//---------------------------------------------------------------------
/// <summary>
/// Initializes a new instance from an input grid of boolean values.
/// </summary>
/// <param name="activeSites">
/// An input grid of boolean values where true values indicates active
/// sites.
/// </param>
public Array2D(IInputGrid <bool> activeSites)
: base(activeSites.Dimensions)
{
int rows = activeSites.Rows;
int columns = activeSites.Columns;
indexes = new uint[rows, columns];
uint count = 0;
for (int row = 0; row < rows; ++row)
{
for (int column = 0; column < columns; ++column)
{
uint dataIndex = InactiveSite.DataIndex;
if (activeSites.ReadValue())
{
count++;
dataIndex = count;
}
indexes[row, column] = dataIndex;
}
}
ActiveLocationCount = count;
InactiveLocationCount = (rows * columns) - ActiveLocationCount;
#if LOG4NET
if (isDebugEnabled)
{
log.Debug("Active Site Locations");
log.Debug("");
log.DebugFormat("Grid dimensions: {0}", activeSites.Dimensions);
log.Debug("");
StringBuilder line = new StringBuilder(8 * (int)columns);
line.Append("Column:");
for (int column = 1; column <= columns; column++)
{
line.Append('\t').Append(column);
}
log.Debug(line.ToString());
log.Debug("Row");
for (int row = 0; row < rows; row++)
{
line.Remove(0, line.Length);
line.Append(row + 1);
for (int column = 0; column < columns; column++)
{
line.Append('\t').Append(indexes[row, column]);
}
log.Debug(line.ToString());
}
}
#endif
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid <bool> activeSites)
{
if (Count > int.MaxValue)
{
string mesg = string.Format("Landscape dimensions are too big; maximum # of sites = {0:#,###}",
int.MaxValue);
throw new System.ApplicationException(mesg);
}
dataIndexes = new Landscapes.DataIndexes.Array2D(activeSites);
activeSites.Close();
inactiveSiteCount = SiteCount - (int)dataIndexes.ActiveLocationCount;
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid <bool> activeSites)
{
if (Count > int.MaxValue)
{
string mesg = string.Format("Landscape dimensions are too big; maximum # of sites = {0:#,###}",
int.MaxValue);
throw new System.ApplicationException(mesg);
}
activeSiteMap = new ActiveSiteMap(activeSites);
activeSites.Close();
inactiveSiteCount = SiteCount - (int)activeSiteMap.Count;
if (inactiveSiteCount > 0)
{
inactiveSiteDataIndex = (int)activeSiteMap.Count;
}
}
//---------------------------------------------------------------------
/// <summary>
/// Initializes a new instance from an input grid of boolean values.
/// </summary>
/// <param name="activeSites">
/// An input grid of boolean values where true values indicates active
/// sites.
/// </param>
public Array2D(IInputGrid<bool> activeSites)
: base(activeSites.Dimensions)
{
int rows = activeSites.Rows;
int columns = activeSites.Columns;
indexes = new uint[rows, columns];
uint count = 0;
for (int row = 0; row < rows; ++row) {
for (int column = 0; column < columns; ++column) {
uint dataIndex = InactiveSite.DataIndex;
if (activeSites.ReadValue()) {
count++;
dataIndex = count;
}
indexes[row, column] = dataIndex;
}
}
ActiveLocationCount = count;
InactiveLocationCount = (rows * columns) - ActiveLocationCount;
#if LOG4NET
if (isDebugEnabled) {
log.Debug("Active Site Locations");
log.Debug("");
log.DebugFormat("Grid dimensions: {0}", activeSites.Dimensions);
log.Debug("");
StringBuilder line = new StringBuilder(8 * (int) columns);
line.Append("Column:");
for (int column = 1; column <= columns; column++)
line.Append('\t').Append(column);
log.Debug(line.ToString());
log.Debug("Row");
for (int row = 0; row < rows; row++) {
line.Remove(0, line.Length);
line.Append(row + 1);
for (int column = 0; column < columns; column++)
line.Append('\t').Append(indexes[row, column]);
log.Debug(line.ToString());
}
}
#endif
}
public void Map8Bit()
{
Map map = new Map(path8Bit, dataset);
using (IInputGrid <bool> inputGrid = map.OpenAsInputGrid()) {
Assert.AreEqual(dims8Bit.Rows, inputGrid.Dimensions.Rows);
Assert.AreEqual(dims8Bit.Columns, inputGrid.Dimensions.Columns);
for (int row = 0; row < dims8Bit.Rows; ++row)
{
for (int column = 0; column < dims8Bit.Columns; ++column)
{
IEcoregion ecoregion = dataset.Find(ecoregions8Bit[row, column]);
Assert.AreEqual(ecoregion.Active, inputGrid.ReadValue());
}
}
}
}
public void Map16Bit()
{
Map map = new Map(path16Bit, dataset, rasterDriverMgr);
using (IInputGrid <EcoregionCode> inputGrid = map.OpenAsInputGrid()) {
Assert.AreEqual(dims16Bit.Rows, inputGrid.Dimensions.Rows);
Assert.AreEqual(dims16Bit.Columns, inputGrid.Dimensions.Columns);
for (int row = 0; row < dims16Bit.Rows; ++row)
{
for (int column = 0; column < dims16Bit.Columns; ++column)
{
ushort mapCode = ecoregions16Bit[row, column];
IEcoregion ecoregion = dataset.Find(mapCode);
EcoregionCode ecoregionCode = inputGrid.ReadValue();
Assert.AreEqual(mapCode, (int)ecoregionCode);
Assert.AreEqual(ecoregion.Active, ecoregionCode.IsActive);
}
}
}
}
//---------------------------------------------------------------------
/// <summary>
/// Initializes a new instance using an input grid of active sites.
/// </summary>
/// <param name="activeSites">
/// A grid that indicates which sites are active.
/// </param>
public Landscape(IInputGrid <bool> activeSites)
: base(activeSites.Dimensions)
{
Initialize(activeSites);
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid<bool> activeSites)
{
this.rowIntervals = new List<Interval>();
this.activeRows = new List<ActiveRow>();
this.columnIntervals = new List<Interval>();
bool inRowInterval = false;
Interval rowInterval = new Interval();
for (uint row = 1; row <= activeSites.Rows; ++row) {
uint colIntervalCount = 0;
uint firstColIntervalIndex = 0;
bool inColumnInterval = false;
Interval columnInterval = new Interval();
for (uint column = 1; column <= activeSites.Columns; ++column) {
if (activeSites.ReadValue()) {
this.count++;
if (inColumnInterval) {
// extend column interval
columnInterval.End = column;
}
else {
// start a new column interval
columnInterval = new Interval(column, column,
count - 1);
inColumnInterval = true;
colIntervalCount++;
if (colIntervalCount == 1)
firstColIntervalIndex = (uint)
columnIntervals.Count;
}
}
else {
// current site is inactive
if (inColumnInterval) {
// end of current column interval
this.columnIntervals.Add(columnInterval);
inColumnInterval = false;
}
}
} // for each column
// at end of current row
if (colIntervalCount > 0) {
// current row is an active row
if (inColumnInterval) {
// last column was active, so add its interval
this.columnIntervals.Add(columnInterval);
}
this.activeRows.Add(new ActiveRow(colIntervalCount,
firstColIntervalIndex));
if (inRowInterval) {
// extend row interval
rowInterval.End = row;
}
else {
// start a new row interval
rowInterval = new Interval(row, row,
(uint)(activeRows.Count-1));
inRowInterval = true;
}
}
else {
// current row is not an active row
if (inRowInterval) {
this.rowIntervals.Add(rowInterval);
inRowInterval = false;
}
}
} // for each row
if (inRowInterval) {
// last row was an active row, so add its row interval
this.rowIntervals.Add(rowInterval);
}
}
//---------------------------------------------------------------------
/// <summary>
/// Initializes a new instance using an input data grid.
/// </summary>
public ActiveSiteMap(IInputGrid<bool> activeSites)
{
Initialize(activeSites);
}
//---------------------------------------------------------------------
/// <summary>
/// Runs a model scenario.
/// </summary>
public void Run(string scenarioPath, IUserInterface ui)
{
this.ui = ui;
siteVarRegistry.Clear();
Scenario scenario = LoadScenario(scenarioPath);
startTime = scenario.StartTime;
endTime = scenario.EndTime;
timeSinceStart = 0;
currentTime = startTime;
InitializeRandomNumGenerator(scenario.RandomNumberSeed);
LoadSpecies(scenario.Species);
LoadEcoregions(scenario.Ecoregions);
ui.WriteLine("Initializing landscape from ecoregions map \"{0}\" ...", scenario.EcoregionsMap);
Ecoregions.Map ecoregionsMap = new Ecoregions.Map(scenario.EcoregionsMap,
ecoregions,
rasterFactory);
// -- ProcessMetadata(ecoregionsMap.Metadata, scenario);
cellLength = scenario.CellLength.Value;
cellArea = (float)((cellLength * cellLength) / 10000);
ui.WriteLine("Cell length = {0} m, cell area = {1} ha", cellLength, cellArea);
using (IInputGrid <bool> grid = ecoregionsMap.OpenAsInputGrid()) {
ui.WriteLine("Map dimensions: {0} = {1:#,##0} cell{2}", grid.Dimensions,
grid.Count, (grid.Count == 1 ? "" : "s"));
// landscape = new Landscape(grid);
landscape = landscapeFactory.CreateLandscape(grid);
}
ui.WriteLine("Sites: {0:#,##0} active ({1:p1}), {2:#,##0} inactive ({3:p1})",
landscape.ActiveSiteCount, (landscape.Count > 0 ? ((double)landscape.ActiveSiteCount) / landscape.Count : 0),
landscape.InactiveSiteCount, (landscape.Count > 0 ? ((double)landscape.InactiveSiteCount) / landscape.Count : 0));
ecoregionSiteVar = ecoregionsMap.CreateSiteVar(landscape);
disturbAndOtherExtensions = new List <ExtensionMain>();
try {
ui.WriteLine("Loading {0} extension ...", scenario.Succession.Info.Name);
succession = Loader.Load <SuccessionMain>(scenario.Succession.Info);
succession.LoadParameters(scenario.Succession.InitFile, this);
succession.Initialize();
ExtensionMain[] disturbanceExtensions = LoadExtensions(scenario.Disturbances);
InitExtensions(disturbanceExtensions);
ExtensionMain[] otherExtensions = LoadExtensions(scenario.OtherExtensions);
InitExtensions(otherExtensions);
// Perform 2nd phase of initialization for non-succession extensions.
foreach (ExtensionMain extension in disturbanceExtensions)
{
extension.InitializePhase2();
}
foreach (ExtensionMain extension in otherExtensions)
{
extension.InitializePhase2();
}
// Run output extensions for TimeSinceStart = 0 (time step 0)
foreach (ExtensionMain extension in otherExtensions)
{
if (extension.Type.IsMemberOf("output"))
{
Run(extension);
}
}
//******************// for Rob
// Main time loop //
//******************//
for (currentTime++, timeSinceStart++;
currentTime <= endTime;
currentTime++, timeSinceStart++)
{
bool isSuccTimestep = IsExtensionTimestep(succession);
List <ExtensionMain> distExtensionsToRun;
distExtensionsToRun = GetExtensionsToRun(disturbanceExtensions);
bool isDistTimestep = distExtensionsToRun.Count > 0;
List <ExtensionMain> otherExtensionsToRun;
otherExtensionsToRun = GetExtensionsToRun(otherExtensions);
if (!isSuccTimestep && !isDistTimestep &&
otherExtensionsToRun.Count == 0)
{
continue;
}
ui.WriteLine("Current time: {0}", currentTime);
if (isDistTimestep)
{
if (scenario.DisturbancesRandomOrder)
{
distExtensionsToRun = shuffle(distExtensionsToRun);
}
foreach (ExtensionMain distExtension in distExtensionsToRun)
{
Run(distExtension);
}
}
if (isSuccTimestep || isDistTimestep)
{
Run(succession);
}
foreach (ExtensionMain otherExtension in otherExtensionsToRun)
{
Run(otherExtension);
}
} // main time loop
}
finally {
foreach (ExtensionMain extension in disturbAndOtherExtensions)
{
extension.CleanUp();
}
}
ui.WriteLine("Model run is complete.");
}
//---------------------------------------------------------------------
/// <summary>
/// Runs a model scenario.
/// </summary>
public void Run(string scenarioPath)
{
siteVarRegistry.Clear();
Scenario scenario = LoadScenario(scenarioPath);
startTime = scenario.StartTime;
endTime = scenario.EndTime;
timeSinceStart = 0;
currentTime = startTime;
InitializeRandomNumGenerator(scenario.RandomNumberSeed);
LoadSpecies(scenario.Species);
LoadEcoregions(scenario.Ecoregions);
UI.WriteLine("Initializing landscape from ecoregions map \"{0}\" ...", scenario.EcoregionsMap);
Ecoregions.Map ecoregionsMap = new Ecoregions.Map(scenario.EcoregionsMap,
ecoregions,
rasterDriverMgr);
ProcessMetadata(ecoregionsMap.Metadata, scenario);
using (IInputGrid <EcoregionCode> grid = ecoregionsMap.OpenAsInputGrid()) {
UI.WriteLine("Map dimensions: {0} = {1:#,##0} cell{2}", grid.Dimensions,
grid.Count, (grid.Count == 1 ? "" : "s"));
landscape = new Landscape(grid, scenario.BlockSize.HasValue ? scenario.BlockSize.Value : 1);
}
UI.WriteLine("Sites: {0:#,##0} active ({1:p1}), {2:#,##0} inactive ({3:p1})",
landscape.ActiveSiteCount, (landscape.Count > 0 ? ((double)landscape.ActiveSiteCount) / landscape.Count : 0),
landscape.InactiveSiteCount, (landscape.Count > 0 ? ((double)landscape.InactiveSiteCount) / landscape.Count : 0));
ecoregionSiteVar = ecoregionsMap.CreateSiteVar(landscape);
plugInsWith2PhaseInit = new List <PlugIns.I2PhaseInitialization>();
plugInsWithCleanUp = new List <PlugIns.ICleanUp>();
try {
UI.WriteLine("Loading {0} plug-in ...", scenario.Succession.Info.Name);
succession = Loader.Load <SuccessionPlugIn>(scenario.Succession.Info);
succession.Initialize(scenario.Succession.InitFile, this);
succession.InitializeSites(scenario.InitialCommunities,
scenario.InitialCommunitiesMap);
PlugIn[] disturbancePlugIns = LoadAndInitPlugIns(scenario.Disturbances);
PlugIn[] otherPlugIns = LoadAndInitPlugIns(scenario.OtherPlugIns);
// Perform 2nd phase of initialization for those plug-ins
// that have it.
foreach (PlugIns.I2PhaseInitialization plugIn in plugInsWith2PhaseInit)
{
plugIn.InitializePhase2();
}
// Run output plug-ins for TimeSinceStart = 0 (time step 0)
foreach (PlugIn plugIn in otherPlugIns)
{
if (plugIn.PlugInType.IsMemberOf("output"))
{
Run(plugIn);
}
}
//******************// for Rob
// Main time loop //
//******************//
for (currentTime++, timeSinceStart++;
currentTime <= endTime;
currentTime++, timeSinceStart++)
{
bool isSuccTimestep = IsPlugInTimestep(succession);
List <PlugIn> distPlugInsToRun;
distPlugInsToRun = GetPlugInsToRun(disturbancePlugIns);
bool isDistTimestep = distPlugInsToRun.Count > 0;
List <PlugIn> otherPlugInsToRun;
otherPlugInsToRun = GetPlugInsToRun(otherPlugIns);
if (!isSuccTimestep && !isDistTimestep &&
otherPlugInsToRun.Count == 0)
{
continue;
}
UI.WriteLine("Current time: {0}", currentTime);
if (isDistTimestep)
{
if (scenario.DisturbancesRandomOrder)
{
Util.Random.Shuffle(distPlugInsToRun);
}
foreach (PlugIn distPlugIn in distPlugInsToRun)
{
Run(distPlugIn);
}
}
if (isSuccTimestep || isDistTimestep)
{
Run(succession);
}
foreach (PlugIn otherPlugIn in otherPlugInsToRun)
{
Run(otherPlugIn);
}
} // main time loop
}
finally {
foreach (PlugIns.ICleanUp plugIn in plugInsWithCleanUp)
{
plugIn.CleanUp();
}
}
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid <bool> activeSites)
{
this.firstActive = null;
this.firstInactive = null;
this.rowIntervals = new List <Interval>();
this.activeRows = new List <ActiveRow>();
this.columnIntervals = new List <Interval>();
bool inRowInterval = false;
Interval rowInterval = new Interval();
for (uint row = 1; row <= activeSites.Rows; ++row)
{
uint colIntervalCount = 0;
uint firstColIntervalIndex = 0;
bool inColumnInterval = false;
Interval columnInterval = new Interval();
for (uint column = 1; column <= activeSites.Columns; ++column)
{
if (activeSites.ReadValue())
{
this.count++;
if (!this.firstActive.HasValue)
{
this.firstActive = new Location(row, column);
}
if (inColumnInterval)
{
// extend column interval
columnInterval.End = column;
}
else
{
// start a new column interval
columnInterval = new Interval(column, column,
count - 1);
inColumnInterval = true;
colIntervalCount++;
if (colIntervalCount == 1)
{
firstColIntervalIndex = (uint)
columnIntervals.Count;
}
}
}
else
{
// current site is inactive
if (!this.firstInactive.HasValue)
{
this.firstInactive = new Location(row, column);
}
if (inColumnInterval)
{
// end of current column interval
this.columnIntervals.Add(columnInterval);
inColumnInterval = false;
}
}
} // for each column
// at end of current row
if (colIntervalCount > 0)
{
// current row is an active row
if (inColumnInterval)
{
// last column was active, so add its interval
this.columnIntervals.Add(columnInterval);
}
this.activeRows.Add(new ActiveRow(colIntervalCount,
firstColIntervalIndex));
if (inRowInterval)
{
// extend row interval
rowInterval.End = row;
}
else
{
// start a new row interval
rowInterval = new Interval(row, row,
(uint)(activeRows.Count - 1));
inRowInterval = true;
}
}
else
{
// current row is not an active row
if (inRowInterval)
{
this.rowIntervals.Add(rowInterval);
inRowInterval = false;
}
}
} // for each row
if (inRowInterval)
{
// last row was an active row, so add its row interval
this.rowIntervals.Add(rowInterval);
}
if (logger.IsDebugEnabled)
{
LogDebug("Active Site Map");
LogDebug("");
LogDebug("Input Grid: {0}", activeSites.Dimensions);
LogDebug("");
LogDebug("Row Intervals");
LogDebug(" index: start to end (index of start row in active rows");
for (int i = 0; i < rowIntervals.Count; i++)
{
Interval interval = rowIntervals[i];
LogDebug(" {0}: {1} to {2} ({3})", i, interval.Start, interval.End, interval.StartOffset);
}
LogDebug("");
LogDebug("Active Rows");
LogDebug(" index: # column intervals, index of 1st column interval");
for (int i = 0; i < activeRows.Count; i++)
{
ActiveRow activeRow = ActiveRows[i];
LogDebug(" {0}: {1}, {2}", i, activeRow.IntervalCount, activeRow.FirstIntervalOffset);
}
LogDebug("");
LogDebug("Column Intervals");
LogDebug(" index: start to end (data index of start column");
for (int i = 0; i < columnIntervals.Count; i++)
{
Interval interval = columnIntervals[i];
LogDebug(" {0}: {1} to {2} ({3})", i, interval.Start, interval.End, interval.StartOffset);
}
}
}
//---------------------------------------------------------------------
/// <summary>
/// Initializes a new instance using an input data grid.
/// </summary>
public ActiveSiteMap(IInputGrid <bool> activeSites)
{
Initialize(activeSites);
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid <bool> activeSites)
{
this.rowIntervals = new List <Interval>();
this.activeRows = new List <ActiveRow>();
this.columnIntervals = new List <Interval>();
bool inRowInterval = false;
Interval rowInterval = new Interval();
for (uint row = 1; row <= activeSites.Rows; ++row)
{
uint colIntervalCount = 0;
uint firstColIntervalIndex = 0;
bool inColumnInterval = false;
Interval columnInterval = new Interval();
for (uint column = 1; column <= activeSites.Columns; ++column)
{
if (activeSites.ReadValue())
{
this.count++;
if (inColumnInterval)
{
// extend column interval
columnInterval.End = column;
}
else
{
// start a new column interval
columnInterval = new Interval(column, column,
count - 1);
inColumnInterval = true;
colIntervalCount++;
if (colIntervalCount == 1)
{
firstColIntervalIndex = (uint)
columnIntervals.Count;
}
}
}
else
{
// current site is inactive
if (inColumnInterval)
{
// end of current column interval
this.columnIntervals.Add(columnInterval);
inColumnInterval = false;
}
}
} // for each column
// at end of current row
if (colIntervalCount > 0)
{
// current row is an active row
if (inColumnInterval)
{
// last column was active, so add its interval
this.columnIntervals.Add(columnInterval);
}
this.activeRows.Add(new ActiveRow(colIntervalCount,
firstColIntervalIndex));
if (inRowInterval)
{
// extend row interval
rowInterval.End = row;
}
else
{
// start a new row interval
rowInterval = new Interval(row, row,
(uint)(activeRows.Count - 1));
inRowInterval = true;
}
}
else
{
// current row is not an active row
if (inRowInterval)
{
this.rowIntervals.Add(rowInterval);
inRowInterval = false;
}
}
} // for each row
if (inRowInterval)
{
// last row was an active row, so add its row interval
this.rowIntervals.Add(rowInterval);
}
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid<bool> activeSites)
{
this.firstActive = null;
this.firstInactive = null;
this.rowIntervals = new List<Interval>();
this.activeRows = new List<ActiveRow>();
this.columnIntervals = new List<Interval>();
bool inRowInterval = false;
Interval rowInterval = new Interval();
for (uint row = 1; row <= activeSites.Rows; ++row) {
uint colIntervalCount = 0;
uint firstColIntervalIndex = 0;
bool inColumnInterval = false;
Interval columnInterval = new Interval();
for (uint column = 1; column <= activeSites.Columns; ++column) {
if (activeSites.ReadValue()) {
this.count++;
if (! this.firstActive.HasValue)
this.firstActive = new Location(row, column);
if (inColumnInterval) {
// extend column interval
columnInterval.End = column;
}
else {
// start a new column interval
columnInterval = new Interval(column, column,
count - 1);
inColumnInterval = true;
colIntervalCount++;
if (colIntervalCount == 1)
firstColIntervalIndex = (uint)
columnIntervals.Count;
}
}
else {
// current site is inactive
if (! this.firstInactive.HasValue)
this.firstInactive = new Location(row, column);
if (inColumnInterval) {
// end of current column interval
this.columnIntervals.Add(columnInterval);
inColumnInterval = false;
}
}
} // for each column
// at end of current row
if (colIntervalCount > 0) {
// current row is an active row
if (inColumnInterval) {
// last column was active, so add its interval
this.columnIntervals.Add(columnInterval);
}
this.activeRows.Add(new ActiveRow(colIntervalCount,
firstColIntervalIndex));
if (inRowInterval) {
// extend row interval
rowInterval.End = row;
}
else {
// start a new row interval
rowInterval = new Interval(row, row,
(uint)(activeRows.Count-1));
inRowInterval = true;
}
}
else {
// current row is not an active row
if (inRowInterval) {
this.rowIntervals.Add(rowInterval);
inRowInterval = false;
}
}
} // for each row
if (inRowInterval) {
// last row was an active row, so add its row interval
this.rowIntervals.Add(rowInterval);
}
if (logger.IsDebugEnabled) {
LogDebug("Active Site Map");
LogDebug("");
LogDebug("Input Grid: {0}", activeSites.Dimensions);
LogDebug("");
LogDebug("Row Intervals");
LogDebug(" index: start to end (index of start row in active rows");
for (int i = 0; i < rowIntervals.Count; i++) {
Interval interval = rowIntervals[i];
LogDebug(" {0}: {1} to {2} ({3})", i, interval.Start, interval.End, interval.StartOffset);
}
LogDebug("");
LogDebug("Active Rows");
LogDebug(" index: # column intervals, index of 1st column interval");
for (int i = 0; i < activeRows.Count; i++) {
ActiveRow activeRow = ActiveRows[i];
LogDebug(" {0}: {1}, {2}", i, activeRow.IntervalCount, activeRow.FirstIntervalOffset);
}
LogDebug("");
LogDebug("Column Intervals");
LogDebug(" index: start to end (data index of start column");
for (int i = 0; i < columnIntervals.Count; i++) {
Interval interval = columnIntervals[i];
LogDebug(" {0}: {1} to {2} ({3})", i, interval.Start, interval.End, interval.StartOffset);
}
}
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid<bool> activeSites)
{
this.firstActive = null;
this.firstInactive = null;
this.rows = activeSites.Rows;
this.columns = activeSites.Columns;
this.indexes = new uint[this.rows, this.columns];
this.count = 0;
for (uint row = 0; row < this.rows; ++row) {
for (uint column = 0; column < this.columns; ++column) {
if (activeSites.ReadValue()) {
this.count++;
this.indexes[row, column] = this.count;
if (this.firstActive == null)
this.firstActive = new LocationAndIndex(new Location(row+1, column+1), this.count);
}
else {
if (this.firstInactive == null)
this.firstInactive = new LocationAndIndex(new Location(row+1, column+1), InactiveSiteDataIndex);
}
} // for each column
} // for each row
if (logger.IsDebugEnabled) {
LogDebug("Active Site Map");
LogDebug("");
LogDebug("Input Grid: {0}", activeSites.Dimensions);
LogDebug("");
if (firstActive == null)
LogDebug("First Active: null");
else
LogDebug("First Active: {0} {1}", firstActive.Location, firstActive.Index);
if (firstInactive == null)
LogDebug("First Inactive: null");
else
LogDebug("First Inactive: {0} {1}", firstInactive.Location, firstInactive.Index);
LogDebug("");
StringBuilder line = new StringBuilder(8 * (int) this.columns);
line.Append("Column:");
for (int column = 1; column <= this.columns; column++)
line.Append('\t').Append(column);
LogDebug(line.ToString());
LogDebug("Row");
for (int row = 0; row < this.rows; row++) {
line.Remove(0, line.Length);
line.Append(row + 1);
for (int column = 0; column < this.columns; column++)
line.Append('\t').Append(indexes[row, column]);
LogDebug(line.ToString());
}
}
}
/// <summary>
/// Creates a new landscape using an input grid of active sites.
/// </summary>
/// <param name="activeSites">
/// A grid that indicates which sites are active.
/// </param>
public ILandscape CreateLandscape(IInputGrid <bool> activeSites)
{
return(new Landscape(activeSites));
}
/// <summary>
/// Creates a new landscape using an input grid of active sites.
/// </summary>
/// <param name="activeSites">
/// A grid that indicates which sites are active.
/// </param>
public ILandscape CreateLandscape(IInputGrid<bool> activeSites)
{
return new Landscape(activeSites);
}
//---------------------------------------------------------------------
private void Initialize(IInputGrid <bool> activeSites)
{
this.firstActive = null;
this.firstInactive = null;
this.rows = activeSites.Rows;
this.columns = activeSites.Columns;
this.indexes = new uint[this.rows, this.columns];
this.count = 0;
for (uint row = 0; row < this.rows; ++row)
{
for (uint column = 0; column < this.columns; ++column)
{
if (activeSites.ReadValue())
{
this.count++;
this.indexes[row, column] = this.count;
if (this.firstActive == null)
{
this.firstActive = new LocationAndIndex(new Location(row + 1, column + 1), this.count);
}
}
else
{
if (this.firstInactive == null)
{
this.firstInactive = new LocationAndIndex(new Location(row + 1, column + 1), InactiveSiteDataIndex);
}
}
} // for each column
} // for each row
if (logger.IsDebugEnabled)
{
LogDebug("Active Site Map");
LogDebug("");
LogDebug("Input Grid: {0}", activeSites.Dimensions);
LogDebug("");
if (firstActive == null)
{
LogDebug("First Active: null");
}
else
{
LogDebug("First Active: {0} {1}", firstActive.Location, firstActive.Index);
}
if (firstInactive == null)
{
LogDebug("First Inactive: null");
}
else
{
LogDebug("First Inactive: {0} {1}", firstInactive.Location, firstInactive.Index);
}
LogDebug("");
StringBuilder line = new StringBuilder(8 * (int)this.columns);
line.Append("Column:");
for (int column = 1; column <= this.columns; column++)
{
line.Append('\t').Append(column);
}
LogDebug(line.ToString());
LogDebug("Row");
for (int row = 0; row < this.rows; row++)
{
line.Remove(0, line.Length);
line.Append(row + 1);
for (int column = 0; column < this.columns; column++)
{
line.Append('\t').Append(indexes[row, column]);
}
LogDebug(line.ToString());
}
}
}
