##################################################################################### 

# FixDEMMosaicBlendedRows: Implements Image Blending treatment to DEM Mosaic image

# Collection of functions that attempt to mitigate ASTER / SRTM the boundary edge artifact

# 

# Inputs: 

#   1) DEM Mosaic image containing 'boundary edge' artifact 

#   2) 'Aster-Only' subimage corresponding to the NORTHernmost part (adjacent to the 60 degree Lat 

#     boundary) of the SRTM component of the mosaic.

#   3) 'Aster-Only' subimage corresponding to the SOUTHernmost part (adjacent to the 60 degree Lat 

#     boundary) of the ASTER component of the mosaic.

#   4) numBlendRows: number of number of rows south of 60 degrees N Lat to modify ('blend') by

#      generating (lnear) combination of SRTM and ASTER image pixels. 

#

# Output: 

#   1) A copy of the input DEM mosaic, with 'blended image' boundary edge treatment.

#

# To run:

#

#  1) start R

#  2) > source("FixDEMMosaicBlendedRows.r")

#  3) > FixDEMMosaicBlendedRows()

#

# Note: the input images used by this program located on /jupiter: /data/project/organisms/rcr/BoundaryFixTest

#    

# Author: Rick Reeves, NCEAS

# June 12, 2011

#

##############################################################################################

FixDEMMosaicBlendedRows <- function()

{

  require(raster)

  require(rgdal)

# Key parameter: number of rows south of 60 degrees N Lat to modify ('blend') by

# generating (lnear) combination of SRTM and ASTER image pixels. 

  numBlendRows <- 100

# Read the mosaic image and component sub-images:

#   - Aster/SRTM mosaic image (with boundary edge to be fixed)

#   - 'Aster-only' subimage adjacent to Southern edge of 60 degree bounls -s dary,

#     sampled into a grid with same extent and spatial resolution as image mosaic

#   - 'Aster-only' subimage adjacent to Northern edge of 60 degree boundary,

#     sampled into a grid with same extent and spatial resolution as image mosaic

#     inAsterNorthFG  <- raster("./aster60DegNorthRasterFG.tif")     

#     inAsterSouthFG  <- raster("./aster59DegSouthRasterFG.tif")

#     inBdyAsterBoth  <- raster("./boundaryTestCase115DegBothAsterMos.img")      

     inMosaic      <- raster("./AsterSrtm3ArcSecTestImg.tif") 

     inAsterSouth  <- raster("./boundaryTest115_59DegreeAster.img")   

     inAsterSouthFG  <- raster("./aster59DegSouthRasterFG.tif")     

     inAsterNorth  <- raster("./boundaryTest115_60DegreeAster.img")     

# First, get the extent of the 'below 60' sub image in the (big) input raster

     northAsterEx <- extent(inAsterNorth)

     southAsterEx <- extent(inAsterSouth)

# Create copy of input raster that we will use to create a 'fixed boundary' iamge

# Even SIMPLER, according to raster documentation

     outMosaic <- raster(inMosaic) 

     sFixedRasterFile <- "TestOutRasterBdyBlendFixAft2.tif"

#  create the output raster by copying the input file with 'block copy'

message("Copy input mosaic: Create output (repaired) mosaic")

#browser()

     bs <- blockSize(inMosaic) 

     outMosaic <- writeStart(outMosaic,sFixedRasterFile, datatype="INT2S", format="GTiff",overwrite=TRUE)

     for (iCtr in 1 : bs$n)

     {

        mosaicVals <- getValues(inMosaic,row=bs$row[iCtr],nrows=bs$nrows[iCtr])

        writeValues(outMosaic,mosaicVals,bs$row[iCtr])

        message(sprintf(".....processed input mosaic block %d",iCtr))        

     }

     outMosaic <- writeStop(outMosaic)

# 

message("Input mosaic copied to output raster: now, process boundary")

browser()

# now, we SHOULD be able to modify outMosaic with new 'column values'.

     southCellsOfInterest <- cellsFromExtent(outMosaic,southAsterEx)

     northCellsOfInterest <- cellsFromExtent(outMosaic,northAsterEx)

     firstNorthSubImgRow <- rowFromCell(outMosaic,northCellsOfInterest[1])   

     lastNorthSubImgRow <- rowFromCell(outMosaic,northCellsOfInterest[(length(northCellsOfInterest) - 1)])

     firstSouthSubImgRow <- rowFromCell(outMosaic,southCellsOfInterest[1])   

     lastSouthSubImgRow <- rowFromCell(outMosaic,southCellsOfInterest[(length(southCellsOfInterest) - 1)])

# note: last north image and first south image rows are the same.

     northBorderEdgeRow <- lastNorthSubImgRow

     southBorderEdgeRow <- firstSouthSubImgRow + 1

# The border 'edge' row is one row below the top of the south sub image

     northBrdrRowVals <- getValues(outMosaic,northBorderEdgeRow,1)

     southBrdrRowVals <- getValues(outMosaic,southBorderEdgeRow,1)     

# Process the mosaic rows:

# Blend the first 'numBlendRows' south of the 60 degree line (first rows of the SRTM component)

# with the underlying and corresponding ASTER image rows.

# For first attempt, use a linear combination; for second attempt, use an exponential function.

#

     nImageCols <- ncol(inMosaic)     

     sRows <- seq(southBorderEdgeRow,((southBorderEdgeRow + numBlendRows) - 1))

# 

     rowVecValuesBlend <- vector(mode="integer",length=nImageCols)

     iRowCtr <- 1

     for (curMosRow in sRows)     

     {

message(sprintf("transforming cur row: %d",curMosRow))

#:browser()

# even simpler here, as we implement a 'linear distance decay' function,

# and let each new column be a linear combination of the Aster and CGIAR image layers

        deltaInc <- iRowCtr / as.numeric(numBlendRows)

        colVecCells <- cellFromRowCol(outMosaic,curMosRow,1:nImageCols) 

# get the current row from the mosaic(SRTM data) and raster images

# We get the ASTER values from a version of the 'South' ASTER image 

# with same extent as the image mosaic.

        rowVecValuesMosaic <- getValuesBlock(outMosaic,row=curMosRow,nrows=1,col=1,ncols=nImageCols) 

        rowVecValuesAster <- getValuesBlock(inAsterSouthFG,row=curMosRow,nrows=1,col=1,ncols=nImageCols)        

        rowVecValuesBlend <- (rowVecValuesMosaic * deltaInc) + (rowVecValuesAster * (1.0 - deltaInc))

# create the merged row as a linear combination of the Mosaic and Aster image. 

# note: we need to deal with NA values, which are possible. 

# write the blended row to the output mosaic

        outMosaic[colVecCells] <- as.integer(round(rowVecValuesBlend))

        iRowCtr <- iRowCtr + 1

     }

#message(sprintf("cur col: %d about to write to outMosaic",curMosCol))

#browser()

# write the modified outMosaic values to the image file that we created.

message("Done with raster blending : hit key to update raster disk file..")

browser()

     writeRaster(outMosaic, sFixedRasterFile, datatype="INT2S", format="GTiff",overwrite=TRUE)

#browser()

}