def heralick_from_image(input, outdir, params,xyoff,nbands=8, debug = False):
"""
:param input:
:param outdir:
:param params:
:param xyoff:
:param nbands:
:param debug:
:return:
"""
if not os._exists(outdir):
os.mkdir(outdir)
for i in range(1, nbands + 1):
params[4] = str(i) # set the channel
# get image min and max
min, max = utility.get_minmax(inputimage, i)
print(min, max)
params[8] = str(min)
params[10] = str(max)
# update parameters with the offset angle
for x, y in xyoff:
newparams = params + ['-parameters.xoff', str(x), '-parameters.yoff', str(y)]
newparams[12] = outdir + '/HaralickChannel' + newparams[4] + newparams[6] + 'xoff' + newparams[
14] + 'yoff' + newparams[16] + '.tif' # set output
print("computing haralick for " + newparams[2] + "\n" + "channel " + newparams[4] + " wait for a few hours :D ")
msg, err = compute_haralick(newparams, debug)
if err:
if not (err == "\r\n" or err == "\r" or err == "\n"): # windows, oldmac, unix
print(" some heraick from the image could not be created , script is stopping")
sys.exit(1)
def heralick_NDI(rootpath, ndipath, params, xyoff, inimgfrmt = ['.tif'], debug=False):
"""
:param rootpath:
:param ndipath:
:param params:
:param xyoff:
:param inimgfrmt:
:param debug:
:return:
"""
imgs = os.listdir(ndipath)
if not os.path.exists(rootpath + "haralick"):
os.mkdir(rootpath + "haralick")
if not os.path.exists(rootpath + "haralick/NDI"):
os.mkdir(rootpath + "haralick/NDI")
outdir = rootpath + "haralick/NDI"
for i in imgs:
if os.path.isfile(ndipath + '/' + i) and (os.path.splitext(ndipath + '/' + i)[-1] in inimgfrmt):
params[2] = ndipath + '/' + i
params[4] = '1'
# get image min and max
min, max = utility.get_minmax(ndipath + '/' + i)
print(min, max)
params[8] = str(min)
params[10] = str(max)
# update parameters with the offset angle
for x, y in xyoff:
newparams = params + ['-parameters.xoff', str(x), '-parameters.yoff', str(y)]
newparams[12] = outdir + '/' + i + 'HaralickChannel' + newparams[4] + newparams[6] \
+ 'xoff' + newparams[14] + 'yoff' + newparams[16] + '.tif' # set output
print("computing haralick for " + params[2] + "\n" + "channel " + params[4]
+ " wait for a few hours :D ")
if debug:
import datetime as time
starttime = time.datetime.now()
msg, err = compute_haralick(newparams, debug)
if debug:
endtime = time.datetime.now()
print('elapsed time')
print(endtime - starttime) # about 2h 25 minutes
if err:
if not (err == "\r\n" or err == "\r" or err == "\n"): # windows, oldmac, unix
print(" some NDI heralick images could not be created , script is stopping")
sys.exit(1)
