Iscan Coreo Au User Manual PDF

iScan Coreo Au™ User Manual
Ventana Medical Systems, Inc., 919 Hermosa Court, Sunnyvale, CA 94085

Part No.: PL-000103-US Rev A
COPYRIGHT
iScan Coreo Au v. 3.3
Copyright © 2011. Ventana Medical Systems, Inc.
All rights reserved.
iScan, Virtuoso, Ventana, and the Ventana logo are trademarks of Roche. All other trademarks are the property of their
respective owners.
The iScan Coreo Au v. 3.3 is protected by contract law, copyright laws, and international treaties.
The iScan Coreo Au v. 3.3 is licensed for use between Ventana Medical Systems, Inc. and a licensee, and only users authorized
there under are permitted to access and use the software. Unauthorized use and distribution may result in civil and criminal
penalties.
OPEN SOURCE AND COMMERCIAL SOFTWARE
iScan Coreo Au v. 3.3 might contain components or modules that are Open Source or Commercial Software programs. For
copyright and other notices and licensing information regarding such Software programs included with iScan Coreo Au v. 3.3
please see Appendix F of the user manual and the product on-line help pages included with the product.
The product and the iScan Coreo Au v. 3.3 as a whole may form a regulated device in accordance with the applicable laws -
please refer to the user manual and the labeling for details. Please note that the respective authorization in accordance with the
applicable laws lapse in case of any unauthorized changes to the iScan Coreo Au v. 3.3.
Portions of iScan Coreo Au v. 3.3 might include one or more Open Source or Commercial Software programs. For copyright
and other notices and licensing information regarding such Software programs included with iScan Coreo Au v. 3.3 please see
Appendix F of the user manual and the product on-line help pages included with the product.
DISCLAIMER
Ventana products are FDA cleared for specific clinical applications, and are intended for research use for other
applications..
GOVERNMENT LIMITED AND RESTRICTED RIGHTS LEGEND
If this product is licensed for use by the United States or for use in the performance of a United States government prime contract
or subcontract, you agree that this product is delivered as: (i)”commercial computer software” as defined in DFARS
252.227-7013, Rights in Technical Data - Noncommercial Items (Oct. 1988), DFARS 252.227-7014 Rights in Noncommercial
Computer Software and Noncommercial Computer Software Documentation (Jun. 1995), and DFARS 252.211-7015 Technical
Data Commercial Items (May 1991); (ii) as a “commercial item” as defined in FAR 2.101; or (iii) as “restricted computer
software” as defined in FAR 52.227-19, Commercial Computer Software ― Restricted Rights (Jun. 1987); whichever is
applicable. The use, duplication, and disclosure of this product by the Department of Defense shall be subject to the terms and
conditions set forth in the accompanying license agreement as provided in DFARS 227.7202 (Oct. 1998). All other use,
duplication and disclosure of this product and documentation by the United States shall be subject to the terms and conditions
set forth in the accompanying license agreement and the restrictions contained in subsection (c) of FAR 52.227-19, Commercial
Computer Software ― Restricted Rights (Jun. 1987), or FAR 52.227-14, Rights in Data ― General Alternative III (Jun. 1987).
Contractor/licensor is Ventana Medical Systems, Inc, 919 Hermosa Court, Sunnyvale, CA 94085.
Other product and company names mentioned herein are the trademarks of their respective owners.
Contact Information:
Ventana Medical Systems, Inc. Roche Diagnostics GmbH
a Member for the Roche Group Sandhofer Strasse 116
1910 Innovation Park Drive D-68305 Mannheim
Tucson, AZ 85755 Germany
USA
+1 520 887 2155
+1 800 227 2155 (USA)
www.ventanamed.com
Contents
About This Manual . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .1
Welcome! . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
This Manual Includes Instructions to: . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
Who Should Read This Manual? . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
What’s in this Manual? . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
Related Document . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
Terms Used in this Manual . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2
Chapter 1: Safety Requirements and Notifications . . . . . . . . . . . . . . . . . . . . . . .3

Topics Covered in this Chapter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3
Technical Support. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3
Symbols and Warnings . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4
Intended Use . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4
Instrument Warnings . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4
Instrument Labels. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5
Safety Instructions . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
Installation Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
Operating Environment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
Work Surface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
AC Power . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8
Local Area Network (LAN) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9
Telephone Use . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9
Software Compatibility . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9
Hardware Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10
Computer and Monitor Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10
Compliance Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10
Software Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
Cyber Security . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
User Authorization . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .11
Securing Networks and Servers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .11
Protecting Data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .12
Environmental Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12
Temperature, Humidity, Elevation. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12
Input and Output Connections. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13
Scanner Specifications. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13
Access Doors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .13
LCD Monitor . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13
Equipment Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13
Cleaning Scanner Casing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 14
Cleaning Scanner Tray . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 14
Chapter 2: Slide Specifications and Handling . . . . . . . . . . . . . . . . . . . . . . . . . . 15

Topics Covered in this Chapter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
Standard Slide . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
Slide Length, Width, Thickness . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16
Slide Scannable Region . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16
Slide Label Region . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16
Slide Label . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 18
Overlapping Labels (Overlabeling) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .18
Barcode Formats Supported . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 19
Slide Cover Slip . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20
Tissue-Tek® Sakura Basket. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20
Part No.: PL-000103-US Rev A iii

Table of Contents iScan Coreo Au User Manual
Scanner Tray . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20
Slide Cache Tray (Slide Deposit Errors) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 23
Manual Slide Removal . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 24
Chapter 3: iScan Coreo Au Operating Procedures . . . . . . . . . . . . . . . . . . . . . . 25

Topics Covered in This Chapter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 25
Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26
Digital Pathology Applications Enabled by iScan Coreo Au . . . . . . . . . . . . . . . . . . . . . . 26
iScan Coreo Au Features . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26
Operation Prerequisites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
Operating Procedures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
Start Up Scanner System . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
Start Up the Scanner Console . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 28
Tooltips. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30
Tool Bar Buttons . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30
Show or Hide Tool Bar, Status Bar, Rack Map, Thumbnail Pane . . . . . . . . . . . . . . . . . . . . . 31
Show . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Hide . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Move Tool Bar . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Lock/Unlock Tool Bar . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Resize Thumbnail, Rack Map, Slide Setup Table Panes . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Restore Console to Default Configuration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Review Information about Scanner . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Open and View Online Help. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Open Scanner Door . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32
Insert Slide Tray into Scanner . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32
Random Slide Access . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32
Close Scanner Door/Start Slide Detect . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32
Slide Detect Process . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32
Perform Walk Away Scan or Manual Scan . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 37
One-Touch, Walk Away Scan . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 37
Walk Away Scan Procedures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38
Scanner Console After Successful Walk Away Scan . . . . . . . . . . . . . . . . . . . . . . . . . . . 39
Manual Scan . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
Manual Scan Procedures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
Re-Scan a Slide after a Successful Scan . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61
Shut Down Scanner Console . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61
Shutdown from File Menu . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61
Shutdown from Console . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61
iScan Coreo Au Tool Bar Button Definitions . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 62
Keyboard Shortcuts . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 65
Slide Scanning Color Codes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 66
Set Up and Configure Scanner User Accounts . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 68
Administrator Account . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 68
User Account . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 68
Setting Up (Creating/Adding) New Accounts . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 69
Modify An Account . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 71
Delete An Account . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 72
Configure General Settings . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 73
Slide Scanning Parameters . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 74
Configure Output Filenames . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 75
Slide Naming Parameters . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 77
Configure Slide Filenames from 2D Barcodes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 78
Configure Rack Map Orientation. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 84
iv Part No.: PL-000103-US Rev A
iScan Coreo Au User Manual Table of Contents
Chapter 4: iScan Coreo Au Live (Remote Telepathology) . . . . . . . . . . . . . . . . . .87

Topics Covered in This Chapter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 87
System Requirements . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88
Screen Resolution . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88
Start up iScan Coreo Au Live . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88
Starting up from a Browser . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88
Starting up from the iScan Coreo Au Desktop. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 89
Starting up from the iScan Coreo Au Console . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90
iScan Coreo Au Live Features . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 91
iScan Coreo Au Live Thumbnail Console . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 91
Capture a Thumbnail . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 94
Open a Slide in the Live Viewer Console Window . . . . . . . . . . . . . . . . . . . . . . . . . . . . 97
iScan Coreo Au Live Viewer Console. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 99
Perform Live, Remote Telepathology . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 105
Examine an Image . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .105
Enlarge (Zoom Thumbnail) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .106
Take, Save, and Export a Snapshot of an Image . . . . . . . . . . . . . . . . . . . . . . . . . . . . .108
Close an Image . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .111
iScan Coreo Au Live Collaboration Feature. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 112
iScan Coreo Au Live Application Installation for Remote Users . . . . . . . . . . . . . . . . . . .112
Login to a Hosted Session . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .112
Hosting Remote iScan Coreo Au Live Users . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .113
Remote Chat . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .114
Granting Control Over the Collaboration Session . . . . . . . . . . . . . . . . . . . . . . . . . . . .114
Ending the Collaboration Session. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .115
iScan Coreo Au Live Tool Bar Button Reference Guide . . . . . . . . . . . . . . . . . . . . . . . . . . 116
Thumbnail Console Tool Bar Buttons . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .116
iScan Coreo Au Live Viewer Console Tool Bar Buttons . . . . . . . . . . . . . . . . . . . . . . . . .118
Chapter 5: Image Viewer. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 125

Topics Covered in this Chapter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 125
Viewer Console. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 125
Main Window. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .126
Magnification Tool . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .126
Thumbnail Window . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .127
Status Bar . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .128
Tool Bars . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .128
Viewer Operating Procedures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 129
Setting Up Image Server . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .130
Starting Up Image Viewer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .131
View Information about the Viewer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .132
Open and View Online Help . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .132
Configure General Settings . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .132
Open Local Image. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .132
Open Remote Image . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .133
View Layered Volume Scans (Z-Stacking) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .133
Open Recent Image . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .136
View Slide Information . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .136
Move Tool Bars . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .136
Arrange Multiple Images in Cascade Format . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .136
Arrange Multiple Images in Tile Format . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .137
Change Magnification of Images . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .138
Enhance Images . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .138
Show/Hide Thumbnail Window . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .138
Part No.: PL-000103-US Rev A v

Resize and Move Thumbnail Window . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 139

Change Border Color of Focus Box . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 139
Adjust Area of Interest . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 139
Track Areas of Interest Visited . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 139
Highlight Areas of Interest Visited . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 140
Measure Areas of Interest . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 140
Display Measurements . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 141
Draw Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 141
Change Annotation Color . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 142
Create and Display Text Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 142
View Text Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 142
Modify or Delete Text Annotations. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 143
Save Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 144
Export Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 144
Create a Counter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 145
Reset Counter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 146
Remove (Delete) Counter. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 146
Edit Counter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 146
Export Count Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 147
Import Count Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 147
Merge Count Annotations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 147
Save a Snapshot of an Image . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 148
Incorporate a Saved Snapshot into a PowerPoint Presentation . . . . . . . . . . . . . . . . . . 149
Close Images . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 150
Shut Down the Image Viewer Console. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 150
Viewer Features . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 151
Menus . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 151
Tool Bar Button Reference Guide . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 164
Appendix A: iScan Coreo Au Cable Diagram . . . . . . . . . . . . . . . . . . . . . . . . . .173
Appendix B: iScan Coreo Au Error Messages . . . . . . . . . . . . . . . . . . . . . . . . . .175
Appendix C: iScan Coreo Au Diagnostic Module . . . . . . . . . . . . . . . . . . . . . . .177

When Can You Run the Diagnostic Module?. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 177
Diagnostic Module Operating Procedures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 177
Open Diagnostic Module . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 178
Put Diagnostic Slides in Prescribed Slots in Tray . . . . . . . . . . . . . . . . . . . . . . . . . . . . 181
Load Diagnostic Slides into Scanner . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 182
Run Quality Check Diagnostic . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 183
Run Flat Field Diagnostic . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 184
Jog an Axis . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 185
Run Stage Access Diagnostic . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 188
Close Diagnostic Module . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 188
Appendix D: iScan Coreo Au Live Application Installation . . . . . . . . . . . . . . . .189
Appendix E: Image Viewer Open Source and Commercial Software Information .195
Image Viewer License Statement . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 195
Image Viewer Open Source and Commercial Software . . . . . . . . . . . . . . . . . . . . . . . . . . 195
Open Source . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 195
Commercial. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 195
Licensing Information for Open Source and Commercial Software . . . . . . . . . . . . . . . . 195
Appendix F: iScan Coreo Au Open Source and Commercial Software Information 203
iScan Coreo Au Open Source and Commercial Software . . . . . . . . . . . . . . . . . . . . . . . . . 203
vi Part No.: PL-000103-US Rev A

iScan Coreo Au User Manual Table of Contents
Open Source . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .203

Commercial . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .203
Licensing Information for Open Source and Commercial Software . . . . . . . . . . . . . . . . .203
Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 213
Part No.: PL-000103-US Rev A vii

viii Part No.: PL-000103-US Rev A

iScan Coreo Au User Manual About This Manual
About This Manual
Welcome!
Welcome to the iScan Coreo Au digital slide scanning system. Using this system, you can digitize up to 160 tissue slides at the touch
of a button and view the images locally or remotely.
This Manual Includes Instructions to:

• Safely handle and work with the scanner.
• Use the scanner to perform a one-touch, Walk Away Scan of one or more slides.
• Use the scanner to perform a Manual Scan of one or more slides.
• Use the scanner remotely in iScan Coreo Au Live
• Use the Image Viewer to view digital-scanned slides locally or remotely.
Who Should Read This Manual?

• Pathologists and/or Technologists using the scanner to scan slides
• Pathologists and/or Technologists using the Image Viewer to view digital images of slides
What’s in this Manual?
Safety Requirements and Notifications “Chapter 1: Safety Requirements and Notifications” on page 3
Slide Specifications and Handling “Chapter 2: Slide Specifications and Handling” on page 15
Scanner Operating Procedures “Chapter 3: iScan Coreo Au Operating Procedures” on page 25
One-Touch Walk Way Scan “One-Touch, Walk Away Scan” on page 37 in “Chapter 3: iScan Coreo Au Operating
Procedures”
Manual Scanning “Manual Scan” on page 40 in “Chapter 3: iScan Coreo Au Operating Procedures”
iScan Coreo Au Live “Chapter 4: iScan Coreo Au Live (Remote Telepathology)” on page 87
Image Viewer Features “Viewer Features” on page 151 in “Chapter 5: Image Viewer”
Image Viewer Operating Procedures “Viewer Operating Procedures” on page 129 in “Chapter 5: Image Viewer”
System Cable Connections “Appendix A: iScan Coreo Au Cable Diagram” on page 173
Error Messages “Appendix B: iScan Coreo Au Error Messages” on page 175
Diagnostic Module “Appendix C: iScan Coreo Au Diagnostic Module” on page 177

Image Viewer License Statement and “Appendix E: Image Viewer Open Source and Commercial Software Information” on page 195
Open Source and Commercial Software
Information
iScan Coreo Au Open Source and “Appendix F: iScan Coreo Au Open Source and Commercial Software Information” on page 203
Commercial Software Information
Related Document
For additional information, see the Virtuoso™ User Manual.
Part No.: PL-000103-US Rev BA 1

About This Manual iScan Coreo Au User Manual
Terms Used in this Manual

button Sometimes called a command button or push button, it provides a simple way to trigger an event
or interact with dialog boxes. A typical button is a round-rect or rectangle, wider than it is tall,
with a descriptive caption in its center. The most common method of pressing a button is clicking
it with a pointer controlled by a mouse. A button is not always a rectangular shape. The sole
requirement of button interaction is that a command can be executed by a mousedown action.
Pictures and background areas can be programed as buttons.
desktop A desktop environment (sometimes desktop manager) offers a graphical user interface (GUI) to the
computer. A desktop typically provides icons, windows, tool bars, folders, wallpapers, and abilities
like drag and drop. The design and function of a desktop environment usually endow it with a
distinctive look and feel.
GLP: Good Lab Practice Generally refers to a system of management controls for laboratories and research organizations
to ensure the consistency and reliability of results as outlined in the OECD Principles of GLP and
national regulations. GLP embodies a set of principles that provides a framework within which
laboratory studies are planned, performed, monitored, recorded, reported and archived. GLP helps
assure regulatory authorities that the data submitted are a true reflection of the results obtained
during the study and can therefore be relied upon when making risk/safety assessments.
icon An image, picture, or representation. A sign or likeness that stands for an object by signifying or
representing it.
menu: drop-down and pull-down A menu is a list of commands presented to an operator by a computer or communications system.
They are primarily shortcuts to frequently used commands. A computer using a GUI presents menus
with a combination of text and symbols to represent choices. By clicking on one of the symbols,
the operator is selecting the instruction that the symbol represents. A context menu is a menu in
which the choices presented to the operator are automatically modified according to the current
context in which the operator is working. A common use of menus is to provide convenient access
to various operations such as saving or opening a file, quitting a program, or manipulating data.
Most interfaces provide a pull-down or pop-up menu. Pull-down menus are commonly used in menu
bars (usually near the top of a window or screen), which are most often used for performing
actions; pop-up menus are more likely to be used for setting a value, and might appear anywhere
in a window.
pane A pane is a sectioned window on a graphical display. Examples of this usage include a file browser
with multiple panels.
screen A computer display monitor, usually referred to as a monitor.
tab A navigational method for switching between documents. Traditionally designed as a text label
within a rectangular box with its top borders rounded. Activating a tab (usually by a mouse click)
makes its associated document visible and the tab itself usually becomes highlighted to distinguish
it from other inactive tabs. Generally, only one tab can be active at a time.
window A visual area, usually rectangular in shape, containing some kind of user interface, displaying the
output of and allowing input for one of a number of simultaneously running computer processes.
Windows are primarily associated with graphical displays, where they can be manipulated with a
pointer. A GUI that includes windows is called a windowing system.
workstation A high-end desktop or deskside microcomputer designed for technical applications. Workstations
are intended primarily to be used by one person at a time, although they can usually also be
accessed remotely by other users when necessary.
2 Part No.: PL-000103-US Rev BA

iScan Coreo Au User Manual Chapter 1: Safety Requirements and Notifications
Chapter 1: Safety Requirements and Notifications
You must read and understand and follow the safety requirements and notifications in this chapter before using the iScan Coreo Au
slide scanner.
Topics Covered in this Chapter

• Technical Support, page 3
• Symbols and Warnings, page 4
• Intended Use, page 4
• Instrument Warnings, page 4
• Instrument Labels, page 5
• Safety Instructions, page 6
• Installation Specifications, page 7
• Operating Environment, page 7
• Work Surface, page 7
• AC Power, page 8
• Local Area Network (LAN), page 9
• Telephone Use, page 9
• Software Compatibility, page 9
• Hardware Specifications, page 10
• Computer and Monitor Specifications, page 10
• Compliance Specifications, page 10
• Software Specifications, page 11
• Cyber Security, page 11
• Environmental Specifications, page 11
• Temperature, Humidity, and Elevation, page 12
• Input and Output Connections, page 13
• Scanner Specifications, page 11
• LCD Monitor, page 13
• Equipment Maintenance, page 13
• Cleaning Scanner Casing, page 14
• Cleaning Scanner Tray, page 14
Technical Support
Ventana Medical Systems, Inc. Tel (USA): +1 800 227 2155; for Technical Support, press 1
1910 Innovation Park Drive Tel: +1 520 887 2155; for Technical Support, press 1
Tucson, AZ 85755
USA
Part No.: PL-000103-US Rev A 3

Chapter 1: Safety Requirements and NotificationsiScan Coreo Au User Manual
Symbols and Warnings

.
This symbol emphasizes important information regarding hazards or practices that could directly or indirectly lead
to product damage, minor personal injury, serious personal injury, or even death. There are three types of hazard
statements associated with this symbol:
1 Caution
2 Warning
3 Danger
This symbol alerts the user to the danger of exposure to hot surfaces.
Intended Use
The iScan Coreo Au slide scanner system is designed to be used to scan and digitize microscope slides, and compress and view
digitized images of microscope slides.
If the scanner is used in any way not specified in this manual, the protection provided by the equipment may be compromised.
CAUTION: THE iSCAN COREO Au SLIDE SCANNER GENERATES, USES, AND CAN RADIATE RADIO FREQUENCY
ENERGY.
If not installed and used in accordance with the instructions in this manual, the scanner may cause interference to
radio communications. The scanner has been tested and found to comply with the limits for a Class A computing
device (pursuant to Subpart B of Part 15 FCC Rules), which are designed to provide reasonable protection against
such interference when the scanner is operated in a commercial environment. Operation of the scanner in a
residential area can cause interference, in which case the user, at his own expense, will be required to take whatever
measures necessary to correct the interference.
Instrument Warnings
CAUTION: RISK OF ELECTRIC SHOCK. DO NOT OPEN.
To reduce the risk of electric shock, do not remove any cover or panel. No user-serviceable parts are inside. Refer
servicing to qualified service personnel.
WARNING: DO NOT EXPOSE THE iSCAN COREO Au SLIDE SCANNER TO RAIN OR MOISTURE.
To reduce the risk of fire or electric shock, do not expose the iScan Coreo Au slide scanner to rain or moisture.
DANGER: SHOCK HAZARD. DO NOT OPEN.
4 Part No.: PL-000103-US Rev A

Instrument Labels
UL
ATTENTION: CONSULT ACCOMPANYING DOCUMENTS.
CAUTION: REPLACE FUSE ONLY WITH A UL LISTED OR RECOGNIZED 250V 2A RATED FUSE.
ATTENTION: DISPOSAL OF THE SCANNER UNIT MUST BE PERFORMED UNDER WASTE

ELECTRICAL AND ELECTRIC EQUIPMENT (WEEE) GUIDELINES.
CLASS 1 LASER PRODUCT
CAUTION: Complies with 21 CFR 1040.10 except for deviations pursuant to Laser Notice No.
50, dated June 24, 2007.
The iScan Coreo Au slide scanner system uses an embedded Class 3R Laser.
The use of controls or the adjustment or performance of procedures other than those specified
herein may result in hazardous radiation exposure.

Safety Instructions
Operating Instructions •Read all safety and operating instructions before operating the scanner.
•Retain all safety and operating instructions for future reference.
Posted and Written Warnings •Heed all warnings posted on the scanner and listed in the operating instructions.
Product Use Instructions •Follow all operating and product use instructions.
Heat •The scanner must be situated away from any heat sources such as radiators, heat registers, stoves,
or other products that produce heat.
Ventilation •Slots and openings in the scanner provide ventilation. They insure reliable operation of the scanner,
keeping it from overheating. These openings must not be blocked or covered during operation. The
scanner should not be placed in a rack, unless proper ventilation is guaranteed by following the
recommended installation procedures.
Water and Moisture •Do not use the scanner near water; for example, near a water bath, wash bowl, kitchen sink or
laundry tub; in a wet basement; or near an open pool of water, et cetera.
Attachments •Do not use any attachments that are not recommended, as they may cause hazards.
Power Sources •The scanner must be operated from the type of power source indicated on the marking label and in
the installation instructions. If you are not sure of the type of power supply to your facility, consult
your local power company.
Grounding and Polarization •The scanner is equipped with a polarized AC plug with integral safety ground pin. Do not defeat the
safety ground in any way, shape, or form.
Power Cord Protection •Power supply cords must be routed so that they are not walked on or pinched by items placed on or
against them. Pay particular attention to the cords at AC wall plugs and convenience receptacles,
and at the point where the cord enters the product.
Note: Power supply cords must be readily accessible in case power to the unit must be intentionally
interrupted.
Lightning •For added protection for the scanner during a lightning storm, or when the scanner is left
unattended and unused for long periods of time, unplug the scanner from the AC wall outlet. This
will prevent damage to the scanner due to lightning and power line surges.
Overloading •Do not overload AC wall outlets, extension cords, or integral convenience outlets; this can result in
a fire or an electric shock hazard.
Object and Liquid Entry •Never push objects of any kind into the scanner through openings in the scanner; they may touch
dangerous voltage points or short out parts, possibly resulting in a fire or electric shock. Never spill
liquid of any kind on the scanner. Do not place liquids on the scanner.
Accessories •Do not place the scanner on an unstable cart, stand, tripod, bracket, or table. The scanner could
fall, causing serious personal injury and/or damage to the scanner.
•Any mounting of the scanner must be done according to the installation instructions.
•Do not attempt to connect accessories or use cabling not explicitly provided for the scanner.
Stationary Equipment •The scanner should be moved only with extreme care. Quick stops, excessive force, and uneven
surfaces may cause the scanner to overturn.
Neighboring Devices •Electromagnetic interference (EMI) from external sources could affect scanner operation. The
scanner should be set off far enough from neighboring devices to prevent any problems with EMI.
•Vibrations or jolts from neighboring devices can skew scanner performance. The scanner should be
set off far enough from neighboring devices to prevent any problems caused by vibrations or jolts.
Network Connections •The scanner must be set up and configured as specified in this document in order to work properly
over the internet.
Insects •Do not allow insects to find their way into the scanner System. They could damage internal parts
and negatively impact system operation or performance.
Servicing •Refer all servicing to Certified Service personnel.

Damage Requiring Service •Unplug the scanner from the wall AC outlet and refer all servicing to Certified Service personnel
under the following conditions:
- When the AC cord or plug is damaged.
- If liquid is spilled on the scanner.
- If objects are dropped inside the scanner.
- If the scanner is exposed to rain or water.

- If the scanner does not operate normally (according to operating instructions).
- If the scanner is dropped or is damaged in any way.
- When the scanner exhibits a distinct change in performance. (This may indicate a need for service.)
Replacement Parts •When replacement parts are required, confirm that the Service Technician uses the specified
replacement parts. Unauthorized substitutions may result in fire, electric shock, or other hazards.
•CAUTION: Replace fuse only with a UL Listed or Recognized 250V 2A rated fuse.
Safety Check •Upon completion of any repairs to the scanner, ask the Service Technician to perform safety checks
to determine that the scanner is in proper operating condition.
Cleaning •Do not use chemical cleaners or solvents. Use warm water with mild soap on a damp, soft cloth;
rinse and dry with a clean, damp cloth.
Product Disposal Instructions •Dispose of any and all scanner parts according to the guidelines and regulations specified by your
city for electronic equipment and/or electronic component disposal.
Installation Specifications
CAUTION: THE iSCAN COREO AU SLIDE SCANNER INSTALLATION AND SETUP SHOULD BE PERFORMED ONLY BY A
CERTIFIED TECHNICIAN.
CAUTION: THE REAR OF THE SCANNER NEAR THE POWER SWITCH AND THE POWER CONNECTION SHOULD BE
READILY ACCESSIBLE SO POWER TO THE UNIT CAN BE CUT OR DISCONNECTED.
Operating Environment
Lighting In work area: good and bright.
Air In the room: clean and cool (at or below 70 degrees F, 21 degrees C), with relative humidity not to exceed 70 percent.
Work Surface
Rigid Lab Bench Tabletop space: 60" x 30" (deep)
Weight Support To hold scanner unit and monitor: 150 lbs (~46 kg)
User Access In front of scanner: 3 ft. (minimum)
Note: The rear of the scanner near the power switch and the power connection should be readily accessible
so power to the unit can be cut or disconnected.
Space Beneath Bench To store computer that comes with scanner: 24" x 12" x 24" (high)

Figure 1-1 Scanner System Work Surface
AC Power
CAUTION: USE THE CORRECT POWER CORD.
If the power cord supplied with the scanner does not match the wall plug configuration, do not use the cord. Contact
Ventana Medical Systems to obtain the proper cord. At least one grounded dual AC wall socket (3-conductor) is
recommended for a power source. A surge protector is also recommended.

Local Area Network (LAN)
Network Internet access is required, with a fixed IP (or access through firewalls)
Transfer rate 100 Mbit/sec
LAN connection, with Internet access Required for remote maintenance of the scanner over the Internet.
Note: A LAN connection is not required to operate the scanner. A LAN connection is
required only if remote access is necessary.
Telephone Use
Location Near the scanner work area in the lab.
Use Facilitates communication between technical personnel and scanner Operator (as needed).
Software Compatibility
Do not install any other software or •Other software or hardware could interfere with scanner operation and void the
hardware on the system. warranty.
The controller computer comes with virus •The Antivirus software that comes with the scanner has been tested and validated by
detection software installed. Ventana. We can guarantee the scanner's performance ONLY with supported versions of
Antivirus software. We currently support the following Antivirus software and versions:
AVG v. 8.5, 64-bit and Symantec Antivirus v. 11, 64-bit.
•Virus definition files can be updated automatically.
•Do not update the Antivirus software to a new version. If you have any questions
regarding this or need to upgrade your Antivirus software, please call Ventana technical
support to verify that this will not create any performance issues.
Do not allow your scanner system to accept •Automatic operating system updates over the Internet can interfere with scanner
automatic operating system updates over operation.
the Internet. •Please do not update your operating system without consulting someone from Ventana
technical support.
Scheduled or unscheduled system software •Backup or maintenance can interfere with scanner system operation. Please call Ventana
or hardware backup or maintenance. technical support to verify that this will not create any performance issues.
Please feel free to contact Ventana technical support if you have any additional questions regarding software compatibility.

Hardware Specifications
Input Format 1” x 3” (25 mm x 75 mm; 2.5 cm x 7.5 cm) microscope slides
Slide Capacity 1 to 160 slides, using eight integrated, standard Sakura racks
Auto-Turret Holds up to four objectives. User can automatically switch from one to another.
Objectives Olympus 4X (0.1NA), 10X (0.3NA), 20X (0.50NA), 40X (0.75NA).
Scanning Resolution 2.5 um/pixel @ 4X; 1 um/pixel @ 10X; 0.46 um/pixel @ 20X; 0.23um/pixel @ 40X.
Barcode Capability 1-D and 2-D option
Light Source Integrated LED
Walk Away Scan Automated barcode reading, tissue identification, autofocus, scanning, and BIF
compression for up to 160 slides.
Manual Scan User-selectable scan area for single or batch slides, with automated or manual naming.
Touch-Screen LCD 5.5" Diagonal, full-color display (320 x 240 resolution)
Slide Analysis Fully integrated with all Ventana image analysis/storage/collaboration software
Scan Viewing 24-bit true color

Slide Storage Format BIF (.bif)
Dimensions 18" W x 18.5" D x 20" H (46 cm W x 47 cm D x 51 cm H;

460 mm W x 470 mm D x 510 mm H)
Scanner Weight 85 LBs. (39 Kg)

Power 100-220 VAC, 50/60 Hz, 400 W (includes light source)
Current 2 amps
Computer and Monitor Specifications
Work station Intel-based PC, dual core, dual Xeon™ processor
Storage 160 SATA/4 GB, CD/DVD burner

Optional Storage 512 GB (or more)
Connectivity GIGABIT Ethernet ports
Monitor 24" flat-panel, high-resolution monitor (1920 x 1200)
Compliance Specifications
CE Safety EN61010-1 This device meets the safety requirements for electrical equipment for measurement,
control, and laboratory use.

Software Specifications
Operating System Windows XP 64-Bit Professional
Scanning Software iScan Coreo Au
Viewing Software Image Viewer
CAUTION: DO NOT INSTALL MEMORY UPGRADES, DRIVERS, GRAPHIC, VIDEO CARDS, EXTERNAL DEVICES, OR ANY
OTHER HARDWARE AND SOFTWARE ON THE WORKSTATION CONNECTED TO THE SCANNER.
Such installations can interfere with the operation of the scanner. Contact Technical Support (Tel (USA): +1 800 227
2155, or Tel: +1 520 887 2155; for Technical Support, press 1) before installing any of the above items.
Cyber Security
Any device that is connected to a network (internally or externally) has the potential to be compromised by unauthorized access or
viruses. As with most devices, iScan Coreo Au is designed to run on a computer utilizing Microsoft Windows and virus protection
software which requires the validation and implementation of the appropriate patches.
To connect to iScan Coreo Live from outside the internal network, use virtual private network (VPN) access.
Some of the potential cyber security hazards are:

• Malicious software that alters the device software (such as viruses)
• Unauthorized access to the system that could compromise data safety
• Security of data transmitted over the internet
Cyber security involves protecting data by preventing, detecting, and responding to malicious cyber attacks. Cyber attacks could
involve computer viruses which can completely erase data or hackers who alter files or even use the device as a host to attack other
devices. As serious as these hazards are, steps can be taken to maximize cyber security.
User Authorization
All iScan Coreo Au users must login with a valid username and password. The username and password are securely transmitted in
encrypted form over the internet or intranet. Once a user has logged in, the user remains active in the application until the user
explicitly logs out, closes the browser (used with the Live application), or because the application closes after a period of inactivity.
Securing Networks and Servers
Network security consists of the provisions made in the computer network infrastructure, policies adopted by the network
administrator to protect the network, and the network resources that prevent unauthorized access.
The following are critical steps for securing a network server:

• Physical security (servers and network infrastructure behind locked doors)
• Use of robust passwords
• System and data backups (at regular intervals)
• Data protection
• Terminating unused services

• Restricting access to used services
The following are critical steps and methodologies used to secure network and servers:
• Data protection
• Data backups (at regular intervals)
• Refusal of automatic updates from off-the-shelf software
• Antivirus software for computers and servers
Protecting Data
Establishment of a network firewall and protection of the network against viruses using anti-virus software are effective methods to
protect data. Virus definitions should be kept up to date and regular scans of computers for spyware should be performed using a
legitimate anti-spyware application. If viruses or spyware are found, remove them immediately.
Evaluate Your Software Settings
The default settings of most software enable all available functionality. However, hackers may be able to take advantage of this
functionality to access devices. It is especially important to check the settings for software that connects to the internet (browsers,
email clients, etc.). Apply the highest level of security available that still provides needed functionality.
Backup and Recovery
In order to develop a successful backup and recovery plan, comprehension of data accessibility needs and the potential impact of
data loss is essential. Automatic backup procedures need to be adopted using a data backup utility.
Environmental Specifications
Use The scanner is intended for use indoors in an office or lab environment, with a standard
connection to the MAINS electric power supply (115V/20A or 230V/16A). The unit falls under
the following category, as defined in IEC 61010-1 and IEC 60664:
Pollution Degree 2, Overvoltage Category 2.
Lab Standard clean lab.
Altitude Up to 2000 meters
Room temperature Range: 67 to 73 degrees F; 19 to 23 degrees C

Maximum humidity 90% (non-condensing)
MAINS supply voltage fluctuations •Up to ± 10% of 100-120 V in Japan/US

•Up to 220-240 V in Europe
•Transient overvoltages (category II of IEC 60364-4-443) typically present on MAINS supply
Temperature, Humidity, Elevation
Transportation Temperature -4 to +122 degrees F; -20 to +50 degrees C
Recommended Operating Temperature 70 degrees F; 21 degrees C
Maximum Operating Temperature 90 degrees F; 32 degrees C
Note: Set the operating temperature according to your preferences or needs, up to the
maximum allowed.
Maximum Operating Humidity 30-80%, non-condensing

Maximum Elevation 2000 Meters
Note: Routine set up and alignment is required by certified technicians.

Input and Output Connections
CAUTION: Connect the RJ-45 connector on the rear panel of the scanner workstation to a computer network.
The RJ-45 connector on the rear panel of the scanner workstation should be connected to a computer network; it
should not be connected to a telephone system.
Note: For more information on the cable connections for the system, see Appendix A, page 173.
Scanner Specifications
Power cable U.S. and Japan: 120 volt; Europe: 240 volt
Ethernet cable 1 Gigabit

Serial Interface cable Provided
Keyboard Provided
Mouse Provided
Access Doors
WARNING: DO NOT OPEN THE RIGHT OR LEFT ACCESS DOOR WHEN THE SCANNER IS PERFORMING A SLIDE DETECT,
THUMBNAIL CAPTURE, OR SLIDE SCAN.
WARNING: DO NOT OPEN THE TOP COVER FOR ACCESS (ONLY SERVICE PERSONNEL AUTHORIZED TO REPAIR).
WARNING: DO NOT HANDLE BROKEN GLASS WITH BARE HANDS.
LCD Monitor
Power cable (to outlet) U.S. and Japan: 120 volt; Europe: 240 volt
Monitor cable (to scanner) Provided
Equipment Maintenance
No user-serviceable parts For assistance, contact Technical Support (Tel (USA): +1 800 227 2155, or Tel: +1 520 887 2155,
press 1).

Cleaning Scanner Casing
Clean outer casing of scanner, as •Wipe down scanner with damp (clean water) cloth and immediately dry scanner with dry cloth.
needed •Clean only the screen on the outside case of the instrument.
Cleaning Scanner Tray
Clean scanner tray, as needed •Wipe down scanner tray with damp (clean water) cloth and immediately dry tray with dry cloth.
•Clean entire tray.

iScan Coreo Au User Manual Chapter 2: Slide Specifications and Handling
Chapter 2: Slide Specifications and Handling
The iScan Coreo Au slide scanner allows you to scan up to 160 slides at the touch of a button and supports the use of standard
slides and Sakura baskets. This chapter includes specifications for slides and slide handling recommendations for use with the
scanner and Sakura baskets.

• Standard Slide, page 15
• Slide Length, Width, Thickness, page 16
• Slide Scannable Region, page 16
• Slide Label Region, page 16
• Slide Label, page 18
• Barcode Formats Supported, page 19
• Slide Cover Slip, page 20
• Tissue-Tek Sakura Basket, page 20
• Scanner Tray, page 20
• Slide Cache Tray, page 23
• Manual Slide Removal, page 24
Standard Slide
Figure 2-1 Standard Slide
WARNING: DO NOT USE CRACKED OR BROKEN SLIDES.
Cracked or broken slides can adversely affect the operation of the scanner.
WARNING: DO NOT PLACE ANY BIOHAZARDOUS MATERIALS ON YOUR SLIDES.

Chapter 2: Slide Specifications and Handling iScan Coreo Au User Manual
Slide Length, Width, Thickness
Length (Figure 2-2) 2.965—3.013 inches (75.311—76.5302 mm)
Width (Figure 2-2) 0.970—1.030 inches (24.6379—26.162 mm)
Thickness (Figure 2-2) 0.038—0.055 inches (0.9652—1.397 mm); at label end,

includes slide, label, and cover slip.
Note: In order to work with the scanner, your slides must meet these specifications.
Slide Scannable Region
Scannable Slide Region (Figure 2-2) Up to 2.20 inches x 0.71 inches (55.88 mm x 18.03 mm)
Note: The label is not scanned. The border around the

scannable region is not scanned either.
Slide Label Region
Length (Figure 2-2) 1 inch (25.40 mm)
Width (Figure 2-2) Same as Slide Width: 0.970—1.030 inches (24.6379—26.162

mm)
Thickness (Figure 2-2) Same as Slide Thickness: 0.038—0.055 inches (0.9652—1.397

mm). Includes slide and label.
Note: One label can be placed over another (overlapping labels, or overlabeling), but a 0.157-inch (4-mm) buffer must be maintained
between the top edge of the label and the top edge of the slide. For more information, see “Overlapping Labels
(Overlabeling)” on page 18.

Slide Length: 2.965—3.013 Inches (75.311—76.5302 MM)
Slide Width:
123456789
|||||||||
Top Edge Scannable Region 0.970—1.030
of Slide 2.20 x 0.71 Inches Inches
(55.88 x 18.03 MM) (24.6379—
26.162 MM)
1 Inch Border:
(25.40 MM) 2 MM From Edge
(Not Scanned)
Barcode/Label
Slide Thickness: 0.038—0.055 Inches (0.9652—1.397 MM)
At label End (Includes Slide and Label)
Figure 2-2 Slide Specifications

Slide Label
Requirements:
1 Each label must be placed on the same side of the slide as the tissue:
a Each label must fit in the designated label area.
2 Each label must fit inside the boundary of the slide, without protruding over any edge.
a Each label must adhere securely to the slide.
b All label adhesive must be removed from each slide (adhesive can stick to the slide grabber, causing a slide to break).
c If one label is placed over another (overlapping labels, or overlabeling, see below), ensure that a 0.157-inch (4-mm) buffer exists between the top edge
of the label and the top edge of the slide.
Failure to follow these requirements can adversely affect the operation of the scanner.
Overlapping Labels (Overlabeling)
Labels can be overlapped, but this practice is not recommended.
Overlabeling Rule
If one label is placed over another, a 0.157-inch (4-mm) buffer must be maintained between the top edge of the label and the top
edge of the slide.
Buffer: Buffer:
0.157 inches Scannable Region 0.157 inches
(4 mm) (4 mm)
First Label
Second Label
Figure 2-3 Overlabeling Rule: 0.157-inch (4-mm) Buffer Around Slide

Barcode Formats Supported

A barcode is an optical machine-readable representation of data. A barcode representing data in the widths (lines) and the spacings
of parallel lines is linear or 1D. A barcode representing data in patterns of squares, dots, hexagons, and other geometric patterns in
images is 2D. Barcodes must be 3 millimeters inside all edges of the slide in order to be read by the scanner.
Note: The barcode on the label of a slide can be used to form the filename of a slide.
Barcode Symbologies Supported Code Position Code Color Label Color
1D Code 39, Code 128, Codbar, UCC\EAN –128, Code 93, Interleaved 2/5, 3 MM inside all edges Black White
UPC-A, UPC-E, EAN-8, EAN-13, Industrial 2/5, Code 32, Datalogic
2/5, ISBN Addon 2, Matrix 2/5, ISBN Addon 5, Airline (IATA) 2/5,
Patch Codes, Postnet/Planet
2D DATAMATRIX, PDF417 3 MM inside all edges Black White
Figure 2-4 Blank Slide with Black 2D Barcode on White Label
Figure 2-5 2D Barcode
Note: The 2D barcode in the above figure is magnified for easy viewing.

Slide Cover Slip

Requirements:
• Each cover slip must be placed on the same side of the slide as the tissue.
• Each cover slip must fit in the designated cover slip area, with no overlapping.
• Each cover slip must fit inside the boundary of the slide, without protruding over any edge.
Recommendations:
• Each cover slip must adhere securely to the slide.
Failure to follow these recommendations can adversely affect the operation of the scanner.
Tissue-Tek® Sakura Basket

• Part Number 4768
• Each Sakura basket holds 1-20 slides.
• Use standard-size Sakura baskets only.
• Seat the slides carefully and firmly into the baskets.
• Make sure the label end of the slide (the top of the slide) is sticking out the top of the Sakura basket (Figure 2-6).
• Make sure the tissue and the label are facing the “UPSIDE” (top side) of the basket.
• When putting multiple slides in a basket, make sure the label area for each slide is facing in the same direction (Figure 2-7).
WARNING: DO NOT PUT CRACKED OR BROKEN SLIDES IN A BASKET.
Scanner Tray
The scanner tray holds 1-8 Sakura baskets (maximum 160 slides).
Note: The tray is custom-calibrated for each scanner You must use the scanner tray that comes with the scanner.
When putting baskets in a tray, make sure the label area of each slide in each basket is facing the front of the tray.
WARNING: DO NOT PUT CRACKED OR BROKEN SLIDES IN A TRAY.
WARNING: DO NOT PUT A TRAY IN THE SCANNER WHEN THE SYSTEM IS TURNED OFF.
All scanner system components (hardware and software) must be up and running before you can put the tray in the
scanner and begin the scanning process. For more information on component startup and operation, see page 25.

Slide Label
Area
Slide Label
Area
UP SIDE UP SIDE
Figure 2-6 Slides in Sakura Baskets
Back Front
Figure 2-7 Slides in Baskets in Tray

Rack 5
Rack 6 Front
(Label Side)
Rack 7
Rack 8
Rack 1
Rack 2
Rack 3
Rack 4
Back
Figure 2-8 Full Baskets/Full Tray

Slide Cache Tray (Slide Deposit Errors)

Slide deposit errors can occur during a batch scan operation and are indicated by the slide cache color codes (Figure 2-9) on the slide
console for the affected slots. When a slide deposit error occurs, the slide is placed in the slide cache tray (Figure 2-10) and the batch
scan operation is continued. The slide cache tray can hold up to 2 slides. When the slide cache tray is full, the batch scan operation
is paused until the tray is emptied. Refer to “Manual Slide Removal” on page 24 for instructions on how to remove slides from the
cache tray.
Figure 2-9 Slide Console Color Code Legend, Slide Deposit and Slide Cache Errors
Slide Cache Tray
Figure 2-10 Slide Cache Tray

Manual Slide Removal

Use the following procedures to manually remove slides from the scanner stage or the slide cache tray.
Removing a Slide From the Scanner Stage:

1 Ensure that the scanner is not in use.
2 Move the scanner stage to either the right or left access doors using the Tools > Move Stage To menu commands (Figure 2-11).
3 When the scanner stage has moved to the side specified in the previous step, open the access door and carefully remove the slide from
the stage.
4 Close the access door. The scanner stage moves back into position when the next slide detect or scanning operation is performed.
Figure 2-11 Move Stage To Menu Commands
Removing Slides From the Slide Cache Tray:

1 Ensure that the scanner is not in use and open the scanner door.
2 When the scanner door has fully opened, carefully remove the slide tray by pulling the front of the tray up and away from the door. The
slide cache tray is then exposed at the bottom of the door.
3 Carefully remove the slides from the cache tray.
4 Examine the slides for cracks, stuck labels, or other potential causes for the slide deposit error.
5 If no cause for the deposit error is discovered, return the slide(s) to the Sakura baskets on the slide tray for scanning.
6 Carefully replace the slide tray and close the door.

iScan Coreo Au User Manual Chapter 3: iScan Coreo Au Operating Procedures
Chapter 3: iScan Coreo Au Operating Procedures
The iScan Coreo Au slide scanner operates in two modes: one-touch, Walk Away Scan and Manual Scan.
With one-touch, Walk Away Scan, default settings are used to determine the scan area, the scan parameters, and the order in which
the racks and slides are scanned. For more information, see “One-Touch, Walk Away Scan” on page 37. In a Manual Scan, you have
full control over the entire scan process that includes configuring the scan area, the scan parameters, and the order in which the
racks and slides are scanned. For more information, see “Manual Scan” on page 40.
After the slides are scanned and compressed, you can view the digital images using the Image Viewer software. iScan Coreo Au scans
entire slides at high resolution, compresses the images into a digital format (default format is BIF), and allows you to view, annotate,
and share the digital images. You can also make the images available for remote viewing using a LAN or the Internet. For more
information, see “Chapter 4: iScan Coreo Au Live (Remote Telepathology)” on page 87.
Topics Covered in This Chapter

• Overview, page 26
• Operation Prerequisites, page 27
• Operating Procedures, page 27
• Start Up Scanner System, page 27
• Start Up Scanner Console, page 28
• Tooltips, page 30
• Tool Bar Buttons, page 30
• Show or Hide Tool Bar, Move Tool Bar, and Lock or Unlock Tool Bar, page 31
• Resize Thumbnail, Rack Map, Slide Setup Table Panes, page 31
• Restore Console to Default Configuration, page 31
• Review Information about Scanner, page 31
• Open and View Online Help, page 31
• Open Scanner Door, page 32
• Insert Slide Tray into Scanner, page 32
• Random Slide Access, page 32
• Close Scanner Door/Start Slide Detect, page 32
• Perform a Walk Away Scan or Manual Scan, page 37
• Walk Away Scan, page 37
• Manual Scan, page 40
• Shut Down Scanner Console, page 61
• Too Bar Button Definitions, page 62
• Keyboard Shortcuts, page 65
• Slide Scanning Color Codes, page 66
• Set Up/Configure User Accounts, page 68
• Configure General Settings, page 73
• Configure Output Filenames, page 75
• Configure Slide Filenames from 2D Barcodes, page 78
• Configure Rack Map Orientation, page 84

Chapter 3: iScan Coreo Au Operating Procedures iScan Coreo Au User Manual
Overview
The iScan Coreo Au slide scanner is a complete “one-touch, walk away” system. It scans whole slides at high resolution, compresses
the images into a digital format (BIF, JPEG-2000, and TIFF), and allows you to view, annotate, and share the digital images. You
can scan up to 160 slides (1”x 3” slides) in Walk Away Scan mode or Manual Scan mode. After the slides are scanned and
compressed, you can view the digital images using Image Viewer. You can also make the images available for remote viewing via a
LAN or the Internet. For more information, see “Chapter 5: Image Viewer” on page 125.
Digital Pathology Applications Enabled by iScan Coreo Au
Brightfield Imaging and Image Analysis:

• Perform brightfield whole-slide scanning
• Images can be used with Ventana Companion Algorithms in Virtuoso™
Telepathology:
• Remote microscopy with the ability to remotely simulate a microscope-like viewing interface and view tissue depth by focusing
through different planes with iScan Coreo Au Live
• Create real-time collaboration sessions with chat functionality
• Remote frozen sections, peer reviews, second opinions, and tumor board support
• View images locally or remotely, eliminating need for recutting slides
Education:
• Build a digital archive of interesting whole-slide images
• Share whole-slide images without using a multi-headed microscope
• Clearly annotate interesting areas or objects
iScan Coreo Au Features

• Autoloader for walk-away scanning of up to 160 slides
• Sakura baskets allow quick and easy loading of slides
• Automatic tissue region identification with a manual override option
• Automatic laser-based slide detector
• Continuous access to the slide tray
• Vacuum Slide Pick Up
• Automated turret with four objectives, allowing optical brightfield scanning at 4X, 10X, 20X, and 40X
• Volume scan with multiple planes (Z-Stacking)
• Crisp, responsive, high quality images at all magnifications
The iScan Coreo Au slide scanning system includes the integrated Image Viewer application that supports annotation and remote
viewing of slide images.

Operation Prerequisites
The scanner system and console operating procedures are based on the following assumptions:
• Tissue is on the slides.
• The slides are correctly inserted into the slots in the baskets.
• The baskets are correctly inserted into the tray.
• The tray is ready to be inserted into the iScan Coreo Au slide scanner.
• The iScan Coreo Au slide scanner system is up and running.
• The iScan Coreo Au slide scanner console is up and running.
Operating Procedures
• Walk Away Scan, page 37
Start the one-touch, Walk Away Scan Process
Examine the Scanned Image(s)
• Manual Scan, page 40
Configure Slide Scan Settings
Rename Racks and Slides
Capture Thumbnail
Open/View Thumbnail
Inspect AOI and Focus Points
Set Scan Mode Focus Approach
Schedule a Batch Scan
Scan Slide
Interrupt a Batch Scan (Continuous Access)
Abort a Batch Scan (Continuous Access)
Save a Session
Review Saved Sessions
Load a Session
Delete a Session
• Shut Down Scanner Console, page 61
Start Up Scanner System

1 Confirm that the computer and monitor connected to the scanner are powered on and ready for use.
2 Toggle the Main Power switch on the side panel of the scanner to the ON (I) position.
3 Press the Power button on the front panel of the computer workstation.
4 Press the Power button on the front panel of the computer monitor.
5 When the Microsoft Windows log-on screen pops up, press Ctrl + Alt + Delete on the keyboard.
6 Enter your user name and password.
You are logged in to the desktop.
Note: For best results, leave the scanner powered up unless it is going to be idle for an extended time.

Start Up the Scanner Console

After the scanner system is up and running, you can start the scanner console.
1 Double-click the iScan Coreo Au startup icon on your Windows Desktop. (Figure 3-1)
The iScan Coreo Au login screen is opened (Figure 3-2).
3 Click OK.
The iScan Coreo Au console is opened on your desktop (Figure 3-3).
Figure 3-1 iScan Coreo Au Startup Icon
Figure 3-2 iScan Coreo Au Log In Screen

Menus Tool Bar Buttons Rack Details Box
User Data Box
Thumbnail Pane
Slide Setup Table
Rack Map Pane
Status Bar
Figure 3-3 iScan Coreo Au Console on Desktop at Initial Startup
The scanner console is the primary work bench of the scanner system.
Note: The System is not ready for operation until the scanner is placed in its “Home” position. When that happens, the message
“Ready” is posted in the status bar located at the bottom of the console.

Tooltips
Tooltips (mouse-over hover boxes) are used throughout iScan Coreo Au to provide supplementary information about an object or
a task. For example, when you roll the mouse over the thumbnail posted in a Zoom Thumbnail window, the tooltip is displayed
prompting a right-click to view more options.
Figure 3-4 Tooltip Opened in Thumbnail Posted in Zoom Thumbnail Window
Tool Bar Buttons

Once the scanner has started up, the Open/Close Door button is the only button that is active and available for use until a session
is loaded or a slide detect is performed. To perform a slide detect, load the slide tray and then close the scanner door. All the tool
bar buttons are then activated and ready for use.
Tool Bar Buttons before a Slide Detect Process is Performed
Figure 3-5 Tool Bar Buttons Before a Slide Detect Process is Performed
Tool Bar Buttons Activated (after Slide Detect process)
Figure 3-6 Tool Bar Buttons Activated (after Slide Detect process)
Note: Refer to the Tool Bar Button Definitions on page 62 for detailed information on button functionality.

Show or Hide Tool Bar, Status Bar, Rack Map, Thumbnail Pane
Show
1 Click View -> tool bar or status bar or rack map or Thumbnail.
The bar or map or pane is displayed on the console.
A check mark indicates that a bar or map or pane is displayed on the console.
The tool bar, status bar, rack map, and thumbnail pane are all displayed, by default, after initial console startup.
Hide
1 Click View.
The View menu drops down, showing the available options.
A check mark indicates that a bar or map or pane is displayed.
2 Click a checked option (tool bar or status bar or rack map or Thumbnail).
The bar, map, or pane is hidden from the console.
The check mark preceding the bar or map or pane is removed from the drop-down menu.
Move Tool Bar

1 Grab and resize or move the tool bar, status bar, rack map or thumbnail pane.
2 Click View -> Lock/Unlock Toolbar.
The tool bar is locked into position.
Lock/Unlock Tool Bar

1 Click View.
2 Click Lock/Unlock Toolbar.
The tool bar is locked or unlocked.
Resize Thumbnail, Rack Map, Slide Setup Table Panes

1 Grab and resize the Thumbnail, Rack Map, Slide Setup table panes.
Restore Console to Default Configuration

1 Click View.
2 Click Restore Window.
The tool bar, status bar, rack map, and thumbnail pane are all restored to their original size and position on the console.
Review Information about Scanner

1 Click Help -> iScan Coreo Au.
The About iScan Coreo Au Window is opened on the console.
Information about the scanner is displayed.
2 Close the window:
- Click OK.
The window is closed.
Open and View Online Help

1 Click Help -> Online Help.
The Online Help system is opened on the console.

Open Scanner Door

1 Click the Open/Close Door button.
The door is opened.
The message “Door Opened” is displayed in the status bar.
The scanner door can also be opened directly from the LCD screen on the scanner.
Insert Slide Tray into Scanner

1 After the scanner door is fully open, carefully and gently insert the slide tray.
2 Make sure the label for each slide faces up and out.
3 When inserting the slide tray, gently guide it into the grooves.
Random Slide Access

The slide tray can be accessed at any time when the scanner is not in operation. This random access feature is performed using the
Open/Close door button on the LCD screen of the scanner and is useful for adding or removing slides after a slide detect procedure,
a thumbnail capture, or slide scanning operation.
1 Click the Open/Close Door button on the LCD screen of the scanner. The scanner door is opened and the slide tray is accessible.
2 Add or remove slides in the slide tray. When done, ensure that the slide tray is fully seated in the scanner.
3 Click the Open/Close Door button again to close the scanner door. When completed, the scanner automatically begins a slide detect
procedure.
WARNING: DO NOT USE YOUR HANDS OR ANY OBJECT TO FORCE THE iSCAN COREO Au SLIDE SCANNER DOOR
OPEN OR CLOSED. DO NOT ATTEMPT TO OPEN THE SCANNER DOOR DURING SCANNER OPERATION.
Close Scanner Door/Start Slide Detect

1 If the tray is fully seated in the scanner, close the door by clicking the Open/Close Door button.
2 The status bar displays the message “Closing Door.” You can monitor the progress of the operation from the status bar.
3 The message “Door Closed” is displayed in the status bar.
4 The scanner automatically performs a slide detect procedure (for the Sakura baskets in the slide tray).
Slide Detect Process

• After the door is closed, the slide detect process is automatically started.
• You can monitor the progress of the process by reading the text in the status bar or by watching the color codes change in the
rack map pane. The message “Detecting Slide Position” is displayed in the status bar.
• At the beginning of the slide detect process, every slot in every rack in the rack map pane is the color blue (“Slide Not
Detected”).
• When a slide is detected in a slot:
- The color of the corresponding slot in the rack is changed from blue to pink (“Slide Detected”).
(Figure 3-7)
- The color of the corresponding Slot Number column in the Slide Setup table is changed from blue to pink (“Slide
Detected”). (Figure 3-7)
• For identification and organization, a folder name, rack number, and slot number are generated for each detected slide (for
example, SlideName_1_2, SlideName_1_5, and so on).
The folder name is the prefix for the slide name. The folder name can be set in the Options menu: Click Settings -> Options
General Settings, then Enter a name in the Default BIF Filename field.
• At the completion of the slide detect process, the message “Slide Detect Complete” is displayed in the status bar. The scanner
mechanism is then returned to the “Home” position. When the home position is reached, the scanner is ready for further
operation, and the message “Scanner is Ready” is displayed in the status bar. (Figure 3-7)

• The thumbnail can be captured and a slide can be scanned using the General Settings default values: Click the Start Scanning
button (a Walk Away Scan is started). For more information on performing a quick scan, see “One-Touch, Walk Away Scan” on
page 37. For more information on performing a manual scan, see “Manual Scan” on page 40.
Scanner Console After Slide Detect
Figure 3-7 Scanner Console after Slide Detect

Rack Map After Slide Detect

• After a slide detect process is completed, the color of the border of the first rack is changed from black to blue, and the
information about the slides in the rack is posted in the Slide Setup table.
• The highlighted rack is the current, active rack which is indicated by the blue border color.
Note: For more information on color coding, see “Slide Scanning Color Codes” on page 66.
• To make another rack the current, active rack:
- Place the cursor over the other rack.
- Click the left mouse button.
The rack is then the current, active rack (and the information about the slides in the rack is posted in the Slide Setup table).
(Figure 3-8)
• From the rack map, the thumbnail of a detected slide can be opened/viewed in the thumbnail pane: Click a slot. The thumbnail
of the slide in the slot is posted in the thumbnail pane.
Figure 3-8 Rack Map after Slide Detect

Rack Details After Slide Detect
The Rack Details box is grayed out and unavailable until a slide detect procedure is performed.
Figure 3-9 Rack Details Box After Slide Detect
Folder Name Enter a name in the folder name field. Press “Enter.” The new name is applied as the prefix for output filenames
for all the slides in the current rack.
To apply the new folder name as the prefix for output filenames for all the slides in all the racks, click the Apply
to All Racks button.
To apply the new folder name as the prefix for a selection of slides, click the Apply to Selection button. The
Apply to Selection button remains grayed out until slides have been selected in the slide setup table.
Note: You can also set the folder name in the Options -> General Settings window (see “Configure General
Settings” on page 73).
Note: If you have obtained a barcode license from Ventana, barcodes can be applied as filenames. Refer “Slide Naming Parameters”
on page 77 for more information.

Slide Setup Table After Slide Detect
Figure 3-10 Slide Setup Table after Slide Detect
Slot No. (number) Shows the number of the slots in the corresponding rack (1-20). This column also displays the color
representing the current stage of the scanning process (see “Slide Scanning Color Codes” on page 66).
Thumbnail Preview Shows a thumbnail preview of a slide. After initial console startup, this column is blank. After a slide detect,
this column displays the message “Slide Detected” or “Slide Not Detected.” After a thumbnail is captured,
this column displays a preview of a thumbnail or the message “Slide Not Detected.”
Folder Name Displays the folder name designated previously in the Rack Details box. The folder name is applied as the
prefix of the digital slide name for all the slides in the current rack.
Digital Slide Name Displays the name of a slide; for example, SlideName_1_2 (“SlideName” is the name of the slide; “1” is the
rack number; “2” is the slot number). By default, the prefix of digital slide names is derived from the folder
name in the Rack Details box.
Note: Slide names are generated and posted in the “Digital Slide Name” column during a thumbnail capture.
Slide Annotation Shows the textual annotation for the slide.
Magnification After initial console startup, this column is blank. After a slide detect, this column displays the default
magnification used for scanning the slide in this row (20X). Other available magnifications include 4X, 10X,
and 40X.
Focus Approach After initial console startup, this column is blank. After a slide detect, this column displays the default focus
approach used for scanning the slide in this row.
Volume Scan When checked, the Volume Scan (Z-Stacking) feature for the selected slide(s) is enabled producing layered
(Z-Stacking) images. See “Slide Scanning Parameters” on page 74 to change the default number of layers and thickness of
each.

Perform Walk Away Scan or Manual Scan

• To use the default settings for capturing a thumbnail view of the slide and scanning the slide, see “One-Touch, Walk Away Scan”
on page 37.
• To change the default settings and then use the changed settings to capture a thumbnail view and scan the slide, see “Manual
Scan Procedures” on page 40.
One-Touch, Walk Away Scan

• Start the one-touch, Walk Away Scan process.
Thumbnail capture process and slide scan process are combined into one.
Default settings are used for entire quick scan (unless you override them).
Default rack orientation is used.
Default slide scan area settings are used.
Default slide naming settings are used (unless the output filenames are configured with the slide naming parameters or the 2D
barcodes, in which case the slides are named according to the specified settings).
Default thumbnail capture settings are used.
Default magnification is used.
Default focus technique is used.
Default scan technique is used.
Default AOI detection technique is used.
Tissue is identified automatically.
Scanning is performed automatically.
Images are compressed automatically using the default BIF output format.
Process can be run for 1 to 160 slides.
• Examine the image.
Launch the Image Viewer.
Note: Faint tissue samples on the slide may not be detected during a Walk Away Scan procedure.

Walk Away Scan Procedures

1 Look down the check box column on the left side of the Slide Setup table.
2 Make sure the boxes for all of the slides you want to scan are checked.
Racks and slides can be renamed before the Walk Away Scan process is started. For more information, see “Rename Slides” on page 41.
If a slide has a barcode, the barcode can be used as the slide name by checking the Barcode radio button in the rack details section.
3 Click the Start Scanning button on the console.
The Walk Away Scan process is started.
At this point, you can walk away from the system.
The Walk Away Scan process is run by the scanner:
- The default or specified folder name is applied.
- The default or specified Slide Name is applied.
- A thumbnail view of the slide is captured at 20X magnification (the default setting).
- The AOI and focus points are identified and set.
- The slide is scanned at 20X magnification, and a digital image of the slide is made (Figure 3-11).
- Images are compressed in the BIF file format (.bif) and are automatically saved in the default or specified output directory.
4 During the process, the following messages are displayed in the status bar:
Picking Slide from Rack x Slot x
Capturing Thumbnail for Rack x Slot x
Depositing Slide to Rack x Slot x
Slide Deposited to Rack x Slot x
Scanning Slide from Rack x Slot x
5 Examine the scanned (digital) image:
- Click the View Image button on the console.
6 The Image Viewer program is launched.
The image is opened on the Image Viewer console.
For more information, see “Chapter 4: iScan Coreo Au Live (Remote Telepathology)” on page 87.
CAUTION: DO NOT ABORT THE WALK-AWAY SCANNING PROCEDURE (using the Abort button) UNLESS THE
PROCEDURE POSES A RISK OF INJURY TO THE USER OR DAMAGE TO THE SLIDES.

Scanner Console After Successful Walk Away Scan
Figure 3-11 Scanner Console: Walk Away Scan Completed

Manual Scan
• You select the scan area for single or batch slides, with automated or manual naming.
• The thumbnail capture process and the slide scan process are two distinct, separate processes.
• You have full control over the scan area, the scan parameters, and the order in which the racks and the slides are scanned.
• You can configure the settings for the entire Manual Scan process.
Manual Scan Procedures

• Configure Slide Scan Settings, page 40
• Rename Racks and Slides, page 41
• Capture Thumbnail, page 42
• Open/View a Thumbnail, page 43
• Inspect AOI and Focus Points, page 44
• Schedule a Batch Scan, page 53
• Scan Slide(s), page 53
• Interrupt a Batch Scan (Continuous Access), page 54
• Abort a Batch Scan (Continuous Access), page 54
• Perform a Volume Scan (Z-Stacking), page 55
• Save a Session, page 56
• Review Saved Sessions, page 57
• Load a Session, page 58
• Delete a Session, page 59
• Examine the Image, page 60

1 Click Options -> Settings.
The General Settings Window is opened on the desktop.
The default parameters for scanning slides are displayed.
2 Set the path to the directory where temporary images are stored.
3 Set the path to the directory where images are stored after scanning.
4 Click the “Copy File to Server” box if you want to store copies of scanned images in another location. Otherwise, leave the box
unchecked.
5 Set the path to the directory where copies of the images are stored after scanning.
6 Enter the default name applied to slides.
7 Select the Focus Approach used during scanning (Stat, Routine, or HD).
Stat = high image quality. Routine = higher image quality (the default). HD = highest image quality.
HD is fast. Routine is faster. Stat is fastest.
8 Select the Scan Approach used during scanning (Selective or Regular).
Regular is fast. Selective is faster.
“Selective” is available only in Auto Mode. For more information on Auto Mode, see “Auto Mode Focus Approach” on page 48.
9 Select the AOI Detection Approach used during scanning (Standard or PIN Array).
Standard is for slides with regular tissue orientation. PIN Array is for slides with specific tissue orientation. Check with Ventana Medical
Systems, Inc., before using PIN Array.
10 Select the magnification used during scanning (Scan at): 4X, 10X, 20X, or 40X.
The default magnification is 20X.
11 Specify the number of Z-Layers to scan of a single frame for Volume Scanning (Z-Stacking).
The default number of Z-Layers is 5.
12 Select the Z Delta (thickness) of each layer in a Volume Scan (Z-Stacking).
The default Z Delta is 2.0 microns.
13 Click OK.
The parameters are reconfigured, and the window is closed.
To restore the default settings, click “Restore Defaults.”
Note: You can also configure the name, focus approach, scan approach, AOI detection approach, and scan at magnification for each
slide in the Slide Setup table. For more information, see “Slide Setup Table After Slide Detect” on page 36.

Rename Slides
Note: These steps can be used for one slide or for multiple slides.
From Slide Setup Table: Digital Slide Column

1 Click a rack in the rack map pane.
Information about the slides in the rack is posted in the Slide Setup table.
2 Select a slide in the table.
3 Double-click the slide’s “Digital Slide Name” column.
4 Place the cursor in the slides’s “Digital Slide Name” column.
5 Highlight the default name.
6 Type in the new name.
7 Save the change:
- Click the “Save Rack Settings” button on the console.
From Rack Details: Folder Name Field

1 Click a rack in the rack map pane.
2 Select “Folder Name.”
3 Type in the new name.
The new folder name is applied to all the slides in the current rack.
To apply the new folder name to all the slides in all the racks, click “Apply to All Racks.”
When entering filenames, use valid characters. The filename limit is 256 characters. A time stamp is appended to each filename to
ensure that all filenames, even duplicates, are unique.
4 Save the changes:
From Rack Details: Apply Barcode as Filename

1 Click a rack in the rack map Pane.
2 Select “Barcode.”
The barcode of each slide is applied as the name for each slide in the current rack.
To apply the barcode of each slide as the name for each slide in all the racks, click “Apply to All Racks.”
3 Save the changes:
From Options -> Settings -> Output Filename Configuration Window
See “Configure Output Filenames” on page 75.
From Tools -> 2D Barcode Configuration Window
See “Configure Slide Filenames from 2D Barcodes” on page 78.

Capture a Thumbnail
Note: These steps can be used for a single slide or for multiple slides.
1 Click the slide’s slot number in the Slide Setup table.
2 Click the check box for the slide.
3 Click the “Save Rack Settings” button.
4 Click the “Capture Thumbnail” button.
When the capture process is complete, the tissue on the slide is automatically detected and a copy of the thumbnail is posted in the
Thumbnail Preview column. (Figure 3-12)
The following messages are displayed in the status bar during the process:
Color codes are used in the Slide Setup table Thumbnail Preview column and in the rack map pane to show progress. See “Slide
Scanning Color Codes” on page 66 for color code definitions.
Figure 3-12 Thumbnails Captured and Posted in Slide Setup Table Thumbnail Preview column

Open/View a Thumbnail
Note: You can open/view (and edit) only one thumbnail at a time.
From the Slide Setup Table

1 Click anywhere in a row that has an image in its Thumbnail Preview column.
The image is posted in the thumbnail pane. (Figure 3-13)
From the Rack Map

1 Click an orange slot in a rack (the color orange is the code for thumbnail captured).
The image corresponding to the slot is posted in the thumbnail pane. (Figure 3-13)
Figure 3-13 Thumbnail Posted in Thumbnail Pane

Inspect AOI and Focus Points
Note: These steps can be used for one slide or for multiple slides.
1 Open a thumbnail in the thumbnail pane.
- Click the slide’s thumbnail in the “Thumbnail Preview” column.
A larger version of the thumbnail is posted in the thumbnail pane. (Figure 3-14)
Note: Inspection and modification of the AOI and focus points can also be performed on the thumbnail pane as well as the Zoom
Thumbnail window.
2 Click the Zoom Thumbnail button in the thumbnail pane or, alternately, double click on the thumbnail image in the Thumbnail Preview
column.
The Zoom Thumbnail Window is opened on the console. (Figure 3-15)
An even larger version of the thumbnail is posted in the Zoom Thumbnail Window. (Figure 3-16)
The posted thumbnail includes at least one Area of Interest (AOI) and (usually) several Focus Points, identified and set by the scanner
(by default) in the Capture Thumbnail process.
The AOI is enclosed within a rectangle.
The Focus Points (green squares) are usually placed inside the rectangle.
Focus Points can be placed anywhere on the thumbnail, even outside an AOI, but only Focus Points enclosed within an AOI are used for
scanning.
3 Inspect the placement of the AOI and the Focus Points:
- Verify that the AOI(s) you want to scan are enclosed within the rectangle.
- Verify that the areas of tissue you want to scan are covered by Focus Points.
Note: When 4X magnification is used, iScan Coreo Au automatically adjusts the AOI so that it is visible.
Default AOI and Focus Points Acceptable? •Move AOI

•Resize AOI
•Scan the slide using the Auto Scan Mode Focus Approach
For more information on scanning, see page 53.
Default AOI and Focus Points Unacceptable? •Switch the Scan Mode Focus Approach from “Auto” to “Manual” by highlighting
and selecting the AOI(s).
•Move, resize, or delete the default AOI
•Add AOI
•Add Focus Points
•Save the changes
•Scan the slide
AOIs and focus points can be modified and added by performing a right-click on the
thumbnail and using the resulting menu commands.
Note: If you change the Scan Mode Focus Approach from “Auto” to “Manual,” the
Scan Mode is changed to “Regular.” The “Selective” option for scanning is not
available in Manual Mode Focus Approach. For more information on Auto
Mode, see “Auto Mode Focus Approach” on page 48. For more information on
Manual Mode, see “Manual Mode Focus Approach” on page 50.

Figure 3-14 Thumbnail Posted in Thumbnail Pane
Figure 3-15 Thumbnail Captured and Posted in Zoom Thumbnail Window (Console View)

Figure 3-16 Thumbnail Posted in Zoom Thumbnail Window
Figure 3-17 Zoom Thumbnail Opened on Console

Figure 3-18 Zoom Thumbnail Maximized
Figure 3-19 Zoom Thumbnail Maximized on Console

Auto Mode Focus Approach

• The Auto Mode Focus Approach (Figure 3-20) allows you to use the default AOI and Focus Points for scanning. There
are three types of Auto Mode Focus approaches: Auto Scan -> Stat Scan is the default Scan Mode Focus Approach. It
produces high quality images. Use this type of scan when time is a priority.
• Auto Scan -> Routine Scan produces higher quality images. Use this type of scan when time is less of a priority.
• Auto Scan -> HD Scan produces the highest quality images. Use this type of scan when time is the least priority.
In Auto Mode, you cannot add additional AOIs. If you want to add additional AOIs to the thumbnail, you must switch the Scan
Mode from Auto to Manual. Then, you can move AOIs, resize AOIs, and add additional Focus Points.
Note: If you change the Scan Mode Focus Approach from Auto to Manual, the Selective option for scanning is not available. For more
information on Manual Mode, see “Manual Mode Focus Approach” on page 50.
Move Default AOI (Figure 3-21) •Place the cursor inside the box.
•Click the left mouse button: The cursor shape is changed, from an arrow to a move cross.
Whenever an AOI box is selected, the buttons are activated in the thumbnail pane.
•Drag the box into position.
•Release the mouse button: The AOI is modified.
Note: To undo changes to the AOI, click the “Reset AOI” button. The AOI is restored to the original
default setting.
Resize Default AOI (Figure 3-22) •Select an AOI.

•Place the cursor inside the box.
•Place the cursor over a resize point: The cursor shape is changed, from the move cross to a plain
arrow to a resize arrow.
•Grab a resize point and move the border up, down, left, or right: The AOI is resized.
Note: To undo changes to the AOI, click the “Reset AOI” button under the thumbnail. The AOI is
restored to the original default setting.
Add Focus Points (Figure 3-23) •Place the cursor in the AOI box over the desired point of focus.
•Click the right mouse button: The Modify Scan Area menu is opened.
•Select “Add as Focus Point: A Focus Point (green square) is added to the AOI.
•Add as many Focus Points as needed.
Note: Misplaced Focus Points cannot be deleted in Auto Mode. If you misplace a Focus Point in Auto
Mode, you must reset the AOI (click the “Reset AOI” button), then add the Focus Point(s)
again.
Figure 3-20 Auto Scan Focus Approach Options

Figure 3-21 Default AOI Box Selected in Auto Mode
Figure 3-22 Default AOI Resized in Auto Mode
Figure 3-23 Focus Points Added to Default AOI in Auto Mode

Manual Mode Focus Approach
The Manual Mode Focus Approach (Figure 3-24) allows you to identify and set your own AOI and focus points. When you select
Manual Scan -> Stat Scan, Manual Scan -> Routine Scan, or Manual Scan -> HD Scan, the default Focus Points are deleted from
the thumbnail. After that, you can move, resize, and delete the default AOIs, add your own AOIs, and add your own focus points.
Note: In Manual Mode Focus Approach, a slide is scanned in “Regular” Scan Mode. The “Selective” option for scanning is not available
in Manual Mode Focus Approach.
Move Default AOI (Figure 3-25) •Place the cursor inside the box.
Whenever an AOI box is selected, the buttons are activated in the thumbnail pane.
•Release the mouse button: The AOI is modified.
Note: To undo changes to the AOI, click the “Reset AOI” button. The AOI is restored to the
original default setting.
Resize Default AOI (Figure 3-26) •Select an AOI.

•Place the cursor over a resize point: The cursor shape is changed, from the move cross to a
plain arrow to a resize arrow.
•Grab a resize point and move the border up, down, left, or right: The AOI is resized.
Delete Default AOI (Figure 3-27) •Select an AOI.

•Click the left mouse button: The “Delete AOI” button is activated in the thumbnail pane.
•Click the “Delete AOI” button: The selected AOI is deleted.
Note: You can also delete AOI(s) by clicking “Remove All AOIs” from the Modify Scan Area
Options menu.
Add AOI (Figure 3-28) •Click the “Add AOI” button in the thumbnail pane: A small AOI box is posted in the upper
right corner of the thumbnail.
•Select the box.
•Place the cursor in the box.
•Release the mouse button: The AOI is added.
•Save the AOI.
•Click the “Save & Close” button in the thumbnail pane.
Add Focus Points •Place the cursor in the AOI box over the desired point of focus.
•Click the right mouse button: The Modify Scan Area menu is opened.
(Figure 3-29) •Select “Add Focus Point”: A focus point (green square) is added to the AOI.
•Add as many focus points as needed. You must add at least one focus point on tissue for
each AOI before initiating a scan.
•To delete a misplaced focus point, place the cursor over the point (the color of the point is
changed, from green to red), then click the right mouse button. The selected focus point is
removed.

Figure 3-24 Manual Scan Focus Approach Options
Figure 3-25 Default AOI Box Selected in Manual Mode
Added
AOI
Box
Figure 3-26 AOI Box Posted in Manual Mode

Figure 3-27 Default AOI Box Selected in Manual Mode
Figure 3-28 AOI Added in Manual Mode
Figure 3-29 Focus Points Added in Manual Mode


1 Click the Schedule Batch Process button.
The Schedule Batch Process Window is launched on the console. (Figure 3-30)
From this window, you can configure the order in which the scanner captures thumbnails and scans slides. Basically, you select a rack,
configure the order of the slides in the slots in the rack, select another rack, configure the order of the slides in the slots in the rack,
and continue in this manner until you configure the order for all of the slides and all of the racks.
2 Click the number of a rack in the rack column list.
The slides in the slots in the selected rack are posted in the Slot column.
3 Click the number of a slide in the Slot list.
4 Click the Slot Up button to move the slide up in order, or click the Slot Down button to move the slide down in order.
5 Click the number of another rack in the rack column list.
The slides in the slots in the selected rack are posted in the Slot column.
6 Click the Rack Up button to move the selected rack up in order, or click the Rack Down button to move the rack down in order.
7 Continue in this manner until you configure the order for all of the slides and all of the racks.
8 Click OK after the order is configured.
The Schedule Batch Process Window is closed.
The subsequent slide scan is performed in the order configured.
Figure 3-30 Schedule Batch Process Window
Note: Selecting volume scan for a batch scan operation is not recommended.
Scan the Slide

1 In the Slide Setup table, click the check box for the slide.
- A check mark is placed in the box.
2 -Click the “Save Rack Settings” button.
- All changes or modifications made to the slide are saved.
3 Click the “Start Scanning” button.
The image is scanned and then compressed into a digital format (BIF).

Interrupt a Batch Scan (Continuous Access)

1 Click the Open/Close Door button.
You are prompted to interrupt the current Batch Process.
No? •The signal is ignored.

•Operations in progress are continued.
Yes? •The thumbnail capture or slide scan in progress is continued to completion.

•Operations are suspended.
•The slide is returned to the rack.
•The scanner door is opened.
At this point, you can:

•Add or remove racks.
•Add or remove slides.
•Close the door and resume operations.
Note: You can initiate interrupts as needed in order to add, remove, or replace racks or slides.
Interrupt Effect on Operations

• If all the slides in a rack are scanned successfully before the batch is interrupted, the rack is automatically refreshed when the next
slide detect is initiated.
• If the current thumbnail capture or slide scan is interrupted, information about all slides in all racks detected before the interrupt
is retained.
• If you add a new rack after the current thumbnail capture or slide scan is interrupted, the new rack and all slides in the rack are
detected during the next slide detect.
• If you add a new slide to any rack after the current thumbnail capture or slide scan is interrupted, the slide is detected during the
next slide detect.
• If you remove a slide, that slide is no longer detected.
Note: If you replace a detected, thumbnailed, or scanned slide with a new slide, the scanner is unable to distinguish the old slide
from the new one. This may cause unpredictable results.
Abort a Batch Scan
CAUTION: DO NOT ABORT THE BATCH SCANNING PROCEDURE (using the Abort button) UNLESS THE PROCEDURE
POSES A RISK OF INJURY TO THE USER OR DAMAGE TO THE SLIDES.
1 Click the Abort Batch Scan button.

The current thumbnail capture or slide scan is paused, and you are prompted for further action:
Abort the Batch Scan immediately? •All operations are immediately halted.
•The current slide is suspended on the Stage.
Note: You must manually remove the slide from the Stage.
Deposit the current slide back in its rack and then abort •The current slide is returned to the rack.
the Batch Scan? •The scanner is returned to the “Home” position.
•All operations are then halted.
Complete the current slide scan and then abort the Batch •The thumbnail capture or slide scan in progress is continued to
Scan? completion.
•The slide is returned to the rack.
•All operations are then halted.

Perform a Volume Scan (Z-Stacking)

The Volume Scan (Z-Stacking) feature produces layered images of a selected scan(s). By default, the system scans 5 layers at a
thickness of 2.0 microns. See “Configure Slide Scan Settings” on page 40 to change the default number of layers and thickness of
each.
1 On the Slide Setup table, click the slide’s Volume Scan box (Figure 3-31).
Click the check box at the top of the Volume Scan column to volume scan every slide in the selected rack.
2 Click the Scan Slide(s) button. The slide scan process is initiated.
Figure 3-31 Volume Scan (Z-Stacking) Column
Note: Selecting volume scan for a batch scan operation is not recommended.
Scanner Console after Successful Manual Scan
Figure 3-32 Scanner Console After Successful Scan: Slide Detect, Thumbnail Capture, Slide Scan
After a slide is successfully scanned, you can modify its scanning parameters, then scan the slide again (see “Re-Scan a Slide after a
Successful Scan” on page 61).
Note: If you modify the scanning parameters of a successfully scanned slide, the status of the slide is changed from “Successful
Scan” to “Thumbnail Captured,” and all information about the successful scan of the slide is lost.

Save a Session
1 Click Session -> Save.
The Save Session Windows is opened on the console. (Figure 3-33)
2 Place the cursor in the Session Name field.
3 Enter a name.
4 Click Save.
A Confirmation window is opened. (Figure 3-34)
5 Click OK.
The confirmation window and the Save Session Window are closed.
The session is saved. (Figure 3-35)
Information about the session, including the date and the time the session is saved, is also saved.
Figure 3-33 Save Session Window
Figure 3-34 Save Session Window: Session Named

Figure 3-35 Save Session Window: Session Saved and Listed
Review Saved Sessions

1 Click Session -> Save.
The Save Session Window is opened on the console. (Figure 3-36)
A list of saved sessions is displayed.
2 Close the window:
- Click Cancel.
Figure 3-36 View Saved Sessions Window: Sessions Saved and Listed

Load a Session
1 Click Session -> Load.
The Load Session Windows is opened on the console. (Figure 3-37)
2 Click a session in the list.
The selection is highlighted. (Figure 3-38)
3 Click Load.
The Load Session Window is closed.
4 Click the Open/Close button, or click File -> Open/Close Door.
The selected session is loaded on the iScan Coreo Au console.
Figure 3-37 Load Session Window
Figure 3-38 Load Session Window: Session Selected

Delete a Session
1 Click Session -> Delete.
The Delete Session Windows is opened on the console. (Figure 3-39)
2 Click a session in the list.
3 Click Delete.
You are prompted to delete the session. (Figure 3-41)
4 Click Yes.
The selected session is deleted from the list.
Figure 3-39 Delete Session Window
Figure 3-40 Delete Session Window: Session Selected

Figure 3-41 Delete Session Window: Session Deleted
Examine the Image

1 Click the View Image button.
The Image Viewer program is launched.
The image is opened on the Image Viewer console.
For more information, see “Chapter 5: Image Viewer” on page 125.
Figure 3-42 Image Viewer Console

Re-Scan a Slide after a Successful Scan

1 On the scanner console, click the slot number of the slide in the slide setup table.
The image of the slide is opened/posted in the thumbnail pane.
You can also select the slide from the rack map: Click the slot corresponding to the slide. The image of the slide is open/posted in the
thumbnail pane.
2 In the thumbnail pane (or zoom thumbnail pane), modify one or more of the slide’s scan parameters:
- Add focus points
- Add or hide prescan points
- Add, move, resize, or remove AOIs
- Change scan mode
- Change scan approach
If you change the scan mode focus approach from “Auto” to “Manual,” the scan mode is changed to “Regular.”
3 Save the changes:
- Click the “Save & Close” button.
4 In the slide setup table, click the “Scan” box corresponding to the slide.
5 Click the “Scan Slide” tool bar button.
The slide is re-scanned.
Note: This procedure can also be used to re-scan a slide that is not successfully scanned (a slide scan error).
Shut Down Scanner Console
Shutdown from File Menu

1 Click File -> Exit.
The scanner console is shut down.
If a session contains unsaved edits, you are prompted to save the edits before closing the scanner.
Figure 3-43 File -> Exit
Shutdown from Console

1 Click the Close Application (red X) button in the upper right corner of the scanner console.
The scanner console is shut down.
If a session contains unsaved edits, you are prompted to save the edits before closing the scanner.
Figure 3-44 Close Application (Red X) Button

iScan Coreo Au Tool Bar Button Definitions
Open/Close Door
Open or close the scanner door.

•Click the Open/Close Door button: The scanner door opens, providing access to the autoloader. You can place a
rack of slides in the tray or remove a rack of slides from the tray.
•Click the Open/Close Door button: The scanner door closes. After the door is closed, the rack map is refreshed
and the slide detect process is initiated.
Note: If you click the Open/Close Door button during a batch scan, the process is interrupted.
Refresh Racks
Initiate a slide detect process.

•Click the Refresh Racks button: You are prompted to refresh the rack map.
•Click Yes: The slides in the slots in the racks are read, if new, or reread if unchanged since the last slide detect.
Note: The Refresh Racks button is inactive and grayed out and unavailable until all scanner operations or processes
are completed or terminated.
Save Current Rack Information
Save the slide scan settings for the slides in the slots in the selected rack.
•Click the Save Current Rack Information button: The slide scan settings for the slides in the slots in the selected
rack are saved.
Clear Current Rack Information
Clear the slide scan settings for the slides in the slots in the selected rack.
•Click the Clear Current Rack Information button: You are prompted to clear the slide scan settings for the slides in
the slots in the current rack.
•Click Yes: The slide scan settings for the slides in the slots in the current rack are cleared.
Select All Racks
Selects all of the slides in all of the racks for thumbnail capture or slide scanning.
•Click the Select All Racks button: all slides in all racks are selected as indicated by the checkmark in the left-hand
column of the slide setup table.
Note: After slide detect, all slides in all racks are selected by default.
Clear Information From All Racks
Clear the slide scan settings for all of the slides in all of the slots in all of the racks.
•Click the Clear Information From All Racks button: You are prompted to clear the slide scan settings for all of the
slides in all of the slots in all of the racks.
•Click Yes: The slide scan settings for all of the slides in all of the slots in all of the racks are cleared.

Schedule Batch Process
Schedule a Batch Process for capturing thumbnails or scanning slides.

•Click the Schedule Batch Process button: The Schedule Batch Process Window is launched on the console. From
this window, you can configure the order in which the scanner captures thumbnails or scans slides.
•Click the number of a rack in the rack column list: The slides in the slots in the selected rack are posted in the Slot
column.
•Click the number of a slide in the Slot list.
•Click the Slot Up button to move the slide up in order, or click the Slot Down button to move the slide down in
order.
•Click the number of another rack in the rack column list: The slides in the slots in the selected rack are posted in
the Slot column.
•Click the Rack Up button to move the selected rack up in order, or click the Rack Down button to move the rack
down in order.
•Continue in this manner until you configure the order for all of the slides and all of the racks.
•Click OK after the order is configured: The Schedule Batch Process Window is closed. The subsequent thumbnail
capture or slide scan is performed in the order configured.
Capture Thumbnail
Start the Capture Thumbnail process for detecting tissue on a slide.

•Click the Capture Thumbnail button. When the scanner has completed the process, a thumbnail view of the slide
is posted in the Thumbnail Preview column in the Slide Setup table. During the Capture Thumbnail process, the
status bar displays the following messages about the scanner:

•When the scanner is finished capturing a thumbnail view of the slide (or a batch of slides), the Capture Thumbnail
button is reactivated. At this point, you can start capturing the thumbnail of another slide (or a batch of slides).
Note: During a thumbnail capture—when the scanner is actually capturing a thumbnail view of the slide—you can
configure and save rack details, thumbnail settings, or scan settings of other slides, but you cannot capture
the thumbnail view of another slide (because the scanner is already in use). At this time, the Capture
Thumbnail button is inactive.
Scan Slide(s)
Start the slide scan process for scanning a slide and capturing the scan area specified by default (a one-touch, Walk
Away Scan) or by the scanner operator (a Manual Scan).
•Click the Scan Slide(s) button: The slide scan process is initiated: The scanner scans the slide and captures the
scan area specified by default (a one-touch, Walk Away Scan) or by the scanner operator (a Manual Scan). During
the slide scan process, the status bar displays the following messages about the scanner:

Scanning Slide from Rack x Slot x
•When the scanner is finished scanning a slide (or a batch of slides), the Start Scanning button is reactivated. At
this point, you can start scanning another slide (or a batch of slides).
Note: During a slide scan—when the scanner is actually scanning the slide—you can configure and save rack details,
thumbnail settings, or scan settings of other slides, but you cannot scan another slide (because the scanner
is already in use). At this time, the Start Scanning button is inactive.

View Image
Start the image viewing process (open the Image Viewer) by doing one of the following:
•Click the View Image button
•Double click the scanned (green) thumbnail
The scanner launches the Image Viewer program on the Windows desktop which allows you to view and annotate
digital images, as well as share (send or transmit) the images locally or remotely.
Note: The viewer and the scanner can run at the same time on the Windows desktop. You can switch from one
application to the other by clicking the viewer tab or scanner tab at the bottom of the desktop.
Abort
CAUTION: DO NOT ABORT A SCANNING PROCEDURE (using the Abort button) UNLESS THE PROCEDURE
POSES A RISK OF INJURY TO THE USER OR DAMAGE TO THE SLIDES.
Terminate the current thumbnail capture or slide scan procedure.

•Click the Abort button during a thumbnail capture or a slide scan: The current thumbnail capture or slide scan
procedure is paused, and you are prompted to abort the batch scan immediately, or deposit the current slide back
in its rack and then abort the batch scan, or complete the current procedure and then abort the batch scan.
Note: If you click the Abort button during any other procedure: The procedure is paused, and you are prompted to
abort the procedure and terminate the application gracefully, or continue the procedure (especially if the
Abort button is unintentionally or mistakenly clicked).
Diagnostic Module
Run the Scanner Diagnostic Utility.

•Click the Diagnostic Module button: A Utility Window and a Module Window are opened on the console.
•See “Appendix C: iScan Coreo Au Diagnostic Module” on page 177 for information on running the Scanner
Diagnostic Module.
Note: The Diagnostic Module button is inactive and grayed out and unavailable until the scanner is ready for
operation (idle). To help determine availability, check the scanner status bar.
iScan Coreo Au Live (Remote Telepathology)
Run the iScan Coreo Au Live application.

•Click the Live button: You are prompted to save your current session.
•Answer the prompts: The iScan Coreo Au application is closed, and the Live application is launched.

Keyboard Shortcuts
Open/Close Door Ctrl + D
Refresh Racks Ctrl + R
Save Current Rack Information Ctrl + S
Clear Current Rack Information Ctrl + Delete
Clear Information From All Racks Ctrl + Shift + Delete
Schedule Batch Process Ctrl + H
Capture Thumbnail Ctrl + T
Scan Slide(s) Ctrl + N
View Image Ctrl + O
Abort (Batch Process) Ctrl + A
Move Stage to Right Access Panel Ctrl + E
Move Stage to Left Access Panel Ctrl + P
Diagnostic Module Ctrl + M

Settings Ctrl + L
Online Help F1
About iScan Coreo Au F11
Exit Alt + F4

Slide Scanning Color Codes

Color codes are used in the Slide Setup table and in the Rack Map pane to show scanning status from slide detection to scanning completion.
Slide scanning color codes are defined in the color legend (Figure 3-45) which is accessed from the View menu. The below table further defines
the color codes:
Figure 3-45 Color Legend
Blue Slide not detected.
Pink Slide detected.
Orange Thumbnail captured.
Yellow Slide scanning in process.
Brown Creating output file.
Green Slide scanning completed.
Green and White Slide scan completed but not all AOI were scanned.
Angled Lines

Red Error. See “Appendix B: iScan Coreo Au Error Messages” on page 175.
Green and Red Slide scan completed but the slide was not deposited back into the slide tray.
Angled Lines This code indicates that the slide remains on the scanner stage and must be
removed. See “Manual Slide Removal” on page 24 for instructions on how to
remove the slide from the scanner stage.
Orange and Thumbnail captured but slide deposited in slide cache tray. See “Manual Slide
White Lines Removal” on page 24 for information on removing slides from the cache tray.
Green and White Slide scanning completed but slide deposited in slide cache tray. See “Manual
Lines Slide Removal” on page 24 for information on removing slides from the cache
tray.
Red and White Error, slide deposited in the slide cache tray without a thumbnail captured or
Lines a completed slide scan. See “Slide Cache Tray (Slide Deposit Errors)” on
page 23 for information on slide deposit errors.

Set Up and Configure Scanner User Accounts

After initial console startup, the scanner has, by default, one user account: the Administrator. This Administrator must set up and
configure accounts for other administrators and users. After these accounts are set up and configured, other administrators and users
can log into and use the scanner.
Note: The default Administrator account cannot be modified or deleted.
Administrator Account
Services Permitted
• Modify own account.
• Set up and configure accounts for other administrators and users.
• Reset passwords for other administrators and users.
• Modify and delete accounts for other administrators and users.
• Configure scanner to generate filenames of slides from 2D barcodes on labels of slides.
If configured, this setting is applied to all users when the “Apply Barcode as Filename” option is selected in the Options ->
Settings -> Output Filename Configuration window or in the rack details section of the Slide Setup Table.
Services Prohibited
• Modify or delete default Administrator account.
User Account
Services Permitted
• Modifying your account
• Configuring the scanner for self use.
If needed, the owner of a user account can customize the scanner for his own use by configuring the general settings in the
Options -> Settings -> General Settings window. The settings include scanning options (magnification, output directories, focus
approach), filenaming conventions, and rackmap orientation. These settings are applied to every session run by the user.
• Saving, loading, deleting, and overwriting your sessions.
• Saving or loading sessions from other users.
Note: User account modifications include a checkbox option to hide slide labels for sessions you create. Hiding slide labels is used
for blinding purposes. This option is also available when configuring general settings. For more information, see “Hide Slide
Label” on page 74.
Services Prohibited
• Changing your role
• Changing your user name (login ID).
• Deleting your account.
• Setting up, modifying, or deleting an account (administrator or user).
• Overwriting sessions of other users.
• Configuring the scanner to generate filenames of slides from 2D barcodes on labels of slides.

Setting Up (Creating/Adding) New Accounts

Note: This procedure can be performed only by an Administrator.
1 Click Tools -> User Management.
The User Management Window is opened on the console. (Figure 3-46)
2 Click Add.
A User Information Window is opened. (Figure 3-47)
3 Fill out the required fields (Middle Name and E-Mail Address are optional). (Figure 3-47)
4 Specify a User Role: Administrator or User. (Figure 3-47)
5 Click Save.
The User Information is added to the User Management Table. (Figure 3-49)
6 Restart the scanner console.
The added administrator or user can log in and use the scanner.
Note: The buttons at the bottom of the window are inactive and grayed out and unavailable until a user account is selected.
Figure 3-46 User Management Main Window
Figure 3-47 User Information Window: Filled Out

Figure 3-48 User Information Window: Filled Out
Figure 3-49 User Management Window: User Accounts Added

Modify An Account
Note: This procedure can be performed by an Administrator on his own account as well as other administrator and user accounts,
and by a User on his own account. A User cannot, however, change his own Role or his own User Name (login ID).
The User Management Window is opened on the console.
2 Click an account in the table.
3 Click Modify.
A User Information Window is opened. (Figure 3-51)
4 Modify the information.
5 Click Save.
The User Information is modified, and the new information is added to the User Management Table.
6 Restart the scanner console.
The owner of the modified account can log in and use the scanner.
Figure 3-50 User Management Window: Accounts Listed
Figure 3-51 User Information Modification Window

Delete An Account
Note: This procedure can be performed only by an Administrator.
The User Management Window is opened on the console.
2 Click an account in the table.
The selection is highlighted.
3 Click Delete.
You are prompted to delete the user. (Figure 3-52)
Deleting a user deletes all sessions saved by the user.
4 Click Yes.
The selected user is deleted from the User Management Table.
Note: All sessions saved by the user are also deleted from the Sessions Window.
Figure 3-52 User Account Deletion Prompt

Configure General Settings

The Options Window is opened on the console.
2 Click the General Settings tab.
The General Settings Window is opened on the console. (Figure 3-53)
The parameters for scanning slides are displayed.
Note: At initial console startup, the parameters are configured to their default settings. You can reconfigure these parameters
whenever the scanner is ready for operation (idle).
Figure 3-53 Options General Settings Window

Slide Scanning Parameters
Temp Directory Path Where the scanner temp images are stored. The default is C:\DirTemp.
Output Directory Path Where the images are stored after scanning. The default is D:\CoreoImages.
Note: A subfolder named after an assigned folder name is created by default by the scanner in the
output directory. All slides associated with the assigned folder name are placed in the subfolder.
Copy File to Server Option to copy scanned images to another location. If you select this option, scanned images are copied
from the Output Directory path to the Server path.
Export Images to IMS Enables scanned images to be exported to the Image Management System.
Note: The Image Management System is configured at scanner installation or at a configuration

checkpoint.
Server Path Where copies of scanned images are stored (if Copy File to Server is checked).
Digital Slide Name The default folder name applied to slides.
Note: If you change the name in this field, save your change, then restart the scanner, your change is
applied as the default folder name of the slides.
Focus Approach The focus technique used during scanning:

•Stat: High image quality (default)
•Routine: Higher image quality
•HD: Highest image quality
Note: HD is fast; Routine is faster; Stat is fastest.
AOI Detection Approach The AOI detection technique used during scanning:
•Standard: For slides with regular tissue orientation.
•PIN Array: For slides with specific tissue orientation. Check with Ventana Medical Systems, Inc.,
before using this parameter.
Scan At Select the magnification of the objective used for scanning from the drop-down menu: 4X, 10X, 20X, or
40X. The default magnification is 20X
The magnification is automatically detected by the scanner after any one of the following events:
•A user logs in
•The Objective Door is opened and closed
•A session is loaded
Hide Slide Label When selected, hides the slide label on the scanned image for blinding purposes.
No. of Z Layers The number of layers to scan of a single frame for Volume Scanning (Z-Stacking).
Note: The default number of Z Layers is 5.
Z Delta The distance between each layer (Z Delta) in a Volume Scan (Z-Stacking).
Note: The default Z Delta is 2.0 microns.
Configured and saved parameters apply only to the user who configured and saved them. They are not applied to any other user or
the general system.
When a user logs out of the scanner, the configuration saved by that user is stored by the scanner. When the same user logs back
into the scanner, the configuration previously saved by that user is restored by the scanner.
For more information, see “Configure Slide Scan Settings” on page 40.

Configure Output Filenames

Note: The default filenaming convention for individual slides is SlideName_DateTimeStamp.FileExtension (for example,
biotest0812_200808130037.jp2).
2 Click the “Output Filename Configuration” tab.
The Output Filename Configuration Window is opened on the console. (Figure 3-54)
Figure 3-54 Options: Output Filename Configuration: Default Setting
The parameters for configuring output filenames are displayed.

At initial console startup, the output filenames are configured by default to use the Virtuoso filename convention (see “Slide Naming
Parameters” on page 77). The other parameters are inactive and grayed out and unavailable until the default configuration is
deselected. You can configure these parameters whenever the scanner is ready for operation (idle). (Figure 3-55)
3 If you want to use the default filenaming convention (Virtuoso), click OK.
The default filenaming convention is applied to every slide during a slide scan.
4 If you want to configure your own output filenaming convention:
- Deselect the default filenaming convention. (Figure 3-55)

Figure 3-55 Options: Output Filename Configuration Window: All Settings Activated
The other parameters are then activated and available for selection.
- To append a date stamp to the default filenaming convention, click “Append Date Stamp.”
- To append a time stamp to the default filenaming convention, click “Append Time Stamp.”
- To append a date stamp and a time stamp to the default filenaming convention, click both “Append Date Stamp” and “Append time
Stamp.”
5 Select a delimiter to separate the filename from the date stamp or the time stamp, or both.
6 If you want to create a new folder for each group of slides scanned:
- Click “Create New Folder for Each Group.”
7 Click OK.

Slide Naming Parameters
Use Virtuoso Filename Convention The Virtuoso Filename Convention is used:

SlideName_Rack#_Slot#_DateTimeStamp.FileExtension (for example,
biotest0812_7_1_200808130037.jp2). The Virtuoso Filename Convention delimiter is an
underscore. Select this convention is you are using the iScan Coreo Au slide scanner with
Virtuoso.
Append Date Stamp A date stamp (in YYYY/MM/DD format) is appended to a filename and consists of the
following information:
SlideName_Rack#_Slot#_DateStamp.FileExtension
The Date Stamp delimiter is a dash or an underscore as in the following example:
biotest0812_7_1_20080813.jp2
Note: The Rack# and Slot# are not required if you edit and create your own filenames:
SlideName_DateStamp.FileExtension (for example, biotest0812_20080813.jp2).
Append Time Stamp A time stamp (in Military time format) is appended to a filename and consists of the
following information:
SlideName_Rack#_Slot#_TimeStamp.FileExtension
The Time Stamp delimiter is a dash or an underscore as in the following example:
biotest0812_7_1_1437.jp2
Note: The Rack# and Slot# are not required if you edit and create your own filenames:
SlideName_TimeStamp.FileExtension (for example, biotest0812_1437.jp2).
Create New Folder for Each Group A subfolder named after an assigned folder name is created by the scanner in the output
directory. All slides associated with the assigned folder name are placed in the subfolder.
Apply Barcode as Filename The barcode on the label of a slide is used to form the filename of a slide and consists of
the following information:
Barcode_DateTimeStamp.FileExtension
The following barcode filename examples includes 1D and 2D barcodes:
1D: 20761234_201008131437.jp2
2D: 20761234_HER2_201008131437.jp2
Note: This parameter is inactive and grayed out and unavailable until a barcode license
is installed. For information on obtaining a barcode license, contact Ventana
Medical Systems, Inc.
Delimiter to Separate Date/Time Stamp A dash or an underscore, separating the slide name from the date stamp or the time
stamp.
Note: If no options are selected, the output filenaming convention for individual slides is SlideName.jp2, with no date stamp or time
stamp.
Duplicate filenames are not allowed. If you attempt to save a file with a name that is already in use, a date stamp and a time stamp
are automatically appended to the name of the file to keep it unique.
Configured and saved parameters apply only to the user who configured and saved them. They are not applied to any other user or
the general system.
When a user logs out of the scanner, the configuration saved by that user is stored by the scanner. When the same user logs back
into the scanner, the configuration previously saved by that user is restored by the scanner.

Configure Slide Filenames from 2D Barcodes

1 Click “Tools -> 2D Barcode Configuration.”
The 2D Barcode Configuration Main Window is opened on the console. (Figure 3-56)
Figure 3-56 Tools: 2D Barcode Configuration Main Window
The buttons in the window are inactive and grayed out and unavailable until a Captured Thumbnail is opened for 2D Barcode
Configuration.
2 Open a thumbnail with a 2D barcode:
- Place the cursor on a captured thumbnail with a 2D barcode.
- Right click.
An iScan Coreo Au window is opened, prompting you to configure slide filenames from the 2D barcode.
- Click “Yes.”
The thumbnail is opened in the thumbnail pane of the 2D Barcode Configuration Main Window. (Figure 3-57)
You can also open a thumbnail with a 2D barcode as follows: Click “Open” in the 2D Barcode Configuration window. Browse to the
folder containing captured thumbnails (C:\Program Files\Ventana Medical Systems Inc\iScan\ThumbnailImages): The thumbnail images
available for configuration are listed. Double-Click a thumbnail with a barcode (or, click a thumbnail with a barcode, then click the
“Open” button): The selected thumbnail is opened in the thumbnail pane of the 2D Barcode Configuration window. (Figure 3-57)

Figure 3-57 Tools: 2D Barcode: Open Captured Thumbnail
3 Click “Get Barcode.”

The 2D barcode on the slide is read.
The 2D barcode information is posted in the Barcode Pane beneath the thumbnail panel. (Figure 3-58)
The 2D barcode includes multiple fields.

Figure 3-58 Tools: 2D Barcode: Get Barcode
4 Enter a field separator in the Barcode Field Separator box.

Acceptable field separators include special characters only; no alphanumeric characters are allowed.
5 Click “Get Fields.”
The fields are read, then separated and listed in the Barcode Fields Pane. (Figure 3-59)

Figure 3-59 Tools: 2D Barcode: Get Fields
6 Configure a filenaming convention:

- Select a field in the Barcode Fields pane. (Figure 3-60)
- Move the selected field into the Filename Fields pane: Click the move button (>>) to move a single field into the Filename Fields
pane. Click the move all button (All>>) to move multiple fields into the Filename Fields pane. If a field is selected but the move button
is grayed out, you cannot move the field. Likewise, if multiple fields are selected but the move all button is grayed out, you cannot
move the fields.The Filename Fields pane cannot contain duplicate entries.
- Select a field in the Filename Fields pane.
- Click the “Up,” “Down,” or “Remove” button: The selected field is moved up or down, or removed.
7 In the output filename pane, select a “Barcode Field Separator” (dash or underscore). (Figure 3-60)

Figure 3-60 Tools: 2D Barcode: Edit Barcode Fields
8 Click Save.
The new filenaming convention is saved. (Figure 3-61)
The new filename of the slide is posted in the output filename area of the Output Filename pane.

Figure 3-61 Tools: 2D Barcode: Edit Filename Fields
9 In the Rack Details section of the Slide Setup table on the scanner console, click “Apply Barcode as Filename.”
(Or, from the scanner menu, click “Options -> Settings -> Output Filename Configuration,” then click “Apply Barcode as Filename.”)
The new filenaming convention is applied to every slide with a 2D barcode when a slide is scanned. The new name for each slide is
posted in the digital slide name column of the slide setup table.
If a slide has no 2D barcode, the default filename is used as the output filename. If, however, you set the filename in the rack details
section of the slide setup table, that filename is used as the output filename when a slide has no 2D barcode.
The 2D barcode configuration must be set only one time. It then applies to all scanner users and sessions.

Configure Rack Map Orientation

The default rack map orientation displayed on the console is in the reverse order (right to left) of the racks loaded into the slide tray
of the scanner because the scanner reads the order of the racks from left to right once the scanner door is closed. Therefore, Rack 1
displayed on the rack map actually corresponds to Rack 4 in the scanner tray (Figure 3-62). If desired, use the following procedure to
reconfigure the rack map orientation.
Rack Order in the Scanner Tray Default Rack Order Displayed in

the Console Rack Map
Figure 3-62 Rack Order for Sakura Baskets in Scanner Tray and Resulting Rack Order Displayed in the Rack Map

2 Click the rack map orientation tab.
The rack map orientation window is opened on the console. (Figure 3-63)
3 Select a rack map orientation from the palette on the left side of the window.
- Place the cursor on the scroll bar.
- Scroll up or down.
- Left-click an orientation. (Figure 3-64)
4 Click OK.
The order of the racks in the rack map pane is changed to the selected orientation. (Figure 3-65)
Note: The order of the racks in the rack map pane can be changed before or after a slide detect, thumbnail capture, or slide scan;
the order cannot be changed, however, during a slide detect, thumbnail capture, or slide scan.

Figure 3-63 Rackmap Orientation Window
Figure 3-64 Rackmap Orientation Window: Orientation Selected

Figure 3-65 Rackmap Pane: Resulting Rack Map Orientation

iScan Coreo Au User Manual Chapter 4: iScan Coreo Au Live (Remote Telepathology)
Chapter 4: iScan Coreo Au Live (Remote Telepathology)
The iScan Coreo Au scanner includes the iScan Coreo Au Live application which allows remote access and use of the scanner
through a common internet browser. The Live application offers most of the functionality of the iScan Coreo Au desktop but with
the ability to perform telepathology from any location where internet access is available. Features of the Live application include
capturing thumbnails, viewing the resulting slide at various magnifications, evaluating and highlighting Areas of Interest (AOI), and
capturing snapshots to save or send to others for evaluation.
The Live application also enables remote collaboration allowing multiple users to view a hosted session, share images, and discuss
evaluations.
Note: Confirm with your system administrator that the host and remote workstations are properly configured to enable iScan Coreo
Au Live.
Topics Covered in This Chapter

• System Requirements (page 88)
• Start up iScan Coreo Au Live (page 88)
From a Browser
From the iScan Computer Desktop
From the iScan Coreo Au Console
• iScan Coreo Au Live Features (page 91)
Thumbnail Console
Open a Slide in the Live Viewer Console
• Perform Live, Remote Telepathology (page 105)
Examine an Image at Various Magnifications
Enlarge (Zoom Thumbnail)
Take, Save, Export a Snapshot of an Image
Close an Image
• Collaboration Features (page 112)
Live Application Installation for Remote Users
Login to a Hosted Session
Hosting a Collaboration Session
Remote Chat
Requesting and Granting Control of a Session
Ending a Collaboration Session
• iScan Coreo Au Live Tool Bar Button Reference Guide(page 116)
Thumbnail Console Tool Bar Buttons
Live Viewer Console Tool Bar Buttons

Chapter 4: iScan Coreo Au Live (Remote Telepathology) iScan Coreo Au User Manual
System Requirements
The iScan Coreo Au Live application has been validated for use with the following system configuration:
System Software Windows XP (Service Pack 2), Windows Vista, or Windows 7™
Web Browser Internet Explorer 7
Server Operating System Windows Server 2003 (Service Pack 1)
Screen Resolution
In order to properly view slide images on the iScan Coreo Au Live application, set the screen resolution on the monitor to the
recommended pixel ratio:
Minimum 1024 X 768 pixels
Recommended 1680 X 1050 pixels
Start up iScan Coreo Au Live

You can start up iScan Coreo Au Live from a browser or from the iScan Coreo Au console.
Note: You cannot log into iScan Coreo Au Live if your scanner is already in use.
Starting up from a Browser

1 Open a browser window.
2 Enter the URL of the iScan Coreo Au scanner which can be obtained from the iScan Coreo Au administrator.
3 Press the Enter key.
The iScan Coreo Au Live log in screen is opened. (Figure 4-1)
- Click OK:
The iScan Coreo Au live thumbnail console is opened on your desktop. See Figure 4-5 on page 91.
The scanner stage is brought to its home position.
The scanner racks are refreshed.
A slide detect is performed.
Note: Obtain a user name and password from your iScan Coreo Au administrator.

Figure 4-1 Login Screen on a Browser
Note: Selecting the checkbox for Load Session opens the last saved session.
Starting up from the iScan Coreo Au Desktop

1 On your Windows desktop: Double-click the iScan Coreo Au startup icon.
The iScan Coreo Au login screen is opened.
3 Click OK:
- The iScan Coreo Au live thumbnail console is opened on your desktop. See Figure 4-5 on page 91.
- The scanner stage is brought to its home position.
- The scanner racks are refreshed.
- A slide detect is performed.
Note: Obtain a user name and password from your iScan Coreo Au administrator.
Figure 4-2 iScan Coreo Au Desktop Icon

Starting up from the iScan Coreo Au Console

1 Click the iScan Coreo Au Live button. (Figure 4-3)
You are prompted to save your edits.
The iScan Coreo Au console is closed.
The iScan Coreo Au live thumbnail console is opened on your desktop. If present, the last saved session is loaded. See Figure 4-5 on
page 91.
The scanner stage is brought to its home position.
The scanner racks are refreshed.
A slide detect is performed.
Figure 4-3 iScan Coreo Au Live Button
iScan Coreo Au Live Button
Figure 4-4 iScan Coreo Au Live Button on the console
Note: For ongoing sessions, there is no requirement to re-home or perform a slide detect.

iScan Coreo Au Live Features

After log in, the live thumbnail console is opened.
From the thumbnail console, you can capture a thumbnail of a slide, then open the thumbnail in the viewer console. From the viewer
console, you can control the scanner.
iScan Coreo Au Live Thumbnail Console

• Tool Bar
• Rack Map Pane
• Thumbnail Pane
• Disconnect Scanner Button
• Collaboration Button
Tool Bar Buttons Disconnect Scanner B
Collaboration Button
Rack Map Pane Thumbnail Pane
Figure 4-5 Live Thumbnail Console

iScan Coreo Au Live Thumbnail Console Tool Bar
Unless the Live application is launched from the iScan Coreo Au console, the slide racks are refreshed automatically during startup
and the tool bar buttons are available for use for any slides that are detected.
Tool Bar Buttons
Figure 4-6 Live Thumbnail Console Tool Bar Buttons
Note: Refer to the Thumbnail Console Tool Bar Button Reference Guide on page 116 for detailed information on button functionality.
Rack Map
The rack map pane shows the presence or absence of slides in the racks.
Note: The first four racks are displayed in the thumbnail pane. Click on any rack from five through eight in the rack map pane to
display the next four racks in the thumbnail pane.
The border of the current or selected racks is highlighted in blue. Occupied slots in a rack are highlighted in pink. You can select a
slide for thumbnail capture if it is present in the slot.
Note: Blue = No slide detected. Pink = Slide detected, thumbnail not captured. Orange = Thumbnail captured. Red = Error.
Figure 4-7 Rack Map Pane and Color Bar after Slide Detect

Thumbnail Pane
The thumbnail pane displays information about racks and slides.
Slide detection occurs automatically during the startup of the Live application. Once the Live application has started, you can capture
a thumbnail, open a thumbnail, and then perform live telepathology.
Numbered
Rack Columns
Slots
Figure 4-8 Thumbnail Pane after Slide Detect

Numbered Rack Columns
The first four racks columns are displayed in the thumbnail pane on startup of the Live application. Each rack column is numbered
and corresponds to the columns in the rack map.
Slot
The slots on the thumbnail pane are labeled to indicate if a slide is detected.
Disconnect Scanner Button
Click this button to log out of iScan Coreo Au Live.
Capture a Thumbnail
1 Select a slide and rack. (Figure 4-7)
2 Click the Capture Thumbnail button in the tool bar.
A thumbnail of the slide is captured and posted in the thumbnail pane. (Figure 4-9)
Note: You can select multiple racks and multiple slides for thumbnail capture.To select multiple slides, place the cursor on the initial
slide and press the Shift key when selecting the subsequent slides. A single click of any slide releases the multiple selection.

Numbered Rack Column
Selected Slides
Figure 4-9 Rack and Slides Selected for Thumbnail Capture

Figure 4-10 Thumbnail Captured and Posted in Thumbnail Pane

Open a Slide in the Live Viewer Console Window

1 With the slide selected in a numbered rack column, click the View Slide button on the tool bar. (Figure 4-6)
The slide is opened in the live viewer console window. (Figure 4-12)
2 Examine and evaluate the slide.
3 When done, click the Home button on the tool bar to return to the Live Thumbnail Console window to select another slide.
Figure 4-11 View Slide Button
Note: Auto focusing automatically occurs for the first view of the selected image.

Figure 4-12 Slide Captured and Posted in Live Viewer Console

iScan Coreo Au Live Viewer Console

• Tool Bar Buttons
• Thumbnail Pane
• Main Window
• Single, Double Arrow, and Centering Circle Cursors
• Snapshot Pane
Tool Bar Buttons
Arrow
Main Window
Thumbnail Snapshot
Pane Pane
Figure 4-13 Viewer Console
Live Viewer Console Tool Bar Buttons
After the live viewer console is opened, all of the tool bar buttons are activated and available for use.
Figure 4-14 Live Viewer Console Tool Bar Buttons
Note: Refer to the Live Viewer Console Tool Bar Button Reference Guide on page 118 for detailed information on button
functionality.

Thumbnail Pane
The thumbnail pane displays a smaller view of the image opened in the Main Window.
For preference or convenience, the Thumbnail pane can be closed.
Navigation Point
The Navigation Point outlines an area of interest. This area is mirrored in the image opened in the Main Window.
You can grab and move the box to adjust the position of the image in the Main Window.
The area outlined by the Navigation Point is displayed in the thumbnail pane at the magnification selected for the image in the Main
Window.
Navigation Point
Specimen
Figure 4-15 Thumbnail Pane

Main Window
The Main Window displays an image.
An image is opened in Auto Focus at the standard default objective of 20X magnification.
Note: The standard default objective can be changed. See the description for the Objective button on page 118.
You can adjust the magnification of an image; the brightness, contrast, and sharpness of an image; and the color balance of an image.
Figure 4-16 Main Window

Cursor
You can use the cursor to reposition an image.
After it is moved into the Main window, the cursor changes shape and color and function.
Single Arrow Cursor (Figure 4-17)
You can use the single arrow cursor to pan an image in any direction in the immediate area: Point the arrow and click. The image is
moved 1/3 of a frame in the direction in which the arrowhead is pointing.
Double Arrow Cursor (Figure 4-18)
You can use the double arrow cursor to pan an image in any direction: Point the arrow and click. The image is moved by 1 frame in
the direction in which the arrowhead is pointing.
Centering Circle Cursor (Figure 4-19)
You can use the centering circle cursor to move an area of interest into the center of the Main window: Point the cursor and click.
The area of interest is moved to the center of the Main window.
Figure 4-17 Single Arrow Cursor

Figure 4-18 Double Arrow Cursor
Figure 4-19 Centering Circle Cursor

Snapshot Pane
This pane displays snapshots of images posted in the Main Window. Snapshots are labeled with the magnification level used when
captured.
From this pane, you can capture, export, and delete a snapshot.
Snapshot Buttons
Figure 4-20 Snapshot Pane Empty and Snapshot Pane with Snapshots
Note: A maximum of 10 snapshots is recommended to avoid slower response times.

Perform Live, Remote Telepathology

• Examine an Image
• Enlarge (Zoom Thumbnail)
• Take, Save, Export a Snapshot of an Image
• Close an Image
Examine an Image
1 Change image magnification (click a button on the Magnification Bar).
2 Move the image (point and click the yellow cursor).
3 Center the image (point and click the centering circle cursor).
4 Zoom in or Zoom out (click a Digital Zoom Button).
5 Adjust the clarity of the image (using the Navigation Point).
6 Adjust the clarity of the image automatically as it is moved (click the Auto Button).
7 Configure image settings, if desired (click the Adjust Button).
8 Configure image tracking, if desired (click the Track Button).
9 Enlarge the thumbnail, if desired (click the Enlarge Button).
10 Modify the R.G.B. (red, green, blue) balance in the main window, if desired (click the Check RGB Button).
Figure 4-21 Image at 40X Magnification in Main Window


1 Click the Enlarge button. (Figure 4-14)
The thumbnail is opened in the Zoom Thumbnail window. (Figure 4-22)
The Navigation Point in the Zoom Thumbnail window can be used to adjust the position of the image in the live viewer console window.
(page 105)
Figure 4-22 Thumbnail Pane after Thumbnail Capture

Figure 4-23 Thumbnail Opened in Live Viewer Console (Image Off Center)
Note: If the opened image is off center, adjust its position from the thumbnail pane by grabbing and moving the Navigation Point on
the thumbnail or pointing and clicking the cursor.
Figure 4-24 Image Repositioned in Main Window

Take, Save, and Export a Snapshot of an Image

Note: Snapshots of Areas of Interest magnified using digital zoom are performed electronically on the original scanned image. Digital
zoom does not utilize the optics of the scanner or increase the optical resolution of the original scanned image.
1 Identify an Area of Interest (AOI) in the image.
2 Center the AOI.
3 Focus the AOI.
4 Click the Capture button in the Snapshot pane.
A snapshot of the image is captured and posted in the Snapshot pane. (Figure 4-25). Snapshots are labeled with the magnification
level used when captured.
5 Select a snapshot in the pane. (Figure 4-26)
6 Click the Export button.
The Save As window is opened. (Figure 4-27)
Specify a filename or use the provided default name. Select a location for the exported snapshot(s) and click the Save Button. When
saving multiple snapshots, sequential numbers are added to the filenames to avoid a naming conflict.
To delete a snapshot from the pane, select an image then click the Delete Button.
Note: A maximum of 10 snapshots is recommended to avoid slower response times.
Figure 4-25 Snapshots Taken and Posted in the Snapshot Pane

Label of Magnification Level Used When Captured
Snapshot Selected/Highlighted
Figure 4-26 Snapshot Selected/Highlighted in Snapshot Pane
Note: Snapshots are labeled with the magnification level used when captured.

Figure 4-27 Downloads Window
Snapshot Tracking
Visited AOI can be viewed on snapshots in the Snapshot pane when tracking is enabled for captured images. Use the following
procedure to view snapshot tracking:
1 Select a thumbnail and click the Capture button on the Live Thumbnail console.
2 Click the View Slide button. The image is opened in the Main window.
3 Set the magnification on the Magnification bar to lower magnification.
4 Click the Track button and select the Enable Tracking checkbox on the Tracking Options window. Ensure that the matching
magnification on the Tracking Options window is selected. Click the Apply button to exit the window. Refer to the Track button on
page 121 for more information.
5 Click the Capture button on the Snapshot pane and then select the new snapshot.
6 Set a higher magnification on the Magnification bar. The tracking color for this magnification (as listed in the Tracking Options window)
will be used when displaying the visible AOI.
7 Perform live, remote telepathology on the image in the Main window. Visited AOI are visible on the captured snapshot as long as you
stay in the original frame the snapshot represents. If the magnification is changed, the color of the visible AOI is changed and may
overlap the previous tracking if locations on the image are visited again.
Note: Snapshot tracking is not visible on exported snapshots.

Close an Image
1 Click the Home button in the live viewer console tool bar.
The slide is deposited back in its rack.
The live viewer console is closed.
The live thumbnail console is opened.
From here, you can capture another thumbnail and continue to perform live, remote telepathology.
Figure 4-28 iScan Coreo Au Live Ready for Telepathology

iScan Coreo Au Live Collaboration Feature

The iScan Coreo Au Live collaboration feature allows multiple users to view a hosted session, share images, and discuss evaluations
remotely. The host initiates a collaboration session and remote users request access using the Collaboration button (Figure 4-29) on
the Thumbnail console. Once access is granted, remote users see the current slide image being viewed on the host workstation and
can use the Chat window to make comments or ask questions. Remote users can request to take control from the host to navigate
and highlight areas of interest on the slide image.
There are three types of participants in a Live collaboration session:

1 Host; the session initiator and controller
2 Client; a participant who only observes the session
3 Presenter; a client who has been granted control of the session by the host
Figure 4-29 Collaboration Button
Note: Confirm with your system administrator that the host and remote workstations are properly configured to enable the
Collaboration feature. The host workstation must be reconfigured if moved.
iScan Coreo Au Live Application Installation for Remote Users
First time remote users must install the Live application before participating in a collaboration session. Refer to “Appendix D: iScan
Coreo Au Live Application Installation” on page 189 for detailed instructions.
Login to a Hosted Session
Click the Collaboration button on the upper right-hand side of the Thumbnail console. The Session in Progress dialog box (Figure
4-30) appears requesting confirmation to join the collaboration session. Click Yes if you wish to join the session. A pop-up window
requesting access for the remote user appears on the host workstation (Figure 4-31). Once access is granted, the slide image opened
on the host workstation is visible and the Chat window appears (Figure 4-32).
Note: If a thumbnail capture or an HD scan is in process on the host workstation, login to the collaboration session is delayed until
these operations are complete.
Figure 4-30 Session in Progress Dialog Box
Figure 4-31 Access Request for Hosted Collaboration Session
Note: Clients joining a hosted collaboration session are synchronized to the same screen view as the host. This may result in a rapid
change of the initial view as the system synchronizes with the host.

Figure 4-32 Collaboration Session Chat Window
Note: Remote users cannot login more than once during each session.
Hosting Remote iScan Coreo Au Live Users
As the host of a collaboration session on the workstation directly connected to the scanner, you control access for remote clients.
Click the Collaboration button on the on the upper right-hand side of the Thumbnail console to initiate the collaboration session.
The Client Invitation List window appears (Figure 4-33) displaying a list of all the registered users on the associated iScan Coreo Au
scanner. For information on configuring iScan Coreo Au user accounts, see “Set Up and Configure Scanner User Accounts” on
page 68. Select a client from the list and click the Invite button. An emailed invitation is automatically sent to that client.
Figure 4-33 Invite Guests Button and Client Invitation List Window

Remote Chat
The Chat window (Figure 4-34), like other standard chat methods, displays chat participants, the chat thread, and an entry field at the
bottom for new chat messages. After login to a hosted session, the Chat window is minimized but available on the Windows task bar.
Figure 4-34 Active Chat Window
Granting Control Over the Collaboration Session
Clients can request control over the collaboration session from the host by clicking on the Request Control button during the
collaboration session. The host receives the request for control which, when granted, changes the client role to that of a presenter.
Presenters are enabled to use all the Live application functionality during the session (Figure 4-35).
Hosts can reassume control of the session at any time by clicking on the Take Control button that appears in the upper right-hand
corner of the console once control has been relinquished (Figure 4-36). Presenters can release control of the session at any time by
clicking on the Release Control button that appears in the upper right-hand corner of the console once control of the session is
established (Figure 4-36).
Figure 4-35 Request Control Button and Access Request for Session Control
Figure 4-36 Take Control and Release Control Buttons

Ending the Collaboration Session
To end the collaboration session, the host or the presenter can click on the Disconnect Scanner button (Figure 4-37). This action
immediately ends the session for all participants.
Figure 4-37 Disconnect Scanner Button
Note: End the collaboration session before closing the browser window.

iScan Coreo Au Live Tool Bar Button Reference Guide
Thumbnail Console Tool Bar Buttons
Refresh Racks
Homes the stages of the scanner and then initiates a slide detect process.
•Click the Refresh button.
Select All
Selects all slides in all racks for thumbnail capture.

•Click the Select All button: All slides in all racks are selected.
Select None (Clear Information from all racks)
Clears the thumbnail capture settings for all of the slides in all of the slots in all of the racks.
•Click the Select None button: You are prompted to clear the thumbnail capture settings for all of the slides in all
of the slots in all of the racks.
•Click Yes: The thumbnail capture settings for all of the slides in all of the slots in all of the racks are cleared.
Capture
Start the capture thumbnail process.

•Select a single slide with the cursor or any number of slides in all eight racks by placing the cursor on the initial
slide and pressing the Shift key when selecting the subsequent slides. Keyboard command Control+A selects all
the slides in a rack. Click the Capture Button: The thumbnail capture process is initiated: The scanner captures a
thumbnail view of the slide(s) and posts the captured thumbnail in the thumbnail pane.
Enlarge
Opens a separate window with an enlarged (zoom view) thumbnail of a selected slide on the thumbnail pane.
•Click the Enlarge Button: The Zoom Thumbnail window is opened.
View Slide
Opens the selected thumbnail in the Live application viewer console window.
•Select the desired slide on the thumbnail pane: The slide is opened in the Live application viewer console window.
Note: Only one slide can be viewed at a time.

Mark as HD
Creates high definition thumbnails (at 4X magnification) required for 1X and 2X views in the Live application viewer
console window.
•Select a single slide with the cursor or any number of slides in all eight racks by placing the cursor on the initial
slide and pressing the Shift key when selecting the subsequent slides. Keyboard command Control+A selects all
the slides in a single rack.
Note: Click the Mark as HD Button: high definition thumbnails are created for the selected slide(s) and the slide(s)
is labeled as HD in the thumbnail pane.

iScan Coreo Au Live Viewer Console Tool Bar Buttons
Home
Close the Viewer Window and return to the Main Window.

•Click the Home button: The slide is deposited back in its rack. The Live
application viewer console is closed. The Main Window is opened. From the Main
Window, you can capture other thumbnails for viewing.
Magnification Bar
1X Magnification
2X Magnification
Note: 1X and 2X magnification is only available for use with high definition
thumbnails created with the Mark as HD button. See Mark as HD on page 117.
4X Magnification
10X Magnification
20X Magnification
40X Magnification
Change the magnification of the image in the Main Window.

•Click a magnification button: The image in the Main Window is changed to the
selected magnification.
Objective
Set the default objective for images viewed in the Main Window.
•Click the Objective Button: The Objective Settings window is opened.
•Select a new default objective for images viewed in the Main Window. The
starting objective for all viewed images is 20X.
•Click the Apply Button to complete the action or the Cancel Button to abort it.
Digital Zoom In/Zoom Out

Zoom into an area of interest on the image in the Main Window.
•Click the Digital Zoom In Button: The area of interest is brought into closer view.
•Click the Digital Zoom Out Button: The area of interest is incrementally moved
out of view.
Note: Digital zoom is performed electronically on the original scanned image and
does not utilize the optics of the scanner or increase optical resolution.

Focus Box
Adjust the clarity of an image in the Main Window automatically or manually.

•Click Focus: The image is manually adjusted to the focus move increment
selected in the drop-down menu to the right of the Focus button. The default
focus move increment is 1 micron. Click the drop-down-menu to change the focus
move increment from the default value to 10 or 100 microns.
•Click the Down or Up buttons: The scanner lens is moved adjusting the viewpoint
of the image in the Main Window. The movement of the scanner lens is based on
the current focus plane (related to the focus move increment) which is displayed
in the window to the right of the Up button.
Auto Focus (toggle button)
Adjust the clarity of an image in the Main Window automatically.

•The Auto button is automatically selected at the beginning of a session: The
clarity of an image is automatically adjusted as the image is moved in the Main
Window. This functionality is active for the entire session (as indicated by the
blue-shaded Auto Button in the tool bar) unless the toggle button is deselected
with an additional click.
Image Settings: Brightness/Contrast/Sharpness
Adjust the R.G.B. (red, green, blue) brightness, contrast, sharpness in the Main
window.
•With an image opened in the Main window:
•Click the Adjust button: The Image Settings window is opened.
•Click the Brightness/Contrast/Sharpness tab.
•Adjust the Brightness of the image in the window: Enter an integer between -100
and +100 in the Brightness box, or drag the slider.
•Adjust the Contrast of the image in the window: Enter an integer between -100
and +100 in the Contrast box, or drag the slider.
•Adjust the Sharpness of the image in the window: Enter an integer between -100
and +100 in the Sharpness box, or drag the slider.
•Apply the adjustments to the image in the window: Click Ok.
•Reset the adjustments of the image in the window to their original settings: Click
Reset.
•Ignore the adjustments: Click the Cancel button.

Image Settings: Color Balance
Adjust the color balance in the Main window.

•With an image opened in the Main window:
•Click the Adjust Button: The Image Settings window is opened.
•Click the Color Balance Tab.
•Adjust the Cyan-Red Balance of the image in the viewer: Enter an integer
between -100 and +100 in the Cyan-Red box, or drag the slider.
•Adjust the Magenta-Green Balance of the image in the viewer: Enter an integer
between -100 and +100 in the Magenta-Green box, or drag the slider.
•Adjust the Yellow-Blue Balance of the image in the viewer: Enter an integer
between -100 and +100 in the Yellow-Blue box, or drag the slider.
•Apply the adjustments to the image in the window: Click Ok.
•Reset the adjustments of the image in the window to their original settings: Click
Reset.
•Ignore the adjustments: Click the Cancel button.
Note: When Red, Green, and Blue are all selected, the image is displayed in true
colors. When fewer than three colors are selected, the image is displayed
only in the colors selected.

Track
Track, highlight, and reset the viewed areas on a slide outlined by the Navigation
Point at a selected level of magnification.
•Click the Tracking Options button: The Tracking Options window is opened.
•Click Reset: The areas of tissue visited and highlighted are set to 0%.
•Select the Enable Tracking checkbox.
When selected, Enable Tracking tracks viewed areas on the slide. This
functionality remains active even if the Show Tracking checkbox is not selected.
•Select the Show Tracking checkbox.
When selected, Show Tracking displays the tracked areas on the slide. Selecting
Show Tracking automatically enables the tracking of viewed areas on the slide.
•Select a level of magnification: 40X, 20X, 10X, 4X, 2X, or 1X. (You can select one
level, several, or all.)
•Place the cursor in the thumbnail pane.
•Select the Navigation Point.
•Move the Navigation Point up, down, left, or right: The areas of tissue visited are
highlighted in the thumbnail pane in the color coded for the magnification, while
the percentage of the image visited is registered in the Visited column in the
Tracking Window.
Note: If you want to view areas of tissue without tracking or highlighting, deselect
the Show Tracking box.

Opens a separate window with an enlarged (zoom view) thumbnail of the slide being
viewed in the live viewer console.
•Click the Enlarge button: The Zoom Thumbnail window is opened.
•Like the thumbnail pane, the Navigation Point outlines an area of interest. This
area is mirrored in the image opened in the live viewer console.
•You can grab and move the Navigation Point or click in the window to adjust the
position of the image in the Live application viewer console.

Check RGB
Check the R.G.B. calibration (red, green, blue)
Click the Check RGB button. The R.G.B. chart is superimposed on the slide image
opened in the console. Based on the chart, alter the color settings on the
workstation monitor to achieve the desired R.G.B. balance for the slide image.
Note: When Red, Green, and Blue are all selected on the workstation monitor, the
image is displayed in true colors. When fewer than three colors are selected,
the slide image is displayed only in the colors selected.


iScan Coreo Au User Manual Chapter 5: Image Viewer
Chapter 5: Image Viewer
Image Viewer software is bundled as part of the iScan Coreo Au slide scanning system. Image Viewer allows you to examine, study,
and annotate images stored locally or remotely. Image Viewer can be run in parallel with iScan Coreo Au, allowing for the switching
back and forth between the two applications, or it can be run in a stand-alone (independent) mode.
Note: In order to use the Image Viewer to view remote images, you may have to modify settings in your Image Server configuration
file. For more information, see “Setting Up Image Server” on page 130.

• Viewer Console, page 125
• Viewer Operating Procedures, page 129
• Viewer Features, page 151
Viewer Console
The Image Viewer console is the primary work bench of the viewing system. (Figure 5-1)
From here, you can open, view, edit, send, transmit, and share digital images.
Tool Bars
Magnification Tool
Thumbnail Window
Main Window
Status Bar
Figure 5-1 Image Viewer Console
Note: The default magnification is 20X. The 60X and 80X digital zoom buttons are activated and available only for images scanned
at 40X.

Chapter 5: Image Viewer iScan Coreo Au User Manual
Main Window
The Main Window (Figure 5-2) displays the selected image. Multiple images can be displayed simultaneously. See, “Arrange Multiple
Images in Cascade Format” on page 136 and “Arrange Multiple Images in Tile Format” on page 137 for more information.
Note: An image is opened at the magnification it was scanned at.
After an image is opened, you can change the magnification of the image as well as the brightness, contrast, sharpness, and color
balance of the image.
Figure 5-2 Image Viewer Main Window
Magnification Tool
The Magnification Tool (Figure 5-3) is located in the upper left corner of the Main Window. Using this tool, you can change the
magnification of an image (using digital zoom).
Figure 5-3 Magnification Tool
Note: Digital zoom is performed electronically on the original scanned image and does not utilize the optics of the scanner or
increase optical resolution.

Magnification Tooltips
When changing the magnification, tooltips (mouse-over hover boxes) appear displaying the current level of magnification (Figure
5-4).
Figure 5-4 Magnification Tooltips
Thumbnail Window
The Thumbnail window (Figure 5-5), located in the upper right corner of the Main window, displays a complete view of the image
that is currently opened. This window includes a focus box that outlines the area of interest corresponding to the part of the imaged
displayed in the Main Window. The Focus box is a navigation tool that can be grabbed and moved on the Thumbnail window to
adjust the position of the image in the Main window.
The level of magnification configured for the Main Window is automatically applied to the image in the Thumbnail Window. The
image in the Thumbnail Window is opened at the magnification it was scanned at. The Thumbnail Window can also be resized or
moved.
The size of the Focus box is automatically changed to the magnification selected (smaller at 40X and larger at 1X). The color of the
area of interest outlined by the Focus box can be configured from the default (red) to a variety of colors.
Focus Box
Figure 5-5 Thumbnail Window and Focus Box with Default Red Border

Status Bar
The status bar (Figure 5-6) spans the bottom of the viewer console and displays textual information about the viewing process (Figure
5-6).
Figure 5-6 Status Bar
The following information is displayed in the status bar:

• State of view process
• Pixel density of an image
• Distance of cursor from center pixel
• Progress of image rendering process
• Position of cursor in window
• Rotation angle
• Zoom level
Tool Bars
Image Viewer tool bars are separated into three main categories; Main, Magnification, and Annotation. The Main tool bar has
options for primary functionality such as opening an image, rotating an image, and slide image enhancements. The Magnification
tool bar has digital zoom options. The Annotation tool bar has options for creating, modifying, and navigating through existing
annotations.
For detailed information on tool bar button functionality, refer to the Tool Bar Button Reference Guide on page 164.
Note: Digital zoom is performed electronically on the original scanned image and does not utilize the optics of the scanner or
increase optical resolution.
Main Tool Bar
Figure 5-7 Main Tool Bar Buttons Available When an Image is Open
Magnification Tool Bar
Figure 5-8 Magnification Tool Bar Buttons Available When an Image is Open
Note: The default magnification is 20X. The 80X button is activated and available only for images scanned at 40X.
Annotation Tool Bar
Figure 5-9 Annotation Tool Bar Buttons Available When an Image is Open
Note: Some of the annotation tools are inactive and grayed out and unavailable until at least one annotation is drawn.

Viewer Operating Procedures

• Setting Up the Image Server, page 130
• Start up the Viewer, page 131
• View Information about the Viewer, page 132
• Open and View Online Help, page 132
• Configure General Settings, page 132
• Open Local Image, page 132
• Open Remote Image, page 133
• Open Recent Image, page 136
• View Layered Volume Scan (Z-Stacking), page 133
• View Slide Information, page 136
• Move Tool Bars, page 136
• Arrange Multiple Images in Cascade or Tile Format, page 136
• Change Magnification of Images, page 138
• Enhance Images, page 138
• Resize and Move Thumbnail Window, page 139
• Change Border Color of Focus Box, page 139
• Adjust Area of Interest, page 139
• Track Areas of Interest Visited, page 139
• Highlight Areas of Interest Visited, page 140
• Measure Areas of Interest, page 140
• Display Measurements, page 141
• Draw Annotations, page 141
• Change Annotation Color, page 142
• Create and Display Text Annotations, page 142
• View Text Annotations, page 142
• Modify or Delete Text Annotations, page 143
• Save Annotations, page 144
• Create, Reset, Edit, Delete Counters
• Export Count Annotations
• Import Count Annotations
• Merge Count Annotations
• Save a Snapshot of an Image, page 148
• Incorporate a Saved Snapshot into a PowerPoint Presentation, page 149
• Close Images, page 150
• Shut Down Viewer Console, page 150

Setting Up Image Server
If possible, use the default settings. If not, follow the steps below to configure your Image Viewer to view remote images.
1 Navigate to the folder where the Image Server is installed on your system.
2 Open the Image Server.bat file:
BioImageServer -d -port 85 -wd C:\Jp2Images -cd C:\DirTemp -time 360000 -clients 5 -max_rate 5242880 -max_chunk 52428800 -cache
104857600 -initial_timeout 120 -restrict -completion_timeout 1800 -connection_threads 4 -record
3 Edit the following settings to reflect the values for your system:
file.
port 85 Change this to the port number on your system on which the Image Server is going to run; for example, change
-port 85 to -port 53.
-wd C:\Jp2Images Change this to the directory on your system that is going to hold the images; for example, change -wd
C:\Jp2Images to -wd C:\JrsPhotos.
-cd C:\DirTemp Change this to the temporary directory on your system that is going to hold the images; for example, change
-cd C:\DirTemp to -cd C:\JrsTempPhotos.

Starting Up Image Viewer
You can start up the Image Viewer from the Windows Desktop or the iScan Coreo Au slide scanner console.
Starting up from the Windows Desktop

1 Double-click the Image Viewer icon. (Figure 5-10)
The Image Viewer console is opened up on the Windows desktop. (Figure 5-11)
You can also start up the Image Viewer from the Windows Desktop by clicking Start –> All Programs –> Image Viewer. When the Image
Viewer console is started from the desktop, no image is displayed.
Figure 5-10 Image Viewer Desktop Icon
Starting up from the Scanner Console

1 In the scanner slide setup table, double-click a scanned image.
The image is opened on the Windows Desktop in the Main Window of the Image Viewer console.
(Figure 5-11)
A scanned image can also be opened from the scanner slide setup table:
Select an image, then click the scanner view button. The image is opened on the Windows desktop in the main window of the Image
Viewer console.
An image is opened, by default, at 20X magnification, unless the magnification is changed before an image is opened.
When the Image Viewer console is started from the scanner, an image and a thumbnail view of the image are displayed in the main
window. At this point, all menus and buttons are active and available for use.
Note: Some Annotation Tools are inactive and grayed out and unavailable until at least one annotation is drawn.
Figure 5-11 Image Viewer Console after Startup from Scanner (Image Open)

View Information about the Viewer

1 Click Help -> About Image Viewer.
The About Image Viewer Window is opened.
Open and View Online Help

1 Click Help -> Online Help.
The Online Help system is opened on the console.
Configure General Settings

The General Settings Window is opened.
The default parameters for the Viewer are displayed:
These parameters can be changed to suit your needs or preferences
Magnification Available magnifications: 80X, 60X, 40X, 20X,10X, 4X, 2X, 1X. An image is opened at the selected
magnification. The default is 20X. The 80X and 60X buttons are activated and available only for images
scanned at 40X.
Thumbnail Focus Box Border Color: The default is red.
To change the color:

•Click the Thumbnail Focus Box Border Color box: The Color Window is opened.
•Select a Basic Color, then click OK: The selected color is used for the Focus Box Border.
Note: You can create colors as well: Click Define Custom Colors; Create a color; Click Add to Custom
Colors; Click the Custom Color; Click OK. The Custom color is used for the Focus Box Border.
Area Measurement Unit Area of a drawn annotation (shape) displayed in pixels, microns, or millimeters.
Continuous Pan Speed Speed of Continuous Pan Navigation tool. Scale: Low to High.
Annotations Tooltip Tooltip text annotations can be displayed when the cursor is placed on or over annotation.
Mouse Wheel Custom magnification setting: Scroll Down - Zoom In, or Scroll Down - Zoom Out.
Scaling Scale mouse motion sensitivity to magnification: Low - High.
AOI Display Select this option to display scanned AOI.
Open Local Image

1 Click File -> Open Local Image.
The Open Local Image dialog box is opened.
2 Navigate to the folder containing the image.
3 Click the name of the image in the list, then click Open.
The image is opened in the Main Window of the Viewer.
After an image is opened, you can work with it using the Image Viewer menus, buttons, and tools.

Open Remote Image

1 Click File -> Open Remote Image.
The Open Remote Image dialog box is opened.
2 Enter the server name and port number.
3 Click Connect.
The folders containing images available for viewing at that location are listed.
4 Click a folder.
The images in the selected folder are listed.
5 Click an image.
A copy of the image is posted in the Preview Pane of the window.
6 Click Open.
The image opens in the Main Window of the Viewer.
file. For more information, see “Set Up the Image Server” on page 130.
View Layered Volume Scans (Z-Stacking)
Slide images scanned as multi-layered volume scans in iScan Coreo Au can be viewed by layer using the following procedure:
1 Click File -> Open Remote or Local Volume Scanned Image.
2 Enter the server name and port number for remote images or navigate to the folder containing the local image.
3 Click Connect for remote images.
The folders containing images available for viewing at that location are listed.
4 For local images click the name of the image in the list, then click Open.
The image is opened in the Main Window of the Viewer.
Volume scanned images are indicated by the layer tool (Figure 5-12) that appears to the right of the magnification tool on the viewer
console. Toggling the layer tool either up or down moves between the layers of the volume scan. The amount of layers is specified
in iScan Coreo Au before scanning. See “Perform a Volume Scan (Z-Stacking)” on page 55 for more information.
Layer Tool
Figure 5-12 Volume Scan Layer Tool

Volume Scan Tooltips
When toggling between layers of a volume scan, tooltips (mouse-over hover boxes) appear displaying the current layer of the image
(Figure 5-13).
Figure 5-13 Volume Scan Tooltips
In the following example, the volume scan consists of 3 layers; Layer 0 (Figure 5-14), Layer 1 (Figure 5-15), and Layer -1 (Figure 5-16).
By default, the volume scanned image is opened at Layer 0. Toggling through the other layers brings different planes of the scan
into focus for enhanced evaluations.
Figure 5-14 Volume Scan Viewed at Layer 0

Figure 5-15 Volume Scan Viewed at Layer 1
Figure 5-16 Volume Scan Viewed at Layer -1

Open Recent Image

1 Click File -> <Previously Opened Image>.
The image is opened in the Main Window on the Image Viewer console.
View Slide Information

1 Click View -> Windows -> Slide Information.
The Slide Information window is opened.
2 Click the Information tab to view information about the slide.
3 Click the Label Image tab to view information about the slide label.
Move Tool Bars

1 Place the cursor on the left border of the bar.
2 Click and hold down the left mouse button.
The tool bar window is grabbed.
3 Move the tool bar to another position on the console or in the Main window.
4 Release the mouse button.
The tool bar is moved.
Arrange Multiple Images in Cascade Format

1 Click Window -> Cascade.
Multiple images overlap each other, with visible title bars. (Figure 5-17)
Figure 5-17 Cascade Windows View
Note: The Thumbnail corresponds to the selected (active) image which has a window border highlighted in blue.

Arrange Multiple Images in Tile Format

1 Click Window -> Tile.
Multiple images are arranged in rows, like tiles, with visible title bars. (Figure 5-18)
Figure 5-18 Tile Windows View
Note: The Thumbnail corresponds to the selected (active) image which has a window border highlighted in blue.

Change Magnification of Images
You can change the magnification of image(s) using the Magnification Tool, the Magnification Buttons, or the Scroll Wheel on the
Mouse.
Magnification Tool
1 Click and hold the vertical handle on the Magnification Tool.
2 Drag the handle up or down.
Drag up to decrease the level of magnification; drag down to increase the level magnification.
The level of magnification in the Main Window and in the Thumbnail Window is changed to the selected magnification.
Each movement of the toggle increases or decreases the level of magnification by 10X.
The level of magnification is always indicated in the status bar (“Zoom Level”).
Magnification Buttons
1 Place the cursor anywhere in the Main Window.
2 Click a magnification button (80X, 60X, 40X, 20X, 10X, 4X, 2X, 1X).
The level of magnification is always indicated in the status bar (“Zoom Level”).
The default magnification is 20X.
The 80X and 60X buttons are activated and available only for images scanned at 40X.
Scroll Wheel on Mouse

1 Place the cursor in the Main Window.
2 Rotate the Scroll Wheel of your mouse to increase or decrease the level of magnification.
Each tick of the wheel increases or decreases the level of magnification.
The wheel can be configured to zoom in or out when scrolled down. See “Configure General Settings” on page 132.
The magnification level is always indicated in the status bar (“Zoom Level”).
Enhance Images
1 Click the Image Enhancements button: The Image Enhancement Window is opened on the console.
2 Click the Brightness/Contrast/Sharpness tab.
3 Adjust the Brightness of the image on the console: Enter an integer between -100 and +100 in the Brightness box, or drag the Slider Bar.
4 Adjust the Contrast of the image on the console: Enter an integer between -100 and +100 in the Contrast box, or drag the Slider Bar.
5 Adjust the Sharpness of the image on the console: Enter an integer between -100 and +100 in the Sharpness box, or drag the Slider Bar.
6 Click the Color Balance Tab.
7 Adjust the Cyan-Red Balance of the image on the console: Enter an integer between -100 and +100 in the Cyan-Red box, or drag the
Slider Bar.
8 Adjust the Magenta-Green Balance of the image on the console: Enter an integer between -100 and +100 in the Magenta-Green box, or
drag the Slider Bar.
9 Adjust the Yellow-Blue Balance of the image on the console: Enter an integer between -100 and +100 in the Yellow-Blue box, or drag the
Slider Bar.
10 Click OK.
The window is closed.
Note: If you want to use the enhancements for every image, click the Save As Default button.
Show/Hide Thumbnail Window

1 Click View -> Windows -> Thumbnail.
The Thumbnail window is showed/hidden.

Resize and Move Thumbnail Window
Resize
1 Place the cursor on the border of the window.
2 Click and hold the mouse button.
3 Drag the border up or down, or left or right.
The size of the window is increased or decreased.
Move
1 Place the cursor on the border of the window.
2 Click and hold the mouse button.
3 Drag the window up or down, or left or right, in the Main window or in the console.
The window is moved to the selected location.
The Thumbnail Window can straddle the Main and Console windows.
Change Border Color of Focus Box

1 Click the Thumbnail Focus Box Border Color box.
The Color Window is opened.
2 Select a Basic Color and click OK.
The selected color is used for the Focus Box Border.
Adjust Area of Interest

1 Place the cursor in the thumbnail pane over an area of interest.
2 Click the left mouse button.
The Focus box is moved to the area selected.
The Focus box can also be moved as follows: Place the cursor in the box, click and hold the mouse button, drag the box up or down or
left or right, then release the mouse button. The box is moved to the selected area.
Track Areas of Interest Visited

1 Click View -> Windows -> Highlights.
The Highlight/Tracking Window is opened on the console.
2 Click the Track Visited box.
3 Click the Show box for every level of magnification.
Every area of interest visited at each level of magnification is tracked.
The percentage of the image visited at each level of magnification is displayed in the Visited column.
Figure 5-19 Areas of Interest Visited and Highlighted at all available magnifications.

Highlight Areas of Interest Visited

1 Click View -> Windows -> Highlights.
The Highlight/Tracking Window is opened on the console.
2 Click the Highlight Visited box.
3 Click the Show box for every level of magnification.
Every area of interest visited at each level of magnification is highlighted in the color corresponding to the level of magnification (for
example, 10X is green, 20X is dark blue and 4X is yellow). (Figure 5-20)
Figure 5-20 Areas of Interest Visited and Highlighted at 10X, 20X and 4X
Measure Areas of Interest
Linear Measurement
1 Click the Measurement button.
2 Move the cursor into the Main Window.
The cursor shape is changed, from a pointer arrow to a slanted pencil.
3 Place the pencil on the object you want to measure.
5 Move the pencil left or right, or up or down, over the object.
As the pencil is moved, the measurement is stretched. As the line is stretched, the measurement is calculated and displayed next to
the measurement annotation.
The measurement annotation and the measurement are displayed in the window.
The measurement adjusts for the current display resolution. If the magnification is changed, the measurement stays in the same
location relative to the image when you zoom.
Area Measurement
1 Click an annotation tool (rectangle, ellipse, arrow, pen, negative pen).
3 Place the pencil on the object you want to measure.
As the pencil is moved, the annotation tool is stretched. As the tool is stretched, the measurement is calculated and displayed next to
the annotation.
The annotation and the measurement are displayed in the window.
The annotation tool adjusts for the current display resolution. If the magnification is changed, the tool stays in the same location
relative to the image when you zoom.

Display Measurements
1 Place the cursor on a drawn annotation.
The annotation is selected.
3 Click the right mouse button.
A drop-down menu is opened.
From this menu, you can delete an annotation, show annotations, and display an area measurement.
4 Click Area Measurement.
5 The size of the area of interest is displayed near the annotation.
Note: The measurement of an area of interest can also be displayed as follows: Select an annotation, then click Image -> View ->
Area Measurement. The size of the area of interest is displayed near the annotation.
Draw Annotations
1 Click an annotation tool button (Rectangle, Ellipse, Arrow, Pen, Negative Pen).
3 Place the pencil over the area you want to annotate.
As the pencil is moved, an area of interest is identified.
The annotation is displayed in the Main Window. (Figure 5-21)
Figure 5-21 Annotations on Viewer Console
Note: Measurement, rectangle, ellipsis, arrow, pen, and negative pen tools are used to highlight areas of interest. When used, tool
bars are resized and moved. The Magnification Tool is present, the status bar is shown and the Thumbnail Window is hidden.

Change Annotation Color

1 Click on a drawn annotation.
2 Click the Change Annotation Color button.
The Color Window is opened in the Main Window.

3 Select a color from the basic colors palette or click on the Define Custom Colors button to create a custom color.
4 Click the OK button to complete the action.
The annotation is highlighted with the new color.
Create and Display Text Annotations

1 Click the View Text Annotations button.
The Text Annotations Window is opened in the Main Window.
A list of the comments for each drawn annotation is displayed.
2 Click a drawn annotation.
The comment for the drawn annotation is highlighted.
3 Double-click the comment.
4 Enter a new comment.
5 Close the window.
The comment is saved.
Note: You can also open the Text Annotations Window by double-clicking an annotation.
View Text Annotations

The General Settings Window is opened.
2 In the Annotations Tool Tip field, click Display Annotations Tooltip.
3 Close the window.
4 Place the cursor on an annotation.
The text for that annotation is displayed as a tooltip. (Figure 5-22)

Figure 5-22 Annotation Tooltip Text
Modify or Delete Text Annotations

1 Click on a drawn annotation.
2 Click the View Text Annotations button.
The Text Annotations Window is opened in the Main Window.
The comment for the drawn annotation is highlighted.
3 Double-click the comment.
4 Modify or delete the comment.
5 Close the window.
The modification or deletion is made.

Save Annotations
1 Click the Pan Navigation (Open Hand) tool.
2 Place the hand over the line or shape.
The line or shape is highlighted.
4 Click the Save Annotation button.
The annotation is saved.
Note: Annotations are saved as an XML file; the original image is not altered.
Export Annotations
1 Click the Pan Navigation (Open Hand) tool.
2 Place the hand over the line or shape.
The line or shape is highlighted.
4 Click the Export Annotation button.
A Save As window is opened.
5 Specify the location in which to export the annotation.
6 Specify the name of the annotation.
7 Click Save.
The annotation is named and saved in the location specified.

Create a Counter
1 Click the Configure Counters button.
The Counters Window is opened.
2 Click New.
The New Counter window is opened.
3 Enter a Name. Each name must be unique.
4 Select a Color. Each color must be unique.
5 Specify the Diameter of the area marked by the Counter.
6 Click OK.
A Counter is created.
The name of the counter is posted in the Counter window
The shape of the cursor is changed from an arrow to a circle.
7 Mark an area:
- Move the Counter Circle over an area on the image, then left-click. The area is marked on the image in the color and the diameter
specified for the counter. The number of areas marked by the counter is tallied in the Counter window.
Note: To delete a mark: Select a Counter. Move the Counter Circle over a mark having the same color as the counter, then right-click.
The mark is deleted. The number of areas marked by the counter is decremented in the counter window.
Figure 5-23 New Counter Window
Figure 5-24 Counters Created

Figure 5-25 Count Annotations on Image on Console
Reset Counter
1 Open the Counters window.
2 Select a Counter.
3 Click Reset.
You are prompted to confirm the reset.
4 Click Yes.
The areas marked by the counter are deleted, and the counter is reset to zero.
Remove (Delete) Counter

2 Select a Counter.
3 Click Remove.
You are prompted to remove (delete) the counter.
4 Click Yes.
The counter is removed (deleted).
Edit Counter
2 Select a Counter.
3 Click Edit.
The Edit Counter window is opened.
4 Edit the counter name, color, or diameter.
5 Click Save.
The edits are saved.

Export Count Annotations

1 Click the Export Annotation button on the tool bar.
A Save As window is opened.
2 Select a location to which to export the count annotations.
3 Name the file.
4 Click OK.
The file is saved in the specified location as an XML file.
Note: You can export count annotations only if an image is open on the console.
Import Count Annotations

1 Click the Import Annotation button on the tool bar.
An Open window is opened.
2 Navigate to the folder containing saved count annotations.
3 Select a count annotation XML file.
4 Click Open.
The specified file is imported to the image open on the console.
Note: You can import count annotations only if an image is open on the console.
Merge Count Annotations

1 Click the Import Annotation button on the tool bar.
An Open window is opened.
2 Navigate to the folder containing saved count annotations.
3 Select a count annotation XML file.
4 Click Open.
The specified file is imported to the image open on the console.
5 Create a new counter:
a Click the Counter button in the tool bar. The counter window is opened on the Image Viewer console.
b In the Counter window, click New: The New Counter window is opened.
c Name the counter.
d Select a color for the counter: Click Color. A Color Selection window is opened. Select a color. and Click OK. The window is closed and the selected
color is displayed in the Color area of the New Counter window. Select a different color for each counter.
e Set the diameter of the counter. The larger the number, the larger the diameter.
f Click OK. The counter is created.
After creation, a counter can be reset, removed (deleted), and edited. After a counter is created, the Pointer changes shape and
function, from an arrow to a circle with cross hairs:
a Move the circle cursor to an area of interest.
b Left-click.: A circle is drawn over the area in the set color. Draw as many circles as necessary. The counter counts the number of cells inside each
circle.
c To delete a circle, place the cursor over the circle, then right-click:. The circle is deleted.
6 Merge the annotations created by the two counters:

a Click the Export Annotation button on the tool bar.The Save As window is opened.
b Select a location to which to export the annotations created by the two counters.
c Name the file.
d Click OK. The annotations are merged into one file and the file is saved in the same specified location as an XML file.
e To view the merged annotations, import the saved XML file into the same image.
Note: You can import count annotations only if an image is open on the console.

Save a Snapshot of an Image

Note: A saved snapshot can be incorporated into a PowerPoint presentation. For more information, see “Incorporate a Saved
Snapshot into a PowerPoint Presentation” on page 149.
1 Navigate to the area of the slide that you want to capture.
2 Click the Save Snapshot button.
The Save Image Window is opened.
The area of the slide captured is displayed in the window.
3 Scrutinize the image to confirm that it is, indeed, the area of the slide that you want to capture.
4 Rotate the image, if desired:
a Enter the number of degrees you want to rotate the image (-360 to +360).
Click Rotate.The image is rotated.
5 Add a textual annotation (such as a slide name or title):
a Place the cursor in the blank white horizontal rectangle in the PowerPoint Options section.
b Enter text.
6 Add a vocal annotation to the image:
Start/Pause/Play Recording
Stop Recording Cancel Recording
a Position yourself near your computer’s microphone.

b Click the Start button in the PowerPoint Options section of the Save Image window.
c Record the vocal annotation (speak aloud).
d To pause the recording, click the Pause button. Click the button again to resume recording.
e When the recording is finished, click the Stop button.
f To listen to the recording, click the Play button.
g To cancel the recording, click the Cancel button.Vocal annotations are saved in a Waveform (.WAV) audio format.
7 Configure the image for incorporation into a PowerPoint presentation:

- Click the Save Only for PowerPoint box in the PowerPoint Options section.
If configured only for incorporation into a PowerPoint presentation, a snapshot is saved on the scanner until a presentation is created;
after that, the snapshot is deleted. If the Save Only for PowerPoint option is deselected, a snapshot is saved on the scanner after a
presentation is created.
8 Click Save.
The Save As .jpeg window is opened.
9 Navigate to the folder where you want to save the .jpeg file.
10 In the Filename field, type a name for the file.
11 Click Save.
The snapshot is saved as a .jpeg file in the specified location with the specified name.
You can view the snapshot image by navigating to the folder where the file is saved, then double-clicking the name of the file. The
snapshot is opened.

Incorporate a Saved Snapshot into a PowerPoint Presentation

Note: You can incorporate one or more saved snapshots into a PowerPoint presentation.
1 Save one or more snapshots (with or without textual or vocal annotations) as .jpeg files.
2 Click File -> Save To PowerPoint.
The Save As .ppt window is opened.
3 Navigate to the folder where you want to save the .ppt file.
4 In the Filename field, type a name for the file.
5 Click Save.
Every saved snapshot .jpeg file is incorporated into a PowerPoint presentation. Textual annotations are converted into slide titles, and
vocal annotations are embedded in slide files. You can open the presentation by navigating to the folder where the file is saved, then
double-clicking the name of the file. The PowerPoint presentation is opened (Figure 5-26).
Note: After a PowerPoint presentation is created, all snapshots configured for the PowerPoint presentation are deleted from the
scanner.
Figure 5-26 Created PowerPoint Presentation
Note: To listen to a vocal annotation, click the speaker icon that is embedded in the imported snapshot.

Close Images
Close a Single Image

1 Click File -> Close.
2 The open image is closed.
If an open image contains unsaved edits, you are prompted to save the edits before closing the image.
Close All Images

1 Click File -> Close All Images.
2 All open images are closed.
If open images contain unsaved edits, you are prompted to save the edits before closing the images.
Shut Down the Image Viewer Console
You can shut down the scanner from the file menu or the console window.
Shutdown from File Menu

1 Click File -> Exit.
The Viewer and all open images are closed.
If open images contain unsaved edits, you are prompted to save the edits before closing the Viewer.
Figure 5-27 File -> Exit
Shutdown from Console

1 Click the Close Application (red X) button in the upper right corner of the scanner console.
The Viewer and all open images are closed.
If open images contain unsaved edits, you are prompted to save the edits before closing the Viewer.
Figure 5-28 Close Application (Red X) Button

Viewer Features
Menus
The Viewer includes six menu items:

• File, page 152
• View, page 156
• Image, page 161
• Options, page 162
• Window, page 163
• Help, page 163
Figure 5-29 Viewer Menus
Note: All Viewer menus are activated and available after an image is opened in the Main Window.

File
From this menu, you can open a local image (Figure 5-31), open a remote image (Figure 5-32), close all images, close the current image,
save (incorporate) a snapshot into a PowerPoint presentation (Figure 5-33), save a snapshot (Figure 5-34), save annotations, export
annotations, import annotations, export a thumbnail (Figure 5-35), export (slide) label thumbnail (Figure 5-36), open a recently opened
image (from the image filename[s] listed in the menu), or to exit Image Viewer.
Note: An annotation can be a measurement, a shape, or text.
Figure 5-30 File Menu
File -> Open Local Image
You can open and view and perform operations on a local image (an image that resides on the scanner system).
.
Figure 5-31 Open Local Image Window: Image Selected

File -> Open Remote Image
You can open and view and perform operations on a remote image (an image that resides on another system).
Note: The remote system must be accessible and must be configured to allow you to view and perform operations on the image.
Figure 5-32 Open Remote Image Window
File -> Close all Images
All images are immediately closed, unless they contain unsaved edits. If images contain unsaved modifications, you are prompted to
save the modifications before closing the images.
File -> Close (the Current Image)
The current image is immediately closed, unless it contains unsaved edits. If an image contains unsaved modifications, you are
prompted to save the modifications before closing the image.

File -> Save (a Snapshot) to PowerPoint
You can save (incorporate) a snapshot into a PowerPoint presentation.
Figure 5-33 Save (Incorporate) a Snapshot into a PowerPoint Presentation Window
File -> Save Snapshot
You can rotate and configure an image to save as a snapshot. In addition, an audio clip for vocal annotation can be recorded. See
“Save a Snapshot of an Image” on page 148 for more information.
Figure 5-34 Save Image Window

File -> Save Annotations
Automatically saves all annotations.
Note: An annotation can be a measurement, a shape, or text.
File -> Export Annotations
Exports all annotations to a file.
File -> Import Annotations
Imports annotations from a file.
File -> Export a Thumbnail
A thumbnail is exported to a file.
Figure 5-35 Export Thumbnail Save Image Window

File -> Export a Label Thumbnail
Exports a label thumbnail to a file.
Figure 5-36 Export Label Thumbnail Save Image Window
File -> Open a Recent Image from the Image Filename(s) Listed in the Menu
The File menu displays the filename(s) of any image that has been viewed and then closed. Select the filename from the menu to
reopen the image. This list resets every time Image View is closed.
File -> Exit Image Viewer
This command closes Image Viewer. If there are unsaved modifications to an image, you are prompted to save them before Image
Viewer closes.
View
From this menu, you can configure the viewer console to show or hide tool bars or windows, the status bar, and a full screen version
of the console. A check mark indicates that a feature is displayed.
Figure 5-37 View Menu

View -> Tool Bars
A check mark indicates that a tool bar is displayed.
Figure 5-38 View Tool Bars Menu
Note: All the tool bars are active and available and all the buttons in the tool bars are displayed in color when an image is open in
the Main Window.
View -> Windows
A check mark indicates that a window is displayed.
Figure 5-39 View Windows Options Available after An Image is Open
Note: The Text Annotations Window is active and available only if at least one annotation is drawn.
View -> Windows -> Thumbnail
Figure 5-40 Thumbnail Window

View -> Windows -> Enhancements
Figure 5-41 Image Enhancement Window
View -> Windows -> Highlight
Figure 5-42 Highlights Window

View -> Windows -> Slide Information -> Information
Figure 5-43 Slide Information: Information
View -> Windows -> Slide Information -> Label Image
Figure 5-44 Slide Information: Label Image
Note: The rectangle encloses the area of tissue scanned.

View -> Windows -> Counters
Figure 5-45 Counters Window
View -> Windows -> Text Annotations
Figure 5-46 Text Annotation: Annotations Listed
View -> Windows -> Grid
Figure 5-47 Gridding Window
View -> Status Bar
Figure 5-48 Status Bar

View -> Full Screen
Figure 5-49 Full Screen on Viewer Console (No Tool Bars)
Note: An image, menus, and Magnification Tool are displayed. By default, the tool bars are hidden.
Image
From this menu, you can rotate an image, delete an annotation, show annotations, and show an area measurement.
You can show or hide annotations.
An area measurement is calculated as an annotation is drawn, but is shown only if specified.
A check mark indicates that annotations are displayed.
Figure 5-50 Image Menu

Image -> Rotate By Angle
The image is rotated as specified.
You can also rotate an image by clicking one of the Rotate buttons (see page 164).
Figure 5-51 Rotate (an image) By Angle
Image -> Delete Annotation
After an annotation is drawn, you can delete it from an image.
Image -> Show Annotations
After an annotation is drawn, you can show it on an image or hide it from view.
Image -> Area Measurement
After an annotation is drawn, you can view the measurement of the area over or around which the annotation is made.
Options
From this menu, you can configure general settings for the Viewer.
Figure 5-52 Options Menu Available after an Image is Open
Options -> Settings -> General
Figure 5-53 General Settings Window

Window
From this menu, you can arrange multiple image windows so they overlap (cascade) or are arranged in rows (tile), with visible title
bars.
A check mark indicates that the image and its thumbnail are active and available. When an image and its thumbnail are active and
available, operations can be performed on them.
Figure 5-54 Window menu
Help
From this menu, you can view information about the Viewer as well as view online help.
.
Figure 5-55 Help Menu
Help -> About Image Viewer
The window is opened.
Figure 5-56 About the Image Viewer Window
Note: Refer to , “Appendix E: Image Viewer Open Source and Commercial Software Information” for Image View license information
and for information about open source and commercial software associated with the application.
Help -> Help
The online help system is opened.

Tool Bar Button Reference Guide
When an image is open, all tool bars are active and available, and all buttons in the tool bars are displayed in color.
Main Tool Bar
Figure 5-57 Main Tool Bar Buttons Available When an Image is Open
Open Remote Image
Open a remote image in the Main Window.

•Click the Open Remote Image button: The Open Remote Image dialog box is opened.
•Enter the server name and port number.
•Click Connect: The images available for viewing at that location are listed.
•Click an image in the list: A copy of the image is posted in the Preview area.
•Click Open: The remote image is opened on the console.
Save Snapshot
Rotate, Annotate, Configure, and Save a Snapshot of an Image.

•Navigate to the area of the slide that you want to capture.
•Click the Save Snapshot button: The Capture Image Window is opened. The area of the slide captured is displayed
in the window.
•Scrutinize the image to confirm that it is, indeed, the area of the slide that you want to capture.
•Rotate the image, if desired.
•Add textual annotation to the image, if desired.
•Add vocal annotation to the image, if desired.
•Configure the image for incorporation into a PowerPoint presentation. (This option is selected, by default.)
•Click Save: The Save As .jpeg Window is opened.
•Navigate to the folder where you want to save the file.
•In the Filename field, type a name for the file.
•Click Save: The snapshot is saved as a .jpeg file in the specified location with the specified name. A snapshot
saved as a .jpeg file can be incorporated into a PowerPoint presentation. For more information, see “Incorporate
a Saved Snapshot into a PowerPoint Presentation” on page 149.
Note: To view the snapshot image: Navigate to the folder where the file is saved, then double-click the file. The
snapshot is opened.
Save Annotations
Save an image annotation.
An annotation can be a measurement, a shape, or text.

•Select a measurement or shape.
•Click the Save Annotation button: The measurement or shape is saved. The text annotation for the selected
measurement or shape is also saved (in the Text Annotations Window).
Export Annotations
Export an image annotation.

•Click the Export Annotation button: The Save As window is opened.
•Specify the location in which to export the annotation.
•Specify the name of the annotation.
•Click Save: The annotation is named and saved in the location specified.

Import Annotations
Import an image annotation.

•Click the Import Annotation button: The Save As window is opened.
•Specify the location of the annotation file.
•Specify the name of the annotation file.
•Click Open: The annotation file is imported from the location specified.
Note: Annotations are imported as an XML file; the original image is not altered.
Show/Hide Thumbnail
Show a thumbnail in the Main Window.
•Place the cursor in the Main Window.
•Click the “Show/Hide” button: A window containing a thumbnail is opened or closed on the console.
Rotate Image 180 degrees
Rotate an image 180 degrees per click.

•Place the cursor on an image in the Main Window.
•Click the Rotate 180 button: The image is rotated 180 degrees.
Rotate Image 90 degrees left (270 degrees)

Rotate an image 270 degrees (90 degrees left) per click.
Rotate Image 90 degrees right (90 degrees right)
Rotate an image 90 degrees per click.

Pan Navigation
Move an image in any direction.

•Click the Pan Navigation button.
•Place the cursor over the area you want to move: The cursor shape is changed, from a pointer arrow to an Open
Hand icon.
•While holding down the mouse button, drag the cursor in any direction: The viewing area moves in the direction in
which the cursor is dragged. The Focus box in the Thumbnail view is also moved, indicating the section of the
slide that you are viewing.
Continuous Pan Navigation
Dynamically move an image in any direction.

•Click the Continuous Pan Navigation button.
•Place the cursor in the Main Window.
•Place the cursor adjacent to the border of the Main window: The cursor shape is changed, from the usual pointer
arrow to a large pointer arrow.
•Hold down the left mouse button: The image is moved in the direction in which the arrow is pointed. The Focus
box in the Thumbnail view is also moved, indicating the section of the slide that you are viewing.

Image Enhancements
Adjust the sharpness, brightness, and contrast of the image in the Main Window.
•Click the Image Enhancements button: The Image Enhancement Window is opened on the console.
•Click the Brightness/Contrast/Sharpness tab.
•Adjust the Brightness of the image on the console: Enter an integer between -100 and +100 in the Brightness box,
or drag the Slider Bar.
•Adjust the Contrast of the image on the console: Enter an integer between -100 and +100 in the Contrast box, or
drag the Slider Bar.
•Adjust the Sharpness of the image on the console: Enter an integer between -100 and +100 in the Sharpness box,
or drag the Slider Bar.
•Click the Color Balance Tab.
•Adjust the Cyan-Red Balance of the image on the console: Enter an integer between -100 and +100 in the
Cyan-Red box, or drag the Slider Bar.
•Adjust the Magenta-Green Balance of the image on the console: Enter an integer between -100 and +100 in the
Magenta-Green box, or drag the Slider Bar.
•Adjust the Yellow-Blue Balance of the image on the console: Enter an integer between -100 and +100 in the
Yellow-Blue box, or drag the Slider Bar.
•Click OK: The enhancement settings are applied to the image on the console.
Note: If you want to use the adjusted enhancements for every image, click the Save As Default button.
Tracking Options
Track and highlight and reset the area of interest outlined by the Focus box at a selected level of magnification.
•Click the Tracking Options button: The Highlights Window is opened.
•Click Reset Visited: The areas of tissue visited and highlighted are set to 0.00%.
•Click the Track Visited box.
•Click the Highlight Visited box.
•Select a level of magnification: 40X, 20X, 10X, 4X, 2X, 1X. You can select one level, several levels, or all levels.
•Place the cursor in the Thumbnail Window.
•Select the Focus Box.
•Move the Focus Box up, down, left, or right: The areas of tissue visited are highlighted in the Thumbnail Window
in the color coded for the magnification, while the percentage of the image visited is registered in the Visited
column in the Tracking Window.
Note: If you want to view areas of tissue without tracking or highlighting, deselect the Track Visited box and the
Highlighted Visited box.
View Slide Information

View information about a slide and view the label of the slide.
•Click the View Slide Information button: The View Slide Information Window is opened.
•Click the Information tab: Information about the image is displayed
•Click the Label Image tab: The label of the slide is displayed.

Configure Counters
A counter is a tool for marking and tallying objects on an image.
Create a counter:
•Click the Configure Counters button: The Counters Window is opened.
•Click New: A New Counter window is opened.
•rEnter a Name. Each name must be unique.
•Select a Color. Each color must be unique.
•Specify the Diameter of the area marked by the Counter.
•Click OK: A Counter is created. The name of the counter is posted in the Counter window. The shape of the cursor
is changed from an arrow to a circle.
•Mark an area: Move the Counter Circle over an object on an image, then left-click. The area is marked on the
image in the color and the diameter specified for the counter. The number of areas marked by the counter is
tallied in the Counter window.
Note: To delete a mark: Select a Counter. Move the Counter Circle over a mark having the same color as the counter,
then right-click. The mark is deleted. The number of areas marked by the counter is decremented in the
Counter window.
Reset a Counter:
•Open the Counters window.
•Select a Counter.
•Click Reset: You are prompted to confirm the reset.
•Click Yes: The areas marked by the counter are deleted, and the counter is reset to zero.
Remove/Delete a Counter:
•Click Remove: You are prompted to remove (delete) the counter.
•Click Yes: The is removed (deleted).
Edit a Counter:
•Click Edit: The Edit Counter window is opened.
•Edit the counter name, color, or diameter.
•Click Save: The edits are saved.
You can also export/import a count annotation and merge count annotations. For more information, see “Export
Annotations” on page 164.
Configure Grid
A grid is a network of horizontal and perpendicular lines, uniformly spaced, for locating AOI on an image.
Configure the settings for a grid:

•Click the Configure Grid button: The Gridding Window is opened.
•Enter a value for the size of the grid: 128-1024.
•Select a color for the grid lines.
•rEnter a value for the transparency of the grid lines: 16-96.
•Click Display Grid.
•Click Apply: A grid is displayed on an image.
Note: To hide a grid, deselect Display Grid, then click Apply: The grid is hidden.

Magnification Tool Bar
Figure 5-58 Magnification Tool Bar Buttons Available When an Image is Open
Note: Digital zoom magnification is performed electronically on the original scanned image and does not utilize the optics of the
scanner or increase optical resolution.
80X Magnification
60X Magnification
40X Magnification
20X Magnification
10X Magnification
4X Magnification
2X Magnification
1X Magnification
Magnify the area over which the Pan Navigation tool (Open Hand icon) hovers in the Main Window.
•Place the cursor anywhere in the Main Window.
•Click a magnification button: The level of magnification in the Main Window and in the Thumbnail Window is
changed to the selected magnification.The level of magnification is always indicated in the status bar (“Zoom
Level”).
The magnification can also be changed using the scroll wheel on your mouse:
•Place the cursor in the Console window.
•Rotate the scroll wheel of the mouse to increase or decrease the level of magnification. The level of
magnification in the Main Window and in the Thumbnail Window is changed to the selected magnification. Each
tick of the wheel increases or decreases the level of magnification. The wheel can be configured to zoom in or out
when scrolled down. See “Configure General Settings” on page 132.
Note: The default magnification is 20X. The 80X button is activated and available only for images scanned at 40X.

Annotation Tool Bar
Figure 5-59 Annotation Tool Bar Buttons Available When an Image is Open
Measurement
Measure an area.
•Click the Measurement button.
•Move the cursor into the Main Window: The cursor shape is changed, from a pointer arrow to a slanted pencil.
•Place the pencil on the object you want to measure.
•Click and hold down the left mouse button.
•Move the pencil left or right, or up or down, over the object: As the pencil is moved, the measurement is
stretched. As the measurement is stretched, the measurement is calculated and displayed next to the
measurement annotation.
•Release the mouse button: The measurement annotation and the measurement are displayed in the window.
Note: The measurement adjusts for the current display resolution. If the magnification is changed, the
measurement stays in the same location relative to the image when you zoom. When you measure at lower
magnifications such as 2X, the scale of the measurement is adjusted to display in millimeters rather than
microns.
Rectangle
Annotate an area.
•Click the Rectangle button.
•Place the pencil over the area you want to annotate.
•Move the pencil left or right, or up or down, over the object: As the pencil is moved, a rectangle is drawn.
•Release the mouse button: The rectangle annotation is displayed in the window.
Ellipse
Annotate an area.
•Click the Ellipse button.
•Move the pencil left or right, or up or down, over the object: As the pencil is moved, an ellipse is drawn.
•Release the mouse button: The ellipse is displayed in the window.
Arrow
Annotate an area.
•Click the Arrow button.
•Move the pencil left or right, or up or down, over the object: As the pencil is moved, the arrow is drawn.
•Release the mouse button: The arrow is displayed in the window.

Pen
Draw a free-hand solid line.

•Click the Pen button.
•Move the pencil left or right, or up or down, over the object: As the pencil is moved, a solid line is drawn.
•Draw a line around the area you want to annotate.
•Release the mouse button: The solid line circumscribing the area is displayed in the window.
Negative (Dashed) Pen
Draw a free-hand dashed line.

•Click the Negative (Dashed) Pen button.
•Move the pencil left or right, or up or down, over the object: As the pencil is moved, a dashed line is drawn.
•Release the mouse button: The dashed line circumscribing the area is displayed in the window.
View Text Annotations

Read text annotations.
•Click the View Text Annotations button: The Text Annotations Window is opened in the Main Window. A list of the
comments for each drawn annotation is displayed. You can also open the Text Annotations Window by
double-clicking an annotation.
Note: The text annotation for an individual drawn annotation can also be read as follows: Select the drawn
annotation, then click the View Text Annotations button. The comment for the drawn annotation is
highlighted. You can also open the Text Annotations window by double-clicking an annotation.
Add or modify text annotations.

•Click the View Text Annotations button: The Text Annotations window is opened in the Main Window. A list of the
comments for each drawn annotation is displayed. You can also open the Text Annotations window by
double-clicking an annotation.
•Click a drawn annotation: The comment for the drawn annotation is highlighted.
•Double-click the comment.
•Enter a new comment.
•Close the window.
•The comment is saved.
Note: Text annotations can also be added or modified as follows: Click a drawn annotation, then click the View
Text Annotations button: The Text Annotations window is opened in the Main Window, and the comment for
the selected annotation is highlighted. Double-click the comment. Enter a new comment. Close the window.
The comment is saved. You can also open the Text Annotations window by double-clicking an annotation.
Note: This button is inactive and grayed out and unavailable until at least one annotation is drawn and a text
annotation is created.
Change Annotation Color
Change the color of a drawn annotation line.

•Select a drawn annotation: Place the Open Hand icon on or over an annotation. Left click. The annotation is
selected.
•Click the Change Annotation Color button: The Color Window is opened.
•Select a Basic Color.
•Click OK: The color of the drawn annotation line is changed to the selected color.
Note: This button is inactive and grayed out and unavailable until at least one annotation is drawn.

Delete Annotation
Delete (text) annotations.

•Click the View Text Annotations button: The Text Annotations window is opened in the Main Window. A list of the
comments for each drawn annotation is displayed.
•Click a drawn annotation: The comment for the drawn annotation is highlighted.
•Double-click the comment.
•Enter a new comment.
•Close the window.
•The comment is saved.
Note: Text annotations can also be added or modified as follows: Click a drawn annotation, then click the View
Text Annotations button: The Text Annotations window is opened in the Main Window, and the comment for
the selected annotation is highlighted. Double-click the comment. Enter a new comment. Close the window.
The comment is saved.
•Select the Pan Navigation (Open Hand) tool.
•Place the Open Hand icon on or over an annotation.
•Left click: The annotation is selected.
•Click the Delete Annotation button: You are prompted to delete the annotation.
•Click Yes.
•The annotation is deleted.
Note: An annotation can also be deleted as follows: Select the annotation. Click the right mouse button, then select
Delete Annotation from the drop-down menu. You are prompted to delete the annotation.
Note: This button is inactive and grayed out and unavailable until at least one annotation is drawn.
First Annotation
Select the first annotation drawn.
Note: This button is inactive and grayed out and unavailable until at least two annotations are drawn.
Previous Annotation
Change annotations, from the current annotation to the previous annotation.
Current Annotation
Select the current annotation.

Next Annotation
Change annotations, from the current annotation to the next annotation.
Last Annotation
Select the last annotation.


iScan Coreo Au User Manual Appendix A: iScan Coreo Au Cable Diagram
Appendix A: iScan Coreo Au Cable Diagram
USB (VGA Camera to Motherboard)
USB (HUB to Motherboard)
Firewire (XGA Camera to Firewire Card)
Power Cord
Toggle Power Switch
Figure A-1 Cable Diagram

Appendix A: iScan Coreo Au Cable Diagram iScan Coreo Au User Manual

iScan Coreo Au User Manual Appendix B: iScan Coreo Au Error Messages
Appendix B: iScan Coreo Au Error Messages

Where designated in the following table, Technical Support can be reached at Tel (USA): +1 800 227 2155, or Tel: +1 520 887 2155, press
1..
Code Explanation Action

-1 Communication error, please retry Retry action. If the error code persists, contact Tech
Support.
201 Scanner is not connected Unplug all cables from scanner, plug them back in, then
restart the iScan Coreo Au application.
202 Multiple instances of iScan Coreo Au application are Close all but one instance of iScan Coreo Au.
running
203 Incorrect objective. Contact Techical Support.
301 Flycap camera is not started Unplug camera cables from scanner, plug them back in,
then restart the iScan Coreo Au application.
303 Flycap function error Unplug camera cables from scanner, plug them back in,
304 Flycap registry error Unplug camera cables from scanner, plug them back in,
305 Error occurred while scanning Rescan slide.
307 Error occurred while capturing thumbnail Contact Technical Support.
308 Error occurred while capturing thumbnail Contact Technical Support.
309 Error occurred while scanning Contact Technical Support.
401 Motor controller is not connected Unplug all cables from scanner, plug them back in, then
restart iScan Coreo Au application.
405 Error occurred while creating output file Make sure all required executables are in place.
410 Error occurred while scanning Add focus point(s) on tissue and rescan slide.
411 Insufficient disk space to create image Create additional disk space and rescan slide.
412 Unable to create output directory Contact the System Administrator to verify that you have
sufficient privileges for this action.
413 Insufficient memory available for scan Scan slide at a later time.
414 Failed slide present A slide may be on the Stage. Remove slide and continue.
415 Thumbnail image cannot be found Recapture thumbnail.
416 Error occurred while capturing thumbnail Recapture thumbnail.
419 Unable to pick up slide A slide may be on the Stage. Remove slide and continue.
421 Unable to deposit slide back in its rack A slide may be on the Stage. Remove slide and continue.
422 Unable to recover from pickup/deposit A slide may be on the Stage. Remove slide and continue.
423 Unable to start scan Rescan slide.
424 Insufficient memory available for scan Scan slide at a later time.
425 Cannot connect to scanner Unplug all cables from scanner, plug them back in, then
restart the iScan Coreo Au application.
426 Error occurred while scanning Add more focus points, then rescan slide.

Appendix B: iScan Coreo Au Error Messages iScan Coreo Au User Manual
Code Explanation Action

427 Error occurred while creating output file Make sure all required executables are in place.
428 No AOI for scan Add AOI(s), then rescan slide.
430 Rack is not present Insert rack, then continue.
433 Error occurred while scanning. Slide was tilted. Rescan slide.
434 Error occurred while creating output file Rescan slide.
435 AOI too small for scan Enlarge AOI(s), then rescan slide.
436 Unable to deposit slide back in its rack A slide may be on the Stage. Remove slide and continue.
437 Process aborted Rescan slide.
438 Stage decoupled Close application, then restart again.
439 Insufficient Focus Points for Manual Scan Add one focus point per AOI on tissue, then rescan slide.
440 Stage stalled Retry operation. If the failure persists, contact Tech
Support.
442 Access door opened Close door, then restart scanner.
443 Error occurred while scanning Remove or resize AOI, then rescan slide.
444 Unable to read barcode Make sure barcode is readable and valid.
445 Invalid barcode Barcode must be 1-D or 2-D.
446 No barcode found Use slide with barcode.
447 Barcode format mismatch Use barcode with compatible format.
448 Error occurred while scanning. Slide was tilted. Rescan slide.
449 Unable to scan all AOI Check scanned AOI. Verify that all AOI are scanned. If all
AOI are not scanned, rescan slide.
452 Error occurred while scanning Contact Technical Support.
455 An error occurred while scanning, please retry. Rescan slide.
500 Unable to create Image Viewer process Make sure Image Viewer is installed and path to Viewer is
entered in iScan Coreo Au config file.
551 LCD inoperable Contact Technical Support.
604 Error occurred while copying file to server Verify server path.

iScan Coreo Au User Manual Appendix C: iScan Coreo Au Diagnostic Module
Appendix C: iScan Coreo Au Diagnostic Module
The iScan Coreo Au slide scanner includes the Diagnostic Module that allows testing of various scanner hardware components and
functions. These tests must be run using nine custom slides, which can be obtained from Ventana Medical Systems, Inc.
Note: The Diagnostic Module must be run with the nine custom slides or the results will be invalid as the slides are calibrated for
the module. For more information on the slides, see page 181.
It is strongly recommended that the Diagnostic Module be run under the guidance of Technical Support. Please
contact Technical Support at Tel (USA): +1 800 227 2155, or Tel: +1 520 887 2155, press 1 for assistance before
starting the Diagnostic Module.
When Can You Run the Diagnostic Module?

You can run the Diagnostic Module only under the following condition:
• When the scanner is ready for operation (idle).
Note: To confirm this condition, check the scanner status bar.
Diagnostic Module Operating Procedures

• Open Diagnostic Module, page 178
• Put Diagnostic Slides in Prescribed Slots in Tray, page 181
• Load Diagnostic Slides into Scanner, page 182
• Run Quality Check Diagnostic, page 183
• Run Flat Field Diagnostic, page 184
• Jog an Axis, page 185
• Run Stage Access Diagnostic, page 188
• Close Diagnostic Module, page 188

Appendix C: iScan Coreo Au Diagnostic Module iScan Coreo Au User Manual
Open Diagnostic Module

1 Click the Diagnostic Module button (see below) on the scanner console.
Two windows are opened on the console:
- Diagnostic Utility (see below)
- Diagnostic Module (page 180)
Diagnostic Button
Gray Plus Sign
The Module is not ready for operation (the scanner is busy).
Red Plus Sign
The Module is ready for operation (the scanner is idle).

Diagnostic Utility
The Diagnostic Utility (Figure C-1) conducts various diagnostic checks, and runs in conjunction with the Diagnostic Module.
In order to perform diagnostics, the Utility and the Module must be open and running at the same time.
Note: Do not close the Diagnostic Utility when running or attempting to run the Diagnostic Module. If you close the Utility, the Module
is also closed.
Figure C-1 Diagnostic Utility Window

Diagnostic Module
The Diagnostic Module (Figure C-2) is the primary workbench of the scanner diagnostic system.
From this Module, you can run the following diagnostic procedures:
• Quality Check (page 183)
• Flat Field (page 184)
• Jog (page 185)
• Stage Access (page 188)
Note: When the Module window is initially opened, the Quality Check Diagnostic is displayed, by default, but is inactive (“Quality
Check” is grayed out in the list). In order to run a diagnostic procedure, you must select it from the list. (After selection, the
procedure is highlighted in blue.)
Figure C-2 Diagnostic Module Main Window

Put Diagnostic Slides in Prescribed Slots in Tray

1 Obtain a slide tray containing eight empty Sakura baskets.
2 Insert the nine custom slides in the slots as shown in Figure C-3 and Figure C-4.
Note: In Figure C-3, the rack and the baskets are highlighted in bright colors for easy viewing. The actual racks and baskets are dark
in color, as in Figure C-4.
RACK
#1 #2 #3 #4
#5
B
#6 A
S
K
E
#7
T
S
#8
#9
Figure C-3 Diagnostic Slides in Tray: Prescribed Slots

#1
#2
#3
#4
#5
#6
#7
#8
#9
Figure C-4 Diagnostic Slides in Tray: Prescribed Slots
Load Diagnostic Slides into Scanner

1 Click the Start button on the Diagnostic Module Quality Check Main Window.
An iScan Coreo Au window is opened on the console, prompting you to open the door to load the tray containing the nine custom
diagnostic slides into the scanner.
2 Click Yes, No, or Cancel, then proceed.
If the slides are not already loaded... Click Yes to open the door and load them.
Note: An iScan Coreo Au window is opened, directing you to load the nine custom
calibration slides into the scanner. After the slides are loaded, click OK.
If the slides are already loaded... Click No to continue the Quality Check without opening the door.
If you want to discontinue the test... Click Cancel.

Run Quality Check Diagnostic

Note: When the Quality Check Diagnostic is initially opened, each test is set to run, by default. This setting can be changed by
clicking the check mark corresponding to a test.
The Quality Check is a general set of diagnostics that test the following scanner components and functions:
• Solenoid
• Encoders
• Motor Speeds
• Slide Detect
• Pickup/Deposit
• X-Y Tilt
• Focus Repeatability
Note: Do not abort the Quality Check diagnostic while it is running.
Quality Check Procedure

1 Click Quality Check (the selection is highlighted in blue).
The Quality Check Diagnostic window is opened.
2 Click the All box, if it is not already selected.
3 Click Start.
The Quality Check is run. (Figure C-5)
As a test is run:
- The list of diagnostic procedures is grayed out.
At the conclusion of a test:
- The result is posted in the Result column (“Pass” or “Fail”).
Pass The Quality Check is continued to the next test.
Failed The Quality Check is stopped. Contact Customer Support.
Figure C-5 Diagnostic Module Quality Check

Run Flat Field Diagnostic
The Flat Field Diagnostic tests cameras and camera-objective combinations, and corrects (“flat-fields”) image distortion that may
be caused by image illumination.
Note: When the Flat Field Diagnostic is initially opened, the Thumbnail camera test and corrective action is selected, by default.
This setting can be changed by clicking the check mark corresponding to another camera or camera-objective combination
Flat Field Procedure

1 Click Flat Field (the selection is highlighted in blue).
The Flat Field Diagnostic window is opened. (Figure C-6)
2 Select a camera to test and flat-field:
- Thumbnail: Thumbnail camera
- 4X: High-resolution camera-objective combination
3 Click Start.
The selected camera or camera-objective combination is tested and flat-fielded.
As the test and flat-field are run:
- All options and buttons are grayed out (except Abort).
At the conclusion of the test and flat-field:
- The result is posted in the Result section.
Note: Do not abort the Flat Field diagnostic while it is running.
Figure C-6 Diagnostic Module Flat Field Main Window: Thumbnail Selected

Jog an Axis
The Jog an Axis procedure exercises various axes on which the Scanner stage and scanner objective run.
Note: When the Jog is initially opened, the X axis is selected, by default. This setting can be changed by clicking the check mark
corresponding to another axis.
You should not have to routinely run the Jog procedure. If the procedure is run, move the slide scoop (Figure
C-7) to the back of the scanner unit before moving the X and Z stages. Please contact Technical Support at Tel
(USA): +1 800 227 2155, or Tel: +1 520 887 2155, press 1 for assistance before starting the Jog procedure.
Figure C-7 Slide Scoop
Jog Procedure
1 Click Jog (the selection is highlighted in blue).
The Jog window is opened. (Figure C-6)
2 Select an axis to move:
X: Stage is moved left and right
Y: Stage is moved back and forth
Z: Door is moved up/down (slides/door)
U: Focus Axis is moved up and down
In the Axis section of the Jog window, the numbers in parenthesis refer to the relative position of the particular axis.
3 Select a direction in which to move an axis:
Left
Right
Home
The selected axis is moved in the selected direction.
Press the Shift key for long moves.
As an axis is moved:
- All options are grayed out (except Abort).
- Status is posted in the status bar.
At the conclusion of a move:
- The result is posted in the status bar.
Note: Do not abort the Jog procedure while it is running.

Figure C-8 Diagnostic Module Jog Window: X Axis Selected
Figure C-9 Diagnostic Module Jog Main Window: Y Axis Selected

Figure C-10 Diagnostic Module Jog Main Window: Z Axis Selected
Figure C-11 Diagnostic Module Jog Main Window: U Axis Selected

Run Stage Access Diagnostic
The Run Stage Diagnostic allows you to move the Stage to specific positions.
Note: When the Stage Access Diagnostic is initially opened, “Objective Door” is selected, by default. This setting can be changed by
clicking the check mark corresponding to another position to which to move the Stage.
Stage Access Procedure

1 Click Stage Access (the selection is highlighted in blue).
The Stage Access window is opened. (Figure C-12)
2 Select a position to which to move the Stage:
- Left Access Panel
- Right Access Panel
- Stage Block Removal Position
3 Click Move Stage.
The Stage is moved to the selected position.
As the Stage is moved:
- All options are grayed out (except Abort).
After the Stage is moved:
- The result is posted in the status bar.
Figure C-12 Diagnostic Module Stage Access Main Window
Close Diagnostic Module

1 Click the Close button in any window.
When you click Close:
• The Diagnostic Module window is closed.
• the Diagnostic Utility window is closed.
• The scanner console is open on the desktop.

iScan Coreo Au User Manual Appendix D: iScan Coreo Au Live Application Installation
Appendix D: iScan Coreo Au Live Application Installation
First time remote users must install the iScan Coreo Au Live application on their workstation in order to participate in collaboration
sessions. Installation requires the exact computer name or IP address of the workstation that is hosting the collaboration session. If
the host workstation is configured using a port number, that information is also required. The installation components for the Live
application are downloaded from the host workstation.
Note: Obtain the exact computer name (or IP address) of the workstation hosting the collaboration session, the port number (if
configured for use), and a login name and password from your system administrator.
Use the following instructions to install the Live application:

1 In an Internet Explorer web browser window, type http://NameofLiveHostComputer/LiveMode/Publish.htm into the
address bar where NameofLiveHostComputer is the exact name of the computer of the Live application host workstation (Figure
D-1).
Figure D-1 Enter Web Address of Live Application Host Workstation
Note: The exact IP address of the Live application host workstation can be substituted for the computer name.
2 Click Enter on the keyboard to establish the connection with the Live application host workstation. The application setup window
appears (Figure D-2).
Figure D-2 Application Setup Window
3 Click Run to start the application setup process. The file download window appears (Figure D-3).

Appendix D: iScan Coreo Au Live Application Installation iScan Coreo Au User Manual
Figure D-3 File Download Window
4 Click Save to save the setup.exe file to the desktop.

5 When the download is complete, the download complete window appears (Figure D-4). Click Close to continue the setup.
Figure D-4 Download Complete Window
6 On the desktop, double click the setup.exe file to begin the installation. The following components are then installed:
• Windows Installer 3.1
• .NET Framework 3.5 SP1
• iScan Coreo Au Live Application Certificate
Note: Depending on your internet connection speed, installation of Windows Installer 3.1 and .NET Framework 3.5 can take
>3 minutes.
7 If Windows Installer 3.1 and .NET Framework 3.5 SP1 is already present on the workstation, the iScan Coreo Au Live Application
Certificate installer begins immediately. The LiveMode Setup window appears to confirm the installation of the application certificate
(Figure D-5).
Figure D-5 LiveMode Setup Window

8 Click the Install button. The Setup Prompt window appears (Figure D-6).
Figure D-6 Setup Prompt Window
9 To confirm the connection to the host, reenter the exact computer hostname or IP address of the workstation that is hosting the
collaboration session (Figure D-7).
Figure D-7 Setup Prompt Window with Computer Hostname

Note: If the host workstation is configured using a port number, reenter the exact computer hostname or IP address followed by a
colon (:) and the port number as in Figure D-8.
Figure D-8 Setup Prompt Window with Computer Hostname and Port Number
10 Click Enter on the keyboard after entering the computer hostname or IP address. Click Enter on the keyboard again to close the Setup
Prompt window and to continue the installation.
Note: If Windows Installer 3.1 is already present on the workstation, a restart of the system is not required. Otherwise, follow the
screen prompts and restart the workstation.

11 If a restart of the workstation is not required, the iScan Coreo Au Live login page appears (Figure D-9). Login with the correct user
name and password to join the remote collaboration session. Otherwise, open an Internet Explorer web browser window after the
workstation restart and copy the URL address from the initial Live collaboration session invitation e-mail into the address bar. Click
Enter on the keyboard to navigate to the iScan Coreo Au Live login page.
Figure D-9 Login Screen on a Browser
If an error page appears on the web browser instead of the login page, repeat the installation steps. If an error still occurs, please
contact Technical Support at Tel (USA): +1 800 227 2155, or Tel: +1 520 887 2155, press 1 for assistance.


iScan Coreo Au User Manual Appendix E: Image Viewer Open Source and Commercial Software Information
Appendix E: Image Viewer Open Source and Commercial

Software Information
Image Viewer License Statement

Image Viewer v. 3.1
Copyright © 2011. Ventana Medical Systems, Inc.
All rights reserved.
iScan, Virtuoso, Ventana, and the Ventana logo are trademarks of Roche. All other trademarks are the property of their respective
owners.
The Image Viewer v. 3.1 is protected by contract law, copyright laws, and international treaties.
The Image Viewer v. 3.1 is licensed for use between Ventana Medical Systems, Inc. and a licensee, and only users authorized there
under are permitted to access and use the software. Unauthorized use and distribution may result in civil and criminal penalties.
You are specifically prohibited from charging, or requesting donations, for any copies, however made, and from distributing such
copies with other products of any kind, commercial or otherwise, without prior written permission from Ventana Medical Systems,
Inc. Ventana Medical Systems, Inc. reserves the right to revoke the above distribution rights at any time, for any or no reason.
Open Source and Commercial Software
Image Viewer v. 3.1 might contain components or modules that are Open Source or Commercial Software programs. The product
and the Image Viewer v. 3.1 as a whole may form a regulated device in accordance with the applicable laws. Please note that the
respective authorization in accordance with the applicable laws lapse in case of any unauthorized changes to the Image Viewer v. 3.1.
Image Viewer Open Source and Commercial Software
Open Source
1 Libtiff (TIFF image handling functions and JPEG compression /decompression functions)
2 CxImage (Image file handling and processing functions)
Commercial
1 Kakadu JPEG 2000 Decompression libraries
2 Intel IPP (Image processing functions)
Licensing Information for Open Source and Commercial Software
CxImage - http://www.opensource.org/licenses/zlib-license.php
Libtiff - http://www.epsiia.com/licenses/libtiff.html

Appendix E: Image Viewer Open Source and Commercial Software Information iScan Coreo Au User Manual
End User License Agreement for the Intel(R) Software Development Products
LICENSE DEFINITIONS:
a "Materials" are defined as the software, documentation, license key codes and other materials, including any updates and upgrade thereto, for the applicable
Intel Software Development Product (which may be found at http://www.intel.com/software/products/), that are provided to you under this Agreement.
Materials also include the Redistributables as defined below.
b "Redistributables" are the files listed in the following text files that may be included in the Materials for the applicable Intel Software Development Product:
clredist.txt, credist.txt,fredist.txt, redist.txt.
c “Cluster OpenMP Library”, is comprised of the files listed in the “clredist.txt” file specified above the Intel(R) Cluster OpenMP* Library add-on option to the
Intel(R) C++ Compiler for Linux* and Intel(R) Fortran Compiler for Linux* products (“Intel Compiler for Linux”). The use of the Cluster OpenMP Library
is conditioned on having a valid license from Intel for the Cluster OpenMP Library and for either Intel Compiler for Linux, and further is governed by the
terms and conditions of the license agreement for applicable the Intel Compiler for Linux.
d “Source Code” is defined as the Materials provided in human readable format, whether unmodified or modified by you.
e "Sample Source" is the Source Code file(s) that: (i) demonstrate certain limited functions included in the binary libraries of the Intel(R) Integrated
Performance Primitives (“Intel(R) IPPs”); (ii) are identified as Intel IPP sample source code; and (iii) are obtained separately from Intel after you register your
copy of the Intel Integrated Performance Primitives product with Intel.
f “Microsoft Platforms” means any current and future Microsoft operating system products, Microsoft run-time technologies (such as the .NET Framework),
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e Intel(R) Integrated Performance Primitives (Intel IPP). The following terms and conditions apply only to the Intel IPP.
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be bound by all of the terms and conditions of this Agreement. Please send such letter to:
Intel Corporation
2111 NE 25th Avenue
Hillsboro, OR 97124
Attn: DPD Contracts Management, JF1-15
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are furnished are found to be defective in material or workmanship under normal use for a period of ninety (90) days from the date

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LIMITATION OF LIABILITY
THE ABOVE REPLACEMENT PROVISION IS THE ONLY WARRANTY OF ANY KIND. INTEL OFFERS NO OTHER
WARRANTY EITHER EXPRESS OR IMPLIED INCLUDING THOSE OF MERCHANTABILITY,
NONINFRINGEMENT OF THIRD- PARTY INTELLECTUAL PROPERTY OR FITNESS FOR A PARTICULAR
PURPOSE. NEITHER INTEL NOR ITS SUPPLIERS SHALL BE LIABLE FOR ANY DAMAGES WHATSOEVER
(INCLUDING, WITHOUT LIMITATION, DAMAGES FOR LOSS OF BUSINESS PROFITS, BUSINESS INTERRUPTION,
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SOFTWARE, EVEN IF INTEL HAS BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGES. BECAUSE SOME
JURISDICTIONS PROHIBIT THE EXCLUSION OR LIMITATION OF LIABILITY FOR CONSEQUENTIAL OR
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UNAUTHORIZED USE
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CONSENT
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within thirty (30) days of written notice from Intel. Upon termination, you will immediately return to Intel or destroy the Materials
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Agreement shall survive termination of this Agreement.

U.S. GOVERNMENT RESTRICTED RIGHTS
The Materials are provided with "RESTRICTED RIGHTS". Use, duplication or disclosure by the Government is subject to
restrictions set forth in FAR52.227-14 and DFAR252.227-7013 et seq. or its successor. Use of the Materials by the Government
constitutes acknowledgment of Intel's rights in them.
APPLICABLE LAWS
Any claim arising under or relating to this Agreement shall be governed by the internal substantive laws of the State of Delaware,
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modifications shall be in compliance with the laws, regulations, orders or other restrictions of applicable export laws.
THIRD PARTY PROGRAMS
The Materials may include third party programs or materials. The license terms with those programs or materials apply to your use
of them, and Intel is not liable for them.
* Other names and brands may be claimed as the property of others

KAKADU SOFTWARE™ LICENSE AGREEMENT
BY YOU PURCHASING AND/OR USING THE KAKADU SOFTWARE™ YOU ARE DEEMED TO HAVE
ACCEPTED THE FOLLOWING LICENSE TERMS AND CONDITIONS. ONCE YOU HAVE PAID FOR,
INSTALLED OR USED THE KAKADU SOFTWARE™, YOU ARE BOUND BY THIS AGREEMENT.
This Agreement constitutes the entire agreement between You and NewSouth Innovations Pty Limited (NSi) with respect to the
Kakadu Software™ and SUPERSEDES all proposals and prior agreements, oral or written, and any other communications between
You and NSi relating to the Kakadu Software™.
LICENSE GRANT
NSi hereby grants to You a non-exclusive license to install and use the Kakadu Software™ and accompanying documentation on
the terms set out in this Agreement. The license to the Kakadu Software™ is personal to You. The intellectual property rights in
the Kakadu Software™ shall at all times remain the property of NSi, and You shall have no right, title, or interest therein, except as
expressly set forth in this Agreement.
DEFINITIONS
Agreement means this License agreement.
Annual License Fee means the Annual License Fee set out in the Details.
Application means compiled code generated using the Kakadu Software™, Kakadu Code or any part thereof.
Details means the details set out in Order Form accompanying and forming part of this License Agreement.
Development Use means the use of the Kakadu Software™ to develop Applications for and Sale of the Applications to Third
Parties.
Kakadu Code means the Kakadu Software™ source code. Kakadu Code also includes any intermediate compiled form, such as
dynamically or statically linked libraries, which allow the functionality of the Kakadu Software™ source code to be reproduced in a
variety of Applications.
Kakadu Software™ means the Kakadu Software™ and related electronic documentation described in the Details, together with
any improvements or enhancements if any made available by NSi to You from time to time.
Sale means any sale, transfer, rental, lease, license hiring out, distribution, commercial supply or other disposal of an Application by
You or on Your behalf of. Sold and Sell shall be similarly construed.
Taxes means all applicable taxes including good & services tax, levies, duties, charges, deductions and withholdings and similar
imposts imposed by law or by any government agency, other than imposts charged on net income.
Term means a period of three (3) years beginning from the date of the delivery of the Kakadu Software™ by NSi to You.
Third Party means any person or legal entity which is not NSi or You.
Update Fee means the amount notified to You in writing by NSi at a later date.
You (Your) means the Licensee shown in the Details
LICENSED USE
You have the right to Development Use of the Kakadu Software™. Applications developed by You under this License may include
dynamically linked libraries but must not otherwise expose the functionality of the Kakadu Software™ for re-use in Third Party

software nor disclose any Kakadu Code. All copies of Applications shall contain notification that they were developed using the
Kakadu Software.
You have the right to distribute Kakadu Code to a contractor for the sole purpose of enabling that contractor to participate in the
development of Applications by You. Contractors who are supplied Kakadu Code under this clause may not independently develop
Applications based on Kakadu Software™ without first obtaining a separate license from NSi.
You may distribute Applications which allow Kakadu Software™ functionality to be reproduced by a Third Party if such Third Party
has given You documentary evidence that it independently holds a valid and binding license from NSi to use the Kakadu
Software™.
This license cannot be transferred or sub-licensed.
During the Term of this Agreement (including any extensions in accordance with clause 6.3), NSi shall provide to You updates,
improvements or modifications to the Kakadu Software™ as generally made available to NSi’s other licensee’s of the Kakadu
Software™.
You must hold the Kakadu Software™ and Kakadu Code in strict confidence at all times and not use nor permit it to be used,
except in accordance with this Agreement.
LICENSE FEE
In consideration for the grant of license under clause 1, You must pay to NSi the Annual License Fee.
All payments made under this Agreement are exclusive of any Taxes. If any laws, rules or regulations require You to withhold
amounts for payment Taxes or other amounts from payments made by You to NSi under this Agreement, You must gross up such
payments so that the amount actually paid to NSi is the amount NSi would otherwise receive if no amount was required to be
withheld.
PAYMENT
You must pay:

a the Annual License Fee in accordance with the Details; and
b The Update Fee (if applicable) within 30 days of the end of the Agreement.
NSi shall not provide any invoices unless specifically requested by You.
TERM AND TERMINATION
This agreement may be terminated by notice in writing to You at NSi’s sole discretion, if You breach any term of this Agreement.
You may extend the Term for successive 1 year periods (“ExtendedTerm”) at any time during the Term by payment of the Update
Fee to NSi prior to the expiry of Agreement (as extended or otherwise). The Update Fee for subsequent Extended Terms shall not
be increased over the previous Extended Term’s Update Fee by more than five per cent (5%). All rights and obligations set out in
this Agreement shall continue to apply during the Term as extended.
At the expiration or termination of this Agreement, You must cease Development Use of the Kakadu Software™ and destroy all
copies of the Kakadu Software™ and Kakadu Code but may continue to use but not Sell Applications. For clarity, use of any
Applications by You or Your customers (where Applications have been Sold by You) which are already in place prior to the
expiration of the Agreement will not be affected.
ACKNOWLEDGEMENTS
You acknowledge that the Kakadu Software™ is a collection of software tools which may not be appropriate for Your intended
purpose.

You shall not use the name, trade names or trade marks of NSi, University of New South Wales or any of its affiliates in any
advertising, promotional literature or any other material, whether in written, electronic, or other form, distributed to any third party,
except in the form provided by NSi, and then solely for purposes of identifying the Kakadu Software™.
LIABILITY
NSi does not warrant that:

a The operation of the Kakadu Software™ will be uninterrupted or error free;
b The Kakadu Software™ is fit for any particular purpose; or
c The Kakadu Software™ or its use does not infringe the rights of a third party.
To the extent permitted by law, all warranties, terms and conditions not expressly included in this Agreement are excluded. NSi shall
have no liability for any indirect or consequential loss (whether foreseeable or otherwise), loss of profits, loss of business, loss of
opportunity, or loss of use of any computer hardware or software or information resulting from the use of the Kakadu Software™.
The Kakadu Software™ should not be relied on as the sole basis to solve a problem whose incorrect solution could result in injury
or loss to person or property. If the Kadadu Software is employed in such a manner, it is at Your own risk and NSi explicitly disclaims
all liability for such misuse to the extent allowed by law.
NSi’s liability for matters in relation to which liability by law cannot be excluded or limited shall not be excluded or limited. Where
permitted by law, all other liability of NSi, whether in relation to breach of contract, tort (including negligence) or otherwise shall
not in aggregate exceed the amount paid to NSi under this license Agreement for the Kakadu Software™.
Where available, NSi’s liability under terms and conditions that are implied by law and which may not be excluded is limited to, at
NSi’s option, resupply of the Kakadu Software™ or payment of the cost of resupply of the Kakadu Software™.
General
The Details form part of this Agreement
This Agreement supersedes all proposals and prior agreements, oral or written, and any other communications between NSi and
You.
You may assign its rights or obligations under this Agreement to a wholly owned subsidiary or Your corporate successor without
NSi’s prior written consent provided that You provide prompt notification to NSi after such assignment.
You are responsible for ensuring compliance with applicable export and import control laws and regulations of the jurisdiction in
which You conduct Your business in respect its activities relating to this Agreement and its use of the Kakadu Software™.
To the extent any applicable law, treaty, or regulation is in conflict with this Agreement, the conflicting terms of this Agreement shall
be superseded only to the extent necessary by such law, treaty, or regulation. If any provision of this Agreement shall be otherwise
unlawful, void, or otherwise unenforceable, that provision shall be enforced to the maximum extent permissible. In either case, the
remainder of this Agreement shall not be affected.
This Agreement contains the entire understanding of the parties and may not be modified or amended except by written instrument,
executed by authorized representatives of NSi and You.
This Agreement is governed by the laws of New South Wales, Australia and the parties submit to the non-exclusive jurisdiction of
the courts of that State and the Commonwealth of Australia.

iScan Coreo Au User Manual Appendix F: iScan Coreo Au Open Source and Commercial Software Information
Appendix F: iScan Coreo Au Open Source and Commercial

Software Information
iScan Coreo Au Open Source and Commercial Software
Open Source
1 Libtiff (TIFF image handling functions and JPEG compression /decompression functions)
2 CxImage (Image file handling and processing functions)
Commercial
1 Kakadu JPEG 2000 Decompression libraries
2 Intel IPP (Image processing functions)
3 Inlite (1D and 2D Barcode decoding)
Licensing Information for Open Source and Commercial Software
CxImage - http://www.opensource.org/licenses/zlib-license.php
Libtiff - http://www.epsiia.com/licenses/libtiff.html

Appendix F: iScan Coreo Au Open Source and Commercial Software Information iScan Coreo Au User Manual
KAKADU SOFTWARE™ LICENSE AGREEMENT
BY YOU PURCHASING AND/OR USING THE KAKADU SOFTWARE™ YOU ARE DEEMED TO HAVE
ACCEPTED THE FOLLOWING LICENSE TERMS AND CONDITIONS. ONCE YOU HAVE PAID FOR,
INSTALLED OR USED THE KAKADU SOFTWARE™, YOU ARE BOUND BY THIS AGREEMENT.
This Agreement constitutes the entire agreement between You and NewSouth Innovations Pty Limited (NSi) with respect to the
Kakadu Software™ and SUPERSEDES all proposals and prior agreements, oral or written, and any other communications between
You and NSi relating to the Kakadu Software™.
LICENSE GRANT
NSi hereby grants to You a non-exclusive license to install and use the Kakadu Software™ and accompanying documentation on
the terms set out in this Agreement. The license to the Kakadu Software™ is personal to You. The intellectual property rights in
the Kakadu Software™ shall at all times remain the property of NSi, and You shall have no right, title, or interest therein, except as
expressly set forth in this Agreement.
DEFINITIONS
Agreement means this License agreement.
Annual License Fee means the Annual License Fee set out in the Details.
Application means compiled code generated using the Kakadu Software™, Kakadu Code or any part thereof.
Details means the details set out in Order Form accompanying and forming part of this License Agreement.
Development Use means the use of the Kakadu Software™ to develop Applications for and Sale of the Applications to Third
Parties.
Kakadu Code means the Kakadu Software™ source code. Kakadu Code also includes any intermediate compiled form, such as
dynamically or statically linked libraries, which allow the functionality of the Kakadu Software™ source code to be reproduced in a
variety of Applications.
Kakadu Software™ means the Kakadu Software™ and related electronic documentation described in the Details, together with
any improvements or enhancements if any made available by NSi to You from time to time.
Sale means any sale, transfer, rental, lease, license hiring out, distribution, commercial supply or other disposal of an Application by
You or on Your behalf of. Sold and Sell shall be similarly construed.
Taxes means all applicable taxes including good & services tax, levies, duties, charges, deductions and withholdings and similar
imposts imposed by law or by any government agency, other than imposts charged on net income.
Term means a period of three (3) years beginning from the date of the delivery of the Kakadu Software™ by NSi to You.
Third Party means any person or legal entity which is not NSi or You.
Update Fee means the amount notified to You in writing by NSi at a later date.
You (Your) means the Licensee shown in the Details
LICENSED USE
You have the right to Development Use of the Kakadu Software™. Applications developed by You under this License may include
dynamically linked libraries but must not otherwise expose the functionality of the Kakadu Software™ for re-use in Third Party

software nor disclose any Kakadu Code. All copies of Applications shall contain notification that they were developed using the
Kakadu Software.
You have the right to distribute Kakadu Code to a contractor for the sole purpose of enabling that contractor to participate in the
development of Applications by You. Contractors who are supplied Kakadu Code under this clause may not independently develop
Applications based on Kakadu Software™ without first obtaining a separate license from NSi.
You may distribute Applications which allow Kakadu Software™ functionality to be reproduced by a Third Party if such Third Party
has given You documentary evidence that it independently holds a valid and binding license from NSi to use the Kakadu Software™.
This license cannot be transferred or sub-licensed.
During the Term of this Agreement (including any extensions in accordance with clause 6.3), NSi shall provide to You updates,
improvements or modifications to the Kakadu Software™ as generally made available to NSi’s other licensee’s of the Kakadu
Software™.
You must hold the Kakadu Software™ and Kakadu Code in strict confidence at all times and not use nor permit it to be used, except
in accordance with this Agreement.
LICENSE FEE
In consideration for the grant of license under clause 1, You must pay to NSi the Annual License Fee.
All payments made under this Agreement are exclusive of any Taxes. If any laws, rules or regulations require You to withhold
amounts for payment Taxes or other amounts from payments made by You to NSi under this Agreement, You must gross up such
payments so that the amount actually paid to NSi is the amount NSi would otherwise receive if no amount was required to be
withheld.
PAYMENT
You must pay:

a the Annual License Fee in accordance with the Details; and
b The Update Fee (if applicable) within 30 days of the end of the Agreement.
NSi shall not provide any invoices unless specifically requested by You.
TERM AND TERMINATION
This agreement may be terminated by notice in writing to You at NSi’s sole discretion, if You breach any term of this Agreement.
You may extend the Term for successive 1 year periods (“ExtendedTerm”) at any time during the Term by payment of the Update
Fee to NSi prior to the expiry of Agreement (as extended or otherwise). The Update Fee for subsequent Extended Terms shall not
be increased over the previous Extended Term’s Update Fee by more than five per cent (5%). All rights and obligations set out in
this Agreement shall continue to apply during the Term as extended.
At the expiration or termination of this Agreement, You must cease Development Use of the Kakadu Software™ and destroy all
copies of the Kakadu Software™ and Kakadu Code but may continue to use but not Sell Applications. For clarity, use of any
Applications by You or Your customers (where Applications have been Sold by You) which are already in place prior to the
expiration of the Agreement will not be affected.
ACKNOWLEDGEMENTS
You acknowledge that the Kakadu Software™ is a collection of software tools which may not be appropriate for Your intended
purpose.

You shall not use the name, trade names or trade marks of NSi, University of New South Wales or any of its affiliates in any
advertising, promotional literature or any other material, whether in written, electronic, or other form, distributed to any third party,
except in the form provided by NSi, and then solely for purposes of identifying the Kakadu Software™.
LIABILITY
NSi does not warrant that:

a The operation of the Kakadu Software™ will be uninterrupted or error free;
b The Kakadu Software™ is fit for any particular purpose; or
c The Kakadu Software™ or its use does not infringe the rights of a third party.
To the extent permitted by law, all warranties, terms and conditions not expressly included in this Agreement are excluded. NSi shall
have no liability for any indirect or consequential loss (whether foreseeable or otherwise), loss of profits, loss of business, loss of
opportunity, or loss of use of any computer hardware or software or information resulting from the use of the Kakadu Software™.
The Kakadu Software™ should not be relied on as the sole basis to solve a problem whose incorrect solution could result in injury
or loss to person or property. If the Kadadu Software is employed in such a manner, it is at Your own risk and NSi explicitly disclaims
all liability for such misuse to the extent allowed by law.
NSi’s liability for matters in relation to which liability by law cannot be excluded or limited shall not be excluded or limited. Where
permitted by law, all other liability of NSi, whether in relation to breach of contract, tort (including negligence) or otherwise shall
not in aggregate exceed the amount paid to NSi under this license Agreement for the Kakadu Software™.
Where available, NSi’s liability under terms and conditions that are implied by law and which may not be excluded is limited to, at
NSi’s option, resupply of the Kakadu Software™ or payment of the cost of resupply of the Kakadu Software™.
General
The Details form part of this Agreement
This Agreement supersedes all proposals and prior agreements, oral or written, and any other communications between NSi and
You.
You may assign its rights or obligations under this Agreement to a wholly owned subsidiary or Your corporate successor without
NSi’s prior written consent provided that You provide prompt notification to NSi after such assignment.
You are responsible for ensuring compliance with applicable export and import control laws and regulations of the jurisdiction in
which You conduct Your business in respect its activities relating to this Agreement and its use of the Kakadu Software™.
To the extent any applicable law, treaty, or regulation is in conflict with this Agreement, the conflicting terms of this Agreement shall
be superseded only to the extent necessary by such law, treaty, or regulation. If any provision of this Agreement shall be otherwise
unlawful, void, or otherwise unenforceable, that provision shall be enforced to the maximum extent permissible. In either case, the
remainder of this Agreement shall not be affected.
This Agreement contains the entire understanding of the parties and may not be modified or amended except by written instrument,
executed by authorized representatives of NSi and You.
This Agreement is governed by the laws of New South Wales, Australia and the parties submit to the non-exclusive jurisdiction of
the courts of that State and the Commonwealth of Australia.

End User License Agreement for the Intel(R) Software Development Products
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e Intel(R) Integrated Performance Primitives (Intel IPP). The following terms and conditions apply only to the Intel IPP.
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THIRD PARTY PROGRAMS
The Materials may include third party programs or materials. The license terms with those programs or materials apply to your use
of them, and Intel is not liable for them.
* Other names and brands may be claimed as the property of others

ClearImage Software Deployment (Inlite)
Introduction
As of ClearImage Rel 6.0 the procedure for the deployment of production software is separate from the installation of the SDK for
development of user applications.
Production Deployment Summary
The Production Deployment Kit (PDK) is different from the Software Development Kit (SDK). The PDK is absolutely required
for production operations and must be installed prior to license registration on the target computer. Conversely, the SDK does not
support production operations. The PDK contains the ClearImage engines and the License Manager application. To deploy the
software for production along with your user applications:
1. Obtain the link to your PDK (see below)

2. Download it
3. Execute the downloaded program to perform the installation.
4. The first element of the installation is the Licensing Manager:
a If this is a new installation, register the license.
b If you are updating an already licensed installation, then you may use it as is.
5. Once the license(s) is (are) registered the software installation will proceed.
a If the system is online the registration will proceed automatically and quickly
b b. If the system is offline, you will need to complete this step before the software can be installed and used.
Note: The PDK is installed in C:\Program Files\Common Files\ClearImage\.
Note: The Licensing Manager refers to the PDK software as a PRODUCTION version.
Note: To preserve an existing version of the PDK, before you install the new version, you should rename that directory, or else the
new install will replace it. For example, rename it to: C:\Program Files\Common Files\ClearImage_v5.6.3\. Later you will be able
to use the Licensing Manager to select which version to use in production.
How to obtain PDK
Inlite provides an email with the download link to the PDK, under two circumstances:
1. After the purchase of a license from Inlite, you will receive an email with the license certificate and the download link.
2. In response to a customer support request which requires software download.
Which version to Download
You are entitled to receive the latest software for the support period of your license. The support period means:
• One year after the purchase of the license
• More years or months of support that were purchased
For example, if support for your license expired in Sep 2008, then you would receive the latest download available till 30 Sep 2008.
Note: Recovering a lost license due to a crash, rebuild or some OS activity is not the same as requiring a software download. There
may be a charge for license recovery.

Application Development Summary
The ClearImage SDK contains the Demo application which you can use to test and understand various features and operations of
the ClearImage engines. The SDK also contains fully functional engines with APIs for development, as well as sample code. To
initiate development:
• Download the publicly available SDK from Inlite’s Web site
• Install the SDK, using the installation password
• The SDK will be installed in C:\Program Files\ClearImage\COM\eval\
• When you install a newer SDK, it will replace the previous SDK.
• See Tech Note 28 Operating Modes for details
Support for Rel 5.x
The Rel 5.x SDK contained a User Distribution Kit (UDK). The UDK installed the ClearImage engines and the Licensing Manager.
For production purposes, either the SDK or UDK could be executed to install the engines on the target computer. Inlite will
continue to support the installation of Rel 5.x as follows:
• Rel 5.x software will continue to work as before.
• If new downloads of Rel 5.x are requested, the user may obtain either the Rel
5.x UDK for that period, or the latest Rel 6.x PDK, depending on the expiration date of support for that license.
• Users who distributed Rel 5.x SDKs for production should not update their production system with the Rel 6.x SDK, because it
cannot be used for production. Instead they should request the appropriate PDK or UDK download.
• Inlite will no longer deliver the Rel 5.x SDK, except by request, to customers who are under support.

Index
A Live Viewer Console, 102

Change Focus Box Border
Abort a Batch Scan
Image Viewer, 139
Manual Scan
Change Magnification
Operating Procedures, 54
Image Viewer, 138
About Image Viewer
Chat
Image Viewer, 132
Live Application Collaboration Feature, 114
About This Manual, 1
Check RGB Button
iScan Coreo Au, 1
Live Viewer Console
Related Document, 1
Tool Bar Buttons, 123
Terminology, 2
Cleaning Scanner Casing, 14
AC Power, 8
Safety Requirements and Notifications, 14
Cleaning Scanner Tray, 14
Add Snapshots to PowerPoint
Image Viewer, 149
Close an Image
Adjust Area of Interest
Perform Live, Remote Telepathology, 111
Image Viewer, 139
Close Diagnostic Module
Annotation Tool Bar
Diagnostic Module, 188
Image Viewer, 169
Close Images
Auto Focus Button
Image Viewer, 150
Collaboration Feature, 112
Color Codes
C
Cable Diagram, 173 Compliance Specifications
Capture a Thumbnail Safety Requirements and Notifications, 10
iScan Coreo Au Live, 94 Computer and Monitor Specifications
Manual Scan Safety Requirements and Notifications, 10
Operating Procedures, 42 Configure 2D Barcodes Filenames
Capture Button Operating Procedures, 78
Thumbnail Console Configure Output Filenames
Tool Bar Buttons, 116 Operating Procedures, 75
Cascade Format Configure Rack Map Orientation
Image Viewer, 136 Operating Procedures, 84
Centering Cursor Configure Settings

Index
Image Viewer, 132 E

Edit Counter
Image Viewer, 146
Manual Scan
Ending Session
Live Application Collaboration Feature, 115
Create a Counter
Enhance Images
Image Viewer, 145
Image Viewer, 138
Create and Display Text Annotations
Enlarge an Image
Image Viewer, 142
Perform Live, Remote Telepathology, 106
Cyber Security
Enlarge Button
Live Viewer Console
D Thumbnail Console
Delete a Session Tool Bar Buttons, 116
Manual Scan Environment Specifications
Operating Procedures, 59 Safety Requirements and Notifications, 12
Deleting a User Account Equipment Maintenance, 13
Diagnostic Module, 177 Error Messages, 175
Close Diagnostic Module, 188 Examine an Image
Jog an Axis, 185 Manual Scan
Load Diagnostic Slides, 182 Operating Procedures, 60
Open Diagnostic Module, 178 Perform Live, Remote Telepathology, 105
Place Diagnostic Slides, 181 Export Count Annotations
Run Flat Field Diagnostic, 184 Image Viewer, 147
Run Quality Check Diagnostic, 183 Export Text Annotations
Run Stage Access Diagnostic, 188 Image Viewer, 144
Digital Zoom Buttons
Live Viewer Console F
Features
Disconnect Scanner Button
iScan Coreo Au Live, 91
iScan Coreo Au Live
Overview, 26
Thumbnail Console, 94
File Menu
Display Measurements
Image Viewer, 152
Image Viewer, 141
Focus Box
Double Arrow Cursor
Live Viewer Console
Live Viewer Console, 102
Draw Annotations
Image Viewer, 141
G
Granting Session Control

Index
Live Application Collaboration Feature, 114 Image Menu, 161

Import Count Annotations, 147
H Magnification Tool, 126
Magnification Tool Bar, 168
Hardware Specifications
Safety Requirements and Notifications, 10 Main Tool Bar, 164
Main Window, 126
Help Menu
Image Viewer, 163 Measure Areas of Interest, 140
Merge Count Annotations, 147
Highlight Areas of Interest
Image Viewer, 140 Modify or Delete Text Annotations, 143
Move Tool Bars, 136
Home Button
Live Viewer Console Online Help, 132
Tool Bar Buttons, 118 Open Local Image, 132

Open Recent Image, 136
Hosting Remote Users
Live Application Collaboration Feature, 113 Open Remote Image, 133
Options Menu, 162
Remove Counter, 146
I
Reset Counter, 146
Image Menu
Resize Thumbnail Window, 139
Image Viewer, 161
Save a Snapshot, 148
Image Settings (Adjust) Button
Save Text Annotations, 144
Tool Bar Buttons, 119, 120
Setting Up Image Server, 130
Image Viewer, 125
Show Thumbnail Window, 138
About Image Viewer, 132
Shutdown Image Viewer Console, 150
Add Snapshots to PowerPoint, 149
Starting Up Image Viewer, 131
Adjust Area of Interest, 139
Status Bar, 128
Annotation Tool Bar, 169
Thumbnail Window, 127
Cascade Format, 136
Tile Format, 137
Change Focus Box Border, 139 Track Areas of Interest, 139
Change Magnification, 138
View Layered Volume Scan, 133
Close Images, 150
View Menu, 156
Configure Settings, 132
View Slide Information, 136
Create a Counter, 145 View Text Annotations, 142
Create and Display Text Annotations, 142 Viewer Console, 125
Display Measurements, 141 Viewer Features, 151
Draw Annotations, 141 Window Menu, 163
Edit Counter, 146 Image Viewer Open Source and Commercial Soft-
Enhance Images, 138 ware Statements, 195
Export Count Annotations, 147 Import Count Annotations
Export Text Annotations, 144 Image Viewer, 147
File Menu, 152 Input and Output Connections, 13
Help Menu, 163 Safety Requirements and Notifications, 13
Highlight Areas of Interest, 140

Index
Insert Slide Tray View a Slide, 97

Operating Procedures, 32 iScan Coreo Au Open Source and Commercial
Inspect AOI and Focus Points Software Statements, 203
Manual Scan
Operating Procedures, 44 J
Installation Specifications, 7 Jog an Axis
Safety Requirements and Notifications, 7 Diagnostic Module, 185
Instrument Labels
Safety Requirements and Notifications, 5 K
Instrument Warnings
Keyboard Shortcuts
Intended Use
Interrupt a Batch Scan
L
Manual Scan LCD Monitor, 13
iScan Coreo Au Live Application Collaboration Feature
About This Manual, 1 Chat, 114
Cable Diagram, 173 Ending Session, 115
Diagnostic Module, 177 Granting Session Control, 114
Error Messages, 175 Hosting Remote Users, 113
Image Viewer, 125 Login to a Hosted Session, 112
iScan Coreo Au Live, 87 Live Application Installation
Operating Procedures, 25 iScan Coreo Au Live, 189
Safety Requirements and Notifications, 3 Live Viewer Console, 99
Slide Specifications and Handling, 15 Centering Cursor, 102
iScan Coreo Au Console Double Arrow Cursor, 102
Start up iScan Coreo Au Live, 90 Main Window, 101
iScan Coreo Au Desktop Navigation Point, 100
Start up iScan Coreo Au Live, 89 Single Arrow Cursor, 102
iScan Coreo Au Live, 87 Snapshot Pane, 104
Capture a Thumbnail, 94 Thumbnail Pane, 100
Collaboration Feature, 112 Tool Bar Buttons, 99, 118
Features, 91 Load a Session
Live Application Installation, 189 Manual Scan
Live Viewer Console, 99 Operating Procedures, 58
Perform Live, Remote Telepathology, 105 Load Diagnostic Slides
Screen Resolution Diagnostic Module, 182
System Requirements, 88 Local Area Network
System Requirements, 88 Safety Requirements and Notifications, 9
Thumbnail Console, 91 Lock or Unlock Tool Bar

Index
Operating Procedures, 31 Merge Count Annotations

Login to a Hosted Session Image Viewer, 147
Live Application Collaboration Feature, 112 Modify or Delete Text Annotations
Image Viewer, 143
M Move the Tool Bar
Magnification Bar
Live Viewer Console Move Tool Bars
Tool Bar Buttons, 118 Image Viewer, 136
Magnification Tool
Image Viewer, 126 N
Magnification Tool Bar Navigation Point
Image Viewer, 168 Live Viewer Console, 100
Main Tool Bar
Image Viewer, 164 O
Main Window
Objective Button
Image Viewer, 126
Live Viewer Console
Manual Scan
Online Help
Abort a Batch Scan, 54
Image Viewer, 132
Capture a Thumbnail, 42
Configure Slide Scan Settings, 40
Open Diagnostic Module
Delete a Session, 59
Diagnostic Module, 178
Examine an Image, 60
Open Local Image
Inspect AOI and Focus Points, 44
Image Viewer, 132
Interrupt a Batch Scan, 54
Open or View a Thumbnail
Load a Session, 58
Manual Scan
Open or View a Thumbnail, 43
Rename Slides, 41
Open Recent Image
Re-Scan a Slide, 61
Image Viewer, 136
Review a Saved Session, 57
Open Remote Image
Save a Session, 56
Image Viewer, 133
Scan a Slide, 53
Open Scanner Door
Scanner Console after Manual Scan, 55
Schedule a Batch Scan, 53
Operating Environment
Volume Scan (Z-Stacking), 55 Safety Requirements and Notifications, 7
Manual Slide Removal
Slide Specifications and Handling, 24
Color Codes, 66
Mark as HD Button Configure 2D Barcodes Filenames, 78
Configure Output Filenames, 75
Measure Areas of Interest Configure Rack Map Orientation, 84
Image Viewer, 140
Configure Settings, 73

Index
Deleting a User Account, 72 Perform Manual Scan

Insert Slide Tray, 32 Operating Procedures, 40
Keyboard Shortcuts, 65 Place Diagnostic Slides
Lock or Unlock Tool Bar, 31 Diagnostic Module, 181
Move the Tool Bar, 31
Online Help, 31 R
Open Scanner Door, 32
Rack Map
Operation Prerequisites, 27 Thumbnail Console, 92
Overview, 26
Random Slide Access
Perform a Walk Away Scan, 37 Operating Procedures, 32
Perform Manual Scan, 40
Refresh Racks Button
Random Slide Access, 32 Thumbnail Console
Resize Views, 31 Tool Bar Buttons, 116
Restore Console Defaults, 31 Related Document
Review Scanner Information, 31 About This Manual, 1
Set Up and Configuration of User Accounts, 68 Remove Counter
Show or Hide Views, 31 Image Viewer, 146
Shut Down Scanner Console, 61 Rename Slides
Start Slide Detect, 32 Manual Scan
Start Up Scanner, 27 Operating Procedures, 41
Start Up the Scanner Console, 28 Re-Scan a Slide
Tool Bar Button Definitions, 62 Manual Scan
Operation Prerequisites Operating Procedures, 61
Reset Counter
Options Menu Image Viewer, 146
Image Viewer, 162
Resize Thumbnail Window
Overlapping Labels (Overlabeling) Image Viewer, 139
Resize Views
Overview Operating Procedures, 31
Features, 26
Restore Console Defaults
Operating Procedures, 26 Operating Procedures, 31
Review a Saved Session
P Manual Scan
Perform a Walk Away Scan Operating Procedures, 57
Operating Procedures, 37 Review Scanner Information
Perform Live, Remote Telepathology, 105 Operating Procedures, 31
Close an Image, 111 Run Flat Field Diagnostic
Enlarge an Image, 106 Diagnostic Module, 184
Examine an Image, 105 Run Quality Check Diagnostic
Snapshot Tracking, 110 Diagnostic Module, 183
Take, Save, and Export a Snapshot, 108 Run Stage Access Diagnostic

Index
Diagnostic Module, 188 Manual Scan

S Scanner Console after Manual Scan
Manual Scan
Safety Instructions
Scanner Specifications, 13
AC Power, 8
Scanner Tray
Cleaning Scanner Casing, 14
Cleaning Scanner Tray, 14
Compliance Specifications, 10
Manual Scan
Computer and Monitor Specifications, 10
Cyber Security, 11
Screen Resolution
Environment Specifications, 12
iScan Coreo Au Live, 88
Equipment Maintenance, 13
Hardware Specifications, 10 Select All Button
Input and Output Connections, 13
Installation Specifications, 7 Select None Button
Instrument Labels, 5
Instrument Warnings, 4 Set Up and Configuration of User Accounts
Intended Use, 4
LCD Monitor, 13 Setting Up Image Server
Image Viewer, 130
Local Area Network, 9
Operating Environment, 7 Show or Hide Views
Safety Instructions, 6
Scanner Specifications, 13 Show Thumbnail Window
Image Viewer, 138
Software Compatibility, 9
Software Specifications, 11 Shut Down Scanner Console
Symbols and Warnings, 4
Shutdown Image Viewer Console
Technical Support, 3
Image Viewer, 150
Telephone Use, 9
Single Arrow Cursor
Temperature, Humidity, and Elevation Specifi-
cations, 12 Live Viewer Console, 102
Work Surface, 7 Slide Cache Tray
Save a Session Slide Specifications and Handling
Manual Scan Slide Deposit Errors, 23
Operating Procedures, 56 Slide Cover Slip
Save a Snapshot Slide Specifications and Handling, 20
Image Viewer, 148 Slide Label
Save Text Annotations Slide Specifications and Handling, 18
Image Viewer, 144 Slide Label Region
Scan a Slide Slide Specifications and Handling, 16

Index
Slide Length, Width, and Thickness Starting Up Image Viewer

Slide Specifications and Handling, 16 Image Viewer, 131
Slide Scannable Region Status Bar
Slide Specifications and Handling, 16 Image Viewer, 128
Slide Specifications and Handling, 15 Supported Barcode Formats
Manual Slide Removal, 24 Slide Specifications and Handling, 19
Overlapping Labels (Overlabeling), 18 Symbols and Warnings
Scanner Tray, 20 Safety Requirements and Notifications, 4
Slide Cache Tray, 23 System Requirements
Slide Cover Slip, 20 iScan Coreo Au Live, 88
Slide Label, 18
Slide Label Region, 16 T
Slide Length, Width, and Thickness, 16
Take, Save, and Export a Snapshot
Slide Scannable Region, 16 Perform Live, Remote Telepathology, 108
Standard Slide, 15 Technical Support
Supported Barcode Formats, 19 Safety Requirements and Notifications, 3
Tissue-Tek Sakura Basket, 20 Telephone Use, 9
Snapshot Pane Safety Requirements and Notifications, 9
Temperature, Humidity, and Elevation Specifi-
Snapshot Tracking cations
Perform Live, Remote Telepathology Safety Requirements and Notifications, 12
Take, Save, and Export a Snapshot, 110 Terminology
Software Compatibility About This Manual, 2
Safety Requirements and Notifications, 9 Thumbnail Console
Software Specifications Disconnect Scanner Button, 94
Safety Requirements and Notifications, 11 iScan Coreo Au Live, 91
Standard Slide Rack Map, 92
Slide Specifications and Handling, 15 Thumbnail Pane, 93
Start Slide Detect Tool Bar, 92
Operating Procedures, 32 Tool Bar Buttons, 92, 116
Start up iScan Coreo Au Live Thumbnail Pane
iScan Coreo Au Console, 90 Live Viewer Console, 100
iScan Coreo Au Desktop, 89 Thumbnail Console, 93
Using a Browser, 88 Thumbnail Window
Start Up Scanner Image Viewer, 127
Operating Procedures, 27 Tile Format
Start Up Scanner Console Image Viewer, 137
Tool Bar Buttons, 30 Tissue-Tek Sakura Basket
Tooltips, 30 Slide Specifications and Handling, 20
Start Up the Scanner Console Tool Bar
Operating Procedures, 28 iScan Coreo Au Live

Index
Thumbnail Console, 92 U
Tool Bar Button Definitions
Using a Browser
Start up iScan Coreo Au Live, 88
Tool Bar Buttons
Auto Focus Button, 119
V
Capture Button, 116
Check RGB Button, 123 View a Slide
Digital Zoom Buttons, 118 iScan Coreo Au Live, 97
Enlarge Button, 116, 122 View Layered Volume Scan
Focus Box, 119 Image Viewer, 133
Home Button, 118 View Menu
Image Settings (Adjust) Button, 119, 120 Image Viewer, 156
Live Viewer Console, 99, 118 View Slide Button
Magnification Bar, 118 Thumbnail Console
Mark as HD Button, 117 Tool Bar Buttons, 116
Objective Button, 118 View Slide Information
Refresh Racks Button, 116 Image Viewer, 136
Select All Button, 116 View Text Annotations
Select None Button, 116 Image Viewer, 142
Start Up Scanner Console Viewer Console
Operating Procedures, 30 Image Viewer, 125
Thumbnail Console, 92, 116 Viewer Features
Track Button, 121 Image Viewer, 151
View Slide Button, 116 Volume Scan (Z-Stacking)
Tooltips Manual Scan
Start Up Scanner Console Operating Procedures, 55
Track Areas of Interest W
Image Viewer, 139 Window Menu
Track Button Image Viewer, 163
Tool Bar Buttons, 121 Work Surface

Index

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iScan Coreo Au™ User Manual

Ventana Medical Systems, Inc., 919 Hermosa Court, Sunnyvale, CA 94085

iScan Coreo Au v. 3.3

Copyright © 2011. Ventana Medical Systems, Inc.

All rights reserved.

OPEN SOURCE AND COMMERCIAL SOFTWARE

GOVERNMENT LIMITED AND RESTRICTED RIGHTS LEGEND

Chapter 1: Safety Requirements and Notifications . . . . . . . . . . . . . . . . . . . . . . .3

Chapter 2: Slide Specifications and Handling . . . . . . . . . . . . . . . . . . . . . . . . . . 15

Part No.: PL-000103-US Rev A iii

Chapter 3: iScan Coreo Au Operating Procedures . . . . . . . . . . . . . . . . . . . . . . 25

Chapter 4: iScan Coreo Au Live (Remote Telepathology) . . . . . . . . . . . . . . . . . .87

Chapter 5: Image Viewer. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 125

Part No.: PL-000103-US Rev A v

Resize and Move Thumbnail Window . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 139

Appendix A: iScan Coreo Au Cable Diagram . . . . . . . . . . . . . . . . . . . . . . . . . .173

Appendix B: iScan Coreo Au Error Messages . . . . . . . . . . . . . . . . . . . . . . . . . .175

Appendix C: iScan Coreo Au Diagnostic Module . . . . . . . . . . . . . . . . . . . . . . .177

Appendix D: iScan Coreo Au Live Application Installation . . . . . . . . . . . . . . . .189

vi Part No.: PL-000103-US Rev A

Open Source . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .203

Part No.: PL-000103-US Rev A vii

viii Part No.: PL-000103-US Rev A

About This Manual

This Manual Includes Instructions to:

Who Should Read This Manual?

What’s in this Manual?

Scanner Operating Procedures “Chapter 3: iScan Coreo Au Operating Procedures” on page 25

Error Messages “Appendix B: iScan Coreo Au Error Messages” on page 175

Diagnostic Module “Appendix C: iScan Coreo Au Diagnostic Module” on page 177

Part No.: PL-000103-US Rev BA 1

Terms Used in this Manual

screen A computer display monitor, usually referred to as a monitor.

2 Part No.: PL-000103-US Rev BA

Chapter 1: Safety Requirements and Notifications

Topics Covered in this Chapter

Part No.: PL-000103-US Rev A 3

Symbols and Warnings

CAUTION: RISK OF ELECTRIC SHOCK. DO NOT OPEN.

DANGER: SHOCK HAZARD. DO NOT OPEN.

4 Part No.: PL-000103-US Rev A

ATTENTION: CONSULT ACCOMPANYING DOCUMENTS.

ATTENTION: DISPOSAL OF THE SCANNER UNIT MUST BE PERFORMED UNDER WASTE

CLASS 1 LASER PRODUCT

Part No.: PL-000103-US Rev A 5

Servicing •Refer all servicing to Certified Service personnel.

6 Part No.: PL-000103-US Rev A

- When the AC cord or plug is damaged.

- If liquid is spilled on the scanner.

- If objects are dropped inside the scanner.

- If the scanner is exposed to rain or water.

- If the scanner is dropped or is damaged in any way.

Lighting In work area: good and bright.

Rigid Lab Bench Tabletop space: 60" x 30" (deep)

User Access In front of scanner: 3 ft. (minimum)