From a0f4b2757dfde95d172f2f2d6cd9ae163cb5fc0d Mon Sep 17 00:00:00 2001
From: Hugo CHAUVET <hugo.chauvet@synchrotron-soleil.fr>
Date: Mon, 24 Jul 2023 15:48:03 +0200
Subject: [PATCH] Add the option to choose on which filter you can stabilize
the image (so that you could use the visible one)
---
src/bactos_functions.py | 7 +++++--
1 file changed, 5 insertions(+), 2 deletions(-)
diff --git a/src/bactos_functions.py b/src/bactos_functions.py
index ca9f8a2..2200a21 100755
--- a/src/bactos_functions.py
+++ b/src/bactos_functions.py
@@ -1123,7 +1123,7 @@ def run_processing(data_list, nom_sortie, MM_version=2, background='auto',
stardist_path = None, bact_size=(0.5, 15), prob_thresh=None,
time_to_extract_bacteria=0, build_bacteria_figures=True,
bacteria_extract_mask='TRP', drift_algo='cor', register_filter=True,
- register_stack=True, register_mask=True):
+ register_stack=True, register_mask=True, drift_filter=0):
"""
Loop over the given folder name to extract data and export them inside one hdf file (containing all data from each folder)
@@ -1178,6 +1178,9 @@ def run_processing(data_list, nom_sortie, MM_version=2, background='auto',
- register_mask, bool:
Register the two filter based on bacteria mask (default True)
+ - drift_filter, bool:
+ The filter on which to register the images in time
+
Example:
--------
@@ -1232,7 +1235,7 @@ def run_processing(data_list, nom_sortie, MM_version=2, background='auto',
print('stabilisation')
imgs = register_images(imgs, gaussian_size=0, move_filter=drug_filter,
ref_filter=ctrl_filter, register_filter=register_filter,
- register_stack=register_stack, show_info=False, up_factor=10, drift_filter=0,
+ register_stack=register_stack, show_info=False, up_factor=10, drift_filter=drift_filter,
scale_correction=scale_correction,
drift_algo=drift_algo)
--
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