Commit 4a68abc3 authored by Timothy Jessen Fuqua's avatar Timothy Jessen Fuqua

Update manual.md

parent 15619ef0
......@@ -66,18 +66,28 @@ The purpose of this software is to automatically locate and carry-out high-throu
1) Follow the directions from the Quickstart section of this manual or run the protocol with your own settings.
2) After the second job, TR2 is run, a dialog box will appear. DO NOT CLICK on this box until you have selected the desired embryos.
2) After the second job, TR2 is run, a dialog box will appear. DO NOT CLICK on this box until you have selected the desired embryos.
![alt text](img/img13.png "Title text")
An image will open in a Fiji / ImageJ window. Select individual embryos with the left-click on the mouse, followed by pressing “t” on your keyboard to add the positions to the ROI Manager.
3) When all the embryos are selected, press the “OK” button on in the Select Embryo Positions dialog box.
3) When all the embryos are selected, press the “OK” button on in the Select Embryo Positions dialog box.
4) Repeat these steps 1-3 for every well. After embryos positions are manually selected for every well, the microscope will begin the automated feedback imaging.
4) Repeat these steps 1-3 for every well. After embryos positions are manually selected for every well, the microscope will begin the automated feedback imaging.
# Changing / Modifying Job Settings
1) To view a job, select the “JobSetter” panel in the MyPiC window.
2) Select the job of interest by left-clicking on the name.
3) Select "Macro -> Zen" to move the job and its current settings to Zen Black.
4) To modify the job, make any desired changes to the settings in Zen Black.
5) Select "Zen -> Macro" to modify the job settings.
# Viewing data using the Automation Viewer
# FAQ
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