def dimensionsOf(path):
fr = None
try:
fr = ChannelSeparator()
fr.setGroupFiles(False)
fr.setId(path)
return fr.getSizeX(), fr.getSizeY()
except:
print sys.exc_info()
finally:
fr.close()
from loci.formats import ChannelSeparator
import os, sys
# Read the dimensions of the image at path by parsing the file header only,
# thanks to the LOCI Bioformats library
filepath = "/home/albert/Desktop/t2/bat-cochlea-volume.tif"
try:
fr = ChannelSeparator()
fr.setGroupFiles(False)
fr.setId(filepath)
width, height, nSlices = fr.getSizeX(), fr.getSizeY(), fr.getSizeZ()
n_pixels = width * height * nSlices
bitDepth = fr.getBitsPerPixel()
fileSize = os.path.getsize(filepath)
headerSize = fileSize - (n_pixels * bitDepth / 8) # 8 bits in 1 byte
print "Dimensions:", width, height, nSlices
print "Bit depth: %i-bit" % bitDepth
print "Likely header size, in number of bytes:", headerSize
except:
# Print the error, if any
print sys.exc_info()
finally:
fr.close() # close the file handle safely and always
# For parsing TIFF file headers
from java.io import RandomAccessFile
from java.math import BigInteger
