ThermoFisher Scientific Continuµm User manual

Procedure: Service
Title: Installing the Continuµm IR Microscope
Unpacking and Interfacing to an iS10/iS50
Revision: 01
Procedure # Install-001-1
ECCN: EAR99
This document contains confidential or proprietary information of Thermo Fisher Scientific. Neither this
document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 1 of 30
Continuµm
Part number: 912A0572
Part description: Continuµm IR Microscope
Functional description: The Continuµm is an infrared micro-sampling
system that provides the highest available IR spatial resolution and viewing
quality.
Problems associated with this assembly:
Tools required: Refer to pages 4 and 5.
Estimated time required: Approximately 5-8 hours total depending on
configuration.
Notes: Refer to notes beginning on page 6 of this document for important
information.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 2 of 30
Rev Notes
00 Release.
01 Modified step 9.13 to include installing the purge collar and retainer ring to
the purge extension.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 3 of 30
Important: Prior to performing any replacement procedure, you must read the
Microscope Safety Guide. If you do not have the Safety Guide, it is available for
download from the PSE website. If you do not have access to the PSE website,
email international support to request access at
[email protected]
Safety Risks when performing this procedure:
None

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 4 of 30
Tools required for applicable interface:
iS10:
Long handle 5/32” balldriver
Long handle 3/16” balldriver
3/16” L-wrench
4 in 1 tool
iS10 Service tool kit
Gage block
Needle nose pliers
Note The feet of both the iS10 and Continuµm are adjustable and must be
leveled when the Continuµm is mated to an iS10. Order the iS10 service tool kit
to obtain the gage block.
Gage block
iS50:
# 2 Phillips screwdriver
3/16” Hex key or balldriver
3/16” Ball driver or L-wrench
5/32” Balldriver
Large flat blade screwdriver
Small flat blade screwdriver
3/32 inch hex wrench for ATR
714-096200 Cover Latch Key
Plier
Needle-nose plier

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 5 of 30
Tools required for microscope installation
½” Crescent or socket wrench
Microscope gage block (iS10)
Medium short Phillips screwdriver
Medium Phillips screwdriver
Small Phillips screwdriver
Hex wrench set (Metric and English)
Utility knife
Small flat blade screwdriver
Flat blade jewelers screwdriver
Slide/S78 1mm/.01mm reflective light micrometer
Pinhole slide
AptCal 2010 – Available on the PSE website
2-1/16” balldrivers or hex keys
2-5/64” balldrivers
5/64” L-wrench (hex key)
3/32” Long handled balldriver
3/32” Medium length balldriver
3/16” L-wrench (hex key)
5/32” Long handled balldriver
9/64” Long handled balldriver
3/16” Long handled balldriver
Imperial set of hex keys
2 -1.5mm balldrivers or hex keys
3mm Balldriver
Needle-nose pliers
Permanent marker
Glass microscope slide
Lighter or matches
LN2 approved gloves
Face shield

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
This document contains confidential or proprietary information of Thermo Fisher Scientific. Neither this
document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 6 of 30
Notes:
1. This procedure describes the installation of the current configuration of the
Continuµm Microscope.
2. This procedure assumes that the Continuµm microscope is being installed with a
new, current model spectrometer. Performance tests should be performed and
passing specification on the spectrometer prior to performing Continuµm
performance tests.
3. This procedure assumes that the computer system meets the minimum requirements
for the configuration.
4. This procedure assumes that either a passport or external flipper mirror is installed
on the spectrometer to allow redirection of the main beam to the Continuµm.
5. The Continuµm installation procedure is broken into sections (i.e. Install-001-1) to
make downloading the file easier and faster and to allow the service rep to download
only the sections they need as reference.
6. The Continuµm install procedure assumes the person using these procedures has
attended formal Continuµm training. This is due to the many alignment and
calibration procedures that cannot be thoroughly explained and understood in
document format.
7. All configurations of the iS50 and Continuµm microscope referred to in this
procedure are assumed to be operating under OMNIC 9.0 or greater. OMNIC 9.0 is
the first version of OMNIC software to support the iS50 Spectrometer.
8. The cable restraints along the side of the top-panel of the iS50 Continuµm right-side
interface are to secure the Prior fast mapping stage cable when the microscope is
mounted on the right-side of the iS50. It is not necessary to use the cable restraints
for a microscope mounted on the left-side of the iS50 as the stage cable routes
around the left side of the Continuµm. Refer to the following page.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 7 of 30
9. Continuµm interface board configuration for iS10.
The Interface Board configures proper hardware-to-software communications.
For iS10 mounted microscopes set the switches to:
10. Continuµm interface board configuration for iS50.
Dip switch settings for right or left side mounted microscopes.
The Interface Board configures proper hardware-to-software communications.
For iS50 left-side mounted microscopes set the switches to:
For iS50 right-side mounted microscopes set the switches to:
Switch # 1 2 3 4 5 6 7 8 9 10
Setting On On Off Off On Off On Off Off Off
Switch # 1 2 3 4 5 6 7 8 9 10
Setting On Off Off Off Off Off Off Off On Off
Switch # 1 2 3 4 5 6 7 8 9 10
Setting On On Off Off On Off Off Off On Off
Route the Prior fast mapping stage
cable through the cable restraints when
the microscope is mounted on the right-
side of the iS50.
The restraints are not used for a
microscope mounted on the left-side.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 8 of 30
11. Detector preamp board configurations for the Continuum and iS50/iS10.
Jumper settings for left-side mounted Continuµm microscope:
For Detector 1 (front detector): No jumpers at N/C, A0, A1, or A2
For Detector 2 (back detector): Jumper at A0
Jumper settings for right-side mounted Continuµm microscope:
For Detector 1 (front detector): Jumper at A1
For Detector 2 (back detector): Jumpers at A0 and A1
Detector preamp trim pot functions:
R1: Adjusts linearity
R2: Adjusts MCT Gain
R4: Adjusts threshold
R6: Not used
R1 R2 R4 R6

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
This document contains confidential or proprietary information of Thermo Fisher Scientific. Neither this
document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 9 of 30
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Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 10 of 30
Unpacking and interfacing to iS10/iS50/X700
1. Unpack the Continuµm microscope. Cut straps and open the box from the top by
lifting the cover up and off.
2. Verify all components are present per the packing list. Check all parts against
the packing list. Verify that all parts on the list are accounted for and complete part “A”
of the Continuµm Installation Checklist.
3. Lift the top tray and tray support to expose the microscope.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
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4. Allow the microscope to reach room temperature and then remove the sleeve
and plastic bag to gain easy access to the microscope.
5. Using a ½” crescent or socket wrench, remove the bolts that secure the
microscope to the wooden pallet. The bolts are located underneath the front and
back of the upper tier of the pallet.
6. Prepare the work surface for the instrument. A sturdy bench top location should
be selected to support the heavy weight of the microscope configuration. There
should be no bowing or flexing in the tabletop.
Important The microscope is heavy. To avoid injury, multiple people are needed to
lift the microscope at the base and place it on the side of the spectrometer where the
microscope interface will be attached. Use proper lifting techniques.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
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7. Lift the microscope off the pallet and gently set it on the work surface. Lower
the back end of the microscope onto the work surface first while the front feet of the
microscope are just resting near the front edge. Then remove your hands from the
front end of the base and slide the microscope back toward the center of the work
surface.
8. Prepare to attach the microscope to the iS10. If you are attaching the microscope
to an iS50, skip to step 9 otherwise continue with step 8.1.
8.1. Unpack the iS10 interface bracket and inspect the bracket for damage.
Lift here
Lift here
Lift here
Lift at corners

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 13 of 30
8.2. Remove the reflection illuminator. Using a medium Phillips screwdriver,
loosen the two Phillips head captive screws and then firmly pull-out on the
illuminator assembly to detach the illuminator from the microscope. Set the
reflection illuminator aside.
8.3. Remove the left-side cover. Completely loosen the six Phillips head captive
screws and then remove the left-side cover.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 14 of 30
8.4. Verify the DIP switch settings on the Continuµm interface board are set
properly. The DIP switches of the Continuµm microscope need to be changed
to allow proper motor control of the microscope.
1, 2, 5, 7 = on; 3, 4, 6, 8, 9, 10 = off
8.5. Verify the height of the microscope with the gage block. Begin by inserting
the gage block locator pin into one of the four holes around the perimeter of the
microscope’s base-plate as depicted below. When inserted, the base of the
gage block should be flush with the tabletop and the gage block should be able
to be slid back/forth so the locator pin on the gage block easily engages and
disengages with the hole in the microscope base-plate. Repeat for the remaining
3 holes. If the microscope is leveled at all 4 corners, skip to step 8.11 otherwise
continue with step 8.6.
Location of holes on left-side Location of holes on right-side
Gage block locator
pin inserted in the
left-side, rear hole of
the base plate and
gage block base is
flush with tabletop.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
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8.6. Remove the detector fill cap(s) from the top of the right-side cover.
Remove the tape from the “removable” fill cap(s) and then remove the cap(s).
Dispose of the tape and set the fill cap(s) aside.
Note If the customer only ordered only one detector the second detector port will
have a fixed cap installed. You do not have to remove this cap.
8.7. Remove the right-side cover. Loosen the six Phillips head captive screws. Tip
the cover back slightly to clear the detector platform, lift the cover up, and then
pull out to remove the right-side cover. Set the cover aside.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 16 of 30
8.8. Prepare to remove the lower cover.
Connect the power cord to the I/O panel of the microscope and turn the
microscope ON.
After the system is done initializing, use the z stage control knob on the
lower right-side of the microscope to move the z stage to its upper limit if
necessary.
Turn the power off to the microscope and remove the power cord from the
I/O panel.
Remove the tape from the condenser knob and dispose of the tape.
Turn the condenser focus knob clock-wise to raise the condenser rack to its
upper limit.
Remove the condenser focus knob from the microscope by firmly pulling up
on the knob. Set the knob aside.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
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Remove the condenser purge ring from the lower cover by sliding it up and
out from the microscope. Set the purge ring aside.
8.9. Remove the lower cover. Using a medium Phillips screwdriver, remove the 5
screws from the base of the lower cover and set the screws aside. Lift the lower
cover up high enough to clear the left-side of the condenser rack then push-
down on the sides with your thumbs to bow the cover slightly. This provides the
clearance needed for the lower cover “well” on the right-side to clear the casting.
Remove the lower cover from the microscope and set the cover aside.
8.10. Level the microscope. Insert the locator pin on the gage block tool into one of
the four holes around the perimeter of the microscope’s base-plate. Use a 5/32”
balldriver to adjust the corresponding foot of the microscope until the base of
the gage block is flush with the tabletop and the locator pin easily
engages/disengages with the hole in the microscope casting. Repeat this
alignment at the remaining 3 holes in the microscope. Repeat at all four holes
until the microscope is properly leveled.
Cover “well” must clear casting to
remove.
Use 5/32” balldriver to adjust foot Gage block locator
pin inserted in the
left-side, front hole of
the base plate and
gage block base is
flush with tabletop
after adjusting the
foot.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
4/13/2015 Page 18 of 30
8.11. Remove the shipping tape and desiccant from the iS10 as depicted below.
Dispose of the tape and desiccant.
8.12. Remove the right-side window cap. Take caution not to touch the KBR
window.
8.13. Remove the iS10 transmission accessory and filler tray. Pull the accessory
latch down to release the accessory and then lift-up on the accessory to
remove it from the sample compartment. Lift-up and pull-out on the accessory
filler tray to remove it from the sample compartment. Set the accessory and
filler tray aside.

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
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8.14. Remove the cover from the iS10. Using a medium Phillips screwdriver,
loosen the four captive screws from the cover of the iS10 as shown below and
then lift the cover straight up to remove it from the spectrometer.
8.15. Remove the red shipping restraint from the motorized iZ10 export mirror.
Using a 5/32” balldriver, remove the mounting screw to release the red
shipping restraint. The screw and restraint should be saved/stored by the
customer.
8.16. Remove the purge plugs. Using needle-nose pliers, remove the 4 black plugs
in the screw-hole locations depicted below. The purge plugs should be
saved/stored by the customer.
1
3
2
4
1

Installing the Continuµm IR Microscope - Unpacking and Interfacing to an iS10/iS50
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document nor the information therein is to be reproduced, distributed, used or disclosed, either in whole or
in part, except as specifically authorized by Thermo Fisher Scientific.
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8.17. Attach the interface bracket to the iS10. Align the channel in the interface
bracket with the locator pin under the right-side of the iS10 casting. Slide the
interface bracket under the iS10 base-plate until it stops. Secure the bracket
by inserting the 4 screws provided through holes in the top of the iS10 and then
tighten using a 3/16” balldriver.
Note The bracket has nylon screws threaded into the bottom of the plate to
provide a slippery surface to slide the bracket on the tabletop. The nylon
screws also act as a standoff to start threading the mounting screws into the
bracket.
8.18. Verify or adjust the right-front foot of the iS10. Slide the locator pin on the
gage block into the front right screw hole of the interface bracket. If the
instrument is not at the correct height, lift the iS10 at the corner and adjust the
foot by either turning the screw clockwise to raise the height or counter-
clockwise to lower the height of the instrument until the base of the gage block
is flush with the tabletop and the locator pin easily engages/disengages with
the hole in the interface bracket.
Locator pin
Channel