#imFileNames = ["test_file.nrrd", "test_file2.nrrd", "test_file3.nrrd"]
# The list of roi files (Needs to have same number of entries as .im files above).
#roiFileNames = ["test_file.rois.zip", "test_file2.rois.zip", "test_file3.rois.zip"]
# List of statistics.
# Others: "mean", "stddev", "median", "N/D",
# "min", "max", "sum", "mode", "area",
# "group", "roix", "roiy",
# "roiwidth", "roiheight"
stats = ["group", "area", "mean", "stddev", "N/D"]
#////////////////////////////
# Initialize stuff.
#////////////////////////////
ui = UI()
ui.show()
#////////////////////////////
# Loop over files.
#////////////////////////////
for i in range(len(imFileNames)):
imFile = File(imFileNames[i])
roiFile = File(roiFileNames[i])
#IJ.log("Opening: "+imFileNames[i])
ui.openFile(imFile)
#IJ.log("Opening: "+roiFileNames[i])
ui.openFile(roiFile)
#////////////////////////////
# Get the planes.
# The list of roi files (Needs to have same number of entries as .im files above).
roiFileName = ["test_file.rois.zip", "test_file2.rois.zip", "test_file3.rois.zip"]
# List of statistics.
# Others: "mean", "stddev", "median", "N/D",
# "min", "max", "sum", "mode", "area",
# "group (table only)", "roix", "roiy",
# "roiwidth", "roiheight"
stats = ["mean", "stddev"]
#////////////////////////////
# Initialize stuff.
#////////////////////////////
ui = UI()
ui.show()
#////////////////////////////
# Loop over files.
#////////////////////////////
for i in range(len(imFileName)):
#where is this going?
#print "Opening: " #+ imFileName[i] + ", " roiFileName[i]
imFile = File(imDirName, imFileName[i])
roiFile = File(imDirName, roiFileName[i])
IJ.log("Opening: "+imFileName[i])
ui.openFile(imFile)
IJ.log("Opening: "+roiFileName[i])
ui.openFile(roiFile)
