = cam->Samples();
buildStats(cam, sample, line);
progress.CheckStatus();
}
//set the line value to the last line and run on all samples(sample + sinc)
int line = cam->Lines();
for (int sample=1; sample< cam->Samples(); sample=sample+sinc) {
buildStats(cam, sample, line);
}
//set last sample and run with last line
int sample = cam->Samples();
buildStats(cam, sample, line);
progress.CheckStatus();
}
//Set up the Pvl groups and get min, max, avg, and sd for each statstics object
PvlGroup pUser("User Parameters");
pUser += PvlKeyword("Filename",ui.GetFilename("FROM"));
pUser += PvlKeyword("Linc",ui.GetInteger("LINC"));
pUser += PvlKeyword("Sinc",ui.GetInteger("SINC"));
PvlGroup pLat("Latitude");
pLat += ValidateKey("LatitudeMinimum",latStat.Minimum());
pLat += ValidateKey("LatitudeMaximum",latStat.Maximum());
pLat += ValidateKey("LatitudeAverage",latStat.Average());
pLat += ValidateKey("LatitudeStandardDeviation",latStat.StandardDeviation());
PvlGroup pLon("Longitude");
pLon += ValidateKey("LongitudeMinimum",lonStat.Minimum());
pLon += ValidateKey("LongitudeMaximum",lonStat.Maximum());
pLon += ValidateKey("LongitudeAverage",lonStat.Average());
pLon += ValidateKey("LongitudeStandardDeviation",lonStat.StandardDeviation());
PvlGroup pSampleRes("SampleResolution");
pSampleRes += ValidateKey("SampleResolutionMinimum",sampleResStat.Minimum(),
"meters/pixel");
pSampleRes += ValidateKey("SampleResolutionMaximum",sampleResStat.Maximum(),
"meters/pixel");
pSampleRes += ValidateKey("SampleResolutionAverage",sampleResStat.Average(),
"meters/pixel");
pSampleRes += ValidateKey("SampleResolutionStandardDeviation",
sampleResStat.StandardDeviation(),"meters/pixel");
PvlGroup pLineRes("LineResolution");
pLineRes += ValidateKey("LineResolutionMinimum",lineResStat.Minimum(),
"meters/pixel");
pLineRes += ValidateKey("LineResolutionMaximum",lineResStat.Maximum(),
"meters/pixel");
pLineRes += ValidateKey("LineResolutionAverage",lineResStat.Average(),
"meters/pixel");
pLineRes += ValidateKey("LineResolutionStandardDeviation",
lineResStat.StandardDeviation(),"meters/pixel");
PvlGroup pResolution("Resolution");
pResolution += ValidateKey("ResolutionMinimum",resStat.Minimum(),
"meters/pixel");
pResolution += ValidateKey("ResolutionMaximum",resStat.Maximum(),
"meters/pixel");
pResolution += ValidateKey("ResolutionAverage",resStat.Average(),
"meters/pixel");
pResolution += ValidateKey("ResolutionStandardDeviation",
resStat.StandardDeviation(),"meters/pixel");
PvlGroup pAspectRatio("AspectRatio");
pAspectRatio += ValidateKey("AspectRatioMinimum",aspectRatioStat.Minimum());
pAspectRatio += ValidateKey("AspectRatioMaximun",aspectRatioStat.Maximum());
pAspectRatio += ValidateKey("AspectRatioAverage",aspectRatioStat.Average());
pAspectRatio += ValidateKey("AspectRatioStandardDeviation",
aspectRatioStat.StandardDeviation());
PvlGroup pPhase("PhaseAngle");
pPhase += ValidateKey("PhaseMinimum",phaseStat.Minimum());
pPhase += ValidateKey("PhaseMaximum",phaseStat.Maximum());
pPhase += ValidateKey("PhaseAverage",phaseStat.Average());
pPhase += ValidateKey("PhaseStandardDeviation",phaseStat.StandardDeviation());
PvlGroup pEmission("EmissionAngle");
pEmission += ValidateKey("EmissionMinimum",emissionStat.Minimum());
pEmission += ValidateKey("EmissionMaximum",emissionStat.Maximum());
pEmission += ValidateKey("EmissionAverage",emissionStat.Average());
pEmission += ValidateKey("EmissionStandardDeviation",
emissionStat.StandardDeviation());
PvlGroup pIncidence("IncidenceAngle");
pIncidence += ValidateKey("IncidenceMinimum",incidenceStat.Minimum());
pIncidence += ValidateKey("IncidenceMaximum",incidenceStat.Maximum());
pIncidence += ValidateKey("IncidenceAverage",incidenceStat.Average());
pIncidence += ValidateKey("IncidenceStandardDeviation",
incidenceStat.StandardDeviation());
PvlGroup pTime("LocalSolarTime");
pTime += ValidateKey("LocalSolarTimeMinimum",localSolarTimeStat.Minimum(),
"hours");
pTime += ValidateKey("LocalSolarTimeMaximum",localSolarTimeStat.Maximum(),
"hours");
pTime += ValidateKey("LocalSolarTimeAverage",localSolarTimeStat.Average(),
"hours");
pTime += ValidateKey("LocalSolarTimeStandardDeviation",
localSolarTimeStat.StandardDeviation(),"hours");
PvlGroup pLocalRadius("LocalRadius");
pLocalRadius += ValidateKey("LocalRadiusMinimum",localRaduisStat.Minimum());
pLocalRadius += ValidateKey("LocalRadiusMaximum",localRaduisStat.Maximum());
pLocalRadius += ValidateKey("LocalRadiusAverage",localRaduisStat.Average());
pLocalRadius += ValidateKey("LocalRadiusStandardDeviation",
localRaduisStat.StandardDeviation());
PvlGroup pNorthAzimuth("NorthAzimuth");
pNorthAzimuth += ValidateKey("NorthAzimuthMinimum",northAzimuthStat.Minimum());
pNorthAzimuth += ValidateKey("NorthAzimuthMaximum",northAzimuthStat.Maximum());
pNorthAzimuth += ValidateKey("NorthAzimuthAverage",northAzimuthStat.Average());
pNorthAzimuth += ValidateKey("NorthAzimuthStandardDeviation",
northAzimuthStat.StandardDeviation());
// Send the Output to the log area
Application::Log(pUser);
Application::Log(pLat);
Application::Log(pLon);
Application::Log(pSampleRes);
Application::Log(pLineRes);
Application::Log(pResolution);
Application::Log(pAspectRatio);
Application::Log(pPhase);
Application::Log(pEmission);
Application::Log(pIncidence);
Application::Log(pTime);
Application::Log(pLocalRadius);
Application::Log(pNorthAzimuth);
if (ui.WasEntered("TO")) {
string from = ui.GetFilename("FROM");
string outfile = Filename(ui.GetFilename("TO")).Expanded();
bool exists = Filename(outfile).Exists();
bool append = ui.GetBoolean("APPEND");
//If the user chooses a fromat of PVL then write to the output file ("TO")
if (ui.GetString("FORMAT") == "PVL") {
Pvl temp;
temp.SetTerminator("");
temp.AddGroup(pUser);
temp.AddGroup(pLat);
temp.AddGroup(pLon);
temp.AddGroup(pSampleRes);
temp.AddGroup(pLineRes);
temp.AddGroup(pResolution);
temp.AddGroup(pAspectRatio);
temp.AddGroup(pPhase);
temp.AddGroup(pEmission);
temp.AddGroup(pIncidence);
temp.AddGroup(pTime);
temp.AddGroup(pLocalRadius);
temp.AddGroup(pNorthAzimuth);
if (append) {
temp.Append(outfile);
}
else {
temp.Write(outfile);
}
}
//Create a flatfile of the data with columhn headings
// the flatfile is comma delimited and can be imported in to spreadsheets
else {
ofstream os;
bool writeHeader = true;
if (append) {
os.open(outfile.c_str(),ios::app);
if (exists) {
writeHeader = false;
}
}
else {
os.open(outfile.c_str(),ios::out);
}
// if new file or append and no file exists then write header
if(writeHeader){
os << "Filename,"<<
"LatitudeMinimum,"<<
"LatitudeMaximum,"<<
"LatitudeAverage,"<<
"LatitudeStandardDeviation,"<<
"LongitudeMinimum,"<<
"LongitudeMaximum,"<<
"LongitudeAverage,"<<
"LongitudeStandardDeviation,"<<
"SampleResolutionMinimum,"<<
"SampleResolutionMaximum,"<<
"SampleResolutionAverage,"<<
"SampleResolutionStandardDeviation,"<<
"LineResolutionMinimum,"<<
"LineResolutionMaximum,"<<
"LineResolutionAverage,"<<
"LineResolutionStandardDeviation,"<<
"ResolutionMinimum,"<<
"ResolutionMaximum,"<<
"ResolutionAverage,"<<
"ResolutionStandardDeviation,"<<
"AspectRatioMinimum,"<<
"AspectRatioMaximum,"<<
"AspectRatioAverage,"<<
"AspectRatioStandardDeviation,"<<
"PhaseMinimum,"<<
"PhaseMaximum,"<<
"PhaseAverage,"<<
"PhaseStandardDeviation,"<<
"EmissionMinimum,"<<
"EmissionMaximum,"<<
"EmissionAverage,"<<
"EmissionStandardDeviation,"<<
"IncidenceMinimum,"<<
"IncidenceMaximum,"<<
"IncidenceAverage,"<<
"IncidenceStandardDeviation,"<<
"LocalSolarTimeMinimum,"<<
"LocalSolarTimeMaximum,"<<
"LocalSolarTimeAverage,"<<
"LocalSolarTimeStandardDeviation,"<<
"LocalRadiusMaximum,"<<
"LocalRadiusMaximum,"<<
"LocalRadiusAverage,"<<
"LocalRadiusStandardDeviation,"<<
"NorthAzimuthMinimum,"<<
"NorthAzimuthMaximum,"<<
"NorthAzimuthAverage,"<<
"NorthAzimuthStandardDeviation,"<<endl;
}
os << Filename(from).Expanded() <<",";
//call the function to write out the values for each group
writeFlat(os, latStat);
writeFlat(os, lonStat);
writeFlat(os, sampleResStat);
writeFlat(os, lineResStat);
writeFlat(os, resStat);
writeFlat(os, aspectRatioStat);
writeFlat(os, phaseStat);
writeFlat(os, emissionStat);
writeFlat(os, incidenceStat);
writeFlat(os, localSolarTimeStat);
writeFlat(os, localRaduisStat);
writeFlat(os, northAzimuthStat);
os << endl;
}
}
if( ui.GetBoolean("ATTACH") ) {
string cam_name = "CameraStatistics";
//Creates new CameraStatistics Table
TableField fname( "Name", Isis::TableField::Text, 20 );
TableField fmin( "Minimum", Isis::TableField::Double );
TableField fmax( "Maximum", Isis::TableField::Double );
TableField favg( "Average", Isis::TableField::Double );
TableField fstd( "StandardDeviation", Isis::TableField::Double );
TableRecord record;
record += fname;
record += fmin;
record += fmax;
record += favg;
record += fstd;
Table table( cam_name, record );
vector<PvlGroup> grps;
grps.push_back( pLat );
grps.push_back( pLon );
grps.push_back( pSampleRes );
grps.push_back( pLineRes );
grps.push_back( pResolution );
grps.push_back( pAspectRatio );
grps.push_back( pPhase );
grps.push_back( pEmission );
grps.push_back( pIncidence );
grps.push_back( pTime );
grps.push_back( pLocalRadius );
grps.push_back( pNorthAzimuth );
for( vector<PvlGroup>::iterator g = grps.begin(); g != grps.end(); g++ ) {
int i = 0;
record[i++] = g->Name();
record[i++] = (double) (*g)[0][0];
record[i++] = (double) (*g)[1][0];
record[i++] = (double) (*g)[2][0];
record[i++] = (double) (*g)[3][0];
table += record;
}
icube->ReOpen( "rw" );
icube->Write( table );
p.WriteHistory(*icube);
icube->Close();
}
}
/**
* This is the main method. Makeflat runs in three steps:
*
* 1) Calculate statistics
* - For all cameras, this checks for one band and matching
* sample counts.
* - For framing cameras, this checks the standard deviation of
* the images and records the averages of each image
* - For push frame cameras, this calls CheckFramelets for each
* image.
*
* 2) Create the temporary file, collect more detailed statistics
* - For all cameras, this generates the temporary file and calculates
* the final exclusion list
* - For framing/push frame cameras, the temporary file is
* 2 bands, where the first is a sum of DNs from each image/framelet
* and the second band is a count of valid DNs that went into each sum
*
* 3) Create the final flat field file
* - For all cameras, this processes the temporary file to create the final flat
* field file.
*/
void IsisMain() {
// Initialize variables
ResetGlobals();
UserInterface &ui = Application::GetUserInterface();
maxStdev = ui.GetDouble("STDEVTOL");
if(ui.GetString("IMAGETYPE") == "FRAMING") {
cameraType = Framing;
// framing cameras need to figure this out automatically
// during step 1
numFrameLines = -1;
}
else if(ui.GetString("IMAGETYPE") == "LINESCAN") {
cameraType = LineScan;
numFrameLines = ui.GetInteger("NUMLINES");
}
else {
cameraType = PushFrame;
numFrameLines = ui.GetInteger("FRAMELETHEIGHT");
}
FileList inList(ui.GetFilename("FROMLIST"));
Progress progress;
tempFileLength = 0;
numOutputSamples = 0;
/**
* Line scan progress is based on the input list, whereas
* the other cameras take much longer and are based on the
* images themselves. Prepare the progress if we're doing
* line scan.
*/
if(cameraType == LineScan) {
progress.SetText("Calculating Number of Image Lines");
progress.SetMaximumSteps(inList.size());
progress.CheckStatus();
}
/**
* For a push frame camera, the temp file is one framelet.
* Technically this is the same for the framing, but we
* don't know the height of a framelet yet.
*/
if(cameraType == PushFrame) {
tempFileLength = numFrameLines;
}
/**
* Start pass 1, use global currImage so that methods called
* know the image we're processing.
*/
for(currImage = 0; currImage < inList.size(); currImage++) {
/**
* Read the current cube into memory
*/
Cube tmp;
tmp.Open(Filename(inList[currImage]).Expanded());
/**
* If we haven't determined how many samples the output
* should have, we can do so now
*/
if(numOutputSamples == 0 && tmp.Bands() == 1) {
numOutputSamples = tmp.Samples();
}
/**
* Try and validate the image, quick tests first!
*
* (imageValid &= means imageValid = imageValid && ...)
*/
bool imageValid = true;
// Only single band images are acceptable
imageValid &= (tmp.Bands() == 1);
// Sample sizes must always match
imageValid &= (numOutputSamples == tmp.Samples());
// For push frame cameras, there must be valid all framelets
if(cameraType == PushFrame) {
imageValid &= (tmp.Lines() % numFrameLines == 0);
}
// For framing cameras, we need to figure out the size...
// setTempFileLength is used to revert if the file
// is decided to be invalid
bool setTempFileLength = false;
if(cameraType == Framing) {
if(tempFileLength == 0 && imageValid) {
tempFileLength = tmp.Lines();
numFrameLines = tempFileLength;
setTempFileLength = true;
}
imageValid &= (tempFileLength == tmp.Lines());
}
// Statistics are necessary at this point for push frame and framing cameras
// because the framing camera standard deviation tolerance is based on
// entire images, and push frame framelet exclusion stats can not be collected
// during pass 2 cleanly
if((cameraType == Framing || cameraType == PushFrame) && imageValid) {
string prog = "Calculating Standard Deviation " + iString((int)currImage+1) + "/";
prog += iString((int)inList.size()) + " (" + Filename(inList[currImage]).Name() + ")";
if(cameraType == Framing) {
Statistics *stats = tmp.Statistics(1, prog);
imageValid &= !IsSpecial(stats->StandardDeviation());
imageValid &= !IsSpecial(stats->Average());
imageValid &= stats->StandardDeviation() <= maxStdev;
vector<double> fileStats;
fileStats.push_back(stats->Average());
inputFrameletAverages.push_back(fileStats);
delete stats;
}
else if(cameraType == PushFrame) {
imageValid &= CheckFramelets(prog, tmp);
}
if(setTempFileLength && !imageValid) {
tempFileLength = 0;
}
}
// The line scan camera needs to actually count the number of lines in each image to know
// how many total frames there are before beginning pass 2.
if(imageValid && (cameraType == LineScan)) {
int lines = (tmp.Lines() / numFrameLines);
// partial frame?
if(tmp.Lines() % numFrameLines != 0) {
lines ++;
}
tempFileLength += lines;
}
else if(!imageValid) {
excludedFiles.insert(pair<int, bool>(currImage, true));
}
tmp.Close();
if(cameraType == LineScan) {
progress.CheckStatus();
}
}
/**
* If the number of output samples could not be determined, we never
* found a legitimate cube.
*/
if(numOutputSamples <= 0) {
string msg = "No valid input cubes were found";
throw iException::Message(iException::User,msg,_FILEINFO_);
}
/**
* If theres no temp file length, which is based off of valid data in
* the input cubes, then we havent found any valid data.
*/
if(tempFileLength <= 0) {
string msg = "No valid input data was found";
throw iException::Message(iException::User,msg,_FILEINFO_);
}
/**
* ocube is now the temporary file (for pass 2).
*/
ocube = new Cube();
ocube->SetDimensions(numOutputSamples, tempFileLength, 2);
PvlGroup &prefs = Preference::Preferences().FindGroup("DataDirectory", Pvl::Traverse);
iString outTmpName = (string)prefs["Temporary"][0] + "/";
outTmpName += Filename(ui.GetFilename("TO")).Basename() + ".tmp.cub";
ocube->Create(outTmpName);
oLineMgr = new LineManager(*ocube);
oLineMgr->SetLine(1);
ProcessByBrick p;
int excludedCnt = 0;
if(cameraType == LineScan) {
outputTmpAverages.resize(numOutputSamples);
outputTmpCounts.resize(numOutputSamples);
numInputDns.resize(numOutputSamples);
}
cubeInitialized = false;
for(currImage = 0; currImage < inList.size(); currImage++) {
if(Excluded(currImage)) {
excludedCnt ++;
continue;
}
PvlObject currFile("Exclusions");
currFile += PvlKeyword("Filename", inList[currImage]);
currFile += PvlKeyword("Tolerance", maxStdev);
if(cameraType == LineScan) {
currFile += PvlKeyword("FrameLines", numFrameLines);
}
else if(cameraType == PushFrame) {
currFile += PvlKeyword("FrameletLines", numFrameLines);
}
excludedDetails.push_back(currFile);
CubeAttributeInput inAtt;
// This needs to be set constantly because ClearInputCubes
// seems to be removing the input brick size.
if(cameraType == LineScan) {
p.SetBrickSize(1, numFrameLines, 1);
}
else if(cameraType == Framing || cameraType == PushFrame) {
p.SetBrickSize(numOutputSamples, 1, 1);
}
p.SetInputCube(inList[currImage], inAtt);
iString progText = "Calculating Averages " + iString((int)currImage+1);
progText += "/" + iString((int)inList.size());
progText += " (" + Filename(inList[currImage]).Name() + ")";
p.Progress()->SetText(progText);
p.StartProcess(CreateTemporaryData);
p.EndProcess();
p.ClearInputCubes();
if(excludedDetails[excludedDetails.size()-1].Groups() == 0) {
excludedDetails.resize(excludedDetails.size()-1);
}
}
/**
* Pass 2 completed. The processing methods were responsible for writing
* the entire temporary cube.
*/
if(oLineMgr) {
delete oLineMgr;
oLineMgr = NULL;
}
if(ocube) {
ocube->Close();
delete ocube;
}
/**
* ocube is now the final output
*/
ocube = new Cube();
if(cameraType == LineScan) {
ocube->SetDimensions(numOutputSamples, 1, 1);
}
else if(cameraType == Framing || cameraType == PushFrame) {
ocube->SetDimensions(numOutputSamples, tempFileLength, 1);
}
ocube->Create(Filename(ui.GetFilename("TO")).Expanded());
oLineMgr = new LineManager(*ocube);
oLineMgr->SetLine(1);
// We now have the necessary temp file, let's go ahead and combine it into
// the final output!
p.SetInputBrickSize(numOutputSamples, 1, 2);
p.SetOutputBrickSize(numOutputSamples, 1, 1);
cubeInitialized = false;
CubeAttributeInput inAtt;
p.Progress()->SetText("Calculating Final Flat Field");
p.SetInputCube(outTmpName, inAtt);
p.StartProcess(ProcessTemporaryData);
p.EndProcess();
if(cameraType == LineScan) {
ocube->Write(*oLineMgr);
}
if(oLineMgr) {
delete oLineMgr;
oLineMgr = NULL;
}
if(ocube) {
ocube->Close();
delete ocube;
ocube = NULL;
}
/**
* Build a list of excluded files
*/
PvlGroup excludedFiles("ExcludedFiles");
for(currImage = 0; currImage < inList.size(); currImage++) {
if(Excluded(currImage)) {
excludedFiles += PvlKeyword("File", inList[currImage]);
}
}
// log the results
Application::Log(excludedFiles);
if(ui.WasEntered("EXCLUDE")) {
Pvl excludeFile;
// Find excluded files
excludeFile.AddGroup(excludedFiles);
for(unsigned int i = 0; i < excludedDetails.size(); i++) {
excludeFile.AddObject(excludedDetails[i]);
}
excludeFile.Write(Filename(ui.GetFilename("EXCLUDE")).Expanded());
}
remove(outTmpName.c_str());
// Clean up settings
ResetGlobals();
}
void IsisMain() {
const QString caminfo_program = "caminfo";
UserInterface &ui = Application::GetUserInterface();
QList< QPair<QString, QString> > *general = NULL, *camstats = NULL, *statistics = NULL;
BandGeometry *bandGeom = NULL;
// Get input filename
FileName in = ui.GetFileName("FROM");
// Get the format
QString sFormat = ui.GetAsString("FORMAT");
// if true then run spiceinit, xml default is FALSE
// spiceinit will use system kernels
if(ui.GetBoolean("SPICE")) {
QString parameters = "FROM=" + in.expanded();
ProgramLauncher::RunIsisProgram("spiceinit", parameters);
}
Process p;
Cube *incube = p.SetInputCube("FROM");
// General data gathering
general = new QList< QPair<QString, QString> >;
general->append(MakePair("Program", caminfo_program));
general->append(MakePair("IsisVersion", Application::Version()));
general->append(MakePair("RunDate", iTime::CurrentGMT()));
general->append(MakePair("IsisId", SerialNumber::Compose(*incube)));
general->append(MakePair("From", in.baseName() + ".cub"));
general->append(MakePair("Lines", toString(incube->lineCount())));
general->append(MakePair("Samples", toString(incube->sampleCount())));
general->append(MakePair("Bands", toString(incube->bandCount())));
// Run camstats on the entire image (all bands)
// another camstats will be run for each band and output
// for each band.
if(ui.GetBoolean("CAMSTATS")) {
camstats = new QList< QPair<QString, QString> >;
QString filename = ui.GetAsString("FROM");
int sinc = ui.GetInteger("SINC");
int linc = ui.GetInteger("LINC");
CameraStatistics stats(filename, sinc, linc);
Pvl camPvl = stats.toPvl();
PvlGroup cg = camPvl.findGroup("Latitude", Pvl::Traverse);
camstats->append(MakePair("MinimumLatitude", cg["latitudeminimum"][0]));
camstats->append(MakePair("MaximumLatitude", cg["latitudemaximum"][0]));
cg = camPvl.findGroup("Longitude", Pvl::Traverse);
camstats->append(MakePair("MinimumLongitude", cg["longitudeminimum"][0]));
camstats->append(MakePair("MaximumLongitude", cg["longitudemaximum"][0]));
cg = camPvl.findGroup("Resolution", Pvl::Traverse);
camstats->append(MakePair("MinimumResolution", cg["resolutionminimum"][0]));
camstats->append(MakePair("MaximumResolution", cg["resolutionmaximum"][0]));
cg = camPvl.findGroup("PhaseAngle", Pvl::Traverse);
camstats->append(MakePair("MinimumPhase", cg["phaseminimum"][0]));
camstats->append(MakePair("MaximumPhase", cg["phasemaximum"][0]));
cg = camPvl.findGroup("EmissionAngle", Pvl::Traverse);
camstats->append(MakePair("MinimumEmission", cg["emissionminimum"][0]));
camstats->append(MakePair("MaximumEmission", cg["emissionmaximum"][0]));
cg = camPvl.findGroup("IncidenceAngle", Pvl::Traverse);
camstats->append(MakePair("MinimumIncidence", cg["incidenceminimum"][0]));
camstats->append(MakePair("MaximumIncidence", cg["incidencemaximum"][0]));
cg = camPvl.findGroup("LocalSolarTime", Pvl::Traverse);
camstats->append(MakePair("LocalTimeMinimum", cg["localsolartimeMinimum"][0]));
camstats->append(MakePair("LocalTimeMaximum", cg["localsolartimeMaximum"][0]));
}
// Compute statistics for entire cube
if(ui.GetBoolean("STATISTICS")) {
statistics = new QList< QPair<QString, QString> >;
LineManager iline(*incube);
Statistics stats;
Progress progress;
progress.SetText("Statistics...");
progress.SetMaximumSteps(incube->lineCount()*incube->bandCount());
progress.CheckStatus();
iline.SetLine(1);
for(; !iline.end() ; iline.next()) {
incube->read(iline);
stats.AddData(iline.DoubleBuffer(), iline.size());
progress.CheckStatus();
}
// Compute stats of entire cube
double nPixels = stats.TotalPixels();
double nullpercent = (stats.NullPixels() / (nPixels)) * 100;
double hispercent = (stats.HisPixels() / (nPixels)) * 100;
double hrspercent = (stats.HrsPixels() / (nPixels)) * 100;
double lispercent = (stats.LisPixels() / (nPixels)) * 100;
double lrspercent = (stats.LrsPixels() / (nPixels)) * 100;
// Statitics output for band
statistics->append(MakePair("MeanValue", toString(stats.Average())));
statistics->append(MakePair("StandardDeviation", toString(stats.StandardDeviation())));
statistics->append(MakePair("MinimumValue", toString(stats.Minimum())));
statistics->append(MakePair("MaximumValue", toString(stats.Maximum())));
statistics->append(MakePair("PercentHIS", toString(hispercent)));
statistics->append(MakePair("PercentHRS", toString(hrspercent)));
statistics->append(MakePair("PercentLIS", toString(lispercent)));
statistics->append(MakePair("PercentLRS", toString(lrspercent)));
statistics->append(MakePair("PercentNull", toString(nullpercent)));
statistics->append(MakePair("TotalPixels", toString(stats.TotalPixels())));
}
bool getFootBlob = ui.GetBoolean("USELABEL");
bool doGeometry = ui.GetBoolean("GEOMETRY");
bool doPolygon = ui.GetBoolean("POLYGON");
if(doGeometry || doPolygon || getFootBlob) {
Camera *cam = incube->camera();
QString incType = ui.GetString("INCTYPE");
int polySinc, polyLinc;
if(doPolygon && incType.toUpper() == "VERTICES") {
ImagePolygon poly;
poly.initCube(*incube);
polySinc = polyLinc = (int)(0.5 + (((poly.validSampleDim() * 2) +
(poly.validLineDim() * 2) - 3.0) /
ui.GetInteger("NUMVERTICES")));
}
else if (incType.toUpper() == "LINCSINC"){
if(ui.WasEntered("POLYSINC")) {
polySinc = ui.GetInteger("POLYSINC");
}
else {
polySinc = (int)(0.5 + 0.10 * incube->sampleCount());
if(polySinc == 0) polySinc = 1;
}
if(ui.WasEntered("POLYLINC")) {
polyLinc = ui.GetInteger("POLYLINC");
}
else {
polyLinc = (int)(0.5 + 0.10 * incube->lineCount());
if(polyLinc == 0) polyLinc = 1;
}
}
else {
QString msg = "Invalid INCTYPE option[" + incType + "]";
throw IException(IException::Programmer, msg, _FILEINFO_);
}
bandGeom = new BandGeometry();
bandGeom->setSampleInc(polySinc);
bandGeom->setLineInc(polyLinc);
bandGeom->setMaxIncidence(ui.GetDouble("MAXINCIDENCE"));
bandGeom->setMaxEmission(ui.GetDouble("MAXEMISSION"));
bool precision = ui.GetBoolean("INCREASEPRECISION");
if (getFootBlob) {
// Need to read history to obtain parameters that were used to
// create the footprint
History hist("IsisCube", in.expanded());
Pvl pvl = hist.ReturnHist();
PvlObject::PvlObjectIterator objIter;
bool found = false;
PvlGroup fpgrp;
for (objIter=pvl.endObject()-1; objIter>=pvl.beginObject(); objIter--) {
if (objIter->name().toUpper() == "FOOTPRINTINIT") {
found = true;
fpgrp = objIter->findGroup("UserParameters");
break;
}
}
if (!found) {
QString msg = "Footprint blob was not found in input image history";
throw IException(IException::User, msg, _FILEINFO_);
}
QString prec = (QString)fpgrp.findKeyword("INCREASEPRECISION");
prec = prec.toUpper();
if (prec == "TRUE") {
precision = true;
}
else {
precision = false;
}
QString inctype = (QString)fpgrp.findKeyword("INCTYPE");
inctype = inctype.toUpper();
if (inctype == "LINCSINC") {
int linc = fpgrp.findKeyword("LINC");
int sinc = fpgrp.findKeyword("SINC");
bandGeom->setSampleInc(sinc);
bandGeom->setLineInc(linc);
}
else {
int vertices = fpgrp.findKeyword("NUMVERTICES");
int lincsinc = (int)(0.5 + (((incube->sampleCount() * 2) +
(incube->lineCount() * 2) - 3.0) /
vertices));
bandGeom->setSampleInc(lincsinc);
bandGeom->setLineInc(lincsinc);
}
if (fpgrp.hasKeyword("MAXINCIDENCE")) {
double maxinc = fpgrp.findKeyword("MAXINCIDENCE");
bandGeom->setMaxIncidence(maxinc);
}
if (fpgrp.hasKeyword("MAXEMISSION")) {
double maxema = fpgrp.findKeyword("MAXEMISSION");
bandGeom->setMaxEmission(maxema);
}
}
bandGeom->collect(*cam, *incube, doGeometry, doPolygon, getFootBlob, precision);
// Check if the user requires valid image center geometry
if(ui.GetBoolean("VCAMERA") && (!bandGeom->hasCenterGeometry())) {
QString msg = "Image center does not project in camera model";
throw IException(IException::Unknown, msg, _FILEINFO_);
}
}
if(sFormat.toUpper() == "PVL")
GeneratePVLOutput(incube, general, camstats, statistics, bandGeom);
else
GenerateCSVOutput(incube, general, camstats, statistics, bandGeom);
// Clean the data
delete general;
general = NULL;
if(camstats) {
delete camstats;
camstats = NULL;
}
if(statistics) {
delete statistics;
statistics = NULL;
}
if(bandGeom) {
delete bandGeom;
bandGeom = NULL;
}
}
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;
}
/** The ISIS smtk main application */
void IsisMain() {
UserInterface &ui = Application::GetUserInterface();
// Open the first cube. It is the left hand image.
Cube lhImage;
CubeAttributeInput &attLeft = ui.GetInputAttribute("FROM");
vector<QString> bandLeft = attLeft.bands();
lhImage.setVirtualBands(bandLeft);
lhImage.open(ui.GetFileName("FROM"),"r");
// Open the second cube, it is geomertricallty altered. We will be matching the
// first to this one by attempting to compute a sample/line offsets
Cube rhImage;
CubeAttributeInput &attRight = ui.GetInputAttribute("MATCH");
vector<QString> bandRight = attRight.bands();
rhImage.setVirtualBands(bandRight);
rhImage.open(ui.GetFileName("MATCH"),"r");
// Ensure only single bands
if (lhImage.bandCount() != 1 || rhImage.bandCount() != 1) {
QString msg = "Input Cubes must have only one band!";
throw IException(IException::User,msg,_FILEINFO_);
}
// Both images must have a Camera and can also have a Projection. We will
// only deal with a Camera, however as a projected, non-mosaicked image
// uses a Projection internal to the Camera object.
Camera *lhCamera = NULL;
Camera *rhCamera = NULL;
try {
lhCamera = lhImage.camera();
rhCamera = rhImage.camera();
}
catch (IException &ie) {
QString msg = "Both input images must have a camera";
throw IException(ie, IException::User, msg, _FILEINFO_);
}
// Since we are generating a DEM, we must turn off any existing
// DEM that may have been initialized with spiceinit.
lhCamera->IgnoreElevationModel(true);
rhCamera->IgnoreElevationModel(true);
// Get serial number
QString serialLeft = SerialNumber::Compose(lhImage, true);
QString serialRight = SerialNumber::Compose(rhImage, true);
// This still precludes band to band registrations.
if (serialLeft == serialRight) {
QString sLeft = FileName(lhImage.fileName()).name();
QString sRight = FileName(rhImage.fileName()).name();
if (sLeft == sRight) {
QString msg = "Cube Serial Numbers must be unique - FROM=" + serialLeft +
", MATCH=" + serialRight;
throw IException(IException::User,msg,_FILEINFO_);
}
serialLeft = sLeft;
serialRight = sRight;
}
Progress prog;
prog.SetText("Finding Initial Seeds");
int nl = lhImage.lineCount();
int ns = lhImage.sampleCount();
BigInt numAttemptedInitialPoints = 0;
// Declare Gruen matcher
SmtkMatcher matcher(ui.GetFileName("REGDEF"), &lhImage, &rhImage);
// Get line/sample linc/sinc parameters
int space = ui.GetInteger("SPACE");
int linc (space), sinc(space);
// Do we have a seed points from a control net file?
bool useseed = ui.WasEntered("CNET");
// Base points on an input cnet
SmtkQStack gstack;
double lastEigen(0.0);
if (useseed) {
ControlNet cnet(ui.GetFileName("CNET"));
prog.SetMaximumSteps(cnet.GetNumPoints());
prog.CheckStatus();
gstack.reserve(cnet.GetNumPoints());
for (int cpIndex = 0; cpIndex < cnet.GetNumPoints(); cpIndex ++) {
ControlPoint *cp = cnet.GetPoint(cpIndex);
if (!cp->IsIgnored()) {
ControlMeasure *cmLeft(0), *cmRight(0);
for(int cmIndex = 0; cmIndex < cp->GetNumMeasures(); cmIndex ++) {
ControlMeasure *cm = cp->GetMeasure(cmIndex);
if (!cm->IsIgnored()) {
if (cm->GetCubeSerialNumber() == serialLeft)
cmLeft = cp->GetMeasure(cmIndex);
if (cm->GetCubeSerialNumber() == serialRight)
cmRight = cp->GetMeasure(cmIndex);
}
}
// If we have both left and right images in the control point, save it
if ( (cmLeft != 0) && (cmRight != 0) ) {
Coordinate left = Coordinate(cmLeft->GetLine(), cmLeft->GetSample());
Coordinate right = Coordinate(cmRight->GetLine(), cmRight->GetSample());
SmtkPoint spnt = matcher.Create(left, right);
// Insert the point (unregistered)
if ( spnt.isValid() ) {
int line = (int) cmLeft->GetLine();
int samp = (int) cmLeft->GetSample();
matcher.isValid(spnt);
gstack.insert(qMakePair(line, samp), spnt);
lastEigen = spnt.GoodnessOfFit();
}
}
}
prog.CheckStatus();
}
}
else {
// We want to create a grid of control points that is N rows by M columns.
int rows = (lhImage.lineCount() + linc - 1)/linc;
int cols = (lhImage.sampleCount() + sinc - 1)/sinc;
prog.SetMaximumSteps(rows * cols);
prog.CheckStatus();
// First pass stack and eigen value statistics
SmtkQStack fpass;
fpass.reserve(rows * cols);
Statistics temp_mev;
// Loop through grid of points and get statistics to compute
// initial set of points
for (int line = linc / 2 + 1; line < nl; line += linc) {
for (int samp = sinc / 2 + 1 ; samp < ns; samp += sinc) {
numAttemptedInitialPoints ++;
SmtkPoint spnt = matcher.Register(Coordinate(line,samp));
if ( spnt.isValid() ) {
matcher.isValid(spnt);
fpass.insert(qMakePair(line, samp), spnt);
temp_mev.AddData(spnt.GoodnessOfFit());
}
prog.CheckStatus();
}
}
// Now select a subset of fpass points as the seed points
cout << "Number of Potential Seed Points: " << fpass.size() << "\n";
cout << "Min / Max Eigenvalues Matched: " << temp_mev.Minimum() << ", "
<< temp_mev.Maximum() << "\n";
// How many seed points are requested
double nseed = ui.GetDouble("NSEED");
int inseed;
if (nseed >= 1.0) inseed = (int) nseed;
else if (nseed > 0.0) inseed = (int) (nseed * (double) (fpass.size()));
else inseed = (int) ((double) (fpass.size()) * 0.05);
double seedsample = ui.GetDouble("SEEDSAMPLE");
// Generate a new stack
gstack.reserve(inseed);
while ((gstack.size() < inseed) && (!fpass.isEmpty() )) {
SmtkQStack::iterator bestm;
if (seedsample <= 0.0) {
bestm = matcher.FindSmallestEV(fpass);
}
else {
bestm = matcher.FindExpDistEV(fpass, seedsample, temp_mev.Minimum(),
temp_mev.Maximum());
}
// Add point to stack
if (bestm != fpass.end()) {
Coordinate right = bestm.value().getRight();
matcher.isValid(bestm.value());
gstack.insert(bestm.key(), bestm.value());
lastEigen = bestm.value().GoodnessOfFit();
fpass.erase(bestm);
}
}
// If a user wants to see the seed network, write it out here
if (ui.WasEntered("OSEEDNET")) {
WriteCnet(ui.GetFileName("OSEEDNET"), gstack,
lhCamera->target()->name(), serialLeft, serialRight);
}
}
///////////////////////////////////////////////////////////////////////
// All done with seed points. Sanity check ensures we actually found
// some.
///////////////////////////////////////////////////////////////////////
if (gstack.size() <= 0) {
QString msg = "No seed points found - may need to check Gruen parameters.";
throw IException(IException::User, msg, _FILEINFO_);
}
// Report seed point status
if (!useseed) {
cout << "Number of Seed Points used: " << gstack.size() << "\n";
cout << "EV of last Seed Point: " << lastEigen << "\n";
}
else {
cout << "Number of Manual Seed Points: " << gstack.size() << "\n";
}
// Use seed points (in stack) to grow
SmtkQStack bmf;
bmf.reserve(gstack.size()); // Probably need much more but for starters...
BigInt numOrigPoints = gstack.size();
BigInt passpix2 = 0;
int subcbox = ui.GetInteger("SUBCBOX");
int halfBox((subcbox-1)/2);
while (!gstack.isEmpty()) {
SmtkQStackIter cstack = matcher.FindSmallestEV(gstack);
// Print number on stack
if ((gstack.size() % 1000) == 0) {
cout << "Number on Stack: " << gstack.size()
<< ". " << cstack.value().GoodnessOfFit() << "\n";
}
// Test to see if already determined
SmtkQStackIter bmfPt = bmf.find(cstack.key());
if (bmfPt == bmf.end()) {
// Its not in the final stack, process it
// Retrieve the point
SmtkPoint spnt = cstack.value();
// Register if its not already registered
if (!spnt.isRegistered()) {
spnt = matcher.Register(spnt, spnt.getAffine());
}
// Still must check for validity if the point was just registered,
// otherwise should be good
if ( spnt.isValid() ) {
passpix2++;
bmf.insert(cstack.key(), spnt); // inserts (0,0) offset excluded below
int line = cstack.key().first;
int sample = cstack.key().second;
// Determine match points
double eigen(spnt.GoodnessOfFit());
for (int sampBox = -halfBox ; sampBox <= halfBox ; sampBox++ ) {
int csamp = sample + sampBox;
for (int lineBox = -halfBox ; lineBox <= halfBox ; lineBox++) {
int cline = line + lineBox;
if ( !( (sampBox == 0) && (lineBox == 0)) ) {// Already added above
SmtkQPair dupPair(cline, csamp);
SmtkQStackIter temp = bmf.find(dupPair);
SmtkPoint bmfpnt;
if (temp != bmf.end()) {
if (temp.value().GoodnessOfFit() > eigen) {
// Create cloned point with better fit
bmfpnt = matcher.Clone(spnt, Coordinate(cline,csamp));
}
}
else { // ISIS2 is BMF(SAMP,LINE,7) .EQ VALID_MAX4)
// Clone new point for insert
bmfpnt = matcher.Clone(spnt, Coordinate(cline,csamp));
}
// Add if good point
if (bmfpnt.isValid()) {
bmf.insert(dupPair, bmfpnt);
}
}
}
}
// Grow stack with spacing adding info to stack
for (int i = -1 ; i <= 1 ; i ++) { // Sample
for (int j = -1 ; j <= 1 ; j ++) { // Line
// Don't re-add the original sample, line
if ( !((i == 0) && (j == 0)) ) {
// Grow based upon spacing
double ssamp = sample + (i * space);
double sline = line + (j * space);
Coordinate pnt = Coordinate(sline, ssamp);
SmtkPoint gpnt = matcher.Clone(spnt, pnt);
if ( gpnt.isValid() ) {
SmtkQPair growpt((int) sline, (int) ssamp);
// double check we don't have a finalized result at this position
SmtkQStackIter temp = bmf.find(growpt);
if(temp == bmf.end()) {
gstack.insert(growpt, gpnt);
}
}
}
}
}
}
}
// Remove the current point from the grow stack (hole)
gstack.erase(cstack);
}
/////////////////////////////////////////////////////////////////////////
// All done with creating points. Perform output options.
/////////////////////////////////////////////////////////////////////////
// If a TO parameter was specified, create DEM with errors
if (ui.WasEntered("TO")) {
// Create the output DEM
cout << "\nCreating output DEM from " << bmf.size() << " points.\n";
Process p;
Cube *icube = p.SetInputCube("FROM");
Cube *ocube = p.SetOutputCube("TO", icube->sampleCount(),
icube->lineCount(), 3);
p.ClearInputCubes();
int boxsize = ui.GetInteger("BOXSIZE");
double plotdist = ui.GetDouble("PLOTDIST");
TileManager dem(*ocube), eigen(*ocube), stErr(*ocube);
dem.SetTile(1, 1); // DEM Data/elevation
stErr.SetTile(1, 2); // Error in stereo computation
eigen.SetTile(1, 3); // Eigenvalue of the solution
int nBTiles(eigen.Tiles()/3); // Total tiles / 3 bands
prog.SetText("Creating DEM");
prog.SetMaximumSteps(nBTiles);
prog.CheckStatus();
Statistics stAng;
while ( !eigen.end() ) { // Must use the last band for this!!
PointPlot tm = for_each(bmf.begin(), bmf.end(), PointPlot(dem, plotdist));
tm.FillPoints(*lhCamera, *rhCamera, boxsize, dem, stErr, eigen, &stAng);
ocube->write(dem);
ocube->write(stErr);
ocube->write(eigen);
dem.next();
stErr.next();
eigen.next();
prog.CheckStatus();
}
// Report Stereo separation angles
PvlGroup stresultsPvl("StereoSeparationAngle");
stresultsPvl += PvlKeyword("Minimum", toString(stAng.Minimum()), "deg");
stresultsPvl += PvlKeyword("Average", toString(stAng.Average()), "deg");
stresultsPvl += PvlKeyword("Maximum", toString(stAng.Maximum()), "deg");
stresultsPvl += PvlKeyword("StandardDeviation", toString(stAng.StandardDeviation()), "deg");
Application::Log(stresultsPvl);
// Update the label with BandBin keywords
PvlKeyword filter("FilterName", "Elevation", "meters");
filter.addValue("ElevationError", "meters");
filter.addValue("GoodnessOfFit", "unitless");
PvlKeyword center("Center", "1.0");
center.addValue("1.0");
center.addValue("1.0");
PvlGroup &bandbin = ocube->label()->findGroup("BandBin", PvlObject::Traverse);
bandbin.addKeyword(filter, PvlContainer::Replace);
bandbin.addKeyword(center, PvlContainer::Replace);
center.setName("Width");
bandbin.addKeyword(center, PvlContainer::Replace);
p.EndProcess();
}
// If a cnet file was entered, write the ControlNet pvl to the file
if (ui.WasEntered("ONET")) {
WriteCnet(ui.GetFileName("ONET"), bmf, lhCamera->target()->name(), serialLeft,
serialRight);
}
// Create output data
PvlGroup totalPointsPvl("Totals");
totalPointsPvl += PvlKeyword("AttemptedPoints", toString(numAttemptedInitialPoints));
totalPointsPvl += PvlKeyword("InitialSuccesses", toString(numOrigPoints));
totalPointsPvl += PvlKeyword("GrowSuccesses", toString(passpix2));
totalPointsPvl += PvlKeyword("ResultingPoints", toString(bmf.size()));
Application::Log(totalPointsPvl);
Pvl arPvl = matcher.RegistrationStatistics();
PvlGroup smtkresultsPvl("SmtkResults");
smtkresultsPvl += PvlKeyword("SpiceOffImage", toString(matcher.OffImageErrorCount()));
smtkresultsPvl += PvlKeyword("SpiceDistanceError", toString(matcher.SpiceErrorCount()));
arPvl.addGroup(smtkresultsPvl);
for(int i = 0; i < arPvl.groups(); i++) {
Application::Log(arPvl.group(i));
}
// add the auto registration information to print.prt
PvlGroup autoRegTemplate = matcher.RegTemplate();
Application::Log(autoRegTemplate);
// Don't need the cubes opened anymore
lhImage.close();
rhImage.close();
}
// Main program
void IsisMain() {
UserInterface &ui = Application::GetUserInterface();
if( !ui.WasEntered("FROMLIST") && ui.WasEntered("TOLIST") ) {
std::string msg = "To create a [TOLIST] the [FROMLIST] parameter must be provided.";
throw iException::Message(iException::User,msg,_FILEINFO_);
}
// Gets the input parameters
ControlNet outNet( ui.GetFilename("CNET") );
FileList inList;
if( ui.WasEntered("FROMLIST") ) {
inList = ui.GetFilename("FROMLIST");
}
bool noIgnore = ui.GetBoolean("NOIGNORE");
bool noHeld = ui.GetBoolean("NOHELD");
bool noSingleMeasure = ui.GetBoolean("NOSINGLEMEASURES");
bool noMeasureless = ui.GetBoolean("NOMEASURELESS");
bool noTolerancePoints = ui.GetBoolean("TOLERANCE");
bool reference = ui.GetBoolean("REFERENCE");
bool ground = ui.GetBoolean("GROUND");
bool cubePoints = ui.WasEntered("CUBEPOINTS");
bool cubeMeasures = ui.GetBoolean("CUBEMEASURES");
bool pointsEntered = ui.WasEntered("POINTLIST");
bool latLon = ui.GetBoolean("LATLON");
if( !(noIgnore || noHeld || noSingleMeasure || noMeasureless || noTolerancePoints ||
reference || ground || cubePoints || pointsEntered || latLon) ) {
std::string msg = "At least one filter must be selected [";
msg += "NOIGNORE,NOHELD,NOSINGLEMEASURE,TOLERANCE,REFERENCE,GROUND,CUBEPOINTS,";
msg += "CUBEMEASURES,POINTLIST,LATLON]";
throw iException::Message(iException::User,msg,_FILEINFO_);
}
else if( cubeMeasures && !cubePoints ) {
std::string msg = "When CUBEMEASURES is selected, CUBEPOINTS must be given";
msg += " a list of cubes.";
throw iException::Message(iException::User,msg,_FILEINFO_);
}
// Set up the Serial Number to Filename mapping
map<iString,iString> sn2filename;
for( int cubeIndex=0; cubeIndex < (int)inList.size(); cubeIndex ++ ) {
iString sn = SerialNumber::Compose( inList[cubeIndex] );
sn2filename[sn] = inList[cubeIndex];
}
Progress progress;
progress.SetMaximumSteps(outNet.Size());
progress.CheckStatus();
// Set up verctor records of how points/measures are removed
PvlKeyword ignoredPoints( "IgnoredPoints" );
PvlKeyword ignoredMeasures( "IgnoredMeasures" );
PvlKeyword heldPoints( "HeldPoints" );
PvlKeyword singleMeasurePoints( "SingleMeasurePoints" );
PvlKeyword measurelessPoints( "MeasurelessPoints" );
PvlKeyword tolerancePoints( "TolerancePoints" );
PvlKeyword nonReferenceMeasures( "NonReferenseMeasures" );
PvlKeyword nonGroundPoints( "NonGroundPoints" );
PvlKeyword nonCubePoints( "NonCubePoints" );
PvlKeyword nonCubeMeasures( "NonCubeMeasures" );
PvlKeyword noMeasurePoints( "NoMeasurePoints" );
PvlKeyword nonListedPoints( "NonListedPoints" );
PvlKeyword nonLatLonPoints( "LatLonOutOfRangePoints" );
PvlKeyword cannotGenerateLatLonPoints( "NoLatLonPoints" );
// Set up comparison data
vector<iString> serialNumbers;
if( cubePoints ) {
FileList cubeList( ui.GetFilename("CUBEPOINTS") );
for( int cubeIndex=0; cubeIndex < (int)cubeList.size(); cubeIndex ++ ) {
iString sn = SerialNumber::Compose( cubeList[cubeIndex] );
serialNumbers.push_back( sn );
}
}
double tolerance = 0.0;
if( noTolerancePoints ) {
tolerance = ui.GetDouble("PIXELTOLERANCE");
}
// Set up extracted network values
if( ui.WasEntered("NETWORKID") )
outNet.SetNetworkId( ui.GetString("NETWORKID") );
outNet.SetUserName( Isis::Application::UserName() );
outNet.SetDescription( ui.GetString("DESCRIPTION") );
for(int cp=outNet.Size()-1; cp >= 0; cp --) {
progress.CheckStatus();
// Do preliminary exclusion checks
if( noIgnore && outNet[cp].Ignore() ) {
ignoredPoints += outNet[cp].Id();
outNet.Delete(cp);
continue;
}
if( noHeld && outNet[cp].Held() ) {
heldPoints += outNet[cp].Id();
outNet.Delete(cp);
continue;
}
if( ground && !(outNet[cp].Type() == ControlPoint::Ground) ) {
nonGroundPoints += outNet[cp].Id();
outNet.Delete(cp);
continue;
}
if( noSingleMeasure ) {
bool invalidPoint = false;
invalidPoint |= noIgnore && (outNet[cp].NumValidMeasures() < 2);
invalidPoint |= outNet[cp].Size() < 2 && (outNet[cp].Type() != ControlPoint::Ground);
if( invalidPoint ) {
singleMeasurePoints += outNet[cp].Id();
outNet.Delete(cp);
continue;
}
}
// Change the current point into a new point by manipulation of its control measures
ControlPoint & newPoint = outNet[cp];
for( int cm = newPoint.Size()-1; cm >= 0; cm --) {
if(noIgnore && newPoint[cm].Ignore()) {
ignoredMeasures += "(" + newPoint.Id() + "," + newPoint[cm].CubeSerialNumber() + ")";
newPoint.Delete( cm );
}
else if( reference && !newPoint[cm].IsReference() ) {
nonReferenceMeasures += "(" + newPoint.Id() + "," + newPoint[cm].CubeSerialNumber() + ")";
newPoint.Delete( cm );
}
else if( cubeMeasures ) {
bool hasSerialNumber = false;
for( unsigned int sn = 0; sn < serialNumbers.size() && !hasSerialNumber; sn ++) {
if(serialNumbers[sn] == newPoint[cm].CubeSerialNumber()) hasSerialNumber = true;
}
if( !hasSerialNumber ) {
nonCubeMeasures += "(" + newPoint.Id() + "," + newPoint[cm].CubeSerialNumber() + ")";
newPoint.Delete( cm );
}
}
}
// Check for line/sample errors above provided tolerance
if( noTolerancePoints ) {
bool hasLowTolerance = true;
for( int cm = 0; cm < newPoint.Size() && hasLowTolerance; cm ++ ) {
if( newPoint[cm].SampleError() >= tolerance ||
newPoint[cm].LineError() >= tolerance ) {
hasLowTolerance = false;
}
}
if( hasLowTolerance ) {
tolerancePoints += newPoint.Id();
outNet.Delete(cp);
continue;
}
}
// Do not add outPoint if it has too few measures
if( noSingleMeasure ) {
bool invalidPoint = false;
invalidPoint |= noIgnore && (newPoint.NumValidMeasures() < 2);
invalidPoint |= newPoint.Size() < 2 && newPoint.Type() != ControlPoint::Ground;
if( invalidPoint ) {
singleMeasurePoints += outNet[cp].Id();
outNet.Delete(cp);
continue;
}
}
// Do not add outPoint if it does not have a cube in CUBEPOINTS as asked
if( cubePoints && !cubeMeasures ) {
bool hasSerialNumber = false;
for( int cm = 0; cm < newPoint.Size() && !hasSerialNumber; cm ++) {
for( unsigned int sn = 0; sn < serialNumbers.size() && !hasSerialNumber; sn ++) {
if(serialNumbers[sn] == newPoint[cm].CubeSerialNumber()) hasSerialNumber = true;
}
}
if( !hasSerialNumber ) {
nonCubePoints += newPoint.Id();
outNet.Delete(cp);
continue;
}
}
if( noMeasureless && newPoint.Size() == 0 ) {
noMeasurePoints += newPoint.Id();
outNet.Delete(cp);
continue;
}
} //! Finished with simple comparisons
/**
* Use another pass to check for Ids
*/
if( pointsEntered ) {
ExtractPointList( outNet, nonListedPoints );
}
/**
* Use another pass on outNet, because this is by far the most time consuming
* process, and time could be saved by using the reduced size of outNet
*/
if( latLon ) {
ExtractLatLonRange( outNet, nonLatLonPoints, cannotGenerateLatLonPoints, sn2filename );
}
// Write the filenames associated with outNet
WriteCubeOutList( outNet, sn2filename );
Progress outProgress;
outProgress.SetText("Writing Control Network");
outProgress.SetMaximumSteps( 5 );
outProgress.CheckStatus();
// Create the points included file
PvlGroup included("NewControlNet");
included.AddKeyword( PvlKeyword( "Size", outNet.Size() ) );
PvlKeyword newPoints( "Points" );
for( int cp = 0; cp < outNet.Size(); cp ++ ) {
newPoints.AddValue( outNet[cp].Id() );
}
included.AddKeyword( newPoints );
outProgress.CheckStatus();
// Write the extracted Control Network
outNet.Write( ui.GetFilename("OUTNET") );
outProgress.CheckStatus();
// Adds the remove history to the summary and results group
PvlGroup summary("ResultSummary");
PvlGroup results("Results");
if( noIgnore ) {
summary.AddKeyword( PvlKeyword( "IgnoredPoints", ignoredPoints.Size() ) );
results.AddKeyword( ignoredPoints );
summary.AddKeyword( PvlKeyword( "IgnoredMeasures", ignoredMeasures.Size() ) );
results.AddKeyword( ignoredMeasures );
}
if( noHeld ) {
summary.AddKeyword( PvlKeyword( "HeldPoints", heldPoints.Size() ) );
results.AddKeyword( heldPoints );
}
if( noSingleMeasure ) {
summary.AddKeyword( PvlKeyword( "SingleMeasurePoints", singleMeasurePoints.Size() ) );
results.AddKeyword( singleMeasurePoints );
}
if( noMeasureless ) {
summary.AddKeyword( PvlKeyword( "MeasurelessPoints", measurelessPoints.Size() ) );
results.AddKeyword( measurelessPoints );
}
if( noTolerancePoints ) {
summary.AddKeyword( PvlKeyword( "TolerancePoints", tolerancePoints.Size() ) );
results.AddKeyword( tolerancePoints );
}
if( reference ) {
summary.AddKeyword( PvlKeyword( "NonReferenceMeasures", nonReferenceMeasures.Size() ) );
results.AddKeyword( nonReferenceMeasures );
}
if( ground ) {
summary.AddKeyword( PvlKeyword( "NonGroundPoints", nonGroundPoints.Size() ) );
results.AddKeyword( nonGroundPoints );
}
if( cubePoints ) {
summary.AddKeyword( PvlKeyword( "NonCubePoints", nonCubePoints.Size() ) );
results.AddKeyword( nonCubePoints );
}
if( noMeasurePoints.Size() != 0 ) {
summary.AddKeyword( PvlKeyword( "NonCubeMeasure", noMeasurePoints.Size() ) );
results.AddKeyword( noMeasurePoints );
}
if( cubeMeasures ) {
summary.AddKeyword( PvlKeyword( "NoMeasurePoints", nonCubeMeasures.Size() ) );
results.AddKeyword( nonCubeMeasures );
}
if( pointsEntered ) {
summary.AddKeyword( PvlKeyword( "NonListedPoints", nonListedPoints.Size() ) );
results.AddKeyword( nonListedPoints );
}
if( latLon ) {
summary.AddKeyword( PvlKeyword( "LatLonOutOfRange", nonLatLonPoints.Size() ) );
results.AddKeyword( nonLatLonPoints );
summary.AddKeyword( PvlKeyword( "NoLatLonPoints", cannotGenerateLatLonPoints.Size() ) );
results.AddKeyword( cannotGenerateLatLonPoints );
}
outProgress.CheckStatus();
// Log Control Net results
Application::Log(included);
Application::Log(summary);
results.AddComment( "Each keyword represents a filter parameter used." \
" Check the documentation for specific keyword descriptions." );
Application::Log(results);
outProgress.CheckStatus();
}
void IsisMain() {
Process p;
// Get the list of names of input CCD cubes to stitch together
FileList flist;
UserInterface &ui = Application::GetUserInterface();
flist.Read(ui.GetFilename("FROMLIST"));
if (flist.size() < 1) {
string msg = "The list file[" + ui.GetFilename("FROMLIST") +
" does not contain any filenames";
throw iException::Message(iException::User,msg,_FILEINFO_);
}
string projection("Equirectangular");
if(ui.WasEntered("MAP")) {
Pvl mapfile(ui.GetFilename("MAP"));
projection = (string) mapfile.FindGroup("Mapping")["ProjectionName"];
}
if(ui.WasEntered("PROJECTION")) {
projection = ui.GetString("PROJECTION");
}
// Gather other user inputs to projection
string lattype = ui.GetString("LATTYPE");
string londir = ui.GetString("LONDIR");
string londom = ui.GetString("LONDOM");
int digits = ui.GetInteger("PRECISION");
// Fix them for mapping group
lattype = (lattype == "PLANETOCENTRIC") ? "Planetocentric" : "Planetographic";
londir = (londir == "POSITIVEEAST") ? "PositiveEast" : "PositiveWest";
Progress prog;
prog.SetMaximumSteps(flist.size());
prog.CheckStatus();
Statistics scaleStat;
Statistics longitudeStat;
Statistics latitudeStat;
Statistics equiRadStat;
Statistics poleRadStat;
PvlObject fileset("FileSet");
// Save major equitorial and polar radii for last occuring
double eqRad;
double eq2Rad;
double poleRad;
string target("Unknown");
for (unsigned int i = 0 ; i < flist.size() ; i++) {
// Set the input image, get the camera model, and a basic mapping
// group
Cube cube;
cube.Open(flist[i]);
int lines = cube.Lines();
int samples = cube.Samples();
PvlObject fmap("File");
fmap += PvlKeyword("Name",flist[i]);
fmap += PvlKeyword("Lines", lines);
fmap += PvlKeyword("Samples", samples);
Camera *cam = cube.Camera();
Pvl mapping;
cam->BasicMapping(mapping);
PvlGroup &mapgrp = mapping.FindGroup("Mapping");
mapgrp.AddKeyword(PvlKeyword("ProjectionName",projection),Pvl::Replace);
mapgrp.AddKeyword(PvlKeyword("LatitudeType",lattype),Pvl::Replace);
mapgrp.AddKeyword(PvlKeyword("LongitudeDirection",londir),Pvl::Replace);
mapgrp.AddKeyword(PvlKeyword("LongitudeDomain",londom),Pvl::Replace);
// Get the radii
double radii[3];
cam->Radii(radii);
eqRad = radii[0] * 1000.0;
eq2Rad = radii[1] * 1000.0;
poleRad = radii[2] * 1000.0;
target = cam->Target();
equiRadStat.AddData(&eqRad, 1);
poleRadStat.AddData(&poleRad, 1);
// Get resolution
double lowres = cam->LowestImageResolution();
double hires = cam->HighestImageResolution();
scaleStat.AddData(&lowres, 1);
scaleStat.AddData(&hires, 1);
double pixres = (lowres+hires)/2.0;
double scale = Scale(pixres, poleRad, eqRad);
mapgrp.AddKeyword(PvlKeyword("PixelResolution",pixres),Pvl::Replace);
mapgrp.AddKeyword(PvlKeyword("Scale",scale,"pixels/degree"),Pvl::Replace);
mapgrp += PvlKeyword("MinPixelResolution",lowres,"meters");
mapgrp += PvlKeyword("MaxPixelResolution",hires,"meters");
// Get the universal ground range
double minlat,maxlat,minlon,maxlon;
cam->GroundRange(minlat,maxlat,minlon,maxlon,mapping);
mapgrp.AddKeyword(PvlKeyword("MinimumLatitude",minlat),Pvl::Replace);
mapgrp.AddKeyword(PvlKeyword("MaximumLatitude",maxlat),Pvl::Replace);
mapgrp.AddKeyword(PvlKeyword("MinimumLongitude",minlon),Pvl::Replace);
mapgrp.AddKeyword(PvlKeyword("MaximumLongitude",maxlon),Pvl::Replace);
fmap.AddGroup(mapgrp);
fileset.AddObject(fmap);
longitudeStat.AddData(&minlon, 1);
longitudeStat.AddData(&maxlon, 1);
latitudeStat.AddData(&minlat, 1);
latitudeStat.AddData(&maxlat, 1);
p.ClearInputCubes();
prog.CheckStatus();
}
// Construct the output mapping group with statistics
PvlGroup mapping("Mapping");
double avgPixRes((scaleStat.Minimum()+scaleStat.Maximum())/2.0);
double avgLat((latitudeStat.Minimum()+latitudeStat.Maximum())/2.0);
double avgLon((longitudeStat.Minimum()+longitudeStat.Maximum())/2.0);
double avgEqRad((equiRadStat.Minimum()+equiRadStat.Maximum())/2.0);
double avgPoleRad((poleRadStat.Minimum()+poleRadStat.Maximum())/2.0);
double scale = Scale(avgPixRes, avgPoleRad, avgEqRad);
mapping += PvlKeyword("ProjectionName",projection);
mapping += PvlKeyword("TargetName", target);
mapping += PvlKeyword("EquatorialRadius",eqRad,"meters");
mapping += PvlKeyword("PolarRadius",poleRad,"meters");
mapping += PvlKeyword("LatitudeType",lattype);
mapping += PvlKeyword("LongitudeDirection",londir);
mapping += PvlKeyword("LongitudeDomain",londom);
mapping += PvlKeyword("PixelResolution", SetRound(avgPixRes, digits), "meters/pixel");
mapping += PvlKeyword("Scale", SetRound(scale, digits), "pixels/degree");
mapping += PvlKeyword("MinPixelResolution",scaleStat.Minimum(),"meters");
mapping += PvlKeyword("MaxPixelResolution",scaleStat.Maximum(),"meters");
mapping += PvlKeyword("CenterLongitude", SetRound(avgLon,digits));
mapping += PvlKeyword("CenterLatitude", SetRound(avgLat,digits));
mapping += PvlKeyword("MinimumLatitude", MAX(SetFloor(latitudeStat.Minimum(),digits), -90.0));
mapping += PvlKeyword("MaximumLatitude", MIN(SetCeil(latitudeStat.Maximum(),digits), 90.0));
mapping += PvlKeyword("MinimumLongitude",MAX(SetFloor(longitudeStat.Minimum(),digits), -180.0));
mapping += PvlKeyword("MaximumLongitude",MIN(SetCeil(longitudeStat.Maximum(),digits), 360.0));
PvlKeyword clat("PreciseCenterLongitude", avgLon);
clat.AddComment("Actual Parameters without precision applied");
mapping += clat;
mapping += PvlKeyword("PreciseCenterLatitude", avgLat);
mapping += PvlKeyword("PreciseMinimumLatitude", latitudeStat.Minimum());
mapping += PvlKeyword("PreciseMaximumLatitude", latitudeStat.Maximum());
mapping += PvlKeyword("PreciseMinimumLongitude",longitudeStat.Minimum());
mapping += PvlKeyword("PreciseMaximumLongitude",longitudeStat.Maximum());
Application::GuiLog(mapping);
// Write the output file if requested
if (ui.WasEntered("TO")) {
Pvl temp;
temp.AddGroup(mapping);
temp.Write(ui.GetFilename("TO","map"));
}
if (ui.WasEntered("LOG")) {
Pvl temp;
temp.AddObject(fileset);
temp.Write(ui.GetFilename("LOG","log"));
}
p.EndProcess();
}
/**
* Removes control points not in the lat/lon range provided in the unput
* parameters.
*
* @param outNet The output control net being removed from
* @param noLanLonPoint The keyword recording all of the control points removed
* due to the provided lat/lon range
* @param noLanLonPoint The keyword recording all of the control points removed
* due to the inability to calculate the lat/lon for that
* point
*/
void ExtractLatLonRange( ControlNet & outNet, PvlKeyword & nonLatLonPoints,
PvlKeyword & cannotGenerateLatLonPoints, map<iString,iString> sn2filename ) {
if( outNet.Size() == 0 ) { return; }
UserInterface &ui = Application::GetUserInterface();
// Get the lat/lon and fix the range for the internal 0/360
double minlat = ui.GetDouble("MINLAT");
double maxlat = ui.GetDouble("MAXLAT");
double minlon = ui.GetDouble("MINLON");
if( minlon < 0.0 ) { minlon += 360; }
double maxlon = ui.GetDouble("MAXLON");
if( maxlon < 0.0 ) { minlon += 360; }
bool useNetwork = ui.GetBoolean("USENETWORK");
Progress progress;
progress.SetText("Calculating lat/lon");
progress.SetMaximumSteps(outNet.Size());
progress.CheckStatus();
CubeManager manager;
manager.SetNumOpenCubes( 50 ); //Should keep memory usage to around 1GB
for( int cp = outNet.Size()-1; cp >= 0; cp --) {
progress.CheckStatus();
// If the Contorl Network takes priority, use it
double pointLat = outNet[cp].UniversalLatitude();
double pointLon = outNet[cp].UniversalLongitude();
bool useControlNet = useNetwork && pointLat > -1000 && pointLon > -1000;
if( outNet[cp].Type() == Isis::ControlPoint::Ground || useControlNet ) {
if( NotInLatLonRange( outNet[cp].UniversalLatitude(),
outNet[cp].UniversalLongitude(),
minlat, maxlat, minlon, maxlon ) ) {
nonLatLonPoints += outNet[cp].Id();
outNet.Delete( cp );
}
}
/**
* If the lat/lon cannot be determined from the point, then we need to calculate
* lat/lon on our own
*/
else if( ui.WasEntered("FROMLIST") ) {
// Find a cube in the Control Point to get the lat/lon from
int cm = 0;
iString sn = "";
double lat = 0.0;
double lon = 0.0;
double radius = 0.0;
// First check the reference Measure
if( outNet[cp].HasReference() ) {
cm = outNet[cp].ReferenceIndex();
if( !sn2filename[outNet[cp][cm].CubeSerialNumber()].empty() ) {
sn = outNet[cp][cm].CubeSerialNumber();
}
}
// Search for other Control Measures if needed
if( sn.empty() ) {
// Find the Serial Number if it exists
for( int cm = 0; (cm < outNet[cp].Size()) && sn.empty(); cm ++ ) {
if( !sn2filename[outNet[cp][cm].CubeSerialNumber()].empty() ) {
sn = outNet[cp][cm].CubeSerialNumber();
}
}
}
// Connot fine a cube to get the lat/lon from
if( sn.empty() ) {
cannotGenerateLatLonPoints += outNet[cp].Id();
outNet.Delete( cp );
}
// Calculate the lat/lon and check for validity
else {
bool remove = false;
Cube *cube = manager.OpenCube( sn2filename[sn] );
Camera *camera = cube->Camera();
if (camera == NULL) {
try {
Projection *projection = ProjectionFactory::Create( (*(cube->Label())) );
if(!projection->SetCoordinate(outNet[cp][cm].Sample(),outNet[cp][cm].Line())) {
nonLatLonPoints += outNet[cp].Id();
remove = true;
}
lat = projection->Latitude();
lon = projection->Longitude();
radius = projection->LocalRadius();
delete projection;
projection = NULL;
} catch ( iException &e ) {
remove = true;
e.Clear();
}
}
else {
if(!camera->SetImage(outNet[cp][cm].Sample(),outNet[cp][cm].Line())) {
nonLatLonPoints += outNet[cp].Id();
remove = true;
}
lat = camera->UniversalLatitude();
lon = camera->UniversalLongitude();
radius = camera->LocalRadius();
camera = NULL;
}
cube = NULL;
if( remove || NotInLatLonRange( lat, lon, minlat, maxlat, minlon, maxlon ) ) {
nonLatLonPoints += outNet[cp].Id();
outNet.Delete( cp );
}
else { // Add the reference lat/lon/radius to the Control Point
outNet[cp].SetUniversalGround( lat, lon, radius );
}
}
}
else {
cannotGenerateLatLonPoints += outNet[cp].Id();
outNet.Delete( cp );
}
}
manager.CleanCubes();
}
void IsisMain() {
const QString mdisddr_program = "mdisddr";
const QString mdisddr_version = "1.0";
const QString mdisddr_revision = "$Revision: 5086 $";
const QString mdisddr_runtime = Application::DateTime();
const QString dataSetID = "MESS-E/V/H-MDIS-6-DDR-GEOMDATA-V1.0";
UserInterface &ui = Application::GetUserInterface();
FileName input(ui.GetFileName("FROM"));
QString to("");
bool toEntered = ui.WasEntered("TO");
if(toEntered) {
to = ui.GetAsString("TO");
}
QString opath("."); // Set default to local directory
if(ui.WasEntered("OPATH")) {
opath = ui.GetString("OPATH");
}
else {
ui.PutAsString("OPATH", opath);
}
// Generate the image cube that phocube produces for the DDR data
FileName phoFile = FileName::createTempFile("$TEMPORARY/" + input.baseName() + "_phocube.cub");
QString pfile = phoFile.expanded();
QString parameters = "FROM=" + input.expanded() + " TO=" + pfile +
" LATITUDE=TRUE LONGITUDE=TRUE PHASE=TRUE EMISSION=TRUE INCIDENCE=TRUE";
ProgramLauncher::RunIsisProgram("phocube", parameters);
// Wrap a try clause so that if anything goes wrong below, we can remove
// the phocube file.
try {
Pvl phoLabel(pfile);
BandMap bandmap;
PvlKeyword bn = phoLabel.findGroup("BandBin", Pvl::Traverse)["Name"];
for(int i = 0 ; i < bn.size() ; i++) {
bandmap.add(bn[i], i + 1);
}
// Set up the export. Note that the attributes selects 5 bands from the
// output of the phocube run. It doesn't matter at this time which 5
// bands it is, just so that we have this established so the right labels
// and file size is created.
ProcessExportPds processPds;
(void) processPds.SetInputCube(pfile, CubeAttributeInput("+1-5"));
// Due to the nature of the phocube file, we cannot compute a histogram
// of the data (it includes lots of data we don't need). So we will
// fix the range to the expected well defined angle ranges.
double minmin = 0.0;
double maxmax = 0.0;
if(ui.GetString("TYPE").compare("AUTOMATIC") == 0) {
minmin = -360.0;
maxmax = 360.0;
}
else {
minmin = ui.GetDouble("MIN");
maxmax = ui.GetDouble("MAX");
}
processPds.SetOutputEndian(Isis::Msb);
processPds.SetExportType(ProcessExportPds::Fixed);
processPds.SetInputRange(minmin, maxmax);
// Set the output pixel type and the special pixel values
processPds.SetOutputType(Real);
processPds.SetOutputRange(minmin, maxmax);
processPds.SetOutputNull(NULL4);
processPds.SetOutputLrs(LOW_REPR_SAT4);
processPds.SetOutputLis(LOW_INSTR_SAT4);
processPds.SetOutputHrs(HIGH_REPR_SAT4);
processPds.SetOutputHis(HIGH_INSTR_SAT4);
Progress p;
p.SetText("Modifying Keywords");
p.SetMaximumSteps(6);
p.CheckStatus();
// Get the PDS label from the process
Pvl &pdsLabel = processPds.StandardPdsLabel(ProcessExportPds::Image);
// Translate the keywords from the original EDR PDS label that go in
// this DDR PDS label. Note that we have to open the original (FROM)
// cube as the phocube output goes into the specification of the
// output PDS file (required for 5 band IMAGE object).
Cube from;
from.open(input.expanded());
OriginalLabel origBlob;
from.read(origBlob);
Pvl origLabel;
PvlObject origLabelObj = origBlob.ReturnLabels();
origLabelObj.setName("OriginalLabelObject");
origLabel.addObject(origLabelObj);
p.CheckStatus();
// Translates the ISIS labels along with the original EDR labels
origLabel.addObject(*from.label());
PvlTranslationManager labels(origLabel,
"$messenger/translations/mdisDDRLabel.trn");
labels.Auto(pdsLabel);
p.CheckStatus();
// Add any new keywords
QString lnote = "2007-12-20, S. Murchie (JHU/APL); "
"2008-01-02, S. Murchie (JHU/APL); "
"2008-01-11, J. Ward (GEO)";
pdsLabel += PvlKeyword("LABEL_REVISION_NOTE", lnote);
pdsLabel += PvlKeyword("SPACECRAFT_NAME", Quote("MESSENGER"));
// Fixes bad keywords
PvlKeyword &data_set_id = pdsLabel.findKeyword("DATA_SET_ID", Pvl::Traverse);
data_set_id.setValue(dataSetID);
QString prodid(input.baseName());
PvlKeyword &product_id = pdsLabel.findKeyword("PRODUCT_ID", Pvl::Traverse);
if((product_id.size() == 0) || ((product_id.size() > 0) && (product_id[0] == "N/A"))) {
product_id.setValue(prodid);
}
else {
QString pid = product_id[0];
pid[0] = 'D';
pid.remove(QRegExp("_.*"));
pid.append("_DE_0");
product_id.setValue(pid);
prodid = pid;
}
// Now we have enough to establish output file name
if(!toEntered) to = opath + "/" + prodid;
FileName output(to);
output = output.addExtension("IMG");
if(!toEntered) ui.PutFileName("TO", output.expanded());
PvlKeyword &product_creation_time = pdsLabel.findKeyword("PRODUCT_CREATION_TIME", Pvl::Traverse);
product_creation_time.setValue(mdisddr_runtime);
PvlKeyword &software_name = pdsLabel.findKeyword("SOFTWARE_NAME", Pvl::Traverse);
software_name.setValue(mdisddr_program);
PvlKeyword &software_version_id = pdsLabel.findKeyword("SOFTWARE_VERSION_ID", Pvl::Traverse);
software_version_id.setValue(Quote(mdisddr_version));
PvlKeyword &filter_number = pdsLabel.findKeyword("FILTER_NUMBER", Pvl::Traverse);
if((filter_number.size() > 0)) {
filter_number.setValue(Quote(filter_number[0]));
}
// Add quotes
PvlKeyword &data_quality_id = pdsLabel.findKeyword("DATA_QUALITY_ID", Pvl::Traverse);
data_quality_id.setValue(Quote(data_quality_id));
PvlKeyword &sequence_name = pdsLabel.findKeyword("SEQUENCE_NAME", Pvl::Traverse);
sequence_name.setValue(Quote(sequence_name));
PvlKeyword &start_count = pdsLabel.findKeyword("SPACECRAFT_CLOCK_START_COUNT", Pvl::Traverse);
start_count.setValue(Quote(start_count));
PvlKeyword &stop_count = pdsLabel.findKeyword("SPACECRAFT_CLOCK_STOP_COUNT", Pvl::Traverse);
stop_count.setValue(Quote(stop_count));
// For DDRs, the SOURCE_PRODUCT_ID is made up of SPICE kernels. I need to
// go get em.
Kernels kernels(from);
QStringList kfiles = kernels.getKernelList();
PvlKeyword &source_product_id = pdsLabel.findKeyword("SOURCE_PRODUCT_ID", Pvl::Traverse);
source_product_id.clear();
for(int i = 0; i < kfiles.size(); i++) {
FileName kfile(kfiles[i]);
source_product_id.addValue(Quote(kfile.name()));
}
// Enforce parentheses for scalars
if(source_product_id.size() == 1)
source_product_id.setValue('(' + source_product_id[0] + ')');
// Removes keywords
PvlObject imageObject(pdsLabel.findObject("IMAGE"));
if(imageObject.hasKeyword("CENTER_FILTER_WAVELENGTH")) imageObject.deleteKeyword("CENTER_FILTER_WAVELENGTH");
if(imageObject.hasKeyword("BANDWIDTH")) imageObject.deleteKeyword("BANDWIDTH");
if(imageObject.hasKeyword("UNIT")) imageObject.deleteKeyword("UNIT");
if(imageObject.hasKeyword("DARK_STRIP_MEAN")) imageObject.deleteKeyword("DARK_STRIP_MEAN");
if(imageObject.hasKeyword("OFFSET")) imageObject.deleteKeyword("OFFSET");
if(imageObject.hasKeyword("SCALING_FACTOR")) imageObject.deleteKeyword("SCALING_FACTOR");
if(imageObject.hasKeyword("SAMPLE_BIT_MASK")) imageObject.deleteKeyword("SAMPLE_BIT_MASK");
// Add band names to image object
PvlKeyword &bandNames = imageObject.findKeyword("FILTER_NAME");
bandNames.setName("BAND_NAME");
bandNames.clear();
bandNames.addValue("Latitude, planetocentric, deg N");
bandNames.addValue("Longitude, planetocentric, deg E");
bandNames.addValue("Incidence angle at equipotential surface, deg");
bandNames.addValue("Emission angle at equipotential surface, deg");
bandNames.addValue("Phase angle at equipotential surface, deg");
pdsLabel.deleteObject("IMAGE");
pdsLabel.addObject(imageObject);
p.CheckStatus();
// Fix all the hosed units upon ingest. They are illformed.
FixUnit(pdsLabel, "RETICLE_POINT_RA", "DEG");
FixUnit(pdsLabel, "RETICLE_POINT_DECLINATION", "DEG");
FixUnit(pdsLabel, "RETICLE_POINT_LATITUDE", "DEG");
FixUnit(pdsLabel, "RETICLE_POINT_LONGITUDE", "DEG");
// Now address nested keywords in SUBFRAME groups
for(int i = 1 ; i <= 5 ; i++) {
QString n(toString(i));
QString group = "SUBFRAME" + n + "_PARAMETERS";
if(pdsLabel.hasGroup(group)) {
PvlGroup &grp = pdsLabel.findGroup(group);
ValidateUnit(grp.findKeyword("RETICLE_POINT_LATITUDE"), "DEG");
ValidateUnit(grp.findKeyword("RETICLE_POINT_LONGITUDE"), "DEG");
}
}
p.CheckStatus();
// Finally, fix keywords by Quoting missing N/A values
FixLabels(pdsLabel);
p.CheckStatus();
// All done...write result.
pdsLabel.setFormatTemplate("$messenger/templates/labels/mdisPdsDDR.pft");
QString ofile(output.expanded());
ofstream outstream(ofile.toAscii().data());
processPds.OutputLabel(outstream);
// Writing out the 5 bands is a bit tricky for this product. The bands
// must be ordered in a specific order, but phocube orders them in a
// different order. To make this approach work, determine the proper band
// as ordered in the phocube output and select the desired bands one at a
// time setting the input cube to the desired band and writing it out by
// stream.
// Write latitude, longitude, incidence, emission, phase bands
WriteBand(processPds, outstream, pfile, bandmap.get("Latitude"));
WriteBand(processPds, outstream, pfile, bandmap.get("Longitude"));
WriteBand(processPds, outstream, pfile, bandmap.get("Incidence Angle"));
WriteBand(processPds, outstream, pfile, bandmap.get("Emission Angle"));
WriteBand(processPds, outstream, pfile, bandmap.get("Phase Angle"));
outstream.close();
processPds.EndProcess();
remove(pfile.toAscii().data());
}
catch(IException &) {
remove(pfile.toAscii().data());
throw;
}
catch(...) {
remove(pfile.toAscii().data());
throw IException(IException::Unknown, "Unexpected exception caught!",
_FILEINFO_);
}
}
// Construct a BLOb to contain the Hirise main line suffix and prefix data
void SaveHiriseAncillaryData (ProcessImportPds &process, Cube *ocube) {
vector<int> ConvertCalibrationPixels (int samples,
Isis::PixelType pixelType,
unsigned char *data);
// Setup a Table to hold the main image prefix/suffix data
TableField gap("GapFlag", TableField::Integer);
TableField line("LineNumber", TableField::Integer);
TableField buffer("BufferPixels", TableField::Integer, 12);
TableField dark("DarkPixels", TableField::Integer, 16);
TableRecord rec;
rec += gap;
rec += line;
rec += buffer;
rec += dark;
Table table("HiRISE Ancillary", rec);
table.SetAssociation (Table::Lines);
// Loop through all the prefix and suffix data and construct the table records
// In the case of HiRISE there is only one band so the outside vector
// only contains one entry. The inside vector contains nl entries.
vector<vector<char *> > pre = process.DataPrefix();
vector<vector<char *> > suf = process.DataSuffix();
vector<char *> prefix = pre.at(0);
vector<char *> suffix = suf.at(0);
Progress progress;
progress.SetText("Saving ancillary data");
progress.SetMaximumSteps(prefix.size());
progress.CheckStatus();
for (unsigned int l=0; l<prefix.size(); l++) {
unsigned char *linePrefix = (unsigned char *)(prefix[l]);
// Pull out the gap byte (in byte 0)
rec[0] = (int)(linePrefix[0]);
// Pull out the line number (bytes 3-5 3=MSB, 5=LSB)
int lineCounter = 0;
lineCounter += ((int)(linePrefix[3])) << 16;
lineCounter += ((int)(linePrefix[4])) << 8;
lineCounter += ((int)(linePrefix[5]));
rec[1] = lineCounter;
// Pull the 12 buffer pixels (same type as image data)
// from the image prefix area
linePrefix += 6;
section = 3;
rec[2] = ConvertCalibrationPixels (12, process.PixelType(),linePrefix);
linePrefix += 12 * SizeOf(process.PixelType());
// Pull the 16 dark pixels (same type as image data)
// from the image suffix area
unsigned char *lineSuffix = (unsigned char *)(suffix[l]);
section = 5;
rec[3] = ConvertCalibrationPixels (16, process.PixelType(),lineSuffix);
lineSuffix += 16 * SizeOf(process.PixelType());
// Add this record to the table
table += rec;
// Report the progress
progress.CheckStatus();
}
// Add the table to the output cube
ocube->Write(table);
}
void IsisMain() {
UserInterface &ui = Application::GetUserInterface();
double time0,//start time
time1,//end time
alti, //altitude of the spacecraftmore
fmc, //forward motion compensation rad/sec
horV, //horizontal velocity km/sec
radV, //radial velocity km/sec
rollV,//roll speed in rad/sec
led; //line exposure duration in seconds
Cube panCube;
iTime isisTime;
QString iStrTEMP;
int i,j,k,scFrameCode,insCode;
QString mission;
SpicePosition *spPos;
SpiceRotation *spRot;
//int nlines,nsamples,nbands;
double deg2rad = acos(-1.0)/180.0;
ProcessImport jp;
FileName transFile("$apollo15/translations/apollopantranstable.trn");
PvlTranslationTable transTable(transFile);
PvlGroup kernels_pvlG;
//scFrameCode and insCode from user input
mission = ui.GetString("MISSION");
if (mission == "APOLLO12") scFrameCode = -912000;
if (mission == "APOLLO14") scFrameCode = -914000;
if (mission == "APOLLO15") scFrameCode = -915000;
if (mission == "APOLLO16") scFrameCode = -916000;
if (mission == "APOLLO17") scFrameCode = -917000;
insCode = scFrameCode - 230;
try {
panCube.open(ui.GetFileName("FROM"),"rw");
}
catch (IException &e) {
throw IException(IException::User,
"Unable to open the file [" + ui.GetFileName("FROM") + "] as a cube.",
_FILEINFO_);
}
////////////////////////////////////////////build the cube header instrament group
PvlGroup inst_pvlG("Instrument");
PvlKeyword keyword;
//four that are the same for every panaramic mission
keyword.setName("SpacecraftName");
keyword.setValue(mission);
inst_pvlG.addKeyword(keyword);
keyword.setName("InstrumentName");
keyword.setValue(transTable.Translate("InstrumentName","whatever"));
inst_pvlG.addKeyword(keyword);
keyword.setName("InstrumentId");
keyword.setValue(transTable.Translate("InstrumentId","whatever"));
inst_pvlG.addKeyword(keyword);
keyword.setName("TargetName");
keyword.setValue(transTable.Translate("TargetName","whatever"));
inst_pvlG.addKeyword(keyword);
//three that need to be calculated from input values
horV = ui.GetDouble("VEL_HORIZ");
radV = ui.GetDouble("VEL_RADIAL");
alti = ui.GetDouble("CRAFT_ALTITUDE");
//caculate the LineExposureDuration (led)
if( ui.WasEntered("V/H_OVERRIDE") )
fmc = ui.GetDouble("V/H_OVERRIDE")/1000.0;
else
//forward motion compensation is directly equivalent to V/H
fmc = sqrt(horV*horV + radV*radV)/alti;
rollV = fmc*ROLLC; //roll angular velcoity is equal to V/H * constant (units rad/sec)
//led = rad/mm * sec/rad = radians(2.5)/FIDL / rollV (final units: sec/mm)
led = (2.5*acos(-1.0)/180.0)/rollV/FIDL;
//use led and the number of mm to determine the start and stop times
isisTime = ui.GetString("GMT");
//calculate starting and stoping times
time0 = isisTime.Et() - led*FIDL*21.5;
time1 = time0 + led*FIDL*43;
isisTime = time0;
keyword.setName("StartTime");
keyword.setValue(iStrTEMP=isisTime.UTC());
inst_pvlG.addKeyword(keyword);
isisTime = time1;
keyword.setName("StopTime");
keyword.setValue(iStrTEMP=isisTime.UTC());
inst_pvlG.addKeyword(keyword);
keyword.setName("LineExposureDuration");
//converted led to msec/mm--negative sign to account for the anti-parallel time and line axes
keyword.setValue(iStrTEMP=toString(-led),"sec/mm");
inst_pvlG.addKeyword(keyword);
panCube.putGroup(inst_pvlG);
///////////////////////////////////The kernals group
kernels_pvlG.setName("Kernels");
kernels_pvlG.clear();
keyword.setName("NaifFrameCode");
keyword.setValue(toString(insCode));
kernels_pvlG.addKeyword(keyword);
keyword.setName("LeapSecond");
keyword.setValue( transTable.Translate("LeapSecond","File1") );
kernels_pvlG.addKeyword(keyword);
keyword.setName("TargetAttitudeShape");
keyword.setValue( transTable.Translate("TargetAttitudeShape", "File1") );
keyword.addValue( transTable.Translate("TargetAttitudeShape", "File2") );
keyword.addValue( transTable.Translate("TargetAttitudeShape", "File3") );
kernels_pvlG.addKeyword(keyword);
keyword.setName("TargetPosition");
keyword.setValue("Table");
keyword.addValue( transTable.Translate("TargetPosition", "File1") );
keyword.addValue( transTable.Translate("TargetPosition", "File2") );
kernels_pvlG.addKeyword(keyword);
keyword.setName("ShapeModel");
keyword.setValue( transTable.Translate("ShapeModel", "File1") );
kernels_pvlG.addKeyword(keyword);
keyword.setName("InstrumentPointing");
keyword.setValue("Table");
kernels_pvlG.addKeyword(keyword);
keyword.setName("InstrumentPosition");
keyword.setValue("Table");
kernels_pvlG.addKeyword(keyword);
keyword.setName("InstrumentAddendum");
keyword.setValue( transTable.Translate("InstrumentAddendum",mission));
kernels_pvlG.addKeyword(keyword);
panCube.putGroup(kernels_pvlG);
//Load all the kernals
Load_Kernel(kernels_pvlG["TargetPosition"]);
Load_Kernel(kernels_pvlG["TargetAttitudeShape"]);
Load_Kernel(kernels_pvlG["LeapSecond"]);
//////////////////////////////////////////attach a target rotation table
char frameName[32];
SpiceInt frameCode;
SpiceBoolean found;
//get the framecode from the body code (301=MOON)
cidfrm_c(301, sizeof(frameName), &frameCode, frameName, &found);
if(!found) {
QString naifTarget = QString("IAU_MOOM");
namfrm_c(naifTarget.toAscii().data(), &frameCode);
if(frameCode == 0) {
QString msg = "Can not find NAIF code for [" + naifTarget + "]";
throw IException(IException::Io, msg, _FILEINFO_);
}
}
spRot = new SpiceRotation(frameCode);
//create a table from starttime to endtime (streched by 3%) with NODES entries
spRot->LoadCache(time0-0.015*(time1-time0), time1+0.015*(time1-time0), NODES);
Table tableTargetRot = spRot->Cache("BodyRotation");
tableTargetRot.Label() += PvlKeyword("Description", "Created by apollopaninit");
panCube.write(tableTargetRot);
//////////////////////////////////////////////////attach a sun position table
spPos = new SpicePosition(10,301); //Position of the sun (10) WRT to the MOON (301)
//create a table from starttime to endtime (stretched by 3%) with NODES entries
spPos->LoadCache(time0-0.015*(time1-time0), time1+0.015*(time1-time0), NODES);
Table tableSunPos = spPos->Cache("SunPosition");
tableSunPos.Label() += PvlKeyword("SpkTableStartTime", toString(time0-0.015*(time1-time0)));
tableSunPos.Label() += PvlKeyword("SpkTablleEndTime", toString(time1+0.015*(time1-time0)));
tableSunPos.Label() += PvlKeyword("Description", "Created by apollopaninit");
panCube.write(tableSunPos); //attach the table to the cube
/////////////Finding the principal scan line position and orientation
//get the radii of the MOON
SpiceInt tempRadii = 0;
bodvcd_c(301,"RADII",3,&tempRadii,R_MOON); //units are km
double omega,phi,kappa;
std::vector<double> posSel; //Seleno centric position
std::vector<double> sunPos; //sunPosition used to transform to J2000
std::vector<double> posJ20; //camera position in J2000
posSel.resize(3);
sunPos.resize(3);
posJ20.resize(3);
double temp,
vel[3] = { 0.0, 0.0, 0.0 }, //the total velocity vector (combined Horizonatal and normal components)
// in km/sec
M[3][3] = { { 0.0, 0.0, 0.0 },
{ 0.0, 0.0, 0.0 },
{ 0.0, 0.0, 0.0 } }, //rotation matrix
zDir[] = { 0.0, 0.0, 1.0 }, //selenographic Z axis
northPN[3] = { 0.0, 0.0, 0.0 }, //normal to the plane containing all the north/south directions,
// that is plane containing
// the origin, the z axis, and the primary point of intersection
northL[3] = { 0.0, 0.0, 0.0 }, //north direction vector in local horizontal plane
azm[3] = { 0.0, 0.0, 0.0 }, //azm direction of the veclocity vector in selenographic coordinates
azmP[3] = { 0.0, 0.0, 0.0 }, //azm rotated (partially) and projected into the image plane
norm[3] = { 0.0, 0.0, 0.0 }, //normal to the local horizontal plane
look[3] = { 0.0, 0.0, 0.0 }; //unit direction vector in the pincipal cameral look direction,
// parallel to the vector from the center of the moon through the spacecraft
double pos0[3] = { 0.0, 0.0, 0.0 }, //coordinate of the camera position
pInt[3] = { 0.0, 0.0, 0.0 }; //coordinate of the principle intersection point
/////////////////calculating the camera position for the center (principal scan line)
pos0[1] = ui.GetDouble("LON_NADIR")*deg2rad;
pos0[0] = ui.GetDouble("LAT_NADIR")*deg2rad;
pos0[2] = ui.GetDouble("CRAFT_ALTITUDE"); //units are km
Geographic2GeocentricLunar(pos0,pos0); //function is written so the input can also be the
// output
/////////////////////calculating the camera orientation for the center (principal) scan line
pInt[1] = ui.GetDouble("LON_INT")*deg2rad;
pInt[0] = ui.GetDouble("LAT_INT")*deg2rad;
pInt[2] = 0.0;
Geographic2GeocentricLunar(pInt,pInt); //function is written so the input can also be the output
//calculate the unit look direction vector in object space
look[0] = -pos0[0] + pInt[0];
look[1] = -pos0[1] + pInt[1];
look[2] = -pos0[2] + pInt[2];
temp = sqrt(look[0]*look[0] + look[1]*look[1] + look[2]*look[2]);
look[0] /= temp;
look[1] /= temp;
look[2] /= temp;
//the local normal vector is equal to pInt0/|pInt0|
temp = sqrt(pInt[0]*pInt[0] + pInt[1]*pInt[1] + pInt[2]*pInt[2]);
norm[0] = pInt[0]/temp;
norm[1] = pInt[1]/temp;
norm[2] = pInt[2]/temp;
//omega and phi are defined so that M(phi)M(omega)look = [0 0 -1] leaving only the roation
// around z axis to be found
omega = -atan2(look[1], look[2]); //omega rotation to zero look[1]
phi = atan2(-look[0], sin(omega)*look[1] - cos(omega)*look[2]); //phi rotation to zero look[0]
//use the horizontal velocity vector direction to solve for the last rotation; we will make the
// image x axis parallel to the in-image-plane projection of the horizontal direction of flight.
// The local normal cross the selenogrpahic z gives northPN (normal to the plane containing all
// the north/south directions), that is, the plane containing the origin, the z axis, and the
// primary point of intersection.
crossp(northPN,norm,northL);
//The normal to the plane containing all the north/south directions cross the local normal
// direction gives the local north/south direction in the local normal plane
crossp(norm, zDir, northPN);
if (northL[2] < 0) { //if by chance we got the south direction change the signs
northL[0] = -northL[0];
northL[1] = -northL[1];
northL[2] = -northL[2];
}
//define the rotation matrix to convert northL to the azimuth of flight.
// A left handed rotation of "VEL_AZM" around the positive normal direction will convert northL
// to azm
MfromVecLeftAngle(M,norm,ui.GetDouble("VEL_AZM")*deg2rad);
azm[0] = M[0][0]*northL[0] + M[0][1]*northL[1] + M[0][2]*northL[2];
azm[1] = M[1][0]*northL[0] + M[1][1]*northL[1] + M[1][2]*northL[2];
azm[2] = M[2][0]*northL[0] + M[2][1]*northL[1] + M[2][2]*northL[2];
//apply the two rotations we already know
MfromLeftEulers(M,omega,phi,0.0);
azmP[0] = M[0][0]*azm[0] + M[0][1]*azm[1] + M[0][2]*azm[2];
azmP[1] = M[1][0]*azm[1] + M[1][1]*azm[1] + M[1][2]*azm[2];
azmP[2] = M[2][0]*azm[2] + M[2][1]*azm[1] + M[2][2]*azm[2];
//subtract that portion of the azm that is perpindicular to the image plane (also the portion
// which is parallel to look) making azm a vector parrallel to the image plane
// Further, since we're now rotated into some coordinate system that differs from
// the image coordinate system by only a kappa rotation making the vector parrallel to the
// image plan is as simple as zeroing the z component (and as pointless to further calculations
// as a nat's fart in hurricane) nevertheless it completes the logical transition
azmP[2] = 0.0;
//finally the kappa rotation that will make azmP parallel (including sign) to the camera x axis
kappa = -atan2(-azmP[1], azmP[0]);
////////////////////Add an instrument position table
//Define the table records
TableRecord recordPos; // reacord to be added to table
// add x,y,z position labels and ephemeris time et to record
TableField x("J2000X", TableField::Double);
TableField y("J2000Y", TableField::Double);
TableField z("J2000Z", TableField::Double);
TableField t("ET", TableField::Double);
recordPos += x;
recordPos += y;
recordPos += z;
recordPos += t;
Table tablePos("InstrumentPosition", recordPos);
//now that the azm and norm vectors are defined
// the total velocity vector can be calcualted (km/sec)
vel[0] = horV*azm[0] + radV * norm[0];
vel[1] = horV*azm[1] + radV * norm[1];
vel[2] = horV*azm[2] + radV * norm[2];
//we'll provide a two ellement table (more is redundant because the motion is modeled as linear
// at this point) we'll extend the nodes 3% beyond the edges of the images to be sure
// rounding errors don't cause problems
temp = 0.515*(time1-time0); //3% extension
posSel[0] = pos0[0] - temp*vel[0]; //selenocentric coordinate calculation
posSel[1] = pos0[1] - temp*vel[1];
posSel[2] = pos0[2] - temp*vel[2];
//converting to J2000
temp = time0 - 0.005*(time1-time0); //et just before the first scan line
spPos->SetEphemerisTime(temp);
spRot->SetEphemerisTime(temp);
//Despite being labeled as J2000, the coordinates for the instrument position are in fact in
// target centric coordinated rotated to a system centered at the target with aces parallel
// to J2000, whatever that means
posJ20 = spRot->J2000Vector(posSel); //J2000Vector calls rotates the position vector into J2000,
// completing the transformation
recordPos[0] = posJ20[0];
recordPos[1] = posJ20[1];
recordPos[2] = posJ20[2];
recordPos[3] = temp; //temp = et (right now anyway)
tablePos += recordPos;
tablePos.Label() += PvlKeyword("SpkTableStartTime",toString(temp));
//now the other node
temp = 0.515*(time1-time0); //3% extension
posSel[0] = pos0[0] + temp*vel[0]; //selenocentric coordinate calculation
posSel[1] = pos0[1] + temp*vel[1];
posSel[2] = pos0[2] + temp*vel[2];
//converting to J2000
temp = time1 + 0.015*(time1-time0); //et just after the last scan line
spPos->SetEphemerisTime(temp);
spRot->SetEphemerisTime(temp);
//Despite being labeled as J2000, the coordinates for the instrument position are in fact
// in target centric coordinated rotated to a system centered at the target with aces
// parallel to J2000, whatever that means
posJ20 = spRot->J2000Vector(posSel); //J2000Vector calls rotates the position vector into J2000,
// completing the transformation
recordPos[0] = posJ20[0];
recordPos[1] = posJ20[1];
recordPos[2] = posJ20[2];
recordPos[3] = temp; //temp = et (right now anyway)
tablePos += recordPos;
tablePos.Label() += PvlKeyword("SpkTableEndTime",toString(temp));
tablePos.Label() += PvlKeyword("CacheType","Linear");
tablePos.Label() += PvlKeyword("Description","Created by apollopaninit");
panCube.write(tablePos); //now attach it to the table
/////////////////////////////attach a camera pointing table
double cacheSlope, //time between epoches in the table
rollComb, //magnitude of roll relative to the center in the middle of the epoch
relT, //relative time at the center of each epoch
Q[NODES][5], //NODES four ellement unit quarternions and et (to be calculated).
gimVec[3], //the direction of the gimbal rotation vector (to the cameras persepective
// this is always changing because the camera is mounted to the roll frame
// assembly which is mounted to the gimbal)
M0[3][3], //rotation matrix of the previous epoch
Mtemp1[3][3], //intermediate step in the multiplication of rotation matricies
Mtemp2[3][3], //intermediate step in the multiplication of rotation matricies
Mdg[3][3], //incremental rotation due the the gimbal motion in the camera frame
Mdr[3][3]; //the contribution of the roll motion in the camera frame during time
// cacheSlope
std::vector <double> M_J2toT; //rotation matrix from J2000 to the target frame
M_J2toT.resize(9);
//Table Definition
TableField q0("J2000Q0", TableField::Double);
TableField q1("J2000Q1", TableField::Double);
TableField q2("J2000Q2", TableField::Double);
TableField q3("J2000Q3", TableField::Double);
TableField et("ET", TableField::Double);
TableRecord recordRot;
recordRot += q0;
recordRot += q1;
recordRot += q2;
recordRot += q3;
recordRot += et;
Table tableRot("InstrumentPointing",recordRot);
//From the cameras perspective the gimbal motion is around a constantly changing axis,
// this is handled by combining a series of incremental rotations
MfromLeftEulers(M0, omega, phi, kappa); //rotation matrix in the center Q[(NOPDES-1)/2]
spRot->SetEphemerisTime(isisTime.Et());
M_J2toT = spRot->Matrix(); //this actually gives the rotation from J2000 to target centric
for(j=0; j<3; j++) //reformating M_J2toT to a 3x3
for(k=0; k<3; k++)
Mtemp1[j][k] = M_J2toT[3*j+k];
mxm_c(M0, Mtemp1, Mtemp2);
M2Q(Mtemp2, Q[(NODES-1)/2]); //save the middle scan line quarternion
Q[(NODES-1)/2][4] = (time1 + time0)/2.0; //time in the center of the image
//the total time is scaled up slightly so that nodes will extend just beyond the edge of the image
cacheSlope = 1.03*(time1 - time0)/(NODES-1);
//Mdr is constant for all the forward time computations
MfromLeftEulers(Mdr,cacheSlope*rollV,0.0,0.0);
for (i=(NODES-1)/2+1; i<NODES; i++) { //moving foward in time first
Q[i][4] = Q[i-1][4] + cacheSlope; //new time epoch
//epoch center time relative to the center line
relT = double(i - (NODES-1)/2 - 0.5)*cacheSlope;
rollComb = relT*rollV;
gimVec[0] = 0.0; //gimbal rotation vector direction in the middle of the epoch
gimVec[1] = cos(rollComb);
gimVec[2] = -sin(rollComb);
//incremental rotation due to the gimbal (forward motion compensation)
MfromVecLeftAngle(Mdg, gimVec, fmc*cacheSlope);
//the new rotation matrix is Transpose(Mdr)*Transpose(Mdg)*M0--NOTE the order swap and
// transposes are needed because both Mdr and Mdg were caculated in image space and need to be
// transposed to apply to object space
mtxm_c(Mdg, M0, Mtemp1);
//M0 is now what would typically be considered the rotation matrix of an image. It rotates a
// vector from the target centric space into camera space. However, what is standard to
// include in the cube labels is a rotation from camera space to J2000. M0 is therefore the
// transpose of the first part of this rotation. Transpose(M0) is the rotation from camera
// space to target centric space
mtxm_c(Mdr, Mtemp1, M0);
//now adding the rotation from the target frame to J2000
spRot->SetEphemerisTime(Q[i][4]);
//this actually gives the rotation from J2000 to target centric--hence the mxmt_c function being
// used later
M_J2toT = spRot->Matrix();
for(j=0; j<3; j++) //reformating M_J2toT to a 3x3
for(k=0; k<3; k++)
Mtemp1[j][k] = M_J2toT[3*j+k];
mxm_c(M0, Mtemp1, Mtemp2);
M2Q(Mtemp2, Q[i]); //convert to a quarterion
}
MfromLeftEulers(M0, omega, phi, kappa); //rotation matrix in the center Q[(NOPDES-1)/2]
//Mdr is constant for all the backward time computations
MfromLeftEulers(Mdr, -cacheSlope*rollV, 0.0, 0.0);
for (i=(NODES-1)/2-1; i>=0; i--) { //moving backward in time
Q[i][4] = Q[i+1][4] - cacheSlope; //new time epoch
//epoch center time relative to the center line
relT = double(i - (NODES-1)/2 + 0.5)*cacheSlope;
rollComb = relT*rollV;
gimVec[0] = 0.0; //gimbal rotation vector direction in the middle of the epoch
gimVec[1] = cos(rollComb);
gimVec[2] = -sin(rollComb);
//incremental rotation due to the gimbal (forward motion compensation)
MfromVecLeftAngle(Mdg, gimVec, -fmc*cacheSlope);
//the new rotation matrix is Transpose(Mdr)*Transpose(Mdg)*M0 NOTE the order swap and
// transposes are needed because both Mdr and Mdg were caculated in image space and need to be
// transposed to apply to object space
mtxm_c(Mdg, M0, Mtemp1);
//M0 is now what would typically be considered the rotation matrix of an image. It rotates a
// vector from the target centric space into camera space. However, what is standard to
// include in the cube labels is a rotation from camera space to J2000. M0 is therefore the
// transpose of the first part of this rotation. Transpose(M0) is the rotation from camera
// space to target centric space
mtxm_c(Mdr, Mtemp1, M0);
//now adding the rotation from the target frame to J2000
spRot->SetEphemerisTime(Q[i][4]);
M_J2toT = spRot->Matrix();
for(j=0; j<3; j++) //reformating M_J2toT to a 3x3
for(k=0; k<3; k++)
Mtemp1[j][k] = M_J2toT[3*j+k];
mxm_c(M0, Mtemp1, Mtemp2);
M2Q(Mtemp2, Q[i]); //convert to a quarterion
}
//fill in the table
for (i=0; i<NODES; i++) {
recordRot[0] = Q[i][0];
recordRot[1] = Q[i][1];
recordRot[2] = Q[i][2];
recordRot[3] = Q[i][3];
recordRot[4] = Q[i][4];
tableRot += recordRot;
}
tableRot.Label() += PvlKeyword("CkTableStartTime", toString(Q[0][4]));
tableRot.Label() += PvlKeyword("CkTableEndTime", toString(Q[NODES-1][4]));
tableRot.Label() += PvlKeyword("Description", "Created by appollopan2isis");
keyword.setName("TimeDependentFrames");
keyword.setValue(toString(scFrameCode));
keyword.addValue("1");
tableRot.Label() += keyword;
keyword.setName("ConstantFrames");
keyword.setValue(toString(insCode));
keyword.addValue(toString(scFrameCode));
tableRot.Label() += keyword;
keyword.setName("ConstantRotation");
keyword.setValue("1");
for (i=1;i<9;i++)
if (i%4 == 0) keyword.addValue("1");
else keyword.addValue("0");
tableRot.Label() += keyword;
panCube.write(tableRot);
/////////////////////////Attach a table with all the measurements of the fiducial mark locations.
Chip patternS,searchS; //scaled pattern and search chips
Cube fidC; //Fiducial image
//line and sample coordinates for looping through the panCube
double l=1,s=1,sample,line,sampleInitial=1,lineInitial=1,play;
int regStatus,
fidn,
panS,
refL, //number of lines in the patternS
refS; //number of samples in the patternS
Pvl pvl;
bool foundFirst=false;
QString fileName;
panS = panCube.sampleCount();
//Table definition
TableRecord recordFid;
TableField indexFid("FID_INEX",TableField::Integer);
TableField xFid("X_COORD",TableField::Double);
TableField yFid("Y_COORD",TableField::Double);
recordFid += indexFid;
recordFid += xFid;
recordFid += yFid;
Table tableFid("Fiducial Measurement",recordFid);
//read the image resolutions and scale the constants acordingly
double resolution = ui.GetDouble("MICRONS"), //pixel size in microns
scale = SCALE *5.0/resolution, //reduction scale for fast autoregistrations
searchHeight = SEARCHh*5.0/resolution, //number of lines (in 5-micron-pixels) in
// search space for the first fiducial
searchCellSize = SEARCHc*5.0/resolution, //height/width of search chips block
averageSamples = AVERs *5.0/resolution, //scaled smaples between fiducials
averageLines = AVERl *5.0/resolution; //scaled average distance between the top and
//bottom fiducials
if( 15.0/resolution < 1.5) play=1.5;
else play = 15.0/resolution;
//copy the patternS chip (the entire ApolloPanFiducialMark.cub)
FileName fiducialFileName("$apollo15/calibration/ApolloPanFiducialMark.cub");
fidC.open(fiducialFileName.expanded(),"r");
if( !fidC.isOpen() ) {
QString msg = "Unable to open the fiducial patternS cube: ApolloPanFiducialMark.cub\n";
throw IException(IException::User, msg, _FILEINFO_);
}
refL = fidC.lineCount();
refS = fidC.sampleCount();
//scaled pattern chip for fast matching
patternS.SetSize(int((refS-2)/SCALE), int((refL-2)/SCALE));
patternS.TackCube((refS-1)/2, (refL-1)/2);
patternS.Load(fidC, 0, SCALE);
//parameters for maximum correlation autoregestration
// see: file:///usgs/pkgs/isis3nightly2011-09-21/isis/doc/documents/patternSMatch/patternSMatch.html#DistanceTolerance
FileName fiducialPvl("$apollo15/templates/apolloPanFiducialFinder.pvl");
pvl.read(fiducialPvl.expanded()); //read in the autoreg parameters
AutoReg *arS = AutoRegFactory::Create(pvl);
*arS->PatternChip() = patternS; //patternS chip is constant
//set up a centroid measurer
CentroidApolloPan centroid(resolution);
Chip inputChip,selectionChip;
inputChip.SetSize(int(ceil(200*5.0/resolution)), int(ceil(200*5.0/resolution)));
fileName = ui.GetFileName("FROM");
if( panCube.pixelType() == 1) //UnsignedByte
centroid.setDNRange(12, 1e99); //8 bit bright target
else
centroid.setDNRange(3500, 1e99); //16 bit bright target
Progress progress;
progress.SetText("Locating Fiducials");
progress.SetMaximumSteps(91);
//Search for the first fiducial, search sizes are constanst
searchS.SetSize(int(searchCellSize/scale),int(searchCellSize/scale));
//now start searching along a horizontal line for the first fiducial mark
for(l = searchCellSize/2;
l<searchHeight+searchCellSize/2.0 && !foundFirst;
l+=searchCellSize-125*5.0/resolution) {
for (s = searchCellSize/2;
s < averageSamples + searchCellSize/2.0 && !foundFirst;
s += searchCellSize-125*5.0/resolution) {
searchS.TackCube(s, l);
searchS.Load(panCube, 0, scale);
*arS->SearchChip() = searchS;
regStatus = arS->Register();
if (regStatus == AutoReg::SuccessPixel) {
inputChip.TackCube(arS->CubeSample(), arS->CubeLine());
inputChip.Load(panCube, 0, 1);
inputChip.SetCubePosition(arS->CubeSample(), arS->CubeLine());
//continuous dynamic range selection
centroid.selectAdaptive(&inputChip, &selectionChip);
//elliptical trimming/smoothing
if (centroid.elipticalReduction(&selectionChip, 95, play, 2000)) {
//center of mass to reduce selection to a single measure
centroid.centerOfMass(&selectionChip, &sample, &line);
inputChip.SetChipPosition(sample, line);
sampleInitial = inputChip.CubeSample();
lineInitial = inputChip.CubeLine();
foundFirst = true; //once the first fiducial is found stop
}
}
}
}
if(s>=averageLines+searchCellSize/2.0) {
QString msg = "Unable to locate a fiducial mark in the input cube [" + fileName +
"]. Check FROM and MICRONS parameters.";
throw IException(IException::Io, msg, _FILEINFO_);
return;
}
progress.CheckStatus();
//record first fiducial measurement in the table
recordFid[0] = 0;
recordFid[1] = sampleInitial;
recordFid[2] = lineInitial;
tableFid += recordFid;
for (s= sampleInitial, l=lineInitial, fidn=0; s<panS; s+=averageSamples, fidn++) {
//corrections for half spacing of center fiducials
if (fidn == 22) s -= averageSamples/2.0;
if (fidn == 23) s -= averageSamples/2.0;
//look for the bottom fiducial
searchS.TackCube(s,l+averageLines);
searchS.Load(panCube, 0, scale);
*arS->SearchChip() = searchS;
regStatus = arS->Register();
if (regStatus == AutoReg::SuccessPixel) {
inputChip.TackCube(arS->CubeSample(), arS->CubeLine());
inputChip.Load(panCube,0,1);
inputChip.SetCubePosition(arS->CubeSample(), arS->CubeLine());
}
else { //if autoreg is unsuccessful, a larger window will be used
inputChip.TackCube(s, l+averageLines);
inputChip.Load(panCube, 0, 1);
inputChip.SetCubePosition(s, l+averageLines);
}
centroid.selectAdaptive(&inputChip, &selectionChip); //continuous dynamic range selection
//elliptical trimming/smoothing... if this fails move on
if (centroid.elipticalReduction(&selectionChip, 95, play, 2000) != 0 ) {
//center of mass to reduce selection to a single measure
centroid.centerOfMass(&selectionChip, &sample, &line);
inputChip.SetChipPosition(sample, line);
sample = inputChip.CubeSample();
line = inputChip.CubeLine();
recordFid[0] = fidn*2+1;
recordFid[1] = sample;
recordFid[2] = line;
tableFid += recordFid;
}
progress.CheckStatus();
//look for the top fiducial
if (s == sampleInitial) //first time through the loop?
continue; //then the top fiducial was already found
searchS.TackCube(s, l);
searchS.Load(panCube, 0, scale);
*arS->SearchChip() = searchS;
regStatus = arS->Register();
if (regStatus == AutoReg::SuccessPixel) {
inputChip.TackCube(arS->CubeSample(), arS->CubeLine());
inputChip.Load(panCube, 0, 1);
inputChip.SetCubePosition(arS->CubeSample(), arS->CubeLine());
}
else { //if autoreg is unsuccessful, a larger window will be used
inputChip.TackCube(s, l);
inputChip.Load(panCube, 0, 1);
inputChip.SetCubePosition(s, l);
}
centroid.selectAdaptive(&inputChip, &selectionChip);//continuous dynamic range selection
//inputChip.Write("inputTemp.cub");//debug
//selectionChip.Write("selectionTemp.cub");//debug
//elliptical trimming/smoothing... if this fails move on
if (centroid.elipticalReduction(&selectionChip, 95, play, 2000) !=0) {
//center of mass to reduce selection to a single measure
centroid.centerOfMass(&selectionChip, &sample, &line);
inputChip.SetChipPosition(sample, line);
//when finding the top fiducial both s and l are refined for a successful measurement,
// this will help follow trends in the scaned image
s = inputChip.CubeSample();
l = inputChip.CubeLine();
recordFid[0] = fidn*2;
recordFid[1] = s;
recordFid[2] = l;
tableFid += recordFid;
}
progress.CheckStatus();
}
panCube.write(tableFid);
//close the new cube
panCube.close(false);
panCube.open(ui.GetFileName("FROM"),"rw");
delete spPos;
delete spRot;
//now instantiate a camera to make sure all of this is working
ApolloPanoramicCamera* cam = (ApolloPanoramicCamera*)(panCube.camera());
//log the residual report from interior orientation
PvlGroup residualStats("InteriorOrientationStats");
residualStats += PvlKeyword("FiducialsFound", toString(tableFid.Records()));
residualStats += PvlKeyword("ResidualMax", toString(cam->intOriResidualMax()),"pixels");
residualStats += PvlKeyword("ResidualMean", toString(cam->intOriResidualMean()),"pixels");
residualStats += PvlKeyword("ResidualStdev", toString(cam->intOriResidualStdev()),"pixels");
Application::Log( residualStats );
return;
}
