Options Section

Tile Overlap

Defines the overlap in percent of individual tiles of the tile regions.
The value is set to 10% by default.

Note that lower overlap might cause artifacts when stitching the image as there is less information for a robust correlation. No overlap will not allow the images to be stitched correctly.

Stage Travel Optimization

In this section you can adjust settings for stage traveling during an experiment or preview scan ( only with Tiles & Positions module). Note that in some cases the preview scan function will automatically select a travel mode for the stage that is more appropriate.

Travel in Tile Regions

-

Meander

Acquires tile regions following a meander pattern – alternately from both travel directions (left -> right; right -> left). This scan movement is faster.

-

Comb

Acquires tile regions following a comb pattern – always from one travel direction only (left -> right). This scan movement is more precise.

-

Spiral

Acquires tile regions following a spiral pattern – from the center of the region to the outer bounds in a clockwise motion. This mode works only for regions with rectangular or elliptical contours.

Tile Regions/Positions

Activated: Individual positions and tile regions are not acquired in the sequence in which they are defined in the Tile Regions list.

The stage movement will be automatically adapted to the location of the individual tile regions and positions. If you add or remove tile regions or positions, the sequence of acquisition therefore also changes.

-

Sort by X, then Y

The tile regions and positions are sorted by their absolute position (first x, then y).

-

Sort by Y, then X

The tile regions and positions are sorted by their absolute position (first y, then x).

Carrier Wells/Container

Activated: Applies the selected travel patterns (meander or comb) when acquiring tiles in sample carriers with wells/containers. When, for example meander is used, the stage travel between wells will be e.g. A1, A2 ....A4 --> B4, B3 .....B1 etc.

-

Meander

Acquires tile regions following a meander pattern – alternately from both travel directions (left -> right; right -> left). This scan movement is faster.

-

Comb

Acquires tile regions following a comb pattern – always from one travel direction only (left -> right). This scan movement is more precise.

Use Stage Speed from Stage Control

Activated: Uses the speed value which is set in the Stage tool in the Right Tool Area for tiles and positions in an experiment.

Deactivated: Displays the Used Speed parameter to define a stage speed value for exclusive use in the running tiles and positions experiment.

Use Stage Acceleration from Stage Control

Activated: Uses the acceleration value which is set in the Stage tool in the Right Tool Area for tiles and positions in an experiment.

Deactivated: Displays the Used Acceleration parameter to define a stage acceleration value for exclusive use in the running tiles and positions experiment.

Stage and Focus Backlash Correction

This function is only visible if the corresponding option is activated in Tools > Options > Acquisition > Tiles & Positions. By default, backlash correction will be used during stage movement.

Activated: Stage and focus positioning is done with a backlash correction which is more precise but slightly slower.

Move Focus to Load Position Between Regions/Positions

Activated: The focus drive is moved to the load position while moving to another tile region, position, or well.

Split Scenes into Separate Files

Activated: The scenes (e.g. tile regions and positions) are stored into separate physical files. They are still combined into one logical image file.

Image Pyramid During Acquisition

Activated: An image pyramid is generated during the acquisition. This optimizes the image for fast display. If this option is not activated, the acquired image will not be shown and updated in the document area while the acquisition is running.