Package qubx :: Module tifffile

Module tifffile

Read and write image data from and to TIFF files.

Image and meta-data can be read from TIFF, BigTIFF, OME-TIFF, STK, LSM, NIH, ImageJ, MicroManager, FluoView, SEQ and GEL files. Only a subset of the TIFF specification is supported, mainly uncompressed and losslessly compressed 2**(0 to 6) bit integer, 16, 32 and 64-bit float, grayscale and RGB(A) images, which are commonly used in bio-scientific imaging. Specifically, reading JPEG/CCITT compressed image data or EXIF/IPTC/GPS/XMP meta-data is not implemented. Only primary info records are read for STK, FluoView, MicroManager, and NIH image formats.

TIFF, the Tagged Image File Format, is under the control of Adobe Systems. BigTIFF allows for files greater than 4 GB. STK, LSM, FluoView, SEQ, GEL, and OME-TIFF, are custom extensions defined by MetaMorph, Carl Zeiss MicroImaging, Olympus, Media Cybernetics, Molecular Dynamics, and the Open Microscopy Environment consortium respectively.

For command line usage run python tifffile.py --help

Requirements

CPython 2.7 or 3.3
Numpy 1.7
Matplotlib 1.3 (optional for plotting)
Tifffile.c 2013.01.18 (recommended for faster decoding of PackBits and LZW encoded strings)

Notes

The API is not stable yet and might change between revisions.

Tested on little-endian platforms only.

Other Python packages and modules for reading bio-scientific TIFF files: * Imread * PyLibTiff * SimpleITK * PyLSM * PyMca.TiffIO.py * BioImageXD.Readers * Cellcognition.io * CellProfiler.bioformats

Acknowledgements

Egor Zindy, University of Manchester, for cz_lsm_scan_info specifics.
Wim Lewis for a bug fix and some read_cz_lsm functions.
Hadrien Mary for help on reading MicroManager files.

References

TIFF 6.0 Specification and Supplements. Adobe Systems Incorporated. http://partners.adobe.com/public/developer/tiff/
TIFF File Format FAQ. http://www.awaresystems.be/imaging/tiff/faq.html
MetaMorph Stack (STK) Image File Format. http://support.meta.moleculardevices.com/docs/t10243.pdf
File Format Description - LSM 5xx Release 2.0. http://ibb.gsf.de/homepage/karsten.rodenacker/IDL/Lsmfile.doc
BioFormats. http://www.loci.wisc.edu/ome/formats.html
The OME-TIFF format. http://www.openmicroscopy.org/site/support/file-formats/ome-tiff
TiffDecoder.java http://rsbweb.nih.gov/ij/developer/source/ij/io/TiffDecoder.java.html
UltraQuant(r) Version 6.0 for Windows Start-Up Guide. http://www.ultralum.com/images%20ultralum/pdf/UQStart%20Up%20Guide.pdf
Micro-Manager File Formats. http://www.micro-manager.org/wiki/Micro-Manager_File_Formats

Examples

>>> data = numpy.random.rand(301, 219)
>>> imsave('temp.tif', data)
>>> image = imread('temp.tif')
>>> assert numpy.all(image == data)

>>> tif = TiffFile('test.tif')
>>> images = tif.asarray()
>>> image0 = tif[0].asarray()
>>> for page in tif:
...     for tag in page.tags.values():
...         t = tag.name, tag.value
...     image = page.asarray()
...     if page.is_rgb: pass
...     if page.is_palette:
...         t = page.color_map
...     if page.is_stk:
...         t = page.mm_uic_tags.number_planes
...     if page.is_lsm:
...         t = page.cz_lsm_info
>>> tif.close()

Author: Christoph Gohlke

Organization: Laboratory for Fluorescence Dynamics, University of California, Irvine

Version: 2013.11.03

Classes

[hide private]

lazyattr
Lazy object attribute whose value is computed on first access.

TiffFile
Read image and meta-data from TIFF, STK, LSM, and FluoView files.

TiffPage
A TIFF image file directory (IFD).

TiffTag
A TIFF tag structure.

TiffSequence
Sequence of image files.

Record
Dictionary with attribute access.

TiffTags
Dictionary of TiffTags with attribute access.

TIFF_SUBFILE_TYPES

TIFFfile
Read image and meta-data from TIFF, STK, LSM, and FluoView files.

unicode
str(object='') -> string

Functions

[hide private]

imsave(filename, data, photometric=None, planarconfig=None, resolution=None, description=None, software='tifffile.py', byteorder=None, bigtiff=False, compress=0, extratags=())
Write image data to TIFF file. source code

imread(files, *args, **kwargs)
Return image data from TIFF file(s) as numpy array.

source code

read_bytes(fh, byteorder, dtype, count)
Read tag data from file and return as byte string.

source code

read_numpy(fh, byteorder, dtype, count)
Read tag data from file and return as numpy array.

source code

read_json(fh, byteorder, dtype, count)
Read tag data from file and return as object.

source code

read_mm_header(fh, byteorder, dtype, count)
Read MM_HEADER tag from file and return as numpy.rec.array.

source code

read_mm_stamp(fh, byteorder, dtype, count)
Read MM_STAMP tag from file and return as numpy.array.

source code

read_mm_uic1(fh, byteorder, dtype, count)
Read MM_UIC1 tag from file and return as dictionary.

source code

read_mm_uic2(fh, byteorder, dtype, count)
Read MM_UIC2 tag from file and return as dictionary.

source code

read_mm_uic3(fh, byteorder, dtype, count)
Read MM_UIC3 tag from file and return as dictionary.

source code

read_mm_uic4(fh, byteorder, dtype, count)
Read MM_UIC4 tag from file and return as dictionary.

source code

read_cz_lsm_info(fh, byteorder, dtype, count)
Read CS_LSM_INFO tag from file and return as numpy.rec.array.

source code

read_cz_lsm_time_stamps(fh, byteorder)
Read LSM time stamps from file and return as list.

source code

read_cz_lsm_event_list(fh, byteorder)
Read LSM events from file and return as list of (time, type, text).

source code

read_cz_lsm_scan_info(fh, byteorder)
Read LSM scan information from file and return as Record.

source code

read_nih_image_header(fh, byteorder, dtype, count)
Read NIH_IMAGE_HEADER tag from file and return as numpy.rec.array.

source code

imagej_metadata(data, bytecounts, byteorder)
Return dict from ImageJ meta data tag value.

source code

imagej_description(description)
Return dict from ImageJ image_description tag.

source code

read_micromanager_metadata(fh)
Read MicroManager non-TIFF settings from open file and return as dict.

source code

_replace_by(module_function, package=None, warn=True)
Try replace decorated function by module.function.

source code

decodepackbits(encoded)
Decompress PackBits encoded byte string.

source code

decodelzw(encoded)
Decompress LZW (Lempel-Ziv-Welch) encoded TIFF strip (byte string).

source code

unpackints(data, dtype, itemsize, runlen=0)
Decompress byte string to array of integers of any bit size <= 32.

source code

unpackrgb(data, dtype='<B', bitspersample=(5, 6, 5), rescale=True)
Return array from byte string containing packed samples. source code

reorient(image, orientation)
Return reoriented view of image array.

source code

numpy_fromfile(arg, dtype=<type 'float'>, count=-1, sep='')
Return array from data in binary file. source code

stripnull(string)
Return string truncated at first null character.

source code

format_size(size)
Return file size as string from byte size.

source code

natural_sorted(iterable)
Return human sorted list of strings.

source code

datetime_from_timestamp(n, epoch=datetime.datetime(1899, 12, 30, 0, 0))
Return datetime object from timestamp in Excel serial format.

source code

test_tifffile(directory='testimages', verbose=True)
Read all images in directory. Print error message on failure. source code

imshow(data, title=None, vmin=0, vmax=None, cmap=None, bitspersample=None, photometric='rgb', interpolation='nearest', dpi=96, figure=None, subplot=111, maxdim=8192, **kwargs)
Plot n-dimensional images using matplotlib.pyplot. source code

_app_show()
Block the GUI. For use as skimage plugin.

source code

main(argv=None)
Command line usage main function.

source code

Variables

[hide private]

__version__ = '2013.11.03'

TIFF_PHOTOMETRICS = {0: 'miniswhite', 1: 'minisblack', 2: 'rgb...

TIFF_COMPESSIONS = {1: None, 2: 'ccittrle', 3: 'ccittfax3', 4:...

TIFF_DECOMPESSORS = {None: <__builtin__.function object>, 'ado...

TIFF_DATA_TYPES = {1: '1B', 2: '1s', 3: '1H', 4: '1I', 5: '2I'...

TIFF_SAMPLE_FORMATS = {1: 'uint', 2: 'int', 3: 'float', 6: 'co...

TIFF_SAMPLE_DTYPES = {('complex', 64): 'F', ('complex', 128): ...

TIFF_ORIENTATIONS = {1: 'top_left', 2: 'top_right', 3: 'bottom...

AXES_LABELS = {'A': 'angle', 'C': 'channel', 'E': 'lambda', 'F...

NIH_IMAGE_HEADER = [('fileid', 'a8'), ('nlines', 'i2'), ('pixe...

MM_TAG_IDS = {0: 'auto_scale', 1: 'min_scale', 2: 'max_scale',...

MM_DIMENSION = [('name', 'a16'), ('size', 'i4'), ('origin', 'f...

MM_HEADER = [('header_flag', 'i2'), ('image_type', 'u1'), ('im...

CZ_LSM_INFO = [('magic_number', 'i4'), ('structure_size', 'i4'...

CZ_LSM_INFO_READERS = {'event_list': <__builtin__.function obj...

CZ_SCAN_TYPES = {0: 'XYZCT', 1: 'XYZCT', 2: 'XYZCT', 3: 'XYTCZ...

CZ_DIMENSIONS = {'C': 'dimension_channels', 'T': 'dimension_ti...

CZ_DATA_TYPES = {0: 'varying data types', 2: '12 bit unsigned ...

CZ_LSM_SCAN_INFO_ARRAYS = {285212672: 'timers', 318767104: 'ma...

CZ_LSM_SCAN_INFO_STRUCTS = {301989888: 'timers', 335544320: 'm...

CZ_LSM_SCAN_INFO_ATTRIBUTES = {268435457: 'name', 268435458: '...

TIFF_TAGS = {254: ('new_subfile_type', 0, 4, 1, <qubx.tifffile...

CUSTOM_TAGS = {700: ('xmp', <__builtin__.function object>), 33...

PRINT_LINE_LEN = 79

basestring = str, bytes

__package__ = 'qubx'

__warningregistry__ = {('failed to import _tifffile.decodelzw'...

Function Details

[hide private]

imsave(filename, data, photometric=None, planarconfig=None, resolution=None, description=None, software=`'tifffile.py'`, byteorder=None, bigtiff=False, compress=0, extratags=`()`)

source code

Write image data to TIFF file.

Image data are written in one stripe per plane.
Dimensions larger than 2 or 3 (depending on photometric mode and
planar configuration) are flattened and saved as separate pages.
The 'sample_format' and 'bits_per_sample' TIFF tags are derived from
the data type.

Parameters
----------
filename : str
    Name of file to write.
data : array_like
    Input image. The last dimensions are assumed to be image height,
    width, and samples.
photometric : {'minisblack', 'miniswhite', 'rgb'}
    The color space of the image data.
    By default this setting is inferred from the data shape.
planarconfig : {'contig', 'planar'}
    Specifies if samples are stored contiguous or in separate planes.
    By default this setting is inferred from the data shape.
    'contig': last dimension contains samples.
    'planar': third last dimension contains samples.
resolution : (float, float) or ((int, int), (int, int))
    X and Y resolution in dots per inch as float or rational numbers.
description : str
    The subject of the image. Saved with the first page only.
software : str
    Name of the software used to create the image.
    Saved with the first page only.
byteorder : {'<', '>'}
    The endianness of the data in the file.
    By default this is the system's native byte order.
bigtiff : bool
    If True, the BigTIFF format is used.
    By default the standard TIFF format is used for data less than 2000 MB.
compress : int
    Values from 0 to 9 controlling the level of zlib compression.
    If 0, data are written uncompressed (default).
extratags: sequence of tuples
    Additional tags as [(code, dtype, count, value, writeonce)].
    code : int
        The TIFF tag Id.
    dtype : str
        Data type of items in `value` in Python struct format.
        One of B, s, H, I, 2I, b, h, i, f, d, Q, or q.
    count : int
        Number of data values. Not used for string values.
    value : sequence
        `Count` values compatible with `dtype`.
    writeonce : bool
        If True, the tag is written to the first page only.

Examples
--------
>>> data = numpy.ones((2, 5, 3, 301, 219), 'float32') * 0.5
>>> imsave('temp.tif', data, compress=6)

>>> data = numpy.ones((5, 301, 219, 3), 'uint8') + 127
>>> value = u'{"shape": %s}' % str(list(data.shape))
>>> imsave('temp.tif', data, extratags=[(270, 's', 0, value, True)])

imread(files, *args, **kwargs)

source code

Return image data from TIFF file(s) as numpy array.

The first image series is returned if no arguments are provided.

Parameters

files : str or list: File name, glob pattern, or list of file names.
key : int, slice, or sequence of page indices: Defines which pages to return as array.
series : int: Defines which series of pages in file to return as array.
multifile : bool: If True (default), OME-TIFF data may include pages from multiple files.
pattern : str: Regular expression pattern that matches axes names and indices in file names.

Examples

>>> im = imread('test.tif', 0)
>>> im.shape
(256, 256, 4)
>>> ims = imread(['test.tif', 'test.tif'])
>>> ims.shape
(2, 256, 256, 4)

read_micromanager_metadata(fh)

source code

Read MicroManager non-TIFF settings from open file and return as dict.

The settings can be used to read image data without parsing the TIFF file.

Raise ValueError if file does not contain valid MicroManager metadata.

decodepackbits(encoded)

source code

Decompress PackBits encoded byte string.

PackBits is a simple byte-oriented run-length compression scheme.

Decorators:

@_replace_by('_tifffile.decodepackbits')

decodelzw(encoded)

source code

Decompress LZW (Lempel-Ziv-Welch) encoded TIFF strip (byte string).

The strip must begin with a CLEAR code and end with an EOI code.

This is an implementation of the LZW decoding algorithm described in (1). It is not compatible with old style LZW compressed files like quad-lzw.tif.

Decorators:

@_replace_by('_tifffile.decodelzw')

unpackints(data, dtype, itemsize, runlen=0)

source code

Decompress byte string to array of integers of any bit size <= 32.

Parameters

data : byte str: Data to decompress.
dtype : numpy.dtype or str: A numpy boolean or integer type.
itemsize : int: Number of bits per integer.
runlen : int: Number of consecutive integers, after which to start at next byte.

Decorators:

@_replace_by('_tifffile.unpackints')

unpackrgb(data, dtype=`'<B'`, bitspersample=`(`5`,` 6`,` 5`)`, rescale=True)

source code

Return array from byte string containing packed samples.

Use to unpack RGB565 or RGB555 to RGB888 format.

Parameters

data : byte str: The data to be decoded. Samples in each pixel are stored consecutively. Pixels are aligned to 8, 16, or 32 bit boundaries.
dtype : numpy.dtype: The sample data type. The byteorder applies also to the data stream.
bitspersample : tuple: Number of bits for each sample in a pixel.
rescale : bool: Upscale samples to the number of bits in dtype.

Returns

result : ndarray: Flattened array of unpacked samples of native dtype.

Examples

>>> data = struct.pack('BBBB', 0x21, 0x08, 0xff, 0xff)
>>> print(unpackrgb(data, '<B', (5, 6, 5), False))
[ 1  1  1 31 63 31]
>>> print(unpackrgb(data, '<B', (5, 6, 5)))
[  8   4   8 255 255 255]
>>> print(unpackrgb(data, '<B', (5, 5, 5)))
[ 16   8   8 255 255 255]

reorient(image, orientation)

source code

Return reoriented view of image array.

Parameters

image : numpy array: Non-squeezed output of asarray() functions. Axes -3 and -2 must be image length and width respectively.
orientation : int or str: One of TIFF_ORIENTATIONS keys or values.

numpy_fromfile(arg, dtype=<type 'float'>, count=-1, sep=`''`)

source code

Return array from data in binary file.

Work around numpy issue #2230, "numpy.fromfile does not accept StringIO object" https://github.com/numpy/numpy/issues/2230.

imshow(data, title=None, vmin=0, vmax=None, cmap=None, bitspersample=None, photometric=`'rgb'`, interpolation=`'nearest'`, dpi=96, figure=None, subplot=111, maxdim=8192, **kwargs)

source code

Plot n-dimensional images using matplotlib.pyplot.

Return figure, subplot and plot axis. Requires pyplot already imported from matplotlib import pyplot.

Parameters

bitspersample : int or None: Number of bits per channel in integer RGB images.
photometric : {'miniswhite', 'minisblack', 'rgb', or 'palette'}: The color space of the image data.
title : str: Window and subplot title.
figure : matplotlib.figure.Figure (optional).: Matplotlib to use for plotting.
subplot : int: A matplotlib.pyplot.subplot axis.
maxdim : int: maximum image size in any dimension.
kwargs : optional: Arguments for matplotlib.pyplot.imshow.

Variables Details

[hide private]

TIFF_PHOTOMETRICS

Value:

{0: 'miniswhite',
 1: 'minisblack',
 2: 'rgb',
 3: 'palette',
 4: 'mask',
 5: 'separated',
 6: 'cielab',
 7: 'icclab',
...

TIFF_COMPESSIONS

Value:

{1: None,
 2: 'ccittrle',
 3: 'ccittfax3',
 4: 'ccittfax4',
 5: 'lzw',
 6: 'ojpeg',
 7: 'jpeg',
 8: 'adobe_deflate',
...

TIFF_DECOMPESSORS

Value:

{None: <__builtin__.function object>,
 'adobe_deflate': <built-in function decompress>,
 'deflate': <built-in function decompress>,
 'lzw': <__builtin__.function object>,
 'packbits': <__builtin__.function object>}

TIFF_DATA_TYPES

Value:

{1: '1B',
 2: '1s',
 3: '1H',
 4: '1I',
 5: '2I',
 6: '1b',
 7: '1B',
 8: '1h',
...

TIFF_SAMPLE_FORMATS

Value:

{1: 'uint', 2: 'int', 3: 'float', 6: 'complex'}

TIFF_SAMPLE_DTYPES

Value:

{('complex', 64): 'F',
 ('complex', 128): 'D',
 ('float', 16): 'e',
 ('float', 32): 'f',
 ('float', 64): 'd',
 ('int', 8): 'b',
 ('int', 16): 'h',
 ('int', 32): 'i',
...

TIFF_ORIENTATIONS

Value:

{1: 'top_left',
 2: 'top_right',
 3: 'bottom_right',
 4: 'bottom_left',
 5: 'left_top',
 6: 'right_top',
 7: 'right_bottom',
 8: 'left_bottom'}

AXES_LABELS

Value:

{'A': 'angle',
 'C': 'channel',
 'E': 'lambda',
 'F': 'phase',
 'H': 'lifetime',
 'L': 'exposure',
 'P': 'plane',
 'Q': 'other',
...

NIH_IMAGE_HEADER

Value:

[('fileid', 'a8'),
 ('nlines', 'i2'),
 ('pixelsperline', 'i2'),
 ('version', 'i2'),
 ('oldlutmode', 'i2'),
 ('oldncolors', 'i2'),
 ('colors', 'u1', (3, 32)),
 ('oldcolorstart', 'i2'),
...

MM_TAG_IDS

Value:

{0: 'auto_scale',
 1: 'min_scale',
 2: 'max_scale',
 3: 'spatial_calibration',
 8: 'thresh_state',
 9: 'thresh_state_red',
 11: 'thresh_state_green',
 12: 'thresh_state_blue',
...

MM_DIMENSION

Value:

[('name', 'a16'),
 ('size', 'i4'),
 ('origin', 'f8'),
 ('resolution', 'f8'),
 ('unit', 'a64')]

MM_HEADER

Value:

[('header_flag', 'i2'),
 ('image_type', 'u1'),
 ('image_name', 'a257'),
 ('offset_data', 'u4'),
 ('palette_size', 'i4'),
 ('offset_palette0', 'u4'),
 ('offset_palette1', 'u4'),
 ('comment_size', 'i4'),
...

CZ_LSM_INFO

Value:

[('magic_number', 'i4'),
 ('structure_size', 'i4'),
 ('dimension_x', 'i4'),
 ('dimension_y', 'i4'),
 ('dimension_z', 'i4'),
 ('dimension_channels', 'i4'),
 ('dimension_time', 'i4'),
 ('dimension_data_type', 'i4'),
...

CZ_LSM_INFO_READERS

Value:

{'event_list': <__builtin__.function object>,
 'scan_information': <__builtin__.function object>,
 'time_stamps': <__builtin__.function object>}

CZ_SCAN_TYPES

Value:

{0: 'XYZCT',
 1: 'XYZCT',
 2: 'XYZCT',
 3: 'XYTCZ',
 4: 'XYZTC',
 5: 'XYTCZ',
 6: 'XYZTC',
 7: 'XYCTZ',
...

CZ_DIMENSIONS

Value:

{'C': 'dimension_channels',
 'T': 'dimension_time',
 'X': 'dimension_x',
 'Y': 'dimension_y',
 'Z': 'dimension_z'}

CZ_DATA_TYPES

Value:

{0: 'varying data types',
 2: '12 bit unsigned integer',
 5: '32 bit float'}

CZ_LSM_SCAN_INFO_ARRAYS

Value:

{285212672: 'timers',
 318767104: 'markers',
 536870912: 'tracks',
 805306368: 'lasers',
 1610612736: 'detectionchannels',
 2147483648: 'illuminationchannels',
 2684354560: 'beamsplitters',
 3221225472: 'datachannels'}

CZ_LSM_SCAN_INFO_STRUCTS

Value:

{301989888: 'timers',
 335544320: 'markers',
 1073741824: 'tracks',
 1342177280: 'lasers',
 1879048192: 'detectionchannels',
 2415919104: 'illuminationchannels',
 2952790016: 'beamsplitters',
 3489660928: 'datachannels'}

CZ_LSM_SCAN_INFO_ATTRIBUTES

Value:

{268435457: 'name',
 268435458: 'description',
 268435459: 'notes',
 268435460: 'objective',
 268435461: 'processing_summary',
 268435462: 'special_scan_mode',
 268435463: 'oledb_recording_scan_type',
 268435464: 'oledb_recording_scan_mode',
...

TIFF_TAGS

Value:

{254: ('new_subfile_type',
       0,
       4,
       1,
       <qubx.tifffile.TIFF_SUBFILE_TYPES object>),
 255: ('subfile_type',
       None,
       3,
...

CUSTOM_TAGS

Value:

{700: ('xmp', <__builtin__.function object>),
 33628: ('mm_uic1', <__builtin__.function object>),
 33629: ('mm_uic2', <__builtin__.function object>),
 33630: ('mm_uic3', <__builtin__.function object>),
 33631: ('mm_uic4', <__builtin__.function object>),
 33723: ('iptc', <__builtin__.function object>),
 34361: ('mm_header', <__builtin__.function object>),
 34362: ('mm_stamp', <__builtin__.function object>),
...

warningregistry

Value:

{('failed to import _tifffile.decodelzw',
  <type 'exceptions.UserWarning'>,
  2170): True,
 ('failed to import _tifffile.decodepackbits',
  <type 'exceptions.UserWarning'>,
  2170): True,
 ('failed to import _tifffile.unpackints',
  <type 'exceptions.UserWarning'>,
...

Module tifffile

Requirements

Notes

Acknowledgements

References

Examples

imsave(filename, data, photometric=None, planarconfig=None, resolution=None, description=None, software='tifffile.py', byteorder=None, bigtiff=False, compress=0, extratags=())

imread(files, *args, **kwargs)

Parameters

Examples

read_micromanager_metadata(fh)

decodepackbits(encoded)

decodelzw(encoded)

unpackints(data, dtype, itemsize, runlen=0)

Parameters

unpackrgb(data, dtype='<B', bitspersample=(5, 6, 5), rescale=True)

Parameters

Returns

Examples

reorient(image, orientation)

Parameters

numpy_fromfile(arg, dtype=<type 'float'>, count=-1, sep='')

imshow(data, title=None, vmin=0, vmax=None, cmap=None, bitspersample=None, photometric='rgb', interpolation='nearest', dpi=96, figure=None, subplot=111, maxdim=8192, **kwargs)

Parameters

TIFF_PHOTOMETRICS

TIFF_COMPESSIONS

TIFF_DECOMPESSORS

TIFF_DATA_TYPES

TIFF_SAMPLE_FORMATS

TIFF_SAMPLE_DTYPES

TIFF_ORIENTATIONS

AXES_LABELS

NIH_IMAGE_HEADER

MM_TAG_IDS

MM_DIMENSION

MM_HEADER

CZ_LSM_INFO

CZ_LSM_INFO_READERS

CZ_SCAN_TYPES

CZ_DIMENSIONS

CZ_DATA_TYPES

CZ_LSM_SCAN_INFO_ARRAYS

CZ_LSM_SCAN_INFO_STRUCTS

CZ_LSM_SCAN_INFO_ATTRIBUTES

TIFF_TAGS

CUSTOM_TAGS

__warningregistry__

imsave(filename, data, photometric=None, planarconfig=None, resolution=None, description=None, software=`'tifffile.py'`, byteorder=None, bigtiff=False, compress=0, extratags=`()`)

unpackrgb(data, dtype=`'<B'`, bitspersample=`(`5`,` 6`,` 5`)`, rescale=True)

numpy_fromfile(arg, dtype=<type 'float'>, count=-1, sep=`''`)

imshow(data, title=None, vmin=0, vmax=None, cmap=None, bitspersample=None, photometric=`'rgb'`, interpolation=`'nearest'`, dpi=96, figure=None, subplot=111, maxdim=8192, **kwargs)

warningregistry