navigate.model.devices.stages.mcl.MCLStage

class navigate.model.devices.stages.mcl.MCLStage(microscope_name, device_connection, configuration, device_id=0)

Bases: StageBase

Mad City Lab stage class.

__init__(microscope_name, device_connection, configuration, device_id=0)

Initialize the MCL stage.

Parameters:

• microscope_name (str) – Name of the microscope.

• device_connection (mcl_controller) – Communication object for the stage.

• configuration (dict) – Dictionary containing the configuration information for the device.

• device_id (int) – Device ID.

Methods

__init__(microscope_name, device_connection, ...)	Initialize the MCL stage.
close()	Close the stage.
get_abs_position(axis, axis_abs)	Ensure the requested position is within axis bounds and return it.
get_position_dict()	Return a dictionary with the saved stage positions.
move_absolute(move_dictionary[, wait_until_done])	Move the stage to an absolute position.
move_axis_absolute(axis, abs_pos[, ...])	Implement movement logic along a single axis.
report_position()	Report the position of the stage.
stop()	Stop all stage movement abruptly.
verify_abs_position(move_dictionary[, is_strict])	Ensure the requested moving positions are within axes bounds

Attributes

mcl_controller	MCL controller object.
handle	MCL handle.
axes_mapping	Dictionary of software axes and their corresponding hardware axes.

close()

Close the stage.

get_abs_position(axis, axis_abs)

Ensure the requested position is within axis bounds and return it.

Parameters:

• axis (str) – An axis: x, y, z, f, theta

• axis_abs (float) – Absolute position value

Returns:

Position to move the stage to for this axis.

Return type:

float

get_position_dict()

Return a dictionary with the saved stage positions.

Returns:

Dictionary of stage positions.

Return type:

dict

move_absolute(move_dictionary, wait_until_done=False)

Move the stage to an absolute position.

Parameters:

• move_dictionary (dict) – A dictionary of values required for movement. Includes ‘x_abs’, etc. for one or more axes. Expects values in micrometers, except for theta, which is in degrees.

• wait_until_done (bool) – Block until stage has moved to its new spot.

Returns:

success – Was the move successful?

Return type:

bool

move_axis_absolute(axis, abs_pos, wait_until_done=False)

Implement movement logic along a single axis.

Example calls:

Parameters:

• axis (str) – An axis. For example, ‘x’, ‘y’, ‘z’, ‘f’, ‘theta’.

• abs_pos (float) – Absolute position value

• wait_until_done (bool) – Block until stage has moved to its new spot.

Returns:

Was the move successful?

Return type:

bool

report_position()

Report the position of the stage.

Reports the position of the stage for all axes, and creates the hardware position dictionary.

stop()

Stop all stage movement abruptly.

verify_abs_position(move_dictionary, is_strict=False)

Ensure the requested moving positions are within axes bounds

Parameters:

• move_dictionary (dict) – A dictionary of values required for movement. Includes ‘x_abs’, ‘y_abs’, etc. for one or more axes. Expect values in micrometers, except for theta, which is in degrees.

• is_strict (bool, optional) – If True, return an empty dict if any axis is out of bounds.

Returns:

a verified moving dict {axis: abs_position}

Return type:

dict

axes

List of stage axes available.

Type:

list

axes_mapping

Dictionary of software axes and their corresponding hardware axes.

Type:

dict

device_connection

Device connection object.

Type:

Any

handle

MCL handle.

Type:

int

mcl_controller

MCL controller object.

Type:

mcl_controller

stage_feedback

Feedback alignment value for the stage. Default is None.

Type:

int

stage_limits

Whether the stage has limits enabled or not. Default is True.

Type:

bool