def write_output(outpath, out, props, imtype='Label'):
"""Write data to an image on disk."""
props['dtype'] = out.dtype
if imtype == 'Label':
mo = LabelImage(outpath, **props)
elif imtype == 'Mask':
mo = MaskImage(outpath, **props)
else:
mo = Image(outpath, **props)
mo.create()
mo.write(out)
return mo
def split_nucl_and_memb(labels, outpat, nuclearmask=None):
labeldata = labels.slice_dataset()
labeldata, labeldata_nucl = split_nucl_and_memb_data(
labeldata, nuclearmask)
pf = '_memb'
outpath = outpat.format(pf)
im_memb = LabelImage(outpath, **props)
im_memb.create()
im_memb.write(labeldata)
pf = '_nucl'
outpath = outpat.format(pf)
im_nucl = LabelImage(outpath, **props)
im_nucl.create()
im_nucl.write(labeldata_nucl)
return im_memb, im_nucl
def write(out, outstem, postfix, ref_im, imtype='Image'):
"""Write an image to disk."""
outstem = outstem or gen_outpath(ref_im, '')
outpath = '{}{}'.format(outstem, postfix)
props = ref_im.get_props()
props['dtype'] = out.dtype
if imtype == 'Label':
mo = LabelImage(outpath, **props)
elif imtype == 'Mask':
mo = MaskImage(outpath, **props)
else:
mo = Image(outpath, **props)
mo.create()
mo.write(out)
if imtype == 'Label':
mo.set_maxlabel()
mo.ds.attrs.create('maxlabel', mo.maxlabel, dtype='uint32')
return mo