3D Histech Pannoramic SCAN 150 User manual

Pannoramic SCAN 150
1.15
User’s Guide
March 13, 2012
Rev. 1

Pannoramic SCAN 150 1.15 User’s Guide
Contents
Disclaimer....................................................................................................................... 5
Character Formats and Symbols.......................................................................................
Declaration Of Conformity...............................................................................................8
Notes Regarding Operational Safety................................................................................9
Notes on Warranty........................................................................................................ 11
Terms and Abbreviations............................................................................................... 12
1 Product Description.................................................................................................... 13
1.1 Product Overview....................................................................................................................13
1.1.1 Intended Use..................................................................................................................................................13
1.1.2 Features and Benefits.....................................................................................................................................13
1.1.3 Warnin and Information Labels....................................................................................................................14
1.1.4 Base Unit........................................................................................................................................................15
1.2 System Overview......................................................................................................................16
1.2.1 Pannoramic SCAN 150 system........................................................................................................................16
1.2.2 Hardware Options..........................................................................................................................................17
1.2.3 Control Software............................................................................................................................................19
2 Installation................................................................................................................. 21
2.1 Control computer ports...........................................................................................................21
2.2 Connectors and cables.............................................................................................................22
3 Operating Slides and Magazines..................................................................................24
3.1 Preparin Slides and Ma azines..............................................................................................24
3.2 Affixin Barcode Stickers to Slides...........................................................................................25
3.3 Insertin and Removin Slides.................................................................................................27
4 Software Description.................................................................................................. 30
4.1 Startin / Exitin Pannoramic Scanner Software.....................................................................30
4.1.1 Startin the software......................................................................................................................................30
4.1.2 Exitin the software........................................................................................................................................31
4.2 Options.....................................................................................................................................32
4.2.1 Barcode Settin s.............................................................................................................................................32
4.2.2 Ima e Compensation.....................................................................................................................................35
4.2.3 Microscope Settin s.......................................................................................................................................40
4.2.4 External Application Call Settin s...................................................................................................................45
4.3 Usin Bri htfield Manual Mode...............................................................................................46
4.3.1 Routine work tab............................................................................................................................................48
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Pannoramic SCAN 150 1.15 User’s Guide
4.3.2 Scan Options window.....................................................................................................................................50
4.3.3 Preview tab.....................................................................................................................................................52
4.3.4 Preview area scanned by preview camera.....................................................................................................55
4.3.5 Focus tab........................................................................................................................................................61
4.3.6 Service tab......................................................................................................................................................63
4.3.7 Display field and toolbar for live ima es........................................................................................................64
4.3.8 Start Scan........................................................................................................................................................66
4.4 Usin Bri htfield Automatic Mode..........................................................................................66
4.4.1 Routine work tab............................................................................................................................................66
4.4.2 Barcodes tab...................................................................................................................................................68
4.4.3 Preview tab.....................................................................................................................................................72
4.4.4 Focus tab........................................................................................................................................................73
4.4.5 Service tab......................................................................................................................................................74
4.4.6 Start Scan........................................................................................................................................................75
4.5 Usin Fluorescent Manual Mode.............................................................................................76
4.5.1 Routine work tab............................................................................................................................................76
4.5.2 Scan Options...................................................................................................................................................81
4.5.3 Preview tab.....................................................................................................................................................84
4.5.4 Hardware tab..................................................................................................................................................87
4.5.5 Service tab......................................................................................................................................................90
4.6 Usin Fluorescent Automatic Mode........................................................................................91
4.6.1 Routine work tab............................................................................................................................................91
4.6.2 Barcodes tab...................................................................................................................................................96
4.6.3 Preview tab.....................................................................................................................................................99
4.6.4 Focus tab......................................................................................................................................................100
4.6.5 Service tab....................................................................................................................................................100
4.7 Scan To Server........................................................................................................................101
4.8 Usin Profiles.........................................................................................................................107
5 Troubleshooting and Maintenance............................................................................109
5.1 Safety Information.................................................................................................................109
5.1.1 Cleanin the device......................................................................................................................................110
5.1.2 Cleanin the ma azine.................................................................................................................................110
5.1.3 Preventive maintenance...............................................................................................................................110
5.2 Troubleshootin .....................................................................................................................111
5.2.1 Fluorescent Applications (optional).............................................................................................................114
5.3 Maintenance..........................................................................................................................115
5.3.1 Removin the protective covers...................................................................................................................115
5.3.2 Replacin the halo en lamp.........................................................................................................................116
5.3.3 Replacin Lamp Module (for Fluorescent Option).......................................................................................118
5.3.4 Removin a slide...........................................................................................................................................120
5.3.5 Installin and Removin the Filter Module (Fluorescent Option)................................................................122
5.3.6 Removin the ma azine from the transportin system...............................................................................123
5.3.7 Transportin Pannoramic SCAN 150.............................................................................................................125
6 Technical Data........................................................................................................... 12
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Pannoramic SCAN 150 1.15 User’s Guide
Index........................................................................................................................... 132
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Pannoramic SCAN 150 1.15 User’s Guide
Disclaimer
Copyri ht © 2001-2012 3DHISTECH Ltd.
All ri hts reserved.
Intellectual property related to the 3DHISTECH products are as follows:
EP 1,789,831; US 7,663,078; EP 2,024,772; JP 2009-512685; US 12/301,781; EP 1,644,767; JP 2007-
516451; US7,327,515; EP 1,994,398; JP 2008-557835; US 12/281,566; U0700210; US 6,246,785;
HU0900142; HU0700404; PCT/HU2007/000065; EP 08762668.5; US 12/663,537;
PCT/AT2006/000492; JP 2008-542552; EP 06817469; US 12/095,545; PCT/AT2006/000493; EP
06817470.5; US 12/095,596; HU0900741; US 61/264,732; US 11/826,752; P0401870;
PCT/IB2005/050344; US 11/662,976; HU0700409; US 12/042,050; US 77/636,144 and 007502032.
The above mentioned ranted patents, ranted utility model, re istered trademarks, pendin
international and national patent applications and the other correspondin IP are the sole properties
of the 3DHISTECH Ltd.
3DHISTECH Ltd. is not liable for damage of whatever nature (including, but not limited to, general
or specific damage, indirect damage, consequential damage or incidental damage, including the
results of the analysis of the digitized slides, for example, change of health status related to
erroneous diagnosis from the digitalized slide(s)) that stems from or is associated with use of
Product, digitalized slides, quality of staining, quality of stained slides, quality of used method of
staining. 3DHISTECH Ltd. assumes no responsibility for the functionality and fault-free condition of
your “application programs” (Workflows, VBA macros, Commander scripts).
CAUTION
This product has not been approved or cleared as a medical device by the U.S. Food and Dru
Administration.
Do not use this device in close proximity to sources of stron electroma netic radiation (e. .
unshielded intentional RF sources), as these may interfere with the proper operation.
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Pannoramic SCAN 150 1.15 User’s Guide
Third-Party Disclaimer (LibTIFF – TIFF Library and Utilities)
3DHISTECH Ltd. is not liable for dama e of whatever nature (includin , but not limited to, eneral or
specific dama e, indirect dama e, consequential dama e or incidental dama e, includin dama e
resultin from lost profits, interruption of business, loss of business information, pecuniary loss or
similar dama e) that stems from or is associated with the incorporated part of this Product that is
made by Silicon Graphics Inc.
THE SOFTWARE IS PROVIDED “AS IS” AND WITHOUT WARRANTY OF ANY KIND, EXPRESSED,
IMPLIED OR OTHERWISE, INCLUDING WITHOUT LIMITATION, ANY WARRANTY OF
MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE.
IN NO EVENT SHALL SAM LEFFLER OR SILICON GRAPHICS BE LIABLE FOR ANY SPECIAL, INCIDENTAL,
INDIRECT OR CONSEQUENTIAL DAMAGES OF ANY KIND, OR FOR ANY DAMAGES WHATSOEVER
RESULTING FROM LOSS OF USE, DATA OR PROFITS, WHETHER OR NOT ADVISED OF THE POSSIBILITY
OF DAMAGE, AND ON ANY THEORY OF LIABILITY, ARISING OUT OF OR IN CONNECTION WITH THE
USE OR PERFORMANCE OF THIS SOFTWARE.
Further Information
For the latest information on 3DHISTECH products and services, please visit our website at the
followin URL: http ://www.3dhistech.com .
Company Address: 29-33 Konkoly-The e Miklos street, Buildin 18
1121 Budapest – HUNGARY
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Pannoramic SCAN 150 1.15 User’s Guide Character Formats and Symbols
Character Formats and Symbols
Example Words or characters that appear on the screen. These include field names, screen
and window titles, pushbutton and menu names, paths or options.
Keys on the keyboard. For example, function keys (such as F11) or the Ctrl+M key
combination.
Example Cross-references within the document or to other documents.
Warning! It mi ht cause irreversible dama e or harm to the user of the product or the
product itself if this instruction is not followed.
Caution! It mi ht cause the product to not work properly if this instruction is not followed
and alerts to a potential dan er situation.
Note: Calls attention to some important features.
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Pannoramic SCAN 150 1.15 User’s Guide Character Formats and Symbols
Declaration Of Conformity
3DHISTECH Ltd. declares that the product Pannoramic MIDI slide scanner is desi ned and produced
with consideration of specified requirements accordin to the ISO 13485:2003 and IEC 61326-2-
6:2005 standards, and conforms to the directives and other standards listed below:
IEC 61010-1:2001 (ed. 2), “Safety requirements for electrical equipment for measurement, control,
and laboratory use – Part 1: General requirements”
IEC 61010-2-101:2002 (ed. 1), “Safety requirements for electrical equipment for measurement,
control and laboratory use – Part 2-101: Particular requirements for in vitro dia nostic (IVD) medical
equipment”
EN 55011:1998, Group 1, Class A, “Limits and methods of measurement of radio disturbance
characteristics of industrial, scientific, and medical (ISM) radio-frequency equipment”
This product has been tested to the requirements of CAN/CSA-C22.2 No. 61010-1, second
edition, includin Amendment 1, or a later version of the same standard incorporatin the same level
of testin requirements.
Conformity with Directive 98/79/EC is documented by the Pannoramic MIDI -label.
Conformity with Directive IEC 61010-2-101:2002 (ed. 1) is marked by on the product
labelin .
Further information may be obtained from the manufacturer:
3DHISTECH Ltd.
29-33 Konkoly-The e Miklos street, Buildin 18
1121 Budapest – HUNGARY
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Pannoramic SCAN 150 1.15 User’s Guide Notes Regarding Operational Safety
Notes Regarding Operational Safety
The below section of this User’s Guide contains information and warnin s of a kind that must be
followed by owner/operator personnel.
Warnin and advisory symbols which are used on the base unit of the Pannoramic SCAN 150 and in
the section 1.1.3 Warning and Information Labels have the followin meanin s:
CAUTION
Disconnect mains plu before any kind of intervention into the device!
CAUTION
Crush hazard!
The Pannoramic SCAN 150, includin any of its ori inal accessory components, should not be
operated in any other way than described in section 1.1.1 Intended Use.
Any of the followin notes should be strictly observed:
Caution!
In the event of any non-conformin type of use, includin non-conformin use
of assemblies or sin le parts, no liability will be assumed by the Manufacturer.
This shall also apply to service or repair work of any kind, which is performed by
other than duly authorized service personnel. All claims for warranty and
warranty services will be null and void in any such case.
Warning!
Insert the power cord plu s only into a roundin outlet. The protective action
must not be rendered ineffective by extension cables without protective
conductor. The Pannoramic SCAN 150 has a built-in protection which must not
be rendered ineffective by extension cables without protective (earth- round)
conductor.
Warning!
The operation of the instrument in explosion-risk environments is not allowed.
Warning!
If protective devices are found to be ineffective, the Pannoramic SCAN 150 must
be shut down and precautions must be taken to prevent unintended usa e. For
necessary repair work or work to restore proper operatin condition, you
should contact the 3DHISTECH Customer Service.
Note:
Electric power to the Pannoramic SCAN 150 is supplied via an external mains
power supply unit. It allows for operation at line volta es in the ran e of 100 V
to 240 V ±10%, 50/60 Hz, without any extra facilities required for volta e
transformation.
Warning!
Check that your local line volta e is compatible with Pannoramic SCAN 150
specifications before you turn power on.
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Pannoramic SCAN 150 1.15 User’s Guide Notes Regarding Operational Safety
Disconnect plug!
Remember to unplu the power cord before you open the Pannoramic SCAN
150 or replace a fuse!
Warning!
Use only electric fuses which are rated for the specified nominal current. You
are prohibited from usin makeshift fuses or short-circuitin of a fuse holder.
Warning!
Only connect external devices that are safety extra low volta e rated to the
instrument to avoid the risk of electrical shock.
Warning!
The Pannoramic SCAN 150 does not include any special facilities to protect from
samples with an etchin , potentially infectious, toxic, radioactive or other
health-dama in effect. You are under obli ation to comply with all currently
bindin le islation, notably, national accident prevention rules when handlin
samples of this kind.
Caution!
Dirt or dust may adversely impact the operatin capability of the Pannoramic
SCAN 150. For this reason, measures must be taken to eliminate such influences
to a maximum possible de ree. Durin periods of non-use, the Pannoramic
SCAN 150 must be protected with a dust cover. Check that power is turned off
before you put the cover on.
Caution!
Avoid touchin the lamp bulb. Disconnect power and let the lamp cool down for
about 15 minutes before replacin the lamp.
Crush hazard!
There is crush hazard in the movement area of the slide insert durin operation.
Please note that the di itizin process has to be interrupted and the insert
moved via software to the output position before removin the insert.
Warning!
A defective Pannoramic SCAN 150 is not classified as domestic waste. It must be
properly disposed in accordance with currently valid le al requirements.
Warning!
The Pannoramic SCAN 150 may not be operated by other than properly
instructed persons. Operatin personnel must be fully aware of the potential
dan ers which a particular field of application involves. The Pannoramic SCAN
150 is a precision instrument which may suffer a si nificant reduction in
operational functions or even physical destruction followin intervention
performed in any nonconformin manner.
Warning!
If an X-Cite 120 illuminator is used, the correspondin warnin s included in the
manufacturer’s operatin manual have to be observed.
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Pannoramic SCAN 150 1.15 User’s Guide Notes on Warranty
Notes on Warranty
3DHISTECH Ltd. – as the Product Manufacturer – warrants the Pannoramic SCAN 150 to be free from
faults in material and workmanship at the moment of installation. Defects must be notified
immediately on identification and maximum efforts must be undertaken in order to the amount of
dama e as small as possible. On receivin notice of a fault, the Product Manufacturer will be under
obli ation to remove the fault, at his own option, either by providin adequate repair services or by
deliverin a faultless product for replacement. No warranty will be accepted in cases of natural wear
(notably, wear and tear parts) or improper product handlin .
The Product Manufacturer will refuse any liability in the event of dama e resultin from faulty
operation, ne li ence or unauthorized intervention into the product, notably, from the replacement
of product parts or the usa e of accessory parts from other manufacturers. Any such case will void
the user’s claim for warranty.
Except for action which is explicitly described in this User’s Guide, you are prohibited from
performin any kind of maintenance or repair work at the Pannoramic SCAN 150. Only 3DHISTECH
Service personnel or specifically authorized representatives are allowed to handle repair work. In
case of malfunction, contact the 3DHISTECH Service Support first.
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Pannoramic SCAN 150 1.15 User’s Guide Terms and Abbre iations
Terms and Abbreviations
CSV Comma Separated Value
FOV Field of View
NA Numerical Aperture
Virtual Slide / Slide A di ital ima e of a thin lass plate on which specimens are mounted for
microscopic study:
a dynamic, interactive ima e that you can mana e, save, ma nify, zoom, name,
evaluate, annotate, mark, comment, send it to a collea ue electronically for co-
operation or advice, and so on.
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
1 Product Description
1.1 Product Overview
1.1.1 Intended Use
The Pannoramic SCAN 150 is desi ned to use transmitted li ht and reflected li ht fluorescence to
di itize biolo ical samples and specimens (typically histolo ical sections). The tar et users of the
product can work for example, in education, research, industry or medical sectors.
1.1.2 Features and Benefits
The Pannoramic SCAN 150 offers world class bri htfield and fluorescent whole slide scannin on up
to 9 channels.
An outstandin 0.12 µm/pixel resolution is achieved with the 40×/NA 0.95 Carl Zeiss
Plan-Apochromat objective.
Key features of the Pannoramic SCAN 150 Scanner:
•Up to 9 freely selectable color filters for fluorescence
•Hi h-end fluorescent illumination device – Lumencor Spectra 7 Li ht En ine
•Multiband filter support
•Noiseless FL scannin with the best FL camera available – pco.ed e
•150 slide automatic loadin and scannin
•Improved permanent autofocus
•Small footprint
•Compact and robust device
•Good quality and stable manufacturin
Pannoramic SCAN 150 is an optimal choice for customers who need hi h quality daily throu hput
ranted by the loadin capacity of 150 slides.
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
1.1.3 Warning and Information Labels
The followin fi ure contains the labels used on the Pannoramic SCAN 150 main unit, the external
mains power supply unit, and the HXP 120 illuminator.
Figure 1 – Warning and information labels
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
1.1.4 Base Unit
The followin fi ure shows the main parts of the base unit.
Figure 2 – Main parts of base unit
1. Protective cover
2. Output stack for ma azines
3. Input stack for ma azines
4. Protective cover for ma azine loader
5. Ma azine feeder door/cover
6. CIS VCC-F52U25CL scan camera
. Safety rails
8. HXP 120 fiber-coupled illuminator (option)
9. HXP 120 illumination adapter (option)
10. Fiber optic cable
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
1.2 System Overview
The standard scope of delivery of the product includes the followin hardware and software
components.
1.2.1 Pannoramic SCAN 150 system
The followin fi ure shows the main parts of the Pannoramic SCAN 150 system.
Figure 3 – Pannoramic SCAN 15 system overview
1. HXP 120 fiber-coupled illuminator (option)
2. 24 V external power supply unit
3. Monitor
4. Mouse
5. Control computer
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
6. Keyboard
. Pannoramic SCAN 150 base unit
8. Slide ma azine with cover
1.2.2 Hardware Options
The confi uration of the control computer and monitor can vary dependin on the product order.
Cameras
AxioCam MRm Rev 3
1 CCD scientific, cooled, monochrome camera
for hi h quality, sensitive fluorescent
applications.
CIS VCC-F52U25CL
3 CCD camera for hi h-quality bri htfield
applications allowin fast scannin .
pco.edge
Equipped with a hi h-quality sCMOS ima e
sensor for fluorescent applications allowin fast
scannin and an outstandin low read out noise.
Cooled with Peltier element.
Stingray F146C IRF Medical camera
1 CCD camera for normal bri htfield application
and entry level fluorescent applications.
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
Camera adapters
0.63× adapter 1× adapter
Warning!
The installation of the cameras in Pannoramic SCAN 150 must be
carried out by trained professionals!
In any other case the warranty will be automatically voided. The
supplier or distributor is not liable for any dama es caused by an
installation carried out by an unprofessional person.
Base Unit options
•Pannoramic SCAN 150 Basic Scan Option / Fast Option – Base unit equipped with Stin ray or
CIS cameras for Bri htfield scannin (no fluorescent accessories included)
•Pannoramic SCAN 150 Basic Fluorescence Option – Base unit completely equipped with
Stin ray or CIS cameras for Bri htfield scannin ; with AxioCam camera and HXP 120
illuminator, tri er cable and filters for fluorescence scannin
•Pannoramic SCAN 150 Advanced Fluorescence Option – Base unit completely equipped with
CIS VCC-F52U25CL camera for Bri htfield scannin , and with pco.ed e camera and
Lumencor fluorescence illuminator, tri er cable and filters for fluorescence scannin
NOTE: In case Lumencor li ht source is ordered, the custom li ht source and filter modules
can be variable. For more information, please contact 3DHISTECH customer service.
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
Objectives
•Carl Zeiss Plan-Apochromat 20×/NA 0.8
•Carl Zeiss Plan-Apochromat 40× Corr/NA 0.95
Fluorescent Options for Pannoramic SCAN 150
Fluorescent unit (internal part)
HXP 120 Fluorescent illumination
unit (can be used with AxioCam
MRm Rev3 only)
Lumencor Spectra 7 Li ht En ine
illumination unit (can be used with
pco.ed e camera only)
1.2.3 Control Software
Pannoramic Scanner control software
Optional:
•Fluorescence
•Extended focus
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Pannoramic SCAN 150 1.15 User’s Guide 1 Product Description
•Z-stack
•Barcode reader (licensed feature)
•Scan To Server
Pannoramic Viewer software (fully functional)
Optional:
•CaseCenter
•Pannoramic Viewer TMA module
•3D Reconstruction module
•HistoQuant, NuclearQuant, MembraneQuant, FISHQuant, and DensitoQuant modules
•ImmunoScreener module
•E-School Encoder
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