From c6fbb5965c0dfa1919230e185ef1461545a91801 Mon Sep 17 00:00:00 2001
From: Andrey Aristov <aaristov@pasteur.fr>
Date: Fri, 13 May 2022 16:22:53 +0200
Subject: [PATCH] update suffix
---
droplet_growth/register.py | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/droplet_growth/register.py b/droplet_growth/register.py
index 8634ba2..4bbffd2 100644
--- a/droplet_growth/register.py
+++ b/droplet_growth/register.py
@@ -87,12 +87,12 @@ def align_stack(data_or_path, template16, mask2, plot=False, path=None, binnings
aligned_stack = np.stack((aligned_bf, aligned_tritc, mask2)).astype('uint16')
- imwrite((p:="".join((*path.split('.')[:-1] , suffix))), aligned_stack, imagej=True, metadata=META_ALIGNED)
+ imwrite((p:=path.replace('.nd2', suffix)), aligned_stack, imagej=True, metadata=META_ALIGNED)
print(f'Saved aligned stack {p}')
return aligned_stack
-def align_stack_nd(stack, template16, mask2, path=None, plot=False, binnings=(1,16,2), suffix='.aligned.tif') -> (np.ndarray, dict):
+def align_stack_nd(stack, template16, mask2, path=None, plot=False, binnings=(1,16,2), suffix='.aligned.tif') -> Tuple[np.ndarray, dict]:
'''
stack should contain two channels: bright field and fluorescence.
BF will be binned 8 times and registered with template8 (aligned BF).
--
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