3D Histech Pannoramic SCAN II User manual

PSII220-UG-EN-Rev2
Pannoramic SCAN II
2.2.0
User’s Guide
January 24, 2020
Rev. 2

Pannoramic SCAN II 2.2.0 User’s Guide
Contents
Disclaimer....................................................................................................................... 5
About this User's Guide...................................................................................................
Character Formats and Symbols....................................................................................... 8
Declaration of Conformity............................................................................................... 9
Notes Regarding Operational Safety............................................................................... 10
Notes on Warranty........................................................................................................ 12
Terms and Abbreviations............................................................................................... 13
1 Product Description.................................................................................................... 14
1.1 Product Overview....................................................................................................................14
1.1.1 Intended U e..................................................................................................................................................14
1.1.2 Feature and Benefit .....................................................................................................................................14
1.1.3 Warning and Information Label ....................................................................................................................16
1.1.4 Ba e Unit........................................................................................................................................................17
1.2 Sy tem Overview......................................................................................................................18
1.2.1 Pannoramic® SCAN II y tem..........................................................................................................................18
1.2.2 Hardware Option ..........................................................................................................................................19
1.2.3 Control Software............................................................................................................................................21
2 Installation................................................................................................................. 23
2.1 Operation y tem of the control computer.............................................................................23
2.2 Control computer port ...........................................................................................................24
2.3 Connector and cable .............................................................................................................25
2.4 Coupling the Lumencor SOLA SM II unit with the canner......................................................26
2.5 Coupling the Lumencor SPECTRA 6 unit with the canner......................................................26
2.6 External power upply unit......................................................................................................27
2.7 Power the canner on/off........................................................................................................27
3 Operating Slides and Magazines..................................................................................28
3.1 Preparing Slide and Magazine ..............................................................................................28
3.2 Affixing Barcode Sticker to Slide ...........................................................................................30
3.3 In erting and Removing Slide .................................................................................................31
4 Software Description.................................................................................................. 35
4.1 Starting / Exiting Pannoramic® Scanner Software...................................................................35
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Pannoramic SCAN II 2.2.0 User’s Guide
4.1.1 Starting the oftware......................................................................................................................................35
4.1.2 Exiting the oftware........................................................................................................................................36
4.2 Main window function ...........................................................................................................36
5 Scanning modes and settings...................................................................................... 52
5.1 Brightfield Scanning Mode.......................................................................................................52
5.1.1 Profile Setting Panel......................................................................................................................................54
5.1.2 Micro cope Control Panel..............................................................................................................................62
5.1.3 Quick preview function .................................................................................................................................72
5.1.4 Quick micro cope function ...........................................................................................................................73
5.2 Fluore cence Micro cope Mode..............................................................................................75
5.2.1 Profile Setting panel......................................................................................................................................75
5.2.2 Micro cope Control Panel..............................................................................................................................85
5.2.3 Hidden function ............................................................................................................................................96
5.2.4 Quick Micro cope function ...........................................................................................................................97
5.2.5 Bottom menu bar of the main window..........................................................................................................99
5.3 Planner mode.........................................................................................................................101
5.3.1 General function at the main menu...........................................................................................................102
5.3.2 General function at the magazine menu....................................................................................................104
5.3.3 General function at the lide menu............................................................................................................104
5.3.4 Slide view with card......................................................................................................................................105
5.3.5 Table view mode...........................................................................................................................................108
5.3.6 Card collection view mode...........................................................................................................................109
5.4 Profile and Preview overview on the Planner.......................................................................110
5.5 Progre feature ...................................................................................................................111
5.6 Setting and Service...............................................................................................................112
5.6.1 Setting .........................................................................................................................................................112
5.6.2 Service..........................................................................................................................................................122
5.7 Ho ting...................................................................................................................................129
5.8 U ing Profile .........................................................................................................................131
6 Troubleshooting and Maintenance............................................................................133
6.1 Recovery function ................................................................................................................133
6.2 Safety Information.................................................................................................................133
6.2.1 Cleaning the device......................................................................................................................................134
6.2.2 Cleaning the magazine.................................................................................................................................135
6.2.3 Preventive maintenance...............................................................................................................................135
6.3 Trouble hooting.....................................................................................................................135
6.3.1 Fluore cent Application (optional).............................................................................................................137
6.4 Maintenance..........................................................................................................................138
6.4.1 Removing the protective cover ...................................................................................................................138
6.4.2 Removing a lide...........................................................................................................................................139
6.4.3 In talling and Removing the Filter Module (Fluore cent Option)................................................................141
6.4.4 Removing the magazine from the tran porting y tem...............................................................................143
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Pannoramic SCAN II 2.2.0 User’s Guide
6.4.5 Tran porting Pannoramic® SCAN II...............................................................................................................144
Technical Data........................................................................................................... 146
Appendix – Packaging instructions...............................................................................150
Preparation .................................................................................................................................150
Main part and their acce orie .................................................................................................150
Packaging.....................................................................................................................................152
Packing the SCAN II canner........................................................................................................154
Packing the acce orie ...............................................................................................................154
Clo ing the package.....................................................................................................................154
Handling of the package..............................................................................................................155
Index........................................................................................................................... 156
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Pannoramic SCAN II 2.2.0 User’s Guide
Disclaimer
Copyright © 2001-2020 3DHISTECH Ltd.
All right re erved.
Intellectual property related to the 3DHISTECH product are a follow :
•P1300124; PCT/HU2014/000020; EP 14745228.8.; US 14/771.380
•P0700404; PCT/HU2008/000065; EP 08762668.5.; US 12/663.537
•P1700279; PCT/HU2018/050030
•P1700483
•P1500394; PCT/HU2016/050039; EP 16840280.8.; US 15/756.370
•P0700409; US 2008/0306964
•P0800181; PCT/HU2009/000027; EP 09721248.4.
•P0600435; PCT/HU2007/000047; EP 2024772; US 12/301.781
•P0600177; PCT/HU2007/000018; EP 1.994.398; US 12/281.566
•P0900741; PCT/HU2010/000130; EP 10812989.1.
•P0900142; PCT/HU2010/000027; EP 10726183.6
•P101036; PCT/IB2005/050351; EP 1789831; US 7.663.078
•P0301911; PCT/HU04/00019; EP 1644767; US 7327515
The above mentioned granted patent , granted utility model, regi tered trademark , pending
international and national patent application and the other corre ponding IP are the ole propertie
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 digitized slide(s)) that stems from or is associated with use of
Product, digitized 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).
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Pannoramic SCAN II 2.2.0 User’s Guide
CAUTION
Thi product ha not been approved or cleared a a medical device by the U.S. Food and Drug
Admini tration.
Do not u e thi device in clo e proximity to ource of trong electromagnetic radiation (e.g.
un hielded intentional RF ource ), a the e may interfere with the proper operation.
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.
Further Information
For the late t information on 3DHISTECH product and ervice , plea e vi it our web ite at the
following URL: http ://www.3dhi tech.com.
Company Addre : 3 Öv treet
1141 Budape t – HUNGARY
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Pannoramic SCAN II 2.2.0 User’s Guide About this User's Guide
About this User's Guide
The purpo e of thi manual i to a i t the u er in the afe and reliable operation of the product
de cribed. Before operating the device, you mu t carefully read thi in truction manual, and adhere
to all WARNING and CAUTION notice (refer to chapter Notes Regarding Operational Safety for
more information), and a copy hould be kept in the clo e proximity or near the canner for reference
whenever required.
Thi U er' Guide i a part of the Pannoramic® SCAN II y tem identified by the following article
number :
•SI2BGHM00010070001
•SI2BGHM00010090001
•SI2BGHM00020070001
•SI2BGHM00020090001
•SI2FPC40001007LUM1
•SI2FPC40001009LUM1
•SI2FPC4000A007LUM1
•SI2FPC4000A009LUM1
•SI2FGHM0001007SOL1
•SI2FGHM0001009SOL1
•SI2FGHM0002007SOL1
•SI2FGHM0002009SOL1
•SI2FGHM0001007LUM1
•SI2FGHM0001009LUM1
•SI2FGHM0002007LUM1
•SI2FGHM0002009LUM1
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Pannoramic SCAN II 2.2.0 User’s Guide Character Formats and Symbols
Character Formats and Symbols
Example Word or character that appear on the creen. The e include field name , creen
and window title , pu hbutton and menu name , path or option .
Key on the keyboard. For example, function key ( uch a F11) or the Ctrl+M key
combination.
Example Cro -reference within the document or to other document .
Warning! It might cau e irrever ible damage or harm to the u er of the product or the
product it elf if thi in truction i not followed.
Caution! It might cau e the product to not work properly if thi in truction i not followed
and alert to a potential danger ituation.
Note: Call attention to ome important feature .
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Pannoramic SCAN II 2.2.0 User’s Guide Character Formats and Symbols
Declaration of Conformity
3DHISTECH Ltd. declare that the product Pannoramic® SCAN II lide canner i de igned and
produced with con ideration of pecified requirement according to the tandard li ted below:
IEC 61010-1:2010, “Safety Requirement for Electrical Equipment for Mea urement, Control, and
Laboratory U e - Part 1: General Requirement ”
IEC 61010-2-101:2015, “ Safety Requirement for Electrical Equipment for Mea urement, Control,
and Laboratory U e – Part 2-101: Particular requirement for in vitro diagno tic (IVD) medical
equipment”
IEC 61010-2-081:2015, “Safety requirement for electrical equipment for mea urement, control and
laboratory u e - Part 2-081: Particular requirement for automatic and emi-automatic laboratory
equipment for analy i and other purpo e ”
IEC 62471:2006, “Photobiological afety of lamp and lamp y tem ”
IEC 61326-2-6:2012, “Electrical equipment for mea urement, control and laboratory u e - EMC
requirement - Part 2-6: Particular requirement - In vitro diagno tic (IVD) medical equipment”
Conformity with Directive IEC 61010-2-101 i marked by on the product labeling.
There i no further operator (u er) action required in ca e of re idual ri k .
Further information may be obtained from the manufacturer:
3DHISTECH Ltd.
3 Öv treet
1141 Budape t – HUNGARY
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Pannoramic SCAN II 2.2.0 User’s Guide Notes Regarding Operational Safety
Notes Regarding Operational Safety
The below ection of thi U er’ Guide contain information and warning of a kind that mu t be
followed by owner/operator per onnel.
Warning and advi ory ymbol which are u ed on the ba e unit of the Pannoramic® SCAN II and in
chapter 1.1.3 Warning and Information Labels have the following meaning :
CAUTION
Di connect main plug before any kind of intervention into the device!
CAUTION
Cru h hazard!
The Pannoramic® SCAN II, including any of it original acce ory component , hould not be operated
in any other way than de cribed in chapter 1.1.1 Intended Use.
Any of the following note hould be trictly ob erved:
Warning!
If operating the device other than pecified by the manufacturer, the level of
afety will decrea e.
Caution!
In the event of any non-conforming type of u e, including non-conforming u e
of a emblie or ingle part , no liability will be a umed by the Manufacturer.
Thi hall al o apply to ervice or repair work of any kind, which i performed by
other than duly authorized ervice per onnel. All claim for warranty and
warranty ervice will be null and void in any uch ca e.
Note:
The afety level of the equipment after ervicing will be identical with level of
the original equipment.
Warning!
In ert the power cord plug only into a grounding outlet. The protective action
mu t not be rendered ineffective by exten ion cable without protective
conductor. The Pannoramic® SCAN II ha a built-in protection which mu t not be
rendered ineffective by exten ion cable without protective (earth-ground)
conductor.
Warning!
Never operate the device in explo ion-ri k environment.
Warning!
If protective device are found to be ineffective, the Pannoramic® SCAN II mu t
be hut down and precaution mu t be taken to prevent unintended u age. For
nece ary repair work or work to re tore proper operating condition, you
hould contact the 3DHISTECH Cu tomer Service.
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Pannoramic SCAN II 2.2.0 User’s Guide Notes Regarding Operational Safety
Note:
Electric power to the Pannoramic® SCAN II i upplied via an external main
power upply unit. It allow for operation at line voltage in the range of 100 V
to 240 V ±10%, 50/60 Hz, without any extra facilitie required for voltage
tran formation.
Warning!
Check that your local line voltage i compatible with Pannoramic® SCAN II
pecification before you turn power on.
Disconnect plug!
Remember to unplug the power cord before you open the Pannoramic® SCAN II
main unit for maintenance.
Warning!
Only connect external device to the in trument which are approved to avoid
the ri k of electrical hock.
Warning!
Pannoramic® SCAN II doe not include any pecial facilitie to protect from
ample with an etching, potentially infectiou , toxic, radioactive or other
health-damaging effect. You are under obligation to comply with all currently
binding legi lation, notably, national accident prevention rule when handling
ample of thi kind.
Caution!
Dirt or du t may adver ely impact the operating capability of the Pannoramic®
SCAN II. For thi rea on, mea ure mu t be taken to eliminate uch influence to
a maximum po ible degree. During period of non-u e, the Pannoramic® SCAN
II mu t be protected with a du t cover. Check that power i turned off before
you put the cover on.
Caution!
Do not po ition the equipment o that it i difficult to operate and to di connect
the device if nece ary.
Crush hazard!
There i cru h hazard in the movement area of the lide in ert during operation.
Plea e note that the digitizing proce ha to be interrupted and the in ert
moved via oftware to the output po ition before removing the in ert.
Warning!
A defective Pannoramic® SCAN II i not cla ified a dome tic wa te. It mu t be
properly di po ed in accordance with currently valid legal requirement .
Warning!
The Pannoramic® SCAN II may not be operated by other than properly
in tructed per on . Operating per onnel mu t be fully aware of the potential
danger which a particular field of application involve . The Pannoramic® SCAN
II i a preci ion in trument which may uffer a ignificant reduction in
operational function or even phy ical de truction following intervention
performed in any nonconforming manner.
Warning!
If a Lumencor SOLA SM II illumination unit i u ed, the corre ponding warning
included in the manufacturer’ operating manual have to be ob erved.
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Pannoramic SCAN II 2.2.0 User’s Guide Notes on Warranty
Notes on Warranty
3DHISTECH Ltd. – a the Product Manufacturer – warrant the Pannoramic® SCAN II to be free from
fault in material and workman hip at the moment of in tallation. Defect mu t be notified
immediately on identification and maximum effort mu t be undertaken in order to the amount of
damage a mall a po ible. On receiving notice of a fault, the Product Manufacturer will be under
obligation to remove the fault, at hi own option, either by providing adequate repair ervice or by
delivering a faultle product for replacement. No warranty will be accepted in ca e of natural wear
(notably, wear and tear part ) or improper product handling.
The Product Manufacturer will refu e any liability in the event of damage re ulting from faulty
operation, negligence or unauthorized intervention into the product, notably, from the replacement
of product part or the u age of acce ory part from other manufacturer . Any uch ca e will void
the u er’ claim for warranty.
Except for action which i explicitly de cribed in thi U er’ Guide, you are prohibited from
performing any kind of maintenance or repair work at the Pannoramic® SCAN II. Only 3DHISTECH
Service per onnel or pecifically authorized repre entative are allowed to handle repair work. In
ca e of malfunction, contact the 3DHISTECH Service Support fir t.
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Pannoramic SCAN II 2.2.0 User’s Guide Terms and Abbreviations
Terms and Abbreviations
CSV Comma Separated Value
FOV Field of View
NA Numerical Aperture
Virtual Slide / Slide A digital image of a thin gla plate on which pecimen are mounted for
micro copic tudy:
a dynamic, interactive image that you can manage, ave, magnify, zoom, name,
evaluate, annotate, mark, comment, end it to a colleague electronically for co-
operation or advice, and o on.
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Pannoramic SCAN II 2.2.0 User’s Guide 1 Product Description
1 Product Description
1.1 Product Overview
1.1.1 Intended Use
The Pannoramic® SCAN II i de igned to u e tran mitted light and reflected light fluore cence to
digitize biological ample and pecimen (hi tological ection , typically). The target u er of the
product can work for example, in education, re earch, indu trial, or medical ector .
Warning!
After each canning make ure to in pect the digital lide for over-expo ed
area . If the lide i canned ba ed on improperly et parameter , it can
highly affect the diagno tic re ult becau e of information lo .
Warning!
Any modification to a hardware or oftware component of the PC will
highly affect the functionality of the canner program.
1.1.2 Features and Benefits
The Pannoramic® SCAN II offer world cla brightfield and fluore cent whole lide canning on up to
9 channel . An out tanding 0.12 µm/pixel (in Brightfield) and 0.16 µm/pixel (in Fluore cent)
re olution i achieved with the 40×/NA 0.95 (equivalent to 80× magnification in BF and 62×
magnification in FL) Plan-Apochromat objective.
Key feature of the Pannoramic® SCAN II Scanner are:
•A ingle monochrome camera i u ed for both Brightfield and Fluore cent canning mode
•LED-ba ed RGB illumination unit
•Up to 9 freely electable phy ical color filter for fluore cence
•High-end fluore cent illumination device – Lumencor SPECTRA 6 Light Engine
•Multiband filter upport
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Pannoramic SCAN II 2.2.0 User’s Guide 1.1.2 Features and Benefits
•FL canning with a low-noi e, 16-bit cientific CMOS pco.edge 4.2 camera
•Software-aimed flat-field correction compen ation method to create homogeneou lide
image
•150- lide automatic loading and canning
•Improved permanent autofocu
•3MP camera for barcode reading and preview image
•Image harpening (both for Fluore cence and Brightfield) feature which improve the vi ual
appearance of digital lide
•Focu algorithm find the focu which i mo t appealing to the human eye
•Compact and robu t device
•Good quality and table manufacturing
Pannoramic® SCAN II i an optimal choice for cu tomer who need high quality daily throughput
granted by the loading capacity of 150 lide .
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Pannoramic SCAN II 2.2.0 User’s Guide 1.1. Warning and Information Labels
1.1.3 Warning and Information Labels
The following figure contain the label u ed on the Pannoramic® SCAN II main unit, the external
main power upply unit, and the Lumencor SOLA SM II illumination unit.
Figure 1 – Warning and information labels
NOTE: The ymbol at the feeder lot call attention to bio-hazardou material in u e.
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Pannoramic SCAN II 2.2.0 User’s Guide 1.1.4 Base Unit
1.1.4 Base Unit
The following figure how the main part of the ba e unit.
Figure 2 – Main parts of base unit
1. Protective cover
2. Output tack for magazine
3. Input tack for magazine
4. Protective cover for magazine loader
5. Magazine feeder door/cover
6. Point Grey Gra hopper 3 or pco.edge 5.5 camera
7. Protective rail
Fluorescent option A
8. Lumencor SOLA SM II fiber-coupled illumination unit (can be u ed with Point Grey Gra hopper 3
camera only)
9. Lumencor illumination adapter
10. Lumencor illumination cable
Fluorescent option B
8. Lumencor SPECTRA 6 Light Engine fiber-coupled illumination unit
9. Lumencor illumination adapter
10. Lumencor illumination cable
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Pannoramic SCAN II 2.2.0 User’s Guide 1.2 System Overview
1.2 System Overview
The tandard cope of delivery of the product include the following hardware and oftware
component .
1.2.1 Pannoramic® SCAN II system
The following figure how the main part of the Pannoramic® SCAN II y tem.
Figure 3 – Pannoramic® SCAN system overview
1. Lumencor SOLA SM II fiber-coupled illumination unit (optional)
2. 24 V external power upply unit
3. Lumencor SPECTRA 6 Light Engine (optional)
4. Monitor
5. Mou e
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Pannoramic SCAN II 2.2.0 User’s Guide 1.2.1 Pannoramic® SCAN II system
6. Control computer
7. Keyboard
8. Pannoramic® SCAN II ba e 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
Point Grey Grasshopper 3
1 CCD monochrome camera for high-quality en itive
fluore cent application .
pco.edge 4.2
Equipped with a high-quality CMOS image en or for
fluore cent application allowing fa t canning and an
out tanding low read out noi e. High quantum efficiency,
cooled with Peltier element.
Camera adapters
0.63× adapter (for Point Grey
Gra hopper 3 only)
1× adapter
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Pannoramic SCAN II 2.2.0 User’s Guide 1.2.2 Hardware Options
Warning!
The in tallation of the camera in Pannoramic® SCAN II mu t be carried
out by trained profe ional , otherwi e the warranty will be
automatically voided. The upplier or di tributor i not liable for any
damage cau ed by an in tallation carried out by an unprofe ional
per on.
Base Unit options
•Pannoramic® SCAN II Ba ic Scan Option / Fa t Option – ba e unit equipped with Point Grey
Gra hopper 3 camera for Brightfield canning (no fluore cent acce orie included)
•Pannoramic® SCAN II Ba ic Brightfield and Fluore cence Option – ba e unit completely
equipped with Point Grey Gra hopper 3 camera and Lumencor SOLA SM II (non-triggered)
or Lumencor SPECTRA 6 fluore cent illumination unit, with filter for fluore cence canning
•Pannoramic® SCAN II Advanced Brightfield and Fluore cence Option – ba e unit completely
equipped with pco.edge 4.2 camera and Lumencor SPECTRA 6 fluore cence illumination
unit, trigger cable and filter for fluore cence canning
NOTE: If Lumencor SPECTRA 6 i ordered, the cu tom light ource and filter module can be
variable. For more information, contact 3DHISTECH cu tomer ervice.
Objectives
•Plan-Apochromat 10×/NA 0.45 (optional, can be u ed only for FL canning)
•Plan-Apochromat 20×/NA 0.8
•Plan-Apochromat 40× Corr/NA 0.95
Warning!
Do not change correction collar etting on the 40×/NA objective, if
you need it to be et, contact cu tomer ervice.
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