fieldCount

[Martin Gejl]

Hi 

I am working on counting field germination in cereals from .jpg pictures.

It is working on one picture but not another picture. can someone help me with understanding the error message. I have copied the consol message. As you can see in the code, first picture goes good, second picture error message : Error in distmap(mask) : 'x' shouldn't contain any NAs

can anyone tels me whats going wrong

> test1<-aggregate(test,fact=4) #reduce image size Warning messages: 1: [rast] unknown extent 2: [rast] unknown extent 3: [rast] unknown extent > plotRGB(test1, r = 1, g = 2, b = 3) > test1.shapeFile<-fieldPolygon(test1,extent = T)# Shapefile using the entire image (extent = T) [1] "3 layers available" > test1.Remsoil.NGRDI<- fieldMask(mosaic = test1,index = "NGRDI", cropValue = 0.02, cropAbove = F)# Using index "NGRDI" to remove background (above 0,02) [1] "3 layers available" > test1.count<-fieldCount(mosaic = test1.Remsoil.NGRDI$mask, fieldShape = test1.shapeFile$fieldShape, minSize = 0.015) [1] "Identifying objects... " [1] "You can speed up this step using n.core=16 or less." [1] "Number of objects: 129" > test<-stack("20230509_120111.jpg") Warning message: [rast] unknown extent > test1<-aggregate(test,fact=4) #reduce image size Warning messages: 1: [rast] unknown extent 2: [rast] unknown extent 3: [rast] unknown extent > plotRGB(test1, r = 1, g = 2, b = 3) > test1.shapeFile<-fieldPolygon(test1,extent = T)# Shapefile using the entire image (extent = T) [1] "3 layers available" > test1.Remsoil.NGRDI<- fieldMask(mosaic = test1,index = "NGRDI", cropValue = 0.02, cropAbove = F)# Using index "NGRDI" to remove background (above 0,02) [1] "3 layers available" > test1.count<-fieldCount(mosaic = test1.Remsoil.NGRDI$mask, fieldShape = test1.shapeFile$fieldShape, minSize = 0.015, n.core=16) [1] "Identifying objects... " [1] "You can speed up this step using n.core=16 or less." Error in distmap(mask) : 'x' shouldn't contain any NAs

[Martin Gejl]

Hi

I have solved the problem.

If you experience the same error try

> test1<-aggregate(test,fact=6) #reduce image size

In stead of fact=4 use 6

regards

Martin