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- add support for tiled czi's: bugfix 2

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w.pomp
2026-03-26 17:05:37 +01:00
parent e56ef334f4
commit 6123eeee8b
2 changed files with 4 additions and 2 deletions
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4
ndbioimage/readers/cziread.py
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@@ -178,6 +178,8 @@ class Reader(AbstractReader, ABC):
ti = self.reader.axes.index("T") if "T" in self.reader.axes else None ti = self.reader.axes.index("T") if "T" in self.reader.axes else None
yi = self.reader.axes.index("Y") if "Y" in self.reader.axes else None yi = self.reader.axes.index("Y") if "Y" in self.reader.axes else None
xi = self.reader.axes.index("X") if "X" in self.reader.axes else None xi = self.reader.axes.index("X") if "X" in self.reader.axes else None
if si is None and self.series > 0:
raise FileNotFoundError(f"Series {self.series} not found in {self.path}.")
for directory_entry in self.reader.filtered_subblock_directory: for directory_entry in self.reader.filtered_subblock_directory:
idx = self.get_index(directory_entry, self.reader.start) idx = self.get_index(directory_entry, self.reader.start)
@@ -194,7 +196,7 @@ class Reader(AbstractReader, ABC):
if self.series < len(b): if self.series < len(b):
by, bx = b[self.series] by, bx = b[self.series]
else: else:
raise FileNotFoundError(self.path / f"Pos{self.series}") raise FileNotFoundError(f"Series {self.series} not found in {self.path}.")
for directory_entry in self.reader.filtered_subblock_directory: for directory_entry in self.reader.filtered_subblock_directory:
idx = self.get_index(directory_entry, self.reader.start) idx = self.get_index(directory_entry, self.reader.start)
if bx[0] <= idx[xi][0] <= bx[1] and by[0] <= idx[yi][0] <= by[1]: if bx[0] <= idx[xi][0] <= bx[1] and by[0] <= idx[yi][0] <= by[1]:

2
pyproject.toml
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@@ -1,6 +1,6 @@
[project] [project]
name = "ndbioimage" name = "ndbioimage"
version = "2026.3.4" version = "2026.3.5"
description = "Bio image reading, metadata and some affine registration." description = "Bio image reading, metadata and some affine registration."
authors = [ authors = [
{ name = "W. Pomp", email = "w.pomp@nki.nl" } { name = "W. Pomp", email = "w.pomp@nki.nl" }