Added padding option.

src/tirl/scripts/mnd/histology_to_block.py

@@ -716,6 +716,28 @@ def mask_roi_defects(histo, block, p):
     block.mask = bmask * binary
 
 
+def pad(timg, **kwargs):
+    """ Zero-pads the image by 1/5 of the image shape on both ends along each
+    spatial dimension. """
+    padding = []
+    for dim in timg.vshape:
+        padding.append((dim // 6, dim // 6))
+    padding = tuple(padding)
+    offset = TxTranslation([-pad[0] for pad in padding], name="padding")
+    lpad = ((0, 0),) * timg.tdim
+    if timg.order == TENSOR_MAJOR:
+        padding = lpad + padding
+    else:
+        padding = padding + lpad
+    imdata = np.pad(timg.data, padding, mode="maximum")
+    offset = offset + timg.domain.offset
+    chain = timg.domain.chain
+    padded = TImage.fromarray(imdata, tensor_axes=timg.taxes)
+    padded.domain.offset = offset
+    padded.domain.chain = chain
+    return padded
+
+
                             # PROGRAM FLOW CONTROL
 
 def histology_to_block(args):