3D Histech Pannoramic SCAN 150 1.18 User manual

PS1.18-UG-EN-Rev1
Pannoramic SCAN 150
1.18
User’s Guide
April 3, 2014
Rev. 1

Pannoramic SCAN 150 1.18 User’s Guide
Contents
Disclaimer....................................................................................................................... 5
Character Formats and Sym ols....................................................................................... 7
Declaration of Conformity............................................................................................... 8
Notes Regarding Operational Safety................................................................................9
Notes on Warranty........................................................................................................ 11
Terms and A reviations............................................................................................... 12
1 Product Description.................................................................................................... 13
1.1 Product Overview....................................................................................................................13
1.1.1 ntended Use..................................................................................................................................................13
1.1.2 Features and Benefits.....................................................................................................................................13
1.1.3 Warning and nformation Labels....................................................................................................................15
1.1.4 Base Unit........................................................................................................................................................16
1.2 System Overview......................................................................................................................17
1.2.1 Pannoramic SCAN 150 system........................................................................................................................17
1.2.2 Hardware Options..........................................................................................................................................18
1.2.3 Control Software............................................................................................................................................21
2 Installation................................................................................................................. 22
2.1 Control computer ports...........................................................................................................22
2.2 Connectors and cables.............................................................................................................23
2.3 Coupling the Lumencor Spectra 6 unit with the scanner........................................................24
3 Operating Slides and Magazines..................................................................................25
3.1 Preparing Slides and Magazines..............................................................................................25
3.2 Affixing Barcode Stickers to Slides...........................................................................................26
3.3 nserting and Removing Slides.................................................................................................27
4 Software Description.................................................................................................. 31
4.1 Starting / Exiting Pannoramic Scanner Software.....................................................................31
4.1.1 Starting the software......................................................................................................................................31
4.1.2 Exiting the software........................................................................................................................................32
4.2 Options.....................................................................................................................................32
4.2.1 Barcode Settings.............................................................................................................................................32
4.2.2 mage Compensation.....................................................................................................................................35
4.2.3 Microscope Settings.......................................................................................................................................38
4.2.4 Event Call Settings..........................................................................................................................................42
4.3 Using Brightfield Manual Mode...............................................................................................46
4.3.1 Routine work panel........................................................................................................................................47
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Pannoramic SCAN 150 1.18 User’s Guide
4.3.2 Scan Options window.....................................................................................................................................49
4.3.3 Preview panel.................................................................................................................................................51
4.3.4 Preview area scanned by preview camera.....................................................................................................54
4.3.5 Focus panel.....................................................................................................................................................60
4.3.6 Service panel..................................................................................................................................................62
4.3.7 Display field and toolbar for live images........................................................................................................63
4.3.8 Start Scan........................................................................................................................................................65
4.4 Using Brightfield Automatic Mode..........................................................................................65
4.4.1 Routine work panel........................................................................................................................................65
4.4.2 Barcodes panel...............................................................................................................................................67
4.4.3 Preview panel.................................................................................................................................................71
4.4.4 Focus panel.....................................................................................................................................................72
4.4.5 Service panel..................................................................................................................................................73
4.4.6 Start Scan........................................................................................................................................................74
4.5 Using Fluorescent Manual Mode.............................................................................................75
4.5.1 Routine work panel........................................................................................................................................75
4.5.2 Scan Options...................................................................................................................................................80
4.5.3 Preview panel.................................................................................................................................................84
4.5.4 Hardware panel..............................................................................................................................................87
4.5.5 Service panel..................................................................................................................................................90
4.6 Using Fluorescent Automatic Mode........................................................................................91
4.6.1 Routine work panel........................................................................................................................................91
4.6.2 Barcodes panel...............................................................................................................................................96
4.6.3 Preview panel.................................................................................................................................................99
4.6.4 Focus panel...................................................................................................................................................100
4.6.5 Service panel................................................................................................................................................100
4.7 Scan To Server........................................................................................................................101
4.8 Using Profiles.........................................................................................................................106
5 Trou leshooting and Maintenance............................................................................108
5.1 Safety nformation.................................................................................................................108
5.1.1 Cleaning the device......................................................................................................................................109
5.1.2 Cleaning the magazine.................................................................................................................................109
5.1.3 Preventive maintenance...............................................................................................................................109
5.2 Troubleshooting.....................................................................................................................110
5.2.1 Fluorescent Applications (optional).............................................................................................................113
5.3 Maintenance..........................................................................................................................114
5.3.1 Removing the protective covers...................................................................................................................114
5.3.2 Replacing the halogen lamp.........................................................................................................................115
5.3.3 Replacing Lamp Module (for Fluorescent Option).......................................................................................117
5.3.4 Removing a slide...........................................................................................................................................119
5.3.5 nstalling and Removing the Filter Module (Fluorescent Option)................................................................121
5.3.6 Removing the magazine from the transporting system...............................................................................123
5.3.7 Transporting Pannoramic SCAN 150.............................................................................................................124
6 Technical Data........................................................................................................... 126
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Pannoramic SCAN 150 1.18 User’s Guide
Index........................................................................................................................... 131
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Pannoramic SCAN 150 1.18 User’s Guide
Disclaimer
Copyright © 2001-2014 3DH STECH Ltd.
All rights reserved.
ntellectual property related to the 3DH STECH 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/ B2005/050344; US 11/662,976; HU0700409; US 12/042,050; US 77/636,144 and 007502032.
The above mentioned granted patents, granted utility model, registered trademarks, pending
international and national patent applications and the other corresponding P are the sole properties
of the 3DH STECH Ltd.
3DHISTECH Ltd. is not lia le for damage of whatever nature (including, ut 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 responsi ility 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 Drug
Administration.
Do not use this device in close proximity to sources of strong electromagnetic radiation (e.g.
unshielded intentional RF sources), as these may interfere with the proper operation.
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Pannoramic SCAN 150 1.18 User’s Guide
Third-Party Disclaimer (Li TIFF – TIFF Li rary and Utilities)
3DH STECH 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 damage
resulting from lost profits, interruption of business, loss of business information, pecuniary loss or
similar damage) that stems from or is associated with the incorporated part of this Product that is
made by Silicon Graphics nc.
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 3DH STECH products and services, please visit our website at the
following URL: http ://www.3dhistech.com.
Company Address: 29-33 Konkoly-Thege Miklos street, Building 6
1121 Budapest – HUNGARY
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Pannoramic SCAN 150 1.18 User’s Guide Character Formats and Symbols
Character Formats and Sym ols
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! t might cause irreversible damage or harm to the user of the product or the
product itself if this instruction is not followed.
Caution! t might cause the product to not work properly if this instruction is not followed
and alerts to a potential danger situation.
Note: Calls attention to some important features.
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Pannoramic SCAN 150 1.18 User’s Guide Character Formats and Symbols
Declaration of Conformity
3DH STECH Ltd. declares that the product Pannoramic SCAN 150 slide scanner is designed and
produced with consideration of specified requirements according to the SO 13485:2003 and EC
61326-2-6:2005 standards, and conforms to the directives and other standards listed below:
EC 61010-1:2001 (ed. 2), “Safety requirements for electrical equipment for measurement, control,
and laboratory use – Part 1: General requirements”
EC 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 diagnostic ( VD) medical
equipment”
EN 55011:1998, Group 1, Class A, “Limits and methods of measurement of radio disturbance
characteristics of industrial, scientific, and medical ( SM) radio-frequency equipment”
This product has been tested to the requirements of CAN/CSA-C22.2 No. 61010-1, second
edition, including Amendment 1, or a later version of the same standard incorporating the same level
of testing requirements.
Conformity with Directive 98/79/EC is marked by on the Pannoramic SCAN 150 device.
Conformity with Directive EC 61010-2-101:2002 (ed. 1) is marked by on the product
labeling.
Further information may be obtained from the manufacturer:
3DH STECH Ltd.
29-33 Konkoly-Thege Miklos street, Building 6
1121 Budapest – HUNGARY
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Pannoramic SCAN 150 1.18 User’s Guide Notes Regarding Operational Safety
Notes Regarding Operational Safety
The below section of this User’s Guide contains information and warnings of a kind that must be
followed by owner/operator personnel.
Warning and advisory symbols which are used on the base unit of the Pannoramic SCAN 150 and in
section 1.1.3 Warning and Information Labels have the following meanings:
CAUT ON
Disconnect mains plug before any kind of intervention into the device!
CAUT ON
Crush hazard!
The Pannoramic SCAN 150, including any of its original accessory components, should not be
operated in any other way than described in section 1.1.1 Intended Use.
Any of the following notes should be strictly observed:
Caution!
n the event of any non-conforming type of use, including non-conforming use
of assemblies or single 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!
nsert the power cord plugs only into a grounding 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-ground)
conductor.
Warning!
Never operate the device in explosion-risk environment.
Warning!
f protective devices are found to be ineffective, the Pannoramic SCAN 150 must
be shut down and precautions must be taken to prevent unintended usage. For
necessary repair work or work to restore proper operating condition, you
should contact the 3DH STECH Customer Service.
Note:
Electric power to the Pannoramic SCAN 150 is supplied via an external mains
power supply unit. t allows for operation at line voltages in the range of 100 V
to 240 V ±10%, 50/60 Hz, without any extra facilities required for voltage
transformation.
Warning!
Check that your local line voltage is compatible with Pannoramic SCAN 150
specifications before you turn power on.
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Pannoramic SCAN 150 1.18 User’s Guide Notes Regarding Operational Safety
Disconnect plug!
Remember to unplug the power cord before you open the Pannoramic SCAN
150 or replace a fuse!
Warning!
Only connect external devices that are safety extra low voltage rated to the
instrument to avoid the risk of electrical shock.
Warning!
Pannoramic SCAN 150 does not include any special facilities to protect from
samples with an etching, potentially infectious, toxic, radioactive or other
health-damaging effect. You are under obligation to comply with all currently
binding legislation, notably, national accident prevention rules when handling
samples of this kind.
Caution!
Dirt or dust may adversely impact the operating capability of the Pannoramic
SCAN 150. For this reason, measures must be taken to eliminate such influences
to a maximum possible degree. During 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 touching the lamp bulb. Disconnect power and let the lamp cool down for
about 15 minutes before replacing the lamp.
Crush hazard!
There is crush hazard in the movement area of the slide insert during operation.
Please note that the digitizing process has to be interrupted and the insert
moved via software to the output position before removing the insert.
Warning!
A defective Pannoramic SCAN 150 is not classified as domestic waste. t must be
properly disposed in accordance with currently valid legal requirements.
Warning!
The Pannoramic SCAN 150 may not be operated by other than properly
instructed persons. Operating personnel must be fully aware of the potential
dangers which a particular field of application involves. The Pannoramic SCAN
150 is a precision instrument which may suffer a significant reduction in
operational functions or even physical destruction following intervention
performed in any nonconforming manner.
Warning!
f an HXP 120 illumination unit is used, the corresponding warnings included in
the manufacturer’s operating manual have to be observed.
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Pannoramic SCAN 150 1.18 User’s Guide Notes on Warranty
Notes on Warranty
3DH STECH 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
damage as small as possible. On receiving notice of a fault, the Product Manufacturer will be under
obligation to remove the fault, at his own option, either by providing adequate repair services or by
delivering a faultless product for replacement. No warranty will be accepted in cases of natural wear
(notably, wear and tear parts) or improper product handling.
The Product Manufacturer will refuse any liability in the event of damage resulting from faulty
operation, negligence or unauthorized intervention into the product, notably, from the replacement
of product parts or the usage 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
performing any kind of maintenance or repair work at the Pannoramic SCAN 150. Only 3DH STECH
Service personnel or specifically authorized representatives are allowed to handle repair work. n
case of malfunction, contact the 3DH STECH Service Support first.
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Pannoramic SCAN 150 1.18 User’s Guide Terms and Abbreviations
Terms and A reviations
CSV Comma Separated Value
FOV Field of View
NA Numerical Aperture
Virtual Slide / Slide A digital image of a thin glass plate on which specimens are mounted for
microscopic study:
a dynamic, interactive image that you can manage, save, magnify, zoom, name,
evaluate, annotate, mark, comment, send it to a colleague electronically for co-
operation or advice, and so on.
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
1 Product Description
1.1 Product Overview
1.1.1 Intended Use
The Pannoramic SCAN 150 is designed to use transmitted light and reflected light fluorescence to
digitize biological samples and specimens (histological sections, typically). The target users of the
product can work for example, in education, research, industrial, or medical sectors.
Warning!
After each scanning make sure to inspect the digital slide for over-exposed
areas. f the slide is scanned based on improperly set parameters, it can
highly affect the diagnostic result because of information loss.
Warning!
Any modification to a hardware or software component of the PC will
highly affect the functionality of the scanner program.
1.1.2 Features and Benefits
The Pannoramic SCAN 150 offers world class brightfield and fluorescent whole slide scanning on up
to 9 channels. An outstanding 0.12 µm/pixel (in Brightfield) and 0.16 µm/pixel (in Fluorescent)
resolution is achieved with the 40×/NA 0.95 (equivalent to 80× magnification in BF and 62×
magnification in FL) Carl Zeiss Plan-Apochromat objective.
Key features of the Pannoramic SCAN 150 Scanner are:
•Up to 9 freely selectable color filters for fluorescence
•High-end fluorescent illumination device – Lumencor Spectra 6 Light Engine
•Multiband filter support
•FL scanning with a low noise, 16-bit scientific CMOS pco.edge 4.2 camera
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
•Software-aimed flat-field correction compensation method to create homogenous slide
image
•150 slide automatic loading and scanning
•mproved permanent autofocus
•3MP camera for barcode reading and preview image
•mage sharpening (both for Fluorescence and Brightfield) feature which improve the visual
appearance of digital slides
•Focus algorithm finds the focus which is most appealing to the human eye
•Compact and robust device
•Good quality and stable manufacturing
Pannoramic SCAN 150 is an optimal choice for customers who need high quality daily throughput
granted by the loading capacity of 150 slides.
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
1.1.3 Warning and Information La els
The following figure contains the labels used on the Pannoramic SCAN 150 main unit, the external
mains power supply unit, and the HXP 120 illumination unit.
Figure 1 – Warning and information labels
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
1.1.4 Base Unit
The following figure shows the main parts of the base unit.
Figure 2 – Main parts of base unit
1. Protective cover
2. Output stack for magazines
3. nput stack for magazines
4. Protective cover for magazine loader
5. Magazine feeder door/cover
6. C S VCC-FC60FR19CL scan camera
7. Protective rails
•Fluorescence option – A
8. HXP 120 fiber-coupled illumination unit (optional, use with AxioCam MRm Rev3 and Stingray
cameras only)
9. HXP 120 illumination adapter (optional, use with AxioCam MRm Rev3 and Stingray cameras
only)
10. Fiber optic cable
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
•Fluorescence option – B
8. Lumencor Spectra 6 Light Engine (fiber-coupled illumination unit, use with pco.edge 4.2
camera only)
9. llumination adapter (optional, use with pco.edge 4.2 camera only)
10. Fiber optic cable
1.2 System Overview
The standard scope of delivery of the product includes the following hardware and software
components.
1.2.1 Pannoramic SCAN 150 system
The following figure shows the main parts of the Pannoramic SCAN 150 system.
Figure 3 – Pannoramic SCAN 15 system overview
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
1. HXP 120 fiber-coupled illumination unit (optional)
2. 24 V external power supply unit
3. Lumencor Spectra 6 Light Engine (optional)
4. Monitor
5. Mouse
6. Control computer
7. Keyboard
8. Pannoramic SCAN 150 base unit
9. Slide magazine with cover
1.2.2 Hardware Options
The configuration of the control computer and monitor can vary depending on the product order.
Cameras
AxioCam MRm Rev 3
1 CCD scientific, cooled, monochrome camera for
high quality, sensitive fluorescent applications.
CIS VCC-FC60FR19CL
CMOS camera for high-quality brightfield
applications allowing fast scanning.
pco.edge 4.2
Equipped with a high-quality sCMOS image sensor
for fluorescent applications allowing fast scanning
and an outstanding low read out noise. High
quantum efficiency, cooled with Peltier element.
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
Stingray F146C IRF Medical camera
1 CCD camera for normal brightfield application
and entry level fluorescent applications.
Camera adapters
0.63× adapter 1× adapter 1.6× adapter
Warning!
The installation of the cameras in Pannoramic SCAN 150 must be
carried out by trained professionals, otherwise the warranty will be
automatically voided. The supplier or distributor is not liable for any
damages caused by an installation carried out by an unprofessional
person.
Base Unit options
•Pannoramic SCAN 150 Basic Brightfield Option / Fast Option – Base unit equipped with
Stingray or C S VCC-FC60FR19CL cameras for Brightfield scanning (no fluorescent
accessories included)
•Pannoramic SCAN 150 Basic Fluorescence Option – Base unit completely equipped with
AxioCam camera and HXP 120 illumination unit, trigger cable and filters for fluorescence
scanning
•Pannoramic SCAN 150 Advanced Fluorescence Option – Base unit completely equipped with
pco.edge 4.2 camera and Lumencor fluorescence illumination unit, trigger cable and filters
for fluorescence scanning
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Pannoramic SCAN 150 1.18 User’s Guide 1 Product Description
•Pannoramic SCAN 150 Basic Mixed Option – Base unit completely equipped with Stingray or
C S VCC-FC60FR19CL cameras for Brightfield scanning; with AxioCam camera and HXP 120
illumination unit, trigger cable and filters for fluorescence scanning
•Pannoramic SCAN 150 Advanced Mixed Option – Base unit completely equipped with C S
VCC-FC60FR19CL camera for Brightfield scanning, and with pco.edge 4.2 camera and
Lumencor fluorescence illumination unit, trigger cable and filters for fluorescence scanning
NOTE: f Lumencor light source is ordered, the custom light source and filter modules can
be variable. For more information, contact 3DH STECH customer service.
O jectives
•Carl Zeiss Plan-Apochromat 20×/NA 0.8
•Carl Zeiss Plan-Apochromat 40× Corr/NA 0.95
Warning!
Do not change correction collar settings on the 40×/NA objective, if
you need it to be set, contact customer service.
Fluorescent Options for Pannoramic SCAN 150
Fluorescent illumination unit Description
HXP 120 Fluorescent illumination unit (can
be used with AxioCam MRm Rev3 and
Stingray cameras only)
Lumencor Spectra 6 Light Engine
illumination unit (can be used with pco.edge
4.2 camera only)
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