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- Grayscale or composite

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Wim Pomp
2022-05-12 09:22:20 +02:00
parent 0e52125542
commit d0a33de804
2 changed files with 7 additions and 4 deletions
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2
setup.py
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@@ -5,7 +5,7 @@ with open('README.md', 'r') as fh:
setuptools.setup( setuptools.setup(
name='tiffwrite', name='tiffwrite',
version='2022.5.2', version='2022.5.3',
author='Wim Pomp @ Lenstra lab NKI', author='Wim Pomp @ Lenstra lab NKI',
author_email='w.pomp@nki.nl', author_email='w.pomp@nki.nl',
description='Parallel tiff writer compatible with ImageJ.', description='Parallel tiff writer compatible with ImageJ.',

9
tiffwrite/__init__.py
View File

@@ -440,7 +440,11 @@ class IJTiffFile:
else: else:
desc.extend((f'images={np.prod(self.shape)}', f'channels={self.shape[0]}', f'slices={self.shape[1]}', desc.extend((f'images={np.prod(self.shape)}', f'channels={self.shape[0]}', f'slices={self.shape[1]}',
f'frames={self.shape[2]}')) f'frames={self.shape[2]}'))
desc.extend(('hyperstack=true', 'mode=composite', 'loop=false', 'unit=micron')) if self.shape[0] == 1:
desc.append('mode=grayscale')
else:
desc.append('mode=composite')
desc.extend(('hyperstack=true', 'loop=false', 'unit=micron'))
if self.deltaz is not None: if self.deltaz is not None:
desc.append(f'spacing={self.deltaz}') desc.append(f'spacing={self.deltaz}')
if self.timeinterval is not None: if self.timeinterval is not None:
@@ -449,8 +453,7 @@ class IJTiffFile:
@cached_property @cached_property
def empty_frame(self): def empty_frame(self):
ifd = self.ifds[list(self.ifds.keys())[-1]].copy() return self.compress_frame(np.zeros(self.frame_shape, self.dtype))
return self.compress_frame(np.zeros((ifd[257].value[0], ifd[256].value[0]), self.dtype))
@cached_property @cached_property
def frame_shape(self): def frame_shape(self):