rahix/openflexure-microscope-server
1
0
Fork 0
Code Issues Pull requests Projects Releases Packages Wiki Activity Actions

Apply suggestions from code review of branch calibration-wizard-refactor

Browse source 
Co-authored-by: Joe Knapper <joe.knapper@glasgow.ac.uk> and Julian
Stirling <julian@julianstirling.co.uk>
This commit is contained in:
Julian Stirling 2025-10-27 11:32:30 +00:00
parent 1a0338ae90
commit 5282f03271
4 changed files with 12 additions and 8 deletions
Download patch file Download diff file Expand all files Collapse all files

12
simulation_guide.md
View file

@ -49,19 +49,19 @@ To run a simulated scan, you must first complete the calibration wizard.
---
### Autocalibration
### Auto-calibration
* Your simulated microscope should prompt you to complete the auto-calibration wizard upon your first use of the simulated server.
* You can press the **Escape** key at any point to exit the wizard but this will leave your smulated microscope in an uncalibrated state.
* If your microscope is not calibrated the wizard will launch each time you load the UI prompting you to complete remaining calibrations.
* You can press the **Escape** key at any point to exit the wizard, but this will leave your simulated microscope in an uncalibrated state.
* If your microscope is not calibrated, the wizard will launch each time you load the UI, prompting you to complete remaining calibrations.
* You can always launch the full calibration wizard by going to: **Settings → Launch Calibration Wizard**.
The calibration steps are:
1. The Camera Calibration will set the background image needed for background detect.
* You can rerun this calibration by going to: **Settings → Camera → Full Auto-Calibrate**.
2. The Camera-Stage Mapping calibration is used to find the relationship between stage and image coordinated.
* If the stage moves in the wrong direction when double clicking on the camera feed in the **View** or **Navigate** tabs you may need to re-run Camera-Stage Mapping.
2. The Camera-Stage Mapping calibration is used to find the relationship between stage and image coordinates.
* If the stage moves in the wrong direction when double clicking on the camera feed in the **View** or **Navigate** tabs, you may need to re-run Camera-Stage Mapping.
* To re-run Camera-Stage Mapping, go to: **Settings → Camera to Stage Mapping → Auto-Calibrate Using Camera**.
@ -72,7 +72,7 @@ The calibration steps are:
* You can **load a sample** to simulate imaging conditions, using the **Load Sample** options in the **Settings tab**.
* To remove a sample and reset the view, use the **Remove Sample** option in the **Settings tab**.
* You can load and remove simulated samples under: **Settings → Camera → Load/Remove Sample**.
* The Full Auto-Calibratie option in camera settings can be used to **Remove the sameple → Run background detection → Re-load the sample**.
* The Full Auto-Calibrate option in camera settings can be used to **Remove the sample → Run background detection → Re-load the sample**.
* You can adjust the sample coverage needed for the image not to be detected as background in the **Background Detect tab** under: **Configure → Sample Coverage**. The default value is 25%.
---