tiffsequence

TiffSequence

class skimage.external.tifffile.TiffSequence(files, imread=, pattern='axes', *args, **kwargs) [source]

Bases: object

Sequence of image files.

The data shape and dtype of all files must match.

Examples

>>> tifs = TiffSequence("test.oif.files/*.tif")  
>>> tifs.shape, tifs.axes  
((2, 100), 'CT')
>>> data = tifs.asarray()  
>>> data.shape  
(2, 100, 256, 256)

Attributes

files	(list) List of file names.
shape	(tuple) Shape of image sequence.
axes	(str) Labels of axes in shape.

__init__(files, imread=, pattern='axes', *args, **kwargs) [source]

Initialize instance from multiple files.

Parameters:	files : str, or sequence of str Glob pattern or sequence of file names. imread : function or class Image read function or class with asarray function returning numpy array from single file. pattern : str Regular expression pattern that matches axes names and sequence indices in file names. By default this matches Olympus OIF and Leica TIFF series.

exception ParseError [source]

Bases: exceptions.Exception

TiffSequence.asarray(memmap=False, *args, **kwargs) [source]

Read image data from all files and return as single numpy array.

If memmap is True, return an array stored in a binary file on disk. The args and kwargs parameters are passed to the imread function.

Raise IndexError or ValueError if image shapes don’t match.

TiffSequence.close() [source]