Procedure to Import Images from Probe into Scion Image/Scion Image

Procedure to Import Images from Probe into Scion Image/NIH Image

Images on the 8900 Superprobe are stored in a compressed proprietary TIFF format. In order to view them on other computers, the files need to be uncompressed an opened using Scion Image or NIH Image (an alternative is to do this under the OTHER menu directly on the probe).

1. Connect to the probe from a PC/MAC using some form of SSH-compatible FTP (e.g. http://www.ssh.com/). Identify the proper directory, and be sure that in your transfer program that you have the toggle for viewing hidden files on (the files are in directories entitled .map)

2. Download the files to your local computer (it is often easier to download the entire directory structure).

3. In the download directory, you will find files 0.cnd, 1.map 1.*.pm [where * is SL, CP, or ...). Using a decompression (ZIP) program, unzip the file 1.map.

(In this case the files 1.map and 2.map are the uncompressed versions of the maps).

4. Open Scion Image (PC) or NIH Image. Scion Image is available free from http://www.scioncorp.com/.

5. Determine the resolution (e.g., 1024x1024, o r500x500) of the map that was collected on the probe. This can be done wither by looking at the resolution printed directly on the output. Alternatively, open the file 0.cnd and look for the value for the variable X/y-axis Step Number [1~1024] (an example of a 0.cnd file is reproduced below).

0.cnd

2 Number of measured elements [1~20]

0 Number of processed elements [1~20]

1 Number of measurement sequences [1~20]

1 Dummy Data No.2

1 Dummy Data No.0

15.0 EOS Acc. Voltage [kV]

17 EOS CL [C]

250 EOS CL [F]

209 EOS OL [C]

751 EOS OF [F]

0 EOS Probe Diameter [um]

200 EOS Mag.

O EOS On[O]/Off[f] Probe Scan

SPT EOS Scan Mode

TV EOS Scan Speed

8.113e-09 8.108e-09 8.117e-09 Probe Current Avg, Before After [A]

0 EDS Energy Full Scale [kV] 10/20/40

0 EDS Spectrum Data Point [1024/2048]

L EDS Measuring Mode [L:Lib /R:Real Time]

0 EDS Measuring Time

0 EDS Aperture No. [0~5]

B Stage[S] or Beam[B] Scan

42.5476 Measurement Center Position X [mm]

59.1358 Measurement Center Position Y [mm]

11.0000 Measurement Center Position Z [mm]

-512.0000 Measurement Start Position X [mm]

511.0000 Measurement Start Position Y [mm]

11.0000 Measurement Start Position Z [mm]

1024 X-axis Step Number [1~1024]

1024 Y-axis Step Number [1~1024]

1.00 51.047 Beam Dots Width and Beam Calib Value

42.0000 Z-B Coordibnate [mm]

59.0000 Z-C Coordibnate [mm]

11.0000 Z-D Coordibnate [mm]

U Scan Direction U:Single/B:Double

2 Data Byte Length [2:16bit / 4:32bit]

300 Dwell Time [msec]

200 Scan Mag. [Onle Beam Scan Mode]

Pyrite Cube Surface (Starting)

Apr 28 14:12 2002

SL Element Name No.1-Seq.1 **********

I X-ray Name

0 X-ray Order

I Signal Name [W:WDS E:EDS I:IMS]

6 Channel Number[1-5:WDS 8-15:EDS 6,7:IMS]

SEI Crystal Name

0 Crystal Number

0 IMS Dummy Data

0.0000 Coefficient A count/msec/uA/wt%

0.0000 Coefficient B count/msec/uA

0.0000 Coefficient C

0.00 Scale M

0.00 Bias N

2040 Max Value

0 Min Value

703 Ave Value

1 Accumulation Number [Only Beam Scan]

CP Element Name No.2-Seq.1 **********

I X-ray Name

0 X-ray Order

I Signal Name [W:WDS E:EDS I:IMS]

7 Channel Number[1-5:WDS 8-15:EDS 6,7:IMS]

COMPO Crystal Name

0 Crystal Number

0 IMS Dummy Data

0.0000 Coefficient A count/msec/uA/wt%

0.0000 Coefficient B count/msec/uA

0.0000 Coefficient C

0.00 Scale M

0.00 Bias N

1360 Max Value

0 Min Value

966 Ave Value

1 Accumulation Number [Only Beam Scan]

5. Go to FILE then IMPORT and a new window opens.

6. Depress the buttons Custom, 16-bit Signed, and put a check next to Swap Bytes.

7. Press the SET button, and a new window will open

8. Enter the resolution of the image/map in the Width and Height rows, followed by the OK button.

9. Highlight the appropriate uncompressed map name, followed by the OPEN button and the image will read properly.