Molecular Devices ClonePix 2 User manual

07MAN1186.B
ECO #: 4100
ClonePixTM 2
ROBOT MANUAL

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Contents
Table of Fi ures .................................................................................. 4
Introduction to ClonePix 2 .................................................................. 5
Technical Specifications ...................................................................... 6
External Dimensions and Wei ht .......................................................................... 6
Compressed Air Supply ......................................................................................... 6
Operatin Environment ......................................................................................... 6
Electrical Supply ................................................................................................... 7
Electrical Connections ........................................................................................... 8
Symbols on Equipment .......................................................................................... 8
PC Connections ..................................................................................................... 9
Filter options....................................................................................................... 10
Robot Enclosure ................................................................................ 11
Installation ....................................................................................... 12
Layout of ClonePix 2 ........................................................................................... 12
Source and Destination Plate Stackers ................................................................ 13
Connectin the Wash Bottles .............................................................................. 14
Connectin the Ethanol Bottles ........................................................................... 14
Camera Ali nment .............................................................................................. 15
ClonePix 2 Panel ................................................................................................. 15
Health and Safety ............................................................................. 16
Important Note ................................................................................................... 16
Transport and Stora e ........................................................................................ 16
Liftin Points....................................................................................................... 16
External Covers ................................................................................................... 16
Electrical Safety .................................................................................................. 16
Safety Features ................................................................................................... 17
Drive Safety ........................................................................................................ 17
Hot Air/Halo en Dryer ........................................................................................ 17
Noise Levels ........................................................................................................ 18
Service and Maintenance .................................................................................... 18
The user is responsible for General Maintenance (pa e 21).Initial
Operation .......................................................................................... 18
Initial Operation ............................................................................... 19

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System Features ................................................................................................. 19
Pre-Power-Up Checklist ...................................................................................... 19
Power-Up Procedures ......................................................................................... 19
Shutdown procedure ........................................................................................... 20
General Maintenance ........................................................................ 21
Re ular Maintenance .......................................................................................... 21
General Precautions ............................................................................................ 22
Cleanin Procedures ........................................................................................... 22
Remova le Parts ........................................................................................... 22
Cleaning of Instrument Interior ...................................................................... 24
Cleaning of System Fluid (Sterile Water) Supply ............................................... 24
Incoming Compressed Air Supply .................................................................... 25
Automated Picking Pin Cleaning ...................................................................... 25
Sterility Validation Tests ................................................................................ 26
Chan in the Pickin Head ................................................................................. 27
Remove Head: ............................................................................................. 27
Replace Head: .............................................................................................. 27
Chan in or Replacin Pickin Pins .................................................................... 27
Replacement Parts and Optional Extras ............................................ 28
Replacement Parts .............................................................................................. 28
Rea ents and Supplies ...................................................................... 29
CloneDetect Detection Rea ents ......................................................................... 29
CloneMatrix ......................................................................................................... 30
CloneMedia / XPMedia ........................................................................................ 30
PetriWell Cell Culture Plates ............................................................................... 31
Other .................................................................................................................. 32
Troubleshootin ................................................................................ 33
Common Problems .............................................................................................. 33
Glossary of Terms ............................................................................. 34
Index ................................................................................................ 37
Contact Details.................................................................................. 39
Contact Details.................................................................................. 39

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Table of Fi ures
Fi ure 1: ClonePix 2 electrical connections ............................................................... 8
Fi ure 2: ClonePix 2 PC connections ......................................................................... 9
Fi ure 3: ClonePix 2 layout and dimensions ............................................................ 12
Fi ure 4: Stacker orientation .................................................................................. 13
Fi ure 5: Wash bottle connections .......................................................................... 14
Fi ure 6: Front Panel .............................................................................................. 15

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Introduction to ClonePix 2
Manufactured y Molecular Devices (New Milton) Ltd.
ClonePix™ 2 is a dedicated solution for imaging, identification, and selective picking of
anti ody or protein secreting cells. The technology is ased on quantitative fluorescence
detection. The system is also compati le with direct fluorescence (e.g. GFP expression).
Automated delivery and lid removal of 1 well and 6 well micro-plate format plates to on
oard imaging station and dispersal of picked colonies to 96 well plates.
Fluorescent imaging using a choice of five filter sets.
Colonies selected on the asis of size, shape and proximity to neigh ors.
Colonies ranked ased on fluorescent intensity of the colony or the secreted product.
Automated selective picking using high precision picking pins with proprietary cleaning
routine etween each pick.
Intuitive Windows®- ased software allows you to easily set up multiple picking processes and
analyze the results. For detailed information a out the software please see the ClonePix 2
Software Application Manual.
Note: ClonePix 2 is strictly for research use only and is not intended or recommended for the
diagnosis of disease in humans or animals.
If the ro ot is used in a manner not specified in this manual the protection provided y the
equipment may e impaired.

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Technical Specifications
External Dimensions and Wei ht
Size (excluding ancillary equipment): 1010mm (width) x 900mm (depth) x 1495mm
(height)
Weight: Ro ot - 350 kg (maximum)
Compressor - 60 kg
Compressed Air Supply
Minimum Pressure: 6 ar
Minimum volume: 80L/min
Operatin Environment
Indoor use only
Temperature: 10°C to 40°C
Humidity: 20 to 80% non-condensing
Altitude: Up to 2000M
Mains supply: +/- 10% Rated Voltage
Transient overvoltage: Installation Category (Overvoltage category) II
Rated pollution: Pollution degree 2

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Electrical Supply
European:
Voltage: 210 - 250V AC 45-66 Hz single phase
Power: Ro ot - 1250W
Connections: IEC Input - Ro ot Mains / Halogen Heater
IEC Output - PC
IEC Output - Monitor
Fuses: Input - F3 – T10A - Ro ot / Halogen Heater
Output - F2 - T5A - Computer and Monitor
Compressor: 230V AC 50Hz 3.4A
USA/Japan:
Voltage: 100 – 125V AC 45-66 Hz single phase
Power: Ro ot -1250W
Connections: IEC Input - Ro ot Mains /
Halogen Heater
IEC Output - PC
IEC Output - Monitor
Fuses: Input - F3 - T10A - Ro ot / Halogen Heater
Output - F2 - T5A - Computer and Monitor
Compressor: 120V AC 60Hz 7.5A

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Electrical Connections
Fi ure 1: ClonePix 2 electrical connections
Symbols on Equipment
Symbol Meanin
Beware moving parts.
Refer to Ro ot Manual for operating instructions.
2011
The year of manufacture is given on the serial num er la el which is located
on the right side of the unit.
European Economic Area (EEA)
This mark on the product indicates compliance with the following EEC Directives:
2006/42/EEC, relating to The Supply of Machinery (Safety) Regulations 1992
2004/108/EEC with amendments 92/31/EEC, relating to Electromagnetic Compati ility
2006/95/EEC, the Low Voltage Directive

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PC Connections
Fi ure 2: ClonePix 2 PC connections
Mains
Input
Monitor
Camera
Ethernet
Mouse (USB)
Key oard
Printer

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Filter options
Filter set Excitation Emission
Cat. No. Suitable for: Wavelen th
(nm)
Filter
Position
Wavelen th
(nm)
Filter
Position
X4990 CFP
AF430
440
(Royal Blue)
4 505
(Cyan)
4
X4991 (standard) CloneDetect FITC*
Fluorescein
GFP
AF488
470
(Blue)
3 535
(Green)
3
X4992 YFP 500
(Cyan)
2 550
(Yellow)
2
X4993 CloneDetect 549*
R-phycoerythrin
Rhodamine
AF546
530
(Green)
1 590
(Red)
1
X4994 CloneDetect 649*
Cy5
FMAT Blue
AF647
622
(Red)
6 700
(Far Red)
6
Notes:
*Refer to Reagents & Supplies section for details on how to order CloneDetect reagents.
White light imaging uses excitation filter position 7 and emission filter position 5.

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Robot Enclosure
ClonePix 2 is designed to provide a controlled environment for sample protection conducive to
accurate and relia le mammalian cell picking. Protection within the ro ot top cover is
provided y utilizing a rear mounted HEPA filtered air supply and a front mounted exhaust
fan. This creates a horizontal laminar flow of sterile air across the picking area of the ed of
the machine whilst the front door is closed.
The main features are:
Class 100 type enclosure
Offers product protection from particulates and micro es.
HEPA filtration (99.999% at 0.3 microns exclusion).
Laminar airflow across the ed.
Air inflow greater than air exhaust maintains positive air pressure.
Always on when ClonePix 2 is on.
Integrated UV germicidal lamp with timer.
Note: The ClonePix 2 ro ot enclosure does not offer operator protection.

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Installation
Note: Installation is to e undertaken only y Molecular Devices approved personnel.
Layout of ClonePix 2
Front view:
Top view:
Fi ure 3: ClonePix 2 layout and dimensions
1010mm
1690mm
1460 mm + 35
1120
900 mm

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Source and Destination Plate Stackers
ClonePix 2 uses a stacker system to hold and process the source and destination plates.
The source stacker is located at the rear of the machine and the destination stacker towards
the front. The stacker cassettes can accommodate up to 10 microplates. Plates must e
loaded into the feed cassette with lids on and well A1 facing towards the imaging station. The
plates are automatically fed onto the ed individually and the lid is removed as the plate is
pushed through the lid lift mechanism. The lid is replaced as the plate returns through to the
cassette.
Fi ure 4: Stacker orientation
To insert the feed cassettes, push firmly into place until the cassette sits in the stacker.
Both the feed and return cassettes have a locking mechanism to secure them while in use. To
insert the cassette, pull the lock outwards and lower the cassette into the stacker. Release
the lock and check that the lock returns fully into place.
Warnin – ENSURE THAT THE LID LIFTER COVERS ARE FITTED DURING NORMAL
OPERATION
Lid Lifter
Covers
Destination
Stacker
Source
Stacker

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Connectin the Wash Bottles
The tu ing carrying system fluid (sterile water) to the Wash Station and ack to the waste
ottles will e connected y a Molecular Devices approved engineer on commissioning of
ClonePix 2. If it is necessary to disconnect these make sure that they are marked so that
the tu es can e re-connected correctly. The outlets on the machine are in the same order as
the ottles on the wash station.
Fi ure 5: Wash bottle connections
Connectin the Ethanol Bottles
The tu ing carrying ethanol to the Ethanol Wash Bath and ack to the ethanol waste ottle
will e connected y a Molecular Devices approved engineer on commissioning of ClonePix
2. If it is necessary to disconnect these make sure that they are marked so that the tu es
can e re-connected correctly.

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Camera Ali nment
To guarantee the most accurate picking, it is crucial that the camera is cali rated and aligned
correctly.
The aim of camera alignment is to achieve pin-to-spot accuracy, relating the image pixel co-
ordinates with the ro ot x, y co-ordinates.
Cali ration and alignment are performed efore ClonePix 2 is dispatched and will e checked
y a Molecular Devices approved engineer when the ro ot is installed.
If the actuator is su ject to a knock or a crash, picking accuracy may e affected. Therefore it
may e necessary to re-cali rate the camera. This should be carried out by a Molecular
Devices approved en ineer.
ClonePix 2 Panel
Fi ure 6: Front Panel
The lights on the panel indicate which elements of the ro ot are operating. The panel houses
the Start / Stop utton and the Emer ency Stop utton.
Emergency
Stop Button
Start / Stop
Switch

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Health and Safety
Important Note
Before usin the robot, it is very important that you have read this manual and have
understood all the safety instructions.
Prior to usin the robot, please make sure that you have been throu h the robot Pre-
Power-Up checklist. This checklist ensures that all movin parts on the Robot are
correctly situated in their datum positions.
Then follow the procedures as set out in the Power Up section.
Transport and Stora e
The ro ot must e stored and transported in temperatures within the range -25°C to +55°C.
The machine is fitted with caster wheels for ease of movement.
Liftin Points
The machine should not e moved after installation. If relocation is necessary, standard lifting
gear is adequate ut should e undertaken only in the presence of a Molecular Devices
approved engineer.
The ro ot should e moved into position using appropriate handling equipment such as
forklift trucks or dolly trucks. The machine should e properly alanced on the forks prior to
lifting.
Important note: Do not use any part of the exterior odywork to lift the instrument as this
may cause irrepara le damage.
External Covers
Warnin – If any of the external covers on ClonePix 2 are removed the power supply is not
automatically interrupted. If it is necessary to remove any of the external covers it is essential
that the power is switched off first. Do not attempt to use the ro ot until the covers are
replaced.
Electrical Safety
The ro ot must e connected to a properly earthed power outlet to protect users from the risk
of electric shock. The main chassis of the machine is earthed together with all associated
electrical components.
Do not remove any of the fixed covers, as there are no user servicea le parts inside. All
internal work should e referred to Molecular Devices approved service personnel.
In the event of a liquid spillage into the ase cavity of the ro ot, the power supply must e
disconnected at the mains efore any attempt is made to clean up the spillage.
There should not e any spillage from the Wash Bath in normal use with the Wash Station
correctly set up. However, spill trays have een fitted where appropriate.

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Safety Features
Door:
The machine will not run with the front door open. If the door is open an electromagnetic
switch prevents the machine from running. This switch should never e tampered with, as it
serves two purposes:
It prevents the motors from running and therefore the potential of any physical damage.
It disa les the UV light therefore preventing the risk of damage from UV radiation.
The door is made from acrylic, and so prevents UV light from passing through during
operation.
UV Li ht:
ClonePix 2 is fitted with a UV germicidal lamp with timer. This is a 30W linear discharge lamp
with a sharply defined output at 253.7nm making the lamp an efficient source of germicidal
radiation.
Emer ency STOP Button:
The location of the Emergency Stop utton is shown in Figure 7 (Page 15). Striking the
Emergency Stop utton will immediately stop the machine and cut power from the drives.
The utton must e pulled out efore the machine can e restarted.
Note: If the PC is powered from the ro ot, power to the PC will also e cut and current data
will e lost.
Drive Safety
Be aware that the motors use hi h-powered ma nets.
The linear drive units and encoders are delicate so great care should e taken with them.
The Pre-Power-Up checklist should e followed efore every routine in order to prevent serious
damage to the ro ot or any of its constituent parts.
Power is removed from the drives when the doors are open.
Hot Air/Halo en Dryer
ClonePix 2 is fitted with an ultra-high temperature halogen dryer. The casing may ecome hot
during the drying cycle.

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Noise Levels
During normal operation the level of air orne noise emitted y the ro ot will not exceed 70d
measured at a distance of 1 meter.
Service and Maintenance
It is strongly recommend that maintenance e carried out regularly y a Molecular Devices
approved service engineer.
Maintenance contracts can e o tained from Molecular Devices (New Milton) Ltd. Please see
contact details elow.
The user is responsible for General Maintenance (pa e 21).

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Initial Operation
System Features
ClonePix 2 is constructed within a welded steel framework. The outer measurements are
given in the Technical Specifications section on page 6. Be aware that these dimensions do
not allow for opening ro ot doors.
The lifting door on the front of the machine, protected y an electro-mechanical interlock,
contains the working volume of the machine.
The ed of the machine contains the source and destination stackers, and the wash system,
which is used for cleaning the Picking Pins etween cycles in order to eliminate pin lockage
and cross-contamination.
The stacker system can hold up to 10 standard microplates microplates.
The Z all-screw drive carries a unique actuator system that accommodates the head.
This system allows for easy exchange and set-up of the head.
Pre-Power-Up Checklist
Check that the Emergency Stop utton (see Figure 7 on page 15) is released (pulled
out). ClonePix 2 will not start if the utton is pushed in.
Check that no items have een left on the ed of the instrument.
Check that all motor tracks are free of o struction.
Check that there are no o structions to head movement.
Check that the main ro ot axes, XY, are roughly in the centre of their respective travel
positions. The axes need to e away from their respective end-stops on ‘start up’ in order
that they may reference themselves correctly to their ‘home’ positions.
Check that the lifting door on the front of the ro ot is closed.
Ensure that there are no plates or cassettes in the stackers.
Power-Up Procedures
Turn on the power supply to the compressor.
Push the START utton on the front panel. The red ‘Power On’ indicator (on the front
panel of the instrument) illuminates. If the system fails to ‘power on’, it is likely that the
lifting door is open or the emergency stop utton is pushed in.
Check that the air supply indicator (on front panel) is on.
Once the computer has ooted up, click on the ClonePix 2 icon. The first time ClonePix 2
is used, the three axes will sequentially go through their ‘Initialize drives’ routine. This
ena les the drives to find their respective datum positions. ClonePix 2 must e allowed to
complete this process without interference to ensure that there is no damage to the
instrument or its ancillary equipment.

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Shutdown procedure
Exit from the ClonePix 2 application y selecting Exit from the File menu on the main
setup screen.
Close down Windows – Click the Start menu at the ottom of the screen then click Shut
Down. Wait for computer to switch off completely.
Switch the ClonePix 2 y pushing the STOP utton on the front panel.
Turn the power off at the mains.