From 92d815d5e1b1866d250b80dac2af0547dc1b0013 Mon Sep 17 00:00:00 2001
From: arinwongprommoon <arin.wongprommoon@ed.ac.uk>
Date: Mon, 16 Jan 2023 14:15:14 +0000
Subject: [PATCH] [WIP] feat!(aliby): ImageDummy pads loaded image
WHY IS THIS CHANGE NEEDED?:
- currently has one time point, one channel, one z-stack and thus
mimicking usual Image.data structure. this isn't what we want to test.
HOW DOES THE CHANGE SOLVE THE PROBLEM?:
- use pad_array() to pad with zeros so that the shape is as desired
REFERENCES:
- MR !10
---
src/aliby/io/image.py | 6 +++++-
1 file changed, 5 insertions(+), 1 deletion(-)
diff --git a/src/aliby/io/image.py b/src/aliby/io/image.py
index 5b8c8011..d481d098 100644
--- a/src/aliby/io/image.py
+++ b/src/aliby/io/image.py
@@ -188,7 +188,11 @@ class ImageDummy(BaseLocalImage):
img, (1, 1, img.shape[-3], img.shape[-2], img.shape[-1])
)
# Pads t, c, and z dimensions
- # ....
+ img = self.pad_array(
+ img, dim=0, n_empty_slices=199
+ ) # 200 timepoints total
+ img = self.pad_array(img, dim=1, n_empty_slices=2) # 3 channels
+ img = self.pad_array(img, dim=2, n_empty_slices=4) # 5 z-stacks
return img
def name(self):
--
GitLab