Grundium Ocus mgu-00001 User manual

USER GUIDE

MGU-00001

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

CONTENT

1Sales package contents .............................................................................................................................................................. 3

2To use the Ocus® scanner, you also need .................................................................................................................................. 3

3Introduction to the Ocus® Portable Whole Slide Image Scanner............................................................................................... 4

4Technical specifications.............................................................................................................................................................. 5

5Before you start ......................................................................................................................................................................... 6

6Scanner parts ............................................................................................................................................................................. 7

6.1 Scanner connectors ........................................................................................................................................................... 8

6.2 Power button lights........................................................................................................................................................... 9

7First use...................................................................................................................................................................................... 9

7.1 First use with a network cable connection...................................................................................................................... 10

7.2 First use with a WLAN/WI-FI connection ........................................................................................................................ 14

7.3 Network settings ............................................................................................................................................................. 15

8Logging in to the scanner ......................................................................................................................................................... 16

8.1 Logging in to the scanner with Internet connection ....................................................................................................... 16

8.2 Logging in to the scanner with direct WLAN/WI-FI connection ...................................................................................... 17

9Scanning ................................................................................................................................................................................... 17

9.1 Optical sectioning (Z-Stack)............................................................................................................................................. 22

9.2 Image adjustments.......................................................................................................................................................... 24

10 Viewing the images .................................................................................................................................................................. 26

11 Exporting an image................................................................................................................................................................... 26

12 Annotations.............................................................................................................................................................................. 28

13 Sharing ..................................................................................................................................................................................... 29

14 Controlling multiple scanners .................................................................................................................................................. 30

15 Switching off the scanner......................................................................................................................................................... 30

16 Scanner settings ....................................................................................................................................................................... 31

17 Creating a new team when Ocus® has already been taken into use ....................................................................................... 31

18 Adding new team members..................................................................................................................................................... 32

19 Keeping the software up to date.............................................................................................................................................. 33

20 Factory reset ............................................................................................................................................................................ 33

21 Cleaning the scanner................................................................................................................................................................ 34

22 Moving the scanner to another location.................................................................................................................................. 35

23 Product and safety information ............................................................................................................................................... 36

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

24 Disposal .................................................................................................................................................................................... 37

25 Troubleshooting ....................................................................................................................................................................... 37

25.1 The scanner is unresponsive ........................................................................................................................................... 37

25.2 Device cannot be found................................................................................................................................................... 37

25.3 Forgot your password...................................................................................................................................................... 37

25.4 Power button light is steady red ..................................................................................................................................... 37

25.5 Connecting to Internet via Proxy..................................................................................................................................... 37

25.6 Scanner always connects to an unwanted WLAN and does not go into WLAN access point mode ............................... 38

25.7 Need to reset all changes to network settings................................................................................................................ 38

25.8 Download does not start automatically when exporting to WebDL ............................................................................... 38

26 Certifications and patents........................................................................................................................................................ 38

27 Customer care and support...................................................................................................................................................... 39

28 Manufacturer information ....................................................................................................................................................... 39

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

GRUNDIUM OCUS®USER GUIDE

Note: This user guide is for Ocus® with software version 6.1 onwards. User guides for older software versions are

available at: https://www.grundium.com/d/MGU-00001_UserManuals/

1SALES PACKAGE CONTENTS

oOcus® scanner (MGU-00001)

oTransportation pin

oProtective cover

oPower supply and mains cable

oQuick guide

oCarrying case

2TO USE THE OCUS® SCANNER, YOU ALSO NEED

oComputer or tablet

oInternet connection

oGrounded mains outlet (recommended to use UPS device in critical operations)

oBrowser (recommended Chrome, Firefox, Safari) –Internet Explorer not supported

It is recommended to use the latest available browser version. The functionality of Ocus® has been verified with

these versions:

oGoogle Chrome (93.0)

oMozilla Firefox (92.0) and

oApple Safari (14.0)

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

3INTRODUCTION TO THE OCUS® PORTABLE WHOLE SLIDE IMAGE SCANNER

The Grundium Ocus® is a professional imaging instrument for digitizing microscope slides. The device is used in in

vitro diagnostics, which aims to gather information about the physiological or pathological state of the patient based

on the specimens derived from the human body. The device produces image data, which medical professionals can

use as input information when making patient diagnosis or therapeutic measures.

Grundium Ocus® is CE marked according to EU 2017/746 regulation for in vitro diagnostic (IVD) medical devices.

Ocus® technology has been granted U.S. Patents No. 10,341,551 and 10,564,408.

Ocus® design has been granted U.S. Patent No. D872789.

Important Notice: In the USA, Grundium Ocus® is for research use only (RUO) and not for use in diagnostic

procedures.

Important Notice: The functionality of the scanner must be verified every time before critical operation. The

scanner’s intended usage flow, including connectivity, scanning and exporting, must be verified. It must be

verified that the user’s slide preparation process produces slides suitable for scanning with Ocus®. Image quality

must be verified with known sample. Also, there must be a back-up solution for critical operations.

Important Notice: The scanner generates a sequence of flashing lights when capturing the overview (macro) image

of the slide. Take this into account in case you are sensitive to blinking lights.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

4TECHNICAL SPECIFICATIONS

Numerical aperture 0.40

Resolution, microscope 20X 0.48 µm/pix

Resolution, overview 10 µm/pix

Depth of focus 5 µm

Focusing Manual coarse, automatic scan, fine-tune in live mode

Image sensor 6 Mpix

Slide capacity 1

Slide format 75 x 25 mm

Scan speed, 15 x 15 mm ~2 mins

Connectivity 1 GigE, 802.11 ac WLAN

Image formats TIFF, SVS, SZI

W x D x H (cm) 18 x 18 x 19

Weight (kg) 3,5 kg

Illumination Koehler LED

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

5BEFORE YOU START

Check the carrying case for damage. If you notice any damage on the case or the scanner, contact primarily your

distributor or support@grundium.com.

Remove the transportation support pin from the bottom of the scanner by turning the pin counterclockwise.

Remember to handle the scanner carefully to avoid dropping or damaging it and avoid leaving fingerprints on the

glass surfaces or lenses while removing the pin.

Image 1 Remove the transportation support pin by turning it counterclockwise.

Place the scanner on a flat surface and make sure there is at least 10 centimetres (4 inches) of free space around it.

Tip: To ensure safe transportation, screw the transportation support pin back in before moving the scanner to

another location. Do not overtighten the pin, turning it until it stops is enough.

Note: Ocus scanner is a delicate instrument and not designed to withstand by itself stress from

shipping/transportation –careful packing is required. See full packing instructions in section 22.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

6SCANNER PARTS

Image 2 Scanner parts

1. Focus knob

2. Power button

3. Objective

4. Cover plate

5. X-Y-stage

6. Lever

7. Slide holder

8. Slide support glass

9. Overview camera

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Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

6.1 SCANNER CONNECTORS

Image 3 Scanner connectors

1. USB connector

2. Power supply connector. Use only the power supply delivered with the scanner.

Important notice: If there is any damage in the mains cable or the power supply, do not use the device.

3. Network cable connector

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Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

6.2 POWER BUTTON LIGHTS

Light

Explanation

Green breathing

Scanner is switched off. Power cable is connected.

Green steady

Scanner is connected to the Internet.

Green blinking

Scanner is in live view mode, scanning or exporting.

Yellow steady

Scanner is connected to the Internet, but remote use is disabled.

Red steady

Scanner is in error state (see Troubleshooting).

Red blinking

Scanner is powering up or shutting down.

Blue steady

Scanner’s WLAN/Wi-Fi access point is on.

Purple steady

Scanner’s first start-up is ongoing.

Purple blinking

Scanner’s software update is in progress.

7FIRST USE

When you use the scanner for the first time, you need to connect it to your computer or tablet and set up an

Internet connection for the scanner. You can use either a network cable or a WLAN/Wi-Fi for the connection.

During the setup process, assign the scanner to either an existing team or create a new team. A team can have any

number of members, but each user must have a valid Grundium account to use the scanner. To join an existing

team, ask a team member to add you.

Note: When starting up the scanner for the first time, you must have an Internet connection. After that, it is possible

to use the scanner even without an Internet connection, but the feature set will be limited (See Table 1).

Important notice: To keep the security certificates up to date, the scanner must be connected to Internet at least

once in every 2 months –this is mandatory for secure connection between the scanner and the browser.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

Image 4 Label example with a serial number, SSID and a password

Note: For the first use, the scanner requires that the network has a DHCP server providing IP address. If the use of

static IP is required, this can be done after the first time use in device settings.

Note: If the network you use has a firewall, make sure that the scanner is allowed to use the outgoing connection to

the Internet (TCP ports 80 & 443 for use within same network and TCP port 471 for use from remote network). If the

firewall uses a MAC filter, you can find the MAC address of the scanner on the label at the bottom of the scanner.

Also, traffic between devices in the network must be allowed.

7.1 FIRST USE WITH A NETWORK CABLE CONNECTION

1. Attach the power cable to the scanner and plug the cable in a wall outlet. The power button shows a

breathing green light.

2. Connect one end of the network cable to the scanner and the other end to the Ethernet connector for

your network, which has connection to the Internet.

3. Press the power button. The power button flashes red. Once the scanner is switched on and connected

to the Internet, the power button shows a steady green or yellow light. If the light turns purple, the

scanner could not connect to the Internet. In case this happens, you can do the initial setup using

WLAN/Wi-Fi (see chapter 7.2).

4. Open the browser in your computer or tablet and type the following in the browser’s address field:

www.grundium.net

5. If you already have a user account to Grundium, login with your account details and move directly to

step 9.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

If you do not have the account yet, press Register a new user to create a new account and then login.

Image 5. Login to Grundium cloud

6. When registering a new user, enter your email address and press Add a new account. Read and Accept

Terms and Conditions. Verification email will be sent to address you have registered. Check your email

and copy the verification code to the line and press Continue.

Note: Verification code is valid 72 hours or until it has been used successfully.

Image 6. Add verification code that has been sent to your email.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

7. Enter your name and create a password, then press Confirm.

Image 7. Enter your name and create a password.

8. After registering is done, login to the system with your email address and password (Image 5).

9. Click Register a new device.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

Image 8. Register a new device.

10. Enter the serial number of your Ocus® scanner. The number is printed on the label in the Quick guide and at

the bottom of the scanner. Press Register when ready.

Note: Your scanner must be switched on and connected to Internet when registering a device.

Image 9. Type the serial number of your Ocus®40 scanner.

11. Select existing team from the dropdown menu or add a new team by pressing “+“. After entering a valid

team name press ADD.

Note: Name of the team needs to be in lower case and without spaces.

Test Person

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

Image 10. Team, region and devices password are required information when registering a new device.

12. Select a region from the dropdown menu.

Note: It is important to select region geographically closest to your own country, because it defines the used

server and WLAN/Wi-Fi parameters specific to your country. The password can be found on the label in

Quick guide or at the bottom of the scanner. Press Continue after all required details have been entered.

Note: Software has two (2) language options: English and Chinese.

Great job, now you are ready to use your Ocus® scanner!

7.2 FIRST USE WITH A WLAN/WI-FI CONNECTION

To use a WLAN/Wi-Fi connection, you need:

•The name of the WLAN/Wi-Fi (SSID) provided by the scanner and your password. These are found on

the label at the bottom of the scanner or on the label attached to quick start guide.

•Details of the WLAN/Wi-Fi to which the scanner connects for Internet access. These include the

WLAN/Wi-Fi name, password, and in case or Enterprise WLAN, also other information. Contact your

system administrator for assistance, if needed.

1. Attach the power cable to the scanner and plug the cable in a wall outlet. The power button shows a

breathing green light.

2. Press the power button. The power button flashes red. Once the scanner is switched on and acts as a

WLAN/Wi-Fi access point, the power button shows a steady purple light.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

3. Open the WLAN/Wi-Fi settings in your computer or tablet and search for available networks.

4. Connect to Ocus WLAN/Wi-Fi. The name of the WLAN/Wi-Fi (SSID) and the password can be found on

the label at the bottom of the scanner or on the label attached to quick start guide (Image 4). If the

computer asks for a PIN code instead of a passphrase, switch to using a passphrase.

5. Open the browser in your computer or tablet and type the following in the browser’s address field:

http://www.grundium.net

Note: Make sure that the browser is using http instead of https at this phase.

6. Follow the instructions on your computer or tablet to connect the scanner to a WLAN/Wi-Fi that has

Internet access. After both the scanner and your browser are connected to the Internet, you will see the

Tip: You can use your smart phone’s mobile hotspot feature to create a WLAN/Wi-Fi Internet connection.

7. Continue following chapter 7.1 step 5.

7.3 NETWORK SETTINGS

The scanner can be used either with cable or wireless Internet connection (either directly or via proxy) or with

direct WLAN/Wi-Fi connection between the scanner and the PC or tablet. Table 1 summarizes the features,

which are available for each connection method.

Feature

Internet

Connection

(Green Light)

Internet

Connection via

Proxy (Yellow

Light)

Direct

WLAN

Connection

(Blue Light)

First time use

Remote Use (use from different premises / network)

Live view

Scan Images

View Images

Delete Images

Export Image to USB

Export Image to Cloud services

Change User Settings (e.g. password)

Change Team Settings (e.g. team members)

Change Device Settings

Table 1 Feature availability vs. connection method (X = available, - = not available)

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

Your organization may not allow direct internet traffic from your network but is enabling internet browser use

through a proxy server instead. Connection to Internet via proxy can be configured in scanner Settings view.

Please consult your IT administrator for assistance and see Troubleshooting for more information.

8LOGGING IN TO THE SCANNER

8.1 LOGGING IN TO THE SCANNER WITH INTERNET CONNECTION

This connection method works when the power button light is green or yellow.

1. Open the browser on your computer or tablet and go to https://www.grundium.net

2. Enter your e-mail address and password and press Login.

3. Select your team and the scanner you want to use, then press Connect to device.

Image 11 Log in to the scanner by giving your e-mail address and password.

Image 12 Select your team and scanner from the list.

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

8.2 LOGGING IN TO THE SCANNER WITH DIRECT WLAN/WI-FI CONNECTION

To enable the WLAN/Wi-Fi direct mode, the scanner must be powered on without access to network. In this

case, the scanner will activate its WLAN/Wi-Fi access point after 30 seconds. Power button light is blue when

WLAN/Wi-Fi access point is active.

1. Open the WLAN/Wi-Fi settings from your computer or tablet and connect to WLAN/Wi-Fi access point

provided by the scanner (WLAN/Wi-Fi name/SSID and password can be found on the label on the bottom

of the device or in the quick guide, see Image 4).

2. Open the browser in your computer or tablet and go to http://www.grundium.net

3. Type your e-mail address and password and press Login (Image 11).

9SCANNING

Important notice: Both in local and remote use, remember to keep at least 10 centimeters (4 inches) of free space

around the scanner. Do not touch the scanner when the stage is moving.

1. On your computer or tablet, press Eject slide tray.

Image 13 For inserting a slide into scanner click Eject slide tray.

2. Push the lever underneath the cover plate left to open the slide holder (Image 14).

Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

Image 14 Open the slide holder and place the slide in the scanner.

3. Place the slide in the scanner so that the label is on the right.

4. Push the lever right to secure the slide.

5. Press New scan to take an overview image.

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Ocus® User Guide version 9.0

Hermiankatu 6-8G, 33720 Tampere, Finland

Image 15 Start taking an overview image by selecting New Scan.

6. To zoom in and out on the specimen, use your mouse scroll, or press +, - or 5x/10x/20x quick buttons next to

the zoom bar on display. To pan the image, use your fingertip or the left button of your mouse to move it.

Image 16 Zooming options

Tip: The image is saved automatically in the scanner’s hard drive. If you want to give the image a specific name, type

the name in the File name field.

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