User Guide

18
24
LOLIGO
®
SYSTEMS1.1
Create custom protocols for regulating oxygen and temperature levels in a live experiment
(from step 6). The rst protocol row will be highlighted in
blue which means its settings can
be changed in the Settings panel (18). Add a new protocol row via the Add row button. This will
create a row beneath with similar settings as row 1. Click on and highlight row 2 to change its
settings, if necessary. Add (or remove) additional rows until you are happy with the result.
Click Save protocol to save the current protocol. Then load the saved protocol le during a live
experiment.
Alternatively, load a protocol via the Load protocol button to change its settings.
18
Main menu > Video le tracking: Start by loading the video you want to track. Now perform
a pixel-calibration as described in step 8. Change the settings in the Settings panel, if necessary.
Click Accept settings to continue.
19
PROTOCOL DESIGNER
VIDEO FILE TRACKING
Mask tab: Use masking tools in settings panel to mask out any unwanted areas by choosing a
tool and drag on video preview to create shapes. Adjust shapes using anchor points. Objects in
blue areas will not be tracked. The mask can be saved via Save current mask to le. Click Accept
mask to apply the current mask.
21
Video tab: Shows the loaded video. Any mask, zones or lter can be turned on/o at the
bottom of the screen.
20
Zone tab: Use masking tools in settings panel to create zones by choosing a zone and tool, and
then drag on video preview to create shapes. Click on the Zone 1 or 2 button to activate the
zone, and adjust the shape using anchor points. The zones can be saved for later use via Save
current zones to le. Click Accept zones to apply the current zones.
22
Tracking settings tab: Start by inputting Start time of recording, Custom value settings and
tracking settings, if necessary (24).
Custom values: Two custom values (or parameters) can be specied for each zone, e.g., the
concentration of added compounds in the zones at the time of recording. Input the values and
unit/comment, and click Update custom settings to apply. The custom settings can be applied
to the entire timeline or to an interval via hold SHIFT + drag on timeline.
Click the Track button to track the entire timeline or a selected interval.
24
Filter tab: Use lter tools in settings panel to create a lter that will threshold the image into
object(s) (red pixels), that you want to track, and irrelevant objects or background. Select lter
mode A (threshold by color) or B (threshold by background subtraction):
A. Threshold objects based on color contrast:
1. Place color-picker on object and click to threshold object.
2. Place color-picker on background and hold SHIFT + click to indicate background.
B. Threshold objects by subtracting static background pixels:
1.
IMPORTANT: If the object stands still for a long period of time, the object may be indentied
as the background. The object will then show up on the Background image, and the tracking of
the object will fail.
Fine tune the lter selection by adjusting lter strength and object size sliders in the Settings
panel. Click Accept lter to save the lter.
23
Static background pixels will be found automatically, and the Background image
will indicate what the current background is. Adjust Background brightness, if
necessary.
QUICK GUIDE | ShuttleSoft 3