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| META TOPICPARENT | name="CryoEM" |
Contents
Fei Helios Instructions
Sample prep
- Samples come in resin blocks
Trim block size
- These generally need to be trimmed to ~1cm height so they will fit in SEM
- Put in vise, hold with tweezers and use diamond blade to cut the top off of the sample
- when done, clean the dust with Kimwipe soaked in ethanol/isopropanol
- smaller blocks fit easier in microscope, and there is less plastic to charge up
Attach to stub
- Put a small piece of double sided carbon sticky tape on a stub
- Attach block to tape
- Paint sample with conductive silver paint
- try to paint as much as possible, being careful not to paint top of sample
- do this in fume hood
- When done, place sample in 60 degree over for 1h or more to remove solvent
Metal coating samples
- samples need to be pre-coated with metal prior to imaging, otherwise excessive charging prevents good imaging
- Since spring 2013, we have been using a gold-palladium source, and doing this in an Ar environment
- Using a pure platinum source seemed to cause a lot of trouble: lots of charging even with a thick coat
- standard protocol (Jan 2014, in place since spring 2013):
- Remove freshly baked sample from oven and put in coater
- start mechanical pump
- Open pump valve
- Pump down to ~100 mTorr (<2 minutes)
- turn on rotation so you don't forget
- Open Argon gas tank valve then turn on gas in control panel
- Vacuum will immediately degrade to ~800 mTorr
- Wait for vacuum to recover to 50-60 mTorr
- Wait a few minutes before adjusting gas valve on coater. Do NOT adjust valves on Ar tank
- When vacuum is ~50-60 mTorr, turn on sputter coater at 25% power
- coat for 5 minutes, monitor vacuum and adjust gas valve if necessary
- turn off sputtering
- Stop rotation
- Turn off gas valve
- Close Ar tank
- Close mechanical pump valve
- Turn off mechanical pump and system will vent
- Sample is now ready to go into microscope
- This gives a thick conductive coat: approximately 600nm is deposited evenly under these conditions
- You should be able to punch through this coat by increasing SEM voltage to ~15-25 keV.
- may get a finer coat by doing ~5 min at 10% (?)
Making a Fiducial Marker from a bitmap
- Open image in Image J
- Choose Colors --> split RGB
- 3 windows will pop up, one for red, green, blue
- Make red window all black
- make green and blue windows white where pattern is
- green is whether to mill (white=mill); blue is depth (white is 100% of set depth)
Helios general information |
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- factory ID: Brno02-QE
- support Feico95-001
- working distance: 4mm
- resolution: 0.8 nm (at 20KV)
- 1 um Si milling ~ 15 um EPON (in one sample)
Alignment notes - Brandon Van Leer's visit (Nov 2011)
Useful information
Useful shortcuts - F6 - view F9 - brightness and contrast
Aperature strip
| Standard Strip | 1.1 pA | 7.7 pA | 24 pA | 40 pA | 80 pA | 80 pA | 0.23 nA | 0.43 nA | 0.79 nA | 0.79 nA | 2.5 nA | 9.3 nA | 21 nA | 47 nA | 65 nA |
| 2013.06.24 | 1.0 pA | 7.6 pA | 25 pA | 42 pA | 87 pA | 82 pA | 0.23 nA | 0.53 nA | 1.03 nA | 0.81 nA | 2.7 nA | 9.9 nA | 22 nA | 48 nA | 75 nA |
| E-beam | 0.78 pA | 1.6 pA | 3.1 pA | 6.3 pA | 13 pA | 25 pA | 50 pA | 100 pA | 0.2 nA | 0.4 nA | 0.8 nA | 1.6 nA | 3.2 nA | 6.4 nA | 13 nA | 26 nA |
110 - Ion Beam: Aperture alignment at 30 000V
Slice and View only sees first aperature of duplicates = 1st and 2nd 0.79nA and 80pA switched
Volatage - defaults
| 500 V | 1.0 kV | 2.0kV | 5.0 kV | 8.0 kV | 16.0 kV | 30.0 kV |
Field of view
| 512x442 | 1024x884 | 2048x1768 | 4096x3536 |
Time
| 50 ns | 100 ns | 300ns | 1µs | 3µs | 10µs | 30µs | 100µs | 300µs | 500µs | 1ms |
Starting a project
Prep
- Vent
- Insert sample
- Pump down
- I generally wait until vacuum is in 10^-6 mbar range before opening beam valves
- Jan 2014: ultimate vacuum generally 1.8*10^-6 mbar, without cold trap
- with cold trap: 1.4*10^-6 mbar
- with cryo stage and anticontaminator cold: ~8*10^-7 mbar
Check IGP4
- Mouse over vacuum cartoon of machine and check all pumps running.
- If IGP4 does not have a value:
- Stop UI
- Log off windows
- Log on to support
- Start FEI system Control
- Right click bar and choose tstMdlVacuum
- Select manual mode
- Click IGP4 to start
- If not:
- ClVi?
- PlVi?
- IGP4
- Close ClVi? / PlVi?
- Manual mode
- Close
- Log off windows and log on to Supervisor
- FEI system Control > Start UI
- Right click > tiny view
Find an area
Goal: Find an area using the E-beam
Notes:
- "Wake up" will start up both beams
- "Sleep" will shut down both beams. Note: Ion beam start up will be equivalent to 2 days of useage.
- "Beam on" is similar to a gun valve.
- Upper left panel E-beam > Beam on - F6 to live view and F9 for Brightness/Contrast
- View block - 2kV, 100pA. Detector - ETD > Secondary electrons
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- Viewing : 15-25kV (finding cells) Lower voltage for normal viewing : 1-200pA (E-beam Live view 1-10us)
- Reduced area to help focus
- Link sample to working distance -> 4mm
- Link 2nd time with reduced area (2nd red halo)
- Find Eucentric height
- Double click on feature to move stage
- Navigation > Tilt > (user specified angle to tilt sample)
- Change Z height
- Lower right panel > Middle click and drag up
Slice and View Prep (after finding area)
E-beam platinum deposition
Goal : soft deposition to protect surface
- Cool cryo holder - Chamber Pressure: 2.19 e-6 mbar 6/13 (not necessary)
- Viewing : 15-25kV (finding cells) Lower voltage for normal viewing : 1-200pA (E-beam Live view 1-10us)
- After finding area of interest sample should be ~4mm working distance. Lower to 4.2mm - Navigation tab : Z height
- Lower voltage to 2.0 kV (will likely need to move to refind area of interest)
- In Patterning tab : In platinum dep (Click on green box) - Make sure Heat is Warm, if cold warm up
- Draw green box over area of deposition (Reduced Area tool in menu bar)
- Flow open for 5 min. Increase to ~1.6 nA and check position has not moved. (Toggle between Reduced Area and full view)
- Patterning: Gas Injection = Close flow, retract Pt dep, reduce current to ~200 pA
I-beam platinum deposition
- Warm up I-beam if not on ~10min
- Beam Control Tab : Tilt stage to 52 degress for I beam view (or CNTL+I) - (CNTL+E - zero)
- 7.7-24 pA I beam viewing, Beam control Beam On button, Integrate (1frame mode)
- Change Mag and recenter area
- Patterning - Draw rectangle, Basic = Application - Pt dep - Z size 1.00 um
- Set current. In Advanced tab 2 pA per um2 e.g. 561.4 um2 24 min at 0.79 nA (target 10 min, but try to keep below 2.5nA current)
- Area x 2-6pA/um2 is a rule of thumb, but time also a consideration
- Use ruler in full view to help gauge dimensions
- View area - Change view area 512x442, 1us - defocus to blurry *optional
- Use reduced area below deposition site (where trench milling will occur) to focus and fix stigmators
- Insert Pt dep needle and check area did not move
- Start patterning (Arrow in menu bar).
Add fiducial Pt dep with I-beam
- Patterning tab - Draw rectangle, select Pt dep - X,Y,Z - 5um,5um,0.5um e.g. 80pA 30.0kV - 5 min
- Place Pt dep box for fiducial marker middle, above main area of interest where previously Pt dep
- Milling of fiducial will be after trench
Dig trench *optional
Need to mill area to be able to view area - 2x long in y as you want to view down in z
- Reduced Area view, move some nonimportant area, refocus - 24 pA 30kV 1us dwell time
- Patterning : Regular cross section, draw rectangle - 5um in Z, X Y will be relative to volume desired (XYZ: 47,55,5 - 21nA - 42min)
- Patterning > Regular cross section > Si
- Make sure below area of Pt dep / area of interest, can mill excess later
- Reduced Area view to make sure no drift and is focused
- Reposition box as necessary
- Charge reducing beam is very helpful here to prevent drift and minimize redeposition
Charge reducing beam
- turn on charge reducing beam (in detector panel)
- beam will start off blanked
- cannot view with any detector other than ICE detector when beam is unblanked. Attempting to do so will blank beam
- change i-beam detector to ICE, leave as secondary ions
- increase current to desired level
- unblank beam
- take a quick image
- turn selected area on and place in part of sample to be dug
- live view selected area
- adjust beam parameters (focus, stig) and get good contrast
- when charge reduction beam settings are right, there should be no drift even during long views
- image also tends to have a herringbone pattern and look bad when settings are right
- If you need to adjust, change voltage first. Be sure to read the manual and talk to an expert before changing anything!
- when happy, start patterning
- remember to not use i-spy or any e-beam imaging, or beam will blank
- when done, blank the beam. Leave on until you are sure you are done, as sometimes it cannot be turned on again after turning off
- filament takes several minutes to cool after being turned off
- To monitor turn on iSPI, Time Interval 30s to check on progress (optional)
- Click on E beam tab and hit F6
- Lower current to 80pA and check area
- Extend trench if needed
Clean surface
- 0.79nA view in I beam, reposition area and use Reduced area to focus
- Patterning tab - Cleaning cross section, Application - Si, Z-4-5um deep
- Set rectangle large enough to be half out/in current face e.g. 2.5 nA - 34x1x4um - 8.5min
- Charge reducing beam will let you clean a large area in a short time with a high current
Finish fiducial with I-beam
- Cleaning cross-section - x,y,z : 0.67, 5.74, 0.75 µm = ~4 min/rectangle ~8min
- 1 um deep and 750 nm wide
- 2 rectangles at and angle to form an "X"
Expose milling face and remove any walls that may have formed
- Use of charge reducing beam will minimize redeposition and wall formation!
- Z - 2µm or 4µm for wall, 0.79nA X,Y,Z:34.5,1.63,2 µm = 16 min
- Can use 0.23 nA | 0.43 nA | 0.79 nA for fine milling
- 0.20nA 4µm to expose dark sample, free of resin and redeposited material
- Save position as I-beam milling view
View face
- Image mode 2nd
- E-beam -> ETD mode 1 - fieldfree is ageneral mode
- TLD backscatter mode2 - Immersion for imaging * Detector Settings = Secondary Electrons - > Backscatter
- Suction Tube Voltage -245V to reduce secondary electron signal, backscatter have higher energy
- Mirror - Reduced Area and adjust to brightest signal
- 2kV, 2000-400nA
- Direct Adjustments to beam
- Direct Adjustments > Beam - make sure image will not move when focusing
- Crossover > center brighter/best part of the beam
- Lens modulator > up /down to minimize movement - for 2-3kV and above use lens modulator for 1-2 kV and below use HV modulator
- Correct focus / astigmatism
- Stigmator centering > X + Y, may manually wobbe stigmator for fine adjustment
- Find settings that gives rise to best E-beam image
- To help with view - Stage > Tilet correction > Dynamic Focus > Automatic (cross section)
- Save position as E-beam face view
Add final fiducial marker and setting up positions
- E-beam view > find area - 2048x1768, 3us, 2kV 0.20pA 12,000x * 300 ns
- Go to mill position, mode 1 Fieldfree
- Tilt 0 degrees
- Coordinate > relative > deltaR 180 - Make sure XCompucentric Rotation
- Tilt -9 degrees to draw O
- I beam -> ETD Patterning > Circle, Si 4um outer diameter 2 um inner diameter z 0.5 um 30kV, 80pA, 2500x ~6min
- Mill position low end - 80pA 0.23 nA 0.43nA 0.79na 2.5 nA - high end - select currect to give 0.5-2min/slice
- Make sure position higher than desired, block drifts up during setup
Start slice and view program
- New project
- 210 : ION beam alignment
- Start + Next
- Stig, Stig Sin/Cos, Quad - minimize settings
- End with Sig to focus+stigmators -> will save these settings for slice and view
- Finish
- Ibeam - Yellow box
- 2048x1768 1-3us F6+F9 in reduced area slice thickness 20nm depth 4um (will mill ~8x deeper depending on resin)
- Make sure mill width is larger than view and not milling O fiducial >20um
- Ibeam - Red box
- Drift correction > Use pre-existing -> Red box > Find
- Sample prep > uncheck all - Do it yourself outside program
- E-beam setup
- E-beam view 3us 2048x1768, stage Processing > LUT > Inverse Integrate 4 frames F3 + brightness/contrast
- Image 1 2048x1768, 3us, immersion -> tile if want larger area
- Enable Alignment
- Enable Autofocus + ...
- Autofocus > Course scan settings - reduced are 75% HFW 1024x884 3us 6-10 steps 18-30um - target 3um
- Fine scan settings 75% HFW 2048x1768 4-6 steps 4 um - target 1 um
- No Enable Active no Enable Y shift correction
- Next > est time and Run
- CNTL + F5 will show Bif view of live window
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- settings: E-beam 2kV TLD 200 pA 21.31 um 2048x1768 3us dwell time 4.03mm working distance
-- BillRice - 29 Aug 2011
* helkios vacuum page:
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