From b0af87596a1e8f182c347914c8c1e19afeb46d60 Mon Sep 17 00:00:00 2001
From: schlda00 <kai.schleicher@unibas.ch>
Date: Wed, 16 Apr 2025 10:15:16 +0200
Subject: [PATCH] Remove unused function and imports
---
2d_spots_in_fibers.py | 31 -------------------------------
1 file changed, 31 deletions(-)
diff --git a/2d_spots_in_fibers.py b/2d_spots_in_fibers.py
index 181b435..f6ec4ba 100644
--- a/2d_spots_in_fibers.py
+++ b/2d_spots_in_fibers.py
@@ -29,11 +29,6 @@ from loci.plugins.in import ImporterOptions
from loci.formats import ImageReader, MetadataTools, Memoizer
# MorpholibJ imports
from inra.ijpb.binary import BinaryImages
-# imglib2 imports
-from net.imglib2.img.display.imagej import ImageJFunctions
-from net.imglib2.roi import Regions
-from net.imglib2.roi.labeling import LabelRegions
-from net.imglib2.algorithm.labeling import ConnectedComponents
# BIOP imports
from ch.epfl.biop.ij2command import Labels2Rois, Rois2Labels
# python imports
@@ -288,32 +283,6 @@ def save_image_as_IJtif(imp, filename, suffix, target):
IJ.saveAs(imp, "Tiff", savepath)
-def convert_labelimage_to_imglib2regions(imp):
- """Convert a ImagePlus label image to imglib2 regions
-
- Parameters
- ----------
- imp : ImagePlus
- the input label image
-
- Returns
- -------
- Imglib2 LabelRegions
- the imglib2 label regions
- """
-
- # fist convert ImagePlus to img as suggested by curtis:
- # from https://forum.image.sc/t/how-to-wrap-any-kind-of-imageplus-to-an-imglib2-img-floattype/178/6
- wrapImg = ImageJFunctions.wrap(imp)
- # workaround to convert a label image into an imglib2 ImgLabeling (which contains not only an image)
- img_labeling = ops.labeling().cca(wrapImg, ConnectedComponents.StructuringElement.EIGHT_CONNECTED)
- # img = img_labeling.getIndexImg() # the img label image
- # ImageJFunctions.show(img)
- regions = LabelRegions(img_labeling)
-
- return regions
-
-
def convert_labelimage_to_binary(label_imp, scale_binary=True):
"""Convert a label image to a mask / binary image
--
GitLab