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- make zstd block include content size so fiji can actually read it

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- add compression level argument
- remove shape argument
- some more pytest tests
This commit is contained in:
Wim Pomp
2024-10-11 18:52:49 +02:00
parent 1197806a6f
commit 4d31933a38
8 changed files with 171 additions and 89 deletions
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12
py/tiffwrite/__init__.py
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@@ -33,11 +33,15 @@ FrameInfo = tuple[np.ndarray, None, CZT]
class IJTiffFile(rs.IJTiffFile):
def __new__(cls, path: str | Path, shape: tuple[int, int, int], dtype: DTypeLike = 'uint16',
def __new__(cls, path: str | Path, shape: tuple[int, int, int] = None, dtype: DTypeLike = 'uint16',
colors: Sequence[str] = None, colormap: str = None, pxsize: float = None,
deltaz: float = None, timeinterval: float = None, comment: str = None,
deltaz: float = None, timeinterval: float = None, compression: int = None, comment: str = None,
**extratags: Tag) -> IJTiffFile:
new = super().__new__(cls, str(path), shape)
new = super().__new__(cls, str(path))
if compression is not None:
if isinstance(compression, Sequence):
compression = compression[-1]
new.set_compression_level(compression)
if colors is not None:
new.colors = np.array([get_color(color) for color in colors])
if colormap is not None:
@@ -54,7 +58,7 @@ class IJTiffFile(rs.IJTiffFile):
new.append_extra_tag(extra_tag, None)
return new
def __init__(self, path: str | Path, shape: tuple[int, int, int], dtype: DTypeLike = 'uint16', # noqa
def __init__(self, path: str | Path, shape: tuple[int, int, int] = None, dtype: DTypeLike = 'uint16', # noqa
colors: Sequence[str] = None, colormap: str = None, pxsize: float = None, # noqa
deltaz: float = None, timeinterval: float = None, comment: str = None, # noqa
**extratags: Tag.Value | Tag) -> None: # noqa