MicroControl:Developer

Developer documentation

Interface and API are each defined currently for multiple functionalities. This chapter provides discussion with users and developers in mind for scope and implementation of each feature.

Acquisition settings are grouped into different use cases.

• What to scan
• How to scan
• Where to scan
• When to scan

Each part of documentation includes the description of the format of data model which is maintained aat the remote-client. XML tags and the description of the information they contain.

What to scan

Stage configuration

Purpose of this feature is to provide means for the user to interactively define 2d scan geometry.

User is expected to load the specimen / slide in the microscope and then either using remote client or directly the eye piece get the area(s) of interest in the view and click certain buttons so that client will remember those settings.

A Clickable window must be presented to show the geometry already defined. see what focus points are defined. A low resolution tiled scan is also useful for the researcher to setup points of interest.

The stage data model maintains

• Scan extents. Either defined with center a and the width and height of the image around the center, or by selecting the corners.
• Focus
• Confocal stack settings

Additionally

if using Sectioning

• x-y list of points of interest. At each selected location, it is possible to define
  1. Focus
  2. Section settings

Without Sectioning

• x-y list of points of interest. At each selected location, it is possible to define
  1. Focus
  2. Stack settings

In future the region of interest will include geometric features.

How to scan

Get and set various scan parameters

Track configuration

1. Get all tracks
2. Set one track at a time
3. Get a list of saved configurations
4. Select a saved configuration
5. Map the track detection channels to the channels of output image