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1. Select the Mapping workspace. Use high count rate for good count statistics.
2. Click on the Scan configurator to set Image resolution, Mapping dwell time and Line average. Image resolution defines the pixel resolution.
3. Click on the Capture button to open the Capture parameters menu. Adjust Capture parameters for the image: set single or continuous.
4. Capture an image (example in Figure 4).
5. Click on the Acquire button and set parameters for
1. Map time: Mapping is automatically terminated if Measurement time [s] or Cycles is set. When Manual is selected acquisition has to be stopped manually by clicking the Acquire button. One click terminates the scan after finishing the last frame, the button will change to Stop. Another click on the Stop button terminates the measurement immediately.
2. Map area: Choose as Map area: Full, Fixed or Variable and the Map width or Map heights in [μm]. Choose the number of acquisition Points or the Point distance in [μm]. Points are equal to pixels in the map. The number of points alters the distance between points and the electron beam spot size shown in the display on the left side. The calculation of the spot size depends on the used high voltage.
3. After measurement: Set microscope to turn off the HV after measurement, which should be done when the user is running a long map and will not be able to monitor the machine.Select Save data to save the data automatically after acquisition. In the pop up dialog the file name and the data storage location can be chosen.
6. Acquire a map. NOTE: wait time 30 minutes for 10 kcps or less, 5-20 min for 20 kcps or higher.
7. Use the workspace icon to
1. Save map data: Use file format: ***.bcf: to save HyperMaps (datacube, hyperspectral data set). Spectra for each pixel are saved. Further processing is possible only, when data is saved as a .bcf file. ***.rtm: to save element distribution images without point spectra. ***.raw: to save hyperspectral datacube for further processing with third party softwares.
2. Save selected map data: This is useful if only a part of the map area needs to be saved. Mark the area to be saved by drawing a rectangle in the map chart with the rectangle tool. Only the data of the area within the rectangle will be saved.
3. Add data to report.
4. Clear database: HyperMap database will be deleted. Element distribution images without point spectra remain as well as the selected elements. No Elements can be added/selected anymore
8. Right mouse click into the Map tab to
1. Save map image: Use image file formats (.bmp, .png, .jpg, .tif) to save the composite element image.
2. Add item to report: Composite element image will be added to the report.
9. Right mouse click into the thumbnail bar to
1. Save images: Individual element images of selected thumbnails will be saved. To select them mark the individual element images with left mouse click + SHIFT or CRTL key.
2. Add images to report: Individual element images will be added to report.
10. Process map data as desired.

Image RemovedImage Added

Figure 4: Example of mapping.

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• Any charging present on the surface of the sample will quickly degrade the quality of EDS spectra. In order to avoid charging: 
  • Use the lowest possible accelerating voltage that is appropriate for the material and elements of interest
  • Use an even smaller beam current
  • Ensure good electrical grounding using carbon tape,
  • Perhaps remove the sample to apply a thicker C coat to improve electron transport
• One proxy for quality of spectrum is to right click on the spectra and then select Logarithmic graph display, to make visible the background curve of the spectra. The background should taper smoothly to the highest values at the accelerating voltage used, e.g. if the microscope is being operated at 10 kV, the spectra should have smooth values up to 10 kV.
• Check the non-normalized mass % totals, which ideally should be around 100% for non-hydrous minerals.
• In order to interpret mass percent oxides, it is helpful to have an idea of the anticipated mineralogy of the sample, then compare the compositions to the ideal stochiometric mineral compositions from an online mineral database such as Webminerals of Mindat.
• Technicians can share access to a number of technical books on electron microanalysis if desired.

III. Uploading Data to LIMS

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