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library (raster)
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path<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/ClearDay_Original_IMG_Extracts/ByDate/BadPixelsCorrected_Tiles"
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#Find monthly means for h09v04 tiles:
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h09v04_inFiles <- list.files(path=path, pattern="*.h09v04.005.ClearDay_corrected.img$")
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for (i in 1: length(h09v04_inFiles)){
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h09v04_inFiles[i]<- paste (path,"/",h09v04_inFiles[i],sep="")
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}
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h09v04_inFiles
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#Separate out monthly groupings
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Jan_h09v04<- c(1:length (h09v04_inFiles))*NA
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for (i in 1: length(h09v04_inFiles)){
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if (length(grep("\\.1\\.1",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.4",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.5",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.6",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.7",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.8",h09v04_inFiles[i]) !=0)||
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length(grep("\\.1\\.9",h09v04_inFiles[i]) !=0)){
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Jan_h09v04[i]<- h09v04_inFiles[i]
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}
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}
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Jan_h09v04<-Jan_h09v04[!is.na(Jan_h09v04)]
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Jan_h09v04
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#Create rasters stack, calc means, scale
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Jan_h09v04_stack<- stack(Jan_h09v04) #checked nlayers(), 310: correct
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Jan_h09v04_mn<- mean(Jan_h09v04_stack, na.rm=TRUE)
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Jan_h09v04_mnScaled<- Jan_h09v04_mn*0.0005
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#Write results to new file
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Out_Jan<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Jan_h09v04_AVG_Scaled.img"
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writeRaster (Jan_h09v04_mnScaled, filename=Out_Jan,format="HFA",overwrite=TRUE)
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Feb_h09v04<- c(1:length (h09v04_inFiles))*NA
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for (i in 1: length(h09v04_inFiles)){
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if (length(grep("\\.2\\.1",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.4",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.5",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.6",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.7",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.8",h09v04_inFiles[i]) !=0)||
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length(grep("\\.2\\.9",h09v04_inFiles[i]) !=0)){
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Feb_h09v04[i]<- h09v04_inFiles[i]
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}
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}
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Feb_h09v04<-Feb_h09v04[!is.na(Feb_h09v04)]
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Feb_h09v04
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Feb_h09v04_stack<- stack(Feb_h09v04)
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nlayers(Feb_h09v04_stack)
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Feb_h09v04_mn<- mean(Feb_h09v04_stack, na.rm=TRUE)
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Feb_h09v04_mnScaled<- Feb_h09v04_mn*0.0005
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Out_Feb<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Feb_h09v04_AVG_Scaled.img"
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writeRaster (Feb_h09v04_mnScaled, filename=Out_Feb,format="HFA",overwrite=TRUE)
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Mar_h09v04<- c(1:length (h09v04_inFiles))*NA
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for (i in 1: length(h09v04_inFiles)){
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if (length(grep("\\.3\\.1",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.4",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.5",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.6",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.7",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.8",h09v04_inFiles[i]) !=0)||
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length(grep("\\.3\\.9",h09v04_inFiles[i]) !=0)){
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Mar_h09v04[i]<- h09v04_inFiles[i]
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}
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}
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Mar_h09v04<-Mar_h09v04[!is.na(Mar_h09v04)]
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Mar_h09v04
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Mar_h09v04_stack<- stack(Mar_h09v04)
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nlayers(Mar_h09v04_stack)
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Mar_h09v04_mn<- mean(Mar_h09v04_stack, na.rm=TRUE)
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Mar_h09v04_mnScaled<- Mar_h09v04_mn*0.0005
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Out_Mar<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Mar_h09v04_AVG_Scaled.img"
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writeRaster (Mar_h09v04_mnScaled, filename=Out_Mar,format="HFA",overwrite=TRUE)
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Apr_h09v04<- c(1:length (h09v04_inFiles))*NA
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for (i in 1: length(h09v04_inFiles)){
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if (length(grep("\\.4\\.1",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.4",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.5",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.6",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.7",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.8",h09v04_inFiles[i]) !=0)||
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length(grep("\\.4\\.9",h09v04_inFiles[i]) !=0)){
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Apr_h09v04[i]<- h09v04_inFiles[i]
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}
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}
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Apr_h09v04<-Apr_h09v04[!is.na(Apr_h09v04)]
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Apr_h09v04
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105
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Apr_h09v04_stack<- stack(Apr_h09v04)
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nlayers(Apr_h09v04_stack)
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Apr_h09v04_mn<- mean(Apr_h09v04_stack, na.rm=TRUE)
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Apr_h09v04_mnScaled<- Apr_h09v04_mn*0.0005
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Out_Apr<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Apr_h09v04_AVG_Scaled.img"
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writeRaster (Apr_h09v04_mnScaled, filename=Out_Apr,format="HFA",overwrite=TRUE)
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May_h09v04<- c(1:length (h09v04_inFiles))*NA
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for (i in 1: length(h09v04_inFiles)){
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if (length(grep("\\.5\\.1",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.4",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.5",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.6",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.7",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.8",h09v04_inFiles[i]) !=0)||
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length(grep("\\.5\\.9",h09v04_inFiles[i]) !=0)){
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May_h09v04[i]<- h09v04_inFiles[i]
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}
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}
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May_h09v04<-May_h09v04[!is.na(May_h09v04)]
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May_h09v04
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May_h09v04_stack<- stack(May_h09v04)
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nlayers(May_h09v04_stack)
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May_h09v04_mn<- mean(May_h09v04_stack, na.rm=TRUE)
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May_h09v04_mnScaled<- May_h09v04_mn*0.0005
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Out_May<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/May_h09v04_AVG_Scaled.img"
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writeRaster (May_h09v04_mnScaled, filename=Out_May,format="HFA",overwrite=TRUE)
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Jun_h09v04<- c(1:length (h09v04_inFiles))*NA
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for (i in 1: length(h09v04_inFiles)){
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if (length(grep("\\.6\\.1",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.4",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.5",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.6",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.7",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.8",h09v04_inFiles[i]) !=0)||
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length(grep("\\.6\\.9",h09v04_inFiles[i]) !=0)){
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Jun_h09v04[i]<- h09v04_inFiles[i]
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}
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}
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Jun_h09v04<-Jun_h09v04[!is.na(Jun_h09v04)]
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Jun_h09v04
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Jun_h09v04_stack<- stack(Jun_h09v04)
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nlayers(Jun_h09v04_stack)
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Jun_h09v04_mn<- mean(Jun_h09v04_stack, na.rm=TRUE)
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Jun_h09v04_mnScaled<- Jun_h09v04_mn*0.0005
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Out_Jun<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Jun_h09v04_AVG_Scaled.img"
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writeRaster (Jun_h09v04_mnScaled, filename=Out_Jun,format="HFA",overwrite=TRUE)
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Jul_h09v04<- c(1:length (h09v04_inFiles))*NA
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for (i in 1: length(h09v04_inFiles)){
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if (length(grep("\\.7\\.1",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.4",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.5",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.6",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.7",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.8",h09v04_inFiles[i]) !=0)||
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length(grep("\\.7\\.9",h09v04_inFiles[i]) !=0)){
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Jul_h09v04[i]<- h09v04_inFiles[i]
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}
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}
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Jul_h09v04<-Jul_h09v04[!is.na(Jul_h09v04)]
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Jul_h09v04
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180
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Jul_h09v04_stack<- stack(Jul_h09v04)
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nlayers(Jul_h09v04_stack)
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Jul_h09v04_mn<- mean(Jul_h09v04_stack, na.rm=TRUE)
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Jul_h09v04_mnScaled<- Jul_h09v04_mn*0.0005
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Out_Jul<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Jul_h09v04_AVG_Scaled.img"
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writeRaster (Jul_h09v04_mnScaled, filename=Out_Jul,format="HFA",overwrite=TRUE)
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189
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Aug_h09v04<- c(1:length (h09v04_inFiles))*NA
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190
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for (i in 1: length(h09v04_inFiles)){
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191
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if (length(grep("\\.8\\.1",h09v04_inFiles[i]) !=0)||
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192
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length(grep("\\.8\\.2",h09v04_inFiles[i]) !=0)||
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193
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length(grep("\\.8\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.8\\.4",h09v04_inFiles[i]) !=0)||
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195
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length(grep("\\.8\\.5",h09v04_inFiles[i]) !=0)||
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196
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length(grep("\\.8\\.6",h09v04_inFiles[i]) !=0)||
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197
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length(grep("\\.8\\.7",h09v04_inFiles[i]) !=0)||
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198
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length(grep("\\.8\\.8",h09v04_inFiles[i]) !=0)||
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199
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length(grep("\\.8\\.9",h09v04_inFiles[i]) !=0)){
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200
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Aug_h09v04[i]<- h09v04_inFiles[i]
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201
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}
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202
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}
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203
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Aug_h09v04<-Aug_h09v04[!is.na(Aug_h09v04)]
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204
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Aug_h09v04
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205
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206
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Aug_h09v04_stack<- stack(Aug_h09v04)
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207
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nlayers(Aug_h09v04_stack)
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208
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Aug_h09v04_mn<- mean(Aug_h09v04_stack, na.rm=TRUE)
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209
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Aug_h09v04_mnScaled<- Aug_h09v04_mn*0.0005
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210
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211
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Out_Aug<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Aug_h09v04_AVG_Scaled.img"
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212
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writeRaster (Aug_h09v04_mnScaled, filename=Out_Aug,format="HFA",overwrite=TRUE)
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213
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214
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Sep_h09v04<- c(1:length (h09v04_inFiles))*NA
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215
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for (i in 1: length(h09v04_inFiles)){
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216
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if (length(grep("\\.9\\.1",h09v04_inFiles[i]) !=0)||
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217
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length(grep("\\.9\\.2",h09v04_inFiles[i]) !=0)||
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218
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length(grep("\\.9\\.3",h09v04_inFiles[i]) !=0)||
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length(grep("\\.9\\.4",h09v04_inFiles[i]) !=0)||
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220
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length(grep("\\.9\\.5",h09v04_inFiles[i]) !=0)||
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221
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length(grep("\\.9\\.6",h09v04_inFiles[i]) !=0)||
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222
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length(grep("\\.9\\.7",h09v04_inFiles[i]) !=0)||
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223
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length(grep("\\.9\\.8",h09v04_inFiles[i]) !=0)||
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224
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length(grep("\\.9\\.9",h09v04_inFiles[i]) !=0)){
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225
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Sep_h09v04[i]<- h09v04_inFiles[i]
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226
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}
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227
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}
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228
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Sep_h09v04<-Sep_h09v04[!is.na(Sep_h09v04)]
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229
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Sep_h09v04
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230
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231
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Sep_h09v04_stack<- stack(Sep_h09v04)
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232
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nlayers(Sep_h09v04_stack)
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233
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Sep_h09v04_mn<- mean(Sep_h09v04_stack, na.rm=TRUE)
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234
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Sep_h09v04_mnScaled<- Sep_h09v04_mn*0.0005
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235
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236
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Out_Sep<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Sep_h09v04_AVG_Scaled.img"
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237
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writeRaster (Sep_h09v04_mnScaled, filename=Out_Sep,format="HFA",overwrite=TRUE)
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238
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239
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Oct_h09v04<- c(1:length (h09v04_inFiles))*NA
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240
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for (i in 1: length(h09v04_inFiles)){
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241
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if (length(grep("\\.10\\.1",h09v04_inFiles[i]) !=0)||
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242
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length(grep("\\.10\\.2",h09v04_inFiles[i]) !=0)||
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length(grep("\\.10\\.3",h09v04_inFiles[i]) !=0)||
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244
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length(grep("\\.10\\.4",h09v04_inFiles[i]) !=0)||
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245
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length(grep("\\.10\\.5",h09v04_inFiles[i]) !=0)||
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246
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length(grep("\\.10\\.6",h09v04_inFiles[i]) !=0)||
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247
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length(grep("\\.10\\.7",h09v04_inFiles[i]) !=0)||
|
|
248
|
length(grep("\\.10\\.8",h09v04_inFiles[i]) !=0)||
|
|
249
|
length(grep("\\.10\\.9",h09v04_inFiles[i]) !=0)){
|
|
250
|
Oct_h09v04[i]<- h09v04_inFiles[i]
|
|
251
|
}
|
|
252
|
}
|
|
253
|
Oct_h09v04<-Oct_h09v04[!is.na(Oct_h09v04)]
|
|
254
|
Oct_h09v04
|
|
255
|
|
|
256
|
Oct_h09v04_stack<- stack(Oct_h09v04)
|
|
257
|
nlayers(Oct_h09v04_stack)
|
|
258
|
Oct_h09v04_mn<- mean(Oct_h09v04_stack, na.rm=TRUE)
|
|
259
|
Oct_h09v04_mnScaled<- Oct_h09v04_mn*0.0005
|
|
260
|
|
|
261
|
Out_Oct<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Oct_h09v04_AVG_Scaled.img"
|
|
262
|
writeRaster (Oct_h09v04_mnScaled, filename=Out_Oct,format="HFA",overwrite=TRUE)
|
|
263
|
|
|
264
|
Nov_h09v04<- c(1:length (h09v04_inFiles))*NA
|
|
265
|
for (i in 1: length(h09v04_inFiles)){
|
|
266
|
if (length(grep("\\.11\\.1",h09v04_inFiles[i]) !=0)||
|
|
267
|
length(grep("\\.11\\.2",h09v04_inFiles[i]) !=0)||
|
|
268
|
length(grep("\\.11\\.3",h09v04_inFiles[i]) !=0)||
|
|
269
|
length(grep("\\.11\\.4",h09v04_inFiles[i]) !=0)||
|
|
270
|
length(grep("\\.11\\.5",h09v04_inFiles[i]) !=0)||
|
|
271
|
length(grep("\\.11\\.6",h09v04_inFiles[i]) !=0)||
|
|
272
|
length(grep("\\.11\\.7",h09v04_inFiles[i]) !=0)||
|
|
273
|
length(grep("\\.11\\.8",h09v04_inFiles[i]) !=0)||
|
|
274
|
length(grep("\\.11\\.9",h09v04_inFiles[i]) !=0)){
|
|
275
|
Nov_h09v04[i]<- h09v04_inFiles[i]
|
|
276
|
}
|
|
277
|
}
|
|
278
|
Nov_h09v04<-Nov_h09v04[!is.na(Nov_h09v04)]
|
|
279
|
Nov_h09v04
|
|
280
|
|
|
281
|
Nov_h09v04_stack<- stack(Nov_h09v04)
|
|
282
|
nlayers(Nov_h09v04_stack)
|
|
283
|
Nov_h09v04_mn<- mean(Nov_h09v04_stack, na.rm=TRUE)
|
|
284
|
Nov_h09v04_mnScaled<- Nov_h09v04_mn*0.0005
|
|
285
|
|
|
286
|
Out_Nov<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Nov_h09v04_AVG_Scaled.img"
|
|
287
|
writeRaster (Nov_h09v04_mnScaled, filename=Out_Nov,format="HFA",overwrite=TRUE)
|
|
288
|
|
|
289
|
Dec_h09v04<- c(1:length (h09v04_inFiles))*NA
|
|
290
|
for (i in 1: length(h09v04_inFiles)){
|
|
291
|
if (length(grep("\\.12\\.1",h09v04_inFiles[i]) !=0)||
|
|
292
|
length(grep("\\.12\\.2",h09v04_inFiles[i]) !=0)||
|
|
293
|
length(grep("\\.12\\.3",h09v04_inFiles[i]) !=0)||
|
|
294
|
length(grep("\\.12\\.4",h09v04_inFiles[i]) !=0)||
|
|
295
|
length(grep("\\.12\\.5",h09v04_inFiles[i]) !=0)||
|
|
296
|
length(grep("\\.12\\.6",h09v04_inFiles[i]) !=0)||
|
|
297
|
length(grep("\\.12\\.7",h09v04_inFiles[i]) !=0)||
|
|
298
|
length(grep("\\.12\\.8",h09v04_inFiles[i]) !=0)||
|
|
299
|
length(grep("\\.12\\.9",h09v04_inFiles[i]) !=0)){
|
|
300
|
Dec_h09v04[i]<- h09v04_inFiles[i]
|
|
301
|
}
|
|
302
|
}
|
|
303
|
Dec_h09v04<-Dec_h09v04[!is.na(Dec_h09v04)]
|
|
304
|
Dec_h09v04
|
|
305
|
|
|
306
|
Dec_h09v04_stack<- stack(Dec_h09v04)
|
|
307
|
nlayers(Dec_h09v04_stack)
|
|
308
|
Dec_h09v04_mn<- mean(Dec_h09v04_stack, na.rm=TRUE)
|
|
309
|
Dec_h09v04_mnScaled<- Dec_h09v04_mn*0.0005
|
|
310
|
|
|
311
|
Out_Dec<- "/data/project/organisms/MODIS_LST_Oregon/ClearDayGDAL/NewClearDay_MonthlyAvgs_Tiles/Dec_h09v04_AVG_Scaled.img"
|
|
312
|
writeRaster (Dec_h09v04_mnScaled, filename=Out_Dec,format="HFA",overwrite=TRUE)
|
