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JEOL 1230 Instructions

Specimen Insertion

  • Flip toggle switch to "pump" (G)
  • Line up pin on holder with goniometer(G)
  • Insert specimen holder to first sample stop (marked line indicates correct depth)
    • You will hear a click
    • Orange light will go on
  • Monitor Vacuum condition:
    • Go to "FR Panel" "monitor" "vacuum conditions"
    • When SPC value is <50 insert holder by turning the holder slowly clockwise 1/8 turn to the 1st stop
  • Slowly allow the vacuum to pull the holder in
  • Grasp holder firmly then turn the holder slowly clockwise 1/4 turn to 2nd stop
  • Slowly allow the vacuum to pull the holder in
  • Wait for green light to come on before turning on beam
    sampleinsertion.jpg

Aquiring a Beam

  • Open "HT" Menu (top left screen)
  • Select beam "on" *Filament current should be around 70%
  • Be patient, it takes about one minute for the beam to appear

Condenser Aperture Alignment

  • At 5000x
  • Use "Brightness" knob to condense beam on function box(F)
  • press "Beam Shift" (F)
  • Right click mouse button and drag the beam to central position
  • Spread Beam (over clockwise) with "Brightness" knob (F)
  • If it does not spread evenly, center with the condenser aperture x-y controls
  • condense beam with "Brightness" (F)
  • If beam is not centered, repeat
  • The beam should expand/ contract concentrically around the beam centre as the brightness is adjusted

Objective Aperture Alignment

  • Select Diffraction mode by pressing "Diffraction" (F)
  • Set the camera length to 150cm
  • Condense beam with "Brightness" (F)
  • Focus beam with "Diff focus" (F)
  • Insert objective aperture
  • Center aperture with x-y controls

Z Height Adjustment

  • On the menu, go to Monitor, then enter Lens condition sub-menu.
  • By adjusting the focus, set the objective lens current to 4.7.
  • Enter Z cont mode, then click AUTO to set specimen eucentric height.

Diffraction

  • Select Diffraction button (F)
  • Use Align Adjust for Diffraction shift
  • PL Align

Low Dose

  • "Photo" menu
  • "MDS"

Specimen Removal

  • Switch the beam is off
  • Switch the toggle to "Air" (G)
  • Monitor Vacuum condition:
    • Go to "FR Panel" "monitor" "vacuum conditions"
  • Pull out specimen holder to 1st stop
  • Rotate anti-clockwise 1/4 turn
  • Pull out the specimen holder to the 2nd stop
  • Rotate anti-clockwise 1/8 turn
  • Wait for the airlock "SPC" to vent
  • Gently remove the specimen rod (G)
    • If the use of force is necessary the SPC is not vented

1230 ShutDown Checklist

FilamentExchange

SerialEM Operation

Startup

  1. Launch Digital Micrograph
  2. Launch Temserver20xx.exe
  3. Launch your copy of SerialEM

Montaging

  • To do a low-mag montage, go to 100X or 80X, fully expand beam, take a test Record image to be sure images are OK
  • Go to Navigator menu, choose to Open
  • Go to Navigator menu, choose Setup Full Montage
  • Choose to save all header info, save file as FILENAME.st
  • Increase overlap percent to 20 (3X3 images for full montage at 100X)
  • Click Start on montage menu
  • Montage will begin. If it appears to get stuck, quickly toggle mags
  • When done, click YES to make a new map
  • Try checking and unchecking Treat as very sloppy montage -- sometimes it is better, sometimes worse
  • Go to File menu, click close to close the file for writing (do not want to add to this file)

Alignment of Montages

  • First map is registration 1
  • Make a new montage, either at a different mag or at a different grid orientation
  • Follow instructions above, but before you click start, CHANGE CURRENT REGISTRATION TO 2
  • Make the new map -- you now have old map in registration 1 and new in registration 2
  • Need at least 3 points to align the maps (determine a shift/rotation matrix)
  • Choose three obvious points, click Add Points, and add points. When done, click stop
  • Mark each point as a Registration point, numbered 1, 2 and 3
  • Re-open first map by double clicking
  • CHANGE CURRENT REGISTRATION BACK TO 1
  • Click Add Points, and add the three corresponding points on the old map
  • Mark these as Registration Points , again 1,2,3, IN THE SAME ORDER AS ON MAP 2
  • Change current registration back to 2, and re-load new map
  • Under Navigator menu, choose Transform items
  • Map 1 is now transformed onto map 2

Acquiring many areas using polygon montage

  • Change to desired new magnification (say 4000X )
  • Take Record image to test beam and image settings
  • In low mag map, choose Add Polygon and outline a grid square
  • With Polygon highlighted, go to Navigator menu and choose Setup Polygon Montage
  • Increase overlap to 15%-20%, and also choose to Move Stage
  • Change current registration as described above, and click start
  • When polygon montage is done, create a new map and align it to old map as described above
  • DO NOT CLOSE THE NEW FILE
  • In low mag map, decide which squares are to be acquired, and add a point in the middle of each
  • Mark each new point as ACQUIRE
  • Under Navigator menu, choose Acquire Areas
  • A polygon montage, centered at each point, will now be acquired.

Running a script at many points

  • Under Macro mwnu, edit your script as desired
  • In a map, choose to add points, and add them to desired areas
  • Mark each point as ACQUIRE
  • Under Navigator menu, choose Run Macro at areas
* Set ALLOWTOPICVIEW =

-- KdDerr - 13 Jun 2006