mycelyso.pilyso.imagestack package¶

Submodules¶

mycelyso.pilyso.imagestack.imagestack module¶

class mycelyso.pilyso.imagestack.imagestack.Dimensions[source]¶

Bases: object

class Channel[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.Dimension

char = 'c'¶

class Dimension[source]¶

Bases: object

char = 'd'¶

class Height[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.Dimension

char = 'h'¶

Position¶: alias of Dimensions.PositionXY

class PositionXY[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.Dimension

char = 'r'¶

class PositionZ[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.Dimension

char = 'z'¶

class Time[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.Dimension

char = 't'¶

class Width[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.Dimension

char = 'w'¶

classmethod all()[source]¶

classmethod all_by_char()[source]¶

classmethod by_char(char)[source]¶

class mycelyso.pilyso.imagestack.imagestack.FloatFilter[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.ImageStackFilter

filter(image)[source]¶

class mycelyso.pilyso.imagestack.imagestack.Image[source]¶: Bases: numpy.ndarray

class mycelyso.pilyso.imagestack.imagestack.ImageStack(*args, **kwargs)[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.ImageStackAPI

class ImageStackAccessBridge(parent, purpose)[source]¶: Bases: object

class ImageStackView(parent, pinned_indices=None, order=None, filters=None)[source]¶

Bases: object

begin()[source]¶

bridged_access(entry_point, what)[source]¶

collect()[source]¶

commit()[source]¶

copy()[source]¶

dimensions¶

every_dict¶

every_dict_image¶

every_index¶

every_index_image¶

filter(*what)[source]¶

is_fixed()[source]¶

order¶

pin_index(index, to_what)[source]¶

pin_indices(item)[source]¶

size¶

sizes¶

view(*new_order)[source]¶

class Metadata(time, position, calibration)¶

Bases: tuple

calibration¶: Alias for field number 2

position¶: Alias for field number 1

time¶: Alias for field number 0

class Position(x, y, z)¶

Bases: tuple

x¶: Alias for field number 0

y¶: Alias for field number 1

z¶: Alias for field number 2

check_fork()[source]¶

extensions = ('',)¶

get_subsampling(dim)[source]¶

parse_parameters_after()[source]¶

parse_parameters_before()[source]¶

perform_get_data(what, filters=None)[source]¶

perform_get_meta(what)[source]¶

priority = 0¶

schemes = ('file',)¶

set_dimensions_and_sizes(dimensions, sizes)[source]¶

class mycelyso.pilyso.imagestack.imagestack.ImageStackAPI[source]¶

Bases: object

get_data(what)[source]¶

get_meta(what)[source]¶

init()[source]¶

notify_fork()[source]¶

open(location, **kwargs)[source]¶

class mycelyso.pilyso.imagestack.imagestack.ImageStackFilter[source]¶

Bases: object

filter(image)[source]¶

class mycelyso.pilyso.imagestack.imagestack.Metadata(time, position, calibration)¶

Bases: tuple

calibration¶: Alias for field number 2

position¶: Alias for field number 1

time¶: Alias for field number 0

class mycelyso.pilyso.imagestack.imagestack.MinMaxFilter[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.ImageStackFilter

filter(image)[source]¶

class mycelyso.pilyso.imagestack.imagestack.Position(x, y, z)¶

Bases: tuple

x¶: Alias for field number 0

y¶: Alias for field number 1

z¶: Alias for field number 2

exception mycelyso.pilyso.imagestack.imagestack.UnsupportedImageError[source]¶: Bases: NotImplementedError

class mycelyso.pilyso.imagestack.imagestack.UnwrapFilter[source]¶

Bases: mycelyso.pilyso.imagestack.imagestack.ImageStackFilter

filter(image)[source]¶

Module contents¶

The imagestack module contains the base functionality for nD bio image opening with metadata support.