Example usages

This page shows examples on how to use em-scalebartools.

Batch conversion of FEI/TFS SEM/FIB images

• For the following, you must first close any other images using File -> Close all before proceeding. Alternatively, open another Fiji instance. (This may be fixed in a future version...)
• Open a single SEM/FIB image from your folder, then run FEI Crop Scale Bar and change the scale bar appearance using the QuickScaleBar options menu until you are satisfied.
• Open Process -> Batch -> Macro..., set up the in-/output folder, set up the output format, and add the macro code runMacro('FEI_Crop_Scalebar.ijm');.
• Run a Test, and - if all worked out - Process the whole folder.

Batch process: Scale images and crop info bar.

This workflow is a pre-processing step (e.g. for segmentation tasks), whereby the (i) SEM images are scaled and (ii) the info bar at the bottom is cropped.
In principle, you follow the batch processing steps above witht the following options:

• For FEI Crop Scale Bar: Untick Add scale bar, tick Crop data bar. (Optional processing steps can be entered as a string under Run custom macro commands)
• In the Process -> Batch -> Macro... menu, make sure to set the output format to tiff to keep the original bit depth.