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3DHISTECH PANNORAMIC CONFOCAL 3.0.3 User Manual

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PANNORAMIC® CONFOCAL
3.0.3
U
'
G
SER
S
UIDE
March 30, 2021 – Rev.1

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Summary of Contents for 3DHISTECH PANNORAMIC CONFOCAL 3.0.3

  • Page 1 PANNORAMIC® CONFOCAL 3.0.3 ’ UIDE March 30, 2021 – Rev.1...

  • Page 2: Table Of Contents

    PANNORAMIC® CONFOCAL 3.0.3 TABLE OF CONTENTS Table of Contents Table of Contents ............................ 1 Disclaimer ............................... 4 Declaration of Conformity ........................6 About this User's Guide .......................... 7 Character Formats and Symbols ......................8 Notes Regarding Operational Safety ....................9 Notes on Warranty ..........................
  • Page 3 PANNORAMIC® CONFOCAL 3.0.3 TABLE OF CONTENTS Scanning Modes and Settings ..................... 54 Brightfield scanning mode 5.1.1 Profile settings panel ......................55 5.1.2 Microscope control panel ....................62 5.1.3 Quick preview functions ....................73 5.1.4 Quick microscope functions ..................... 73 Fluorescence microscope mode 5.2.1 Profile settings panel ......................
  • Page 4 PANNORAMIC® CONFOCAL 3.0.3 TABLE OF CONTENTS 9.3.1 Fluorescent applications ....................143 Maintenance 9.4.1 Opening the service door ....................144 9.4.2 Replacing fuses of the main power switch ..............145 9.4.3 Removing and refilling the pipette ................146 9.4.4 Removing a slide ......................149 9.4.5 Installing and removing filter cubes ................

  • Page 5: Disclaimer

    IP are the sole properties of the 3DHISTECH Ltd. 3DHISTECH Ltd. is not liable for damage of whatever nature (including, but not limited to, general or specific damage, indirect damage, consequential damage or incidental damage,...
  • Page 6 Third-party disclaimer 3DHISTECH Ltd. is not liable for damage of whatever nature (including, but not limited to, general or specific damage, indirect damage, consequential damage or incidental damage, including damage resulting from lost profits, interruption of business, loss of business information, pecuniary loss or similar damage) that stems from or is associated with the incorporated part of this Product that is made by a third-party company.

  • Page 7: Declaration Of Conformity

    DECLARATION OF CONFORMITY Declaration of Conformity 3DHISTECH Ltd. declares that the product Pannoramic® Confocal is designed and produced with consideration of the quality management system certified according to the ISO 13485:2003 standard, and conforms to the directives and other standards listed below: IEC 61010-1:2010 (ed.

  • Page 8: About This User's Guide

    PANNORAMIC® CONFOCAL 3.0.3 ABOUT THIS USER'S GUIDE About this User's Guide The purpose of this manual is to assist the user in the safe and reliable operation of the product described. Before operating the device, you must carefully read this instruction manual, and adhere to all WARNING and CAUTION notices (refer to chapter Notes Regarding Operational Safety...

  • Page 9: Character Formats And Symbols

    PANNORAMIC® CONFOCAL 3.0.3 CHARACTER FORMATS AND SYMBOLS Character Formats and Symbols Example (text in bold) Words or textual elements that appear on the user interface (UI), such as field names, screen and window titles, buttons and menu names, function or option texts. Keys or hotkeys of the keyboard.

  • Page 10: Notes Regarding Operational Safety

    PANNORAMIC® CONFOCAL 3.0.3 NOTES REGARDING OPERATIONAL SAFETY Notes Regarding Operational Safety The below section of this User’s Guide contains information and warnings of a kind that must be followed by owner/operator personnel. Warning and advisory symbols which are used on the base unit of the Pannoramic® Confocal and in chapter Warning and information labels have the following meanings:...
  • Page 11 If protective devices are found to be ineffective, the Pannoramic® Confocal must be shut down and precautions must be taken to prevent unintended usage. For necessary repair work or work to restore proper operating condition, you should contact the 3DHISTECH Customer Service.
  • Page 12 PANNORAMIC® CONFOCAL 3.0.3 NOTES REGARDING OPERATIONAL SAFETY Disconnect plug! Remember to unplug the power cord before you open the Pannoramic® Confocal base unit or replace a fuse! Warning! Only connect UL-approved SELV (safety extra low voltage) rated external devices to the instrument to avoid the risk of electrical shock.
  • Page 13 PANNORAMIC® CONFOCAL 3.0.3 NOTES REGARDING OPERATIONAL SAFETY Crush hazard! There is crush hazard at the following areas of the device: The tray feeder door, the cross-belt area of the tray guide, and the safety plate during operation. Please note that the digitizing process has to be interrupted and the tray moved via software to the output position before removal.

  • Page 14: Notes On Warranty

    NOTES ON WARRANTY Notes on Warranty 3DHISTECH Ltd. – as the Product Manufacturer – warrants the Pannoramic® Confocal to be free from faults in material and workmanship at the moment of installation. Defects must be notified immediately on identification and maximum efforts must be undertaken in order to minimize damage.

  • Page 15: Terms And Abbreviations

    PANNORAMIC® CONFOCAL 3.0.3 TERMS AND ABBREVIATIONS Terms and Abbreviations Term/Abbreviation Description Comma Separated Value Field of View Numerical Aperture Virtual Slide / Slide A digital image of a thin glass plate on which specimens are mounted for microscopic study: a dynamic, interactive image that you can manage, save, magnify, zoom, name, evaluate, annotate, mark, comment, send to a colleague electronically for co-operation or advice, and so on.

  • Page 16: Product Description

    PANNORAMIC® CONFOCAL 3.0.3 PRODUCT DESCRIPTION 1 Product Description 1.1 Product overview 1.1.1 Intended use The Pannoramic® Confocal is a digital scanner microscope installed with an Aurox CC88 confocal unit and high-numerical aperture immersion and/or dry objectives designed to use transmitted light and reflected light fluorescence to digitize histopathology slides (histological sections, typically) based on confocal principles.

  • Page 17: Features And Benefits

    PANNORAMIC® CONFOCAL 3.0.3 PRODUCT DESCRIPTION 1.1.2 Features and benefits The Pannoramic® Confocal offers world-class brightfield and fluorescent whole slide scanning. An outstanding 0.16 µm/pixel (both in Brightfield and Fluorescent modes) resolution is achieved with the 40×/1.2 NA (equivalent to 62× magnification) C-Apochromat objective. Key features of the Pannoramic®...

  • Page 18: Warning And Information Labels

    PANNORAMIC® CONFOCAL 3.0.3 PRODUCT DESCRIPTION 1.1.3 Warning and information labels The following figure contains the labels used on the back panel, and on the inside of Pannoramic® Confocal main unit. Figure 1: Warning and information labels 1.1.4 Base unit The following figure shows the main outer parts of the device. Figure 2: Main parts of the base unit MARCH 30, 2021...

  • Page 19: Connector Panel

    PANNORAMIC® CONFOCAL 3.0.3 PRODUCT DESCRIPTION 1) Service door 2) Door securing lock 3) Slide tray feeder door 4) Cable outlet 5) Connector panel (USB port, power supply connector, fuse box) 6) Transport handle (4x at the four corners of the device) 7) On/Off button 1.1.5 Connector panel The following figure details the sub-assemblies of the connector panel.

  • Page 20: Pannoramic® Confocal System

    PANNORAMIC® CONFOCAL 3.0.3 PRODUCT DESCRIPTION 1.2.1 Pannoramic® Confocal System The following figure shows the main parts of the Pannoramic® Confocal system. Figure 4: Pannoramic® Confocal system overview 1) Pannoramic® Confocal base unit 2) Slide tray 3) Control computer 4) Monitor 5) Keyboard 6) Mouse MARCH 30, 2021...

  • Page 21: Hardware Options

    PANNORAMIC® CONFOCAL 3.0.3 PRODUCT DESCRIPTION 1.2.2 Hardware options Notice: The configuration of the control computer and monitor can vary depending on the product order. Camera Camera Description pco.edge 5.5 Equipped with a high-quality sCMOS image sensor for Brightfield and Fluorescent applications allowing fast scanning and an outstanding low read out noise.

  • Page 22: Control Software

    PANNORAMIC® CONFOCAL 3.0.3 PRODUCT DESCRIPTION Warning! Do not change correction collar settings on the 40×/NA objective, if you need it to be set, contact customer service. Fluorescent Illumination unit for Pannoramic® Confocal Fluorescent illumination unit Description Lumencor SPECTRA 7 Light Engine illumination unit Table 3: Fluorescent illumination unit 1.2.3 Control software •...

  • Page 23: Installation

    PANNORAMIC® CONFOCAL 3.0.3 INSTALLATION 2 Installation Warning! The installation of Pannoramic® Confocal must be carried out by a trained professional! In any other case the warranty will be automatically voided. The supplier or distributor is not liable for any damages caused by an installation carried out by an unauthorized person. Make sure that the unit is positioned in a way that it would be easy to have it disconnected if necessary.

  • Page 24: Operation System Of The Control Computer

    C:\Program Files\3DHISTECH • C:\ProgramData\3DHISTECH • C:\Program Files (x86)\3DHISTECH • (E:\ScannerSwap\ as the SWAP folder by default) We recommend that you use the "SWAP" partition for storing temporary files generated during scanning, as the lack of space required will result in interruption of scanning.

  • Page 25: Control Computer Ports

    PANNORAMIC® CONFOCAL 3.0.3 INSTALLATION 2.2 Control computer ports The following figure shows the location of the connectors to enable easier transportation of the product for a short distance, by disconnecting cables and detaching hardware components from each other. Figure 5: Ports on control computer 1) DVD drive (RW) 2) 4x USB port 3) Audio in/out (3.5mm Jack ports)

  • Page 26: Connectors And Cables

    PANNORAMIC® CONFOCAL 3.0.3 INSTALLATION 2.3 Connectors and cables Caution! It is not recommended to use USB cables longer than 2.5 meters. • Power supply cable (between 230V/110V and monitor) • Power supply cable (between 230V/110V and control computer) • Power supply cable (between 230V/110V and the power inlet of the Pannoramic® Confocal) •...

  • Page 27: Operating Slides And Trays

    PANNORAMIC® CONFOCAL 3.0.3 OPERATING SLIDES AND TRAYS 3 Operating Slides and Trays 3.1 Preparing slides and trays This section demonstrates how to prepare slides and trays. You may use slides and coverslips that meet the following specifications: Slides Coverslips Length 75.0 to 76.0 mm max.
  • Page 28 PANNORAMIC® CONFOCAL 3.0.3 OPERATING SLIDES AND TRAYS Warning! Do NOT use any marker on the slide when performing immersion scanning. Caution! Do NOT scratch any circular marker on the surface of a slide. When performing dry scanning use a soft tip pen on the top side of the slide for marking area of interest.

  • Page 29: Affixing Barcode Stickers To Slides

    PANNORAMIC® CONFOCAL 3.0.3 OPERATING SLIDES AND TRAYS 3.2 Affixing barcode stickers to slides This section describes how to affix barcode stickers to slides. Barcodes enable virtual slide identification. Figure 6: Slide with a barcode sticker The label area is recorded by the preview camera and can be displayed by the control and viewer software.

  • Page 30: Inserting And Removing Slides

    PANNORAMIC® CONFOCAL 3.0.3 OPERATING SLIDES AND TRAYS 3.3 Inserting and removing slides To insert slides into a tray Figure 7: Inserting slides into a tray A tray can contain a maximum of 11 histological slides. In the 12 position a Cleaner slide must be loaded.
  • Page 31 The edge of the broken area of the slide is sharp and its removal can lead to injury and contagion! Broken slide can be removed only by a well-trained person! Only original 3DHISTECH trays are allowed for use with Pannoramic® Confocal! Notice: The coverslip and the label area should be on the top.
  • Page 32 PANNORAMIC® CONFOCAL 3.0.3 OPERATING SLIDES AND TRAYS 3) After digitizing slides, the tray is moved to the output position where it can be removed. Caution! To insert or remove a filled tray from the device, first check tray for incorrectly inserted slides (refer to Figure 8) and always ensure also when moving the tray, slightly tilt it to its closed side to prevent the slides from accidentally falling out.

  • Page 33: Software Description

    4.1.1 Starting the software To start the program, double-click on the program icon on the desktop or start it from Start \ Program Files \ 3DHISTECH \ Pannoramic Scanner After software initialization, the user interface is opened, and the mode selection icons are displayed.

  • Page 34: Exiting The Software

    PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION 4.1.2 Exiting the software To exit the software, Click X at the main window header to close the program. Note, that when exiting the software, the loaded slide will be automatically unloaded. 4.2 Main window functions Figure 11: Pannoramic®...
  • Page 35 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION • – Cleaner slide Notice: A Cleaner Slide must be placed into the 12 slide position to clear the water immersion objective if Pannoramic® Confocal is used for immersion scanning. A hatch and marking represent a slide that is loaded at the moment. If immersion has been used, the warning status icon is displayed on the slide icon.
  • Page 36 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Caution! The Cleaner Slide must be inserted into the 12 position of the tray. The surface of the sample remains wet after the automatic lens cleaning process, and the residual moisture must be removed manually. The wet slide can only be scanned with the 40x water immersion lens.
  • Page 37 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION – Live view is on with the shutter closed – Toolbar for live images Click to display the toolbar for Live view. These functions are only available for the displayed live image (i. e. Live view is ON), but not available for camera images during digitization. When in Normal live mode, the images are taken with the user-specified exposure time.
  • Page 38 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION – Convolute gray-scale image by custom kernel – Multi-channel histogram with normalization – Invert image (for testing purposes) – Mark overexposed pixels – Scan Properties Unique settings can be defined even for each separate scanning. This function is included on the profile cards as well, added to the slide in Planner mode.
  • Page 39 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Slide naming Slide name can be defined manually or automatically. If you want to name the slide manually, turn on the Manual naming function, and if you want to generate slide name based on the corresponding settings set in Preferences, activate Generate function.
  • Page 40 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION If you click Add new item ... on the list, blank input fields will be displayed. Figure 17: Create new barcode o Define/modify profile name in the Name input field, select barcode type from the Type drop-down list. o Define/modify ranges within the barcode string when Range is selected at Parsing modes to extract necessary information (Slide name, Profile, Case, Block, Root folder).
  • Page 41 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Slide save path Set destination folder in the input field by typing in the path or clicking to browse for the folder. Free space: Free space capacity of selected local drive Conversion settings • Apply conversion: Turn on to convert the slide to other formats, once the scanning has finished.
  • Page 42 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION o Tiled-TIFF settings Figure 20: Tiled-TIFF settings ▪ Click Reset to set everything to default. ▪ Zero based index in names: Z-Stack layers of the generated TIFF files will be indexed starting with 0, and the focus distance of the actual layer will not be included (inactive by default).
  • Page 43 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION o DICOM settings Figure 21: DICOM settings ▪ Click Reset to set everything to default. ▪ Frame number maximum (default: 0) ▪ Optical path / frame (default: 3) ▪ Pixel size accuracy (default: 7) ▪ X-Y offset accuracy (default: 5) ▪...
  • Page 44 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Quant settings • Run QuantCenter™: Turn this function on for automatic evaluation of the completed digital slide by using the integrated QuantCenter™, right after the scanning has finished. Warning! Make sure that the proper Quant probe (XML file) is selected for the quantification of the slide, as the resulting measurement data will be incorrect.
  • Page 45 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION o Other settings ▪ Scan separately: The FOV areas of the preview image will be scanned and saved separately as discrete digital slides. • Scan to Server Figure 23: Scan to server MARCH 30, 2021...
  • Page 46 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Server settings Select the dedicated server to which you want to scan from the Server drop-down list. Click the arrow to show the list of saved server profiles, or click Add new item ... at the bottom of the list to create another server connection.
  • Page 47 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Slide naming • Barcode parsing: Similar to the settings of the Scan to Local panel, barcode settings for parsing can be modified in the Barcode Editor window. Figure 26: Window of Barcode Editor If using MIL for barcode reading, you can select the following barcode types: 1D barcode types o *Code 39 o Code 128...
  • Page 48 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION 2D barcode types o Aztec o Data Matrix o PDF417/Compact o Micro PDF417 o QR o Micro QR o MaxiCode Notice: If embedded barcode library (provided by Vintasoft barcode reader software) is used, refer to Figure Barcode settings in chapter Service for the list of supported barcode types.
  • Page 49 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION • Scan separately: The FOV areas of the preview image will be scanned and saved separately as discrete digital slides. • Scan to Network Drive Figure 27 – Scan to Network Drive settings Server settings Select the dedicated server to which you want to scan from the Server drop-down list.
  • Page 50 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Server Editor stores each of the created servers in a list. List entries can be removed, or a new entry can be added if required. With the Filters function you can narrow down the results by searching for a specific server data.
  • Page 51 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Network Output The folders set in the HIS Integrated output and Unidentified output (UFO) boxes are designed to store the final slides after conversion. Caution! Before storing slides permanently to the network output folders, they are stored temporarily to a local folder.
  • Page 52 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION – Start Scan Scanning of the actual slide or performing the whole previously planned scanning procedure can be initiated. – Stop Scan – Stop actual progress – Take All Previews Figure 33: Take all previews selector Each preview of slides in the tray is taken automatically.
  • Page 53 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION – Open profile / New Profile Figure 34: Profile browser window The Profile Browser window containing a list of previously saved profiles is opened. Based on the Illumination type, profiles are grouped into two clusters: Brightfield and Fluorescence. Additional profiles can be created after clicking Create.
  • Page 54 PANNORAMIC® CONFOCAL 3.0.3 SOFTWARE DESCRIPTION Click Search to run search based on the set criteria. Click to make parameters of the selected profile available for editing. After modification click Save to overwrite existing profile or Save as to create another one. –...

  • Page 55: Scanning Modes And Settings

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5 Scanning Modes and Settings After microscope initialization, if fluorescence hardware option is provided, you can select from the following two modes: • Brightfield scanning mode (see chapter Brightfield scanning mode for more information) •...

  • Page 56: Profile Settings Panel

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.1.1 Profile settings panel Objective settings This field displays the objective used for scanning. Figure 38: Objective settings • Objective type o 20× or 40× • Output resolution o Fix values are: 37× Native for 20× objective, and 73× Native for 40× objective. Focus settings for the scan profile Figure 39: Focus settings for the scan profile •...
  • Page 57 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Sample detection This panel offers options for threshold setting and selection of the area to be scanned. Figure 41: Sample detection • Source: Brightfield preview – a normal type of illumination in the microscope for scanning the slide.
  • Page 58 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS o Use marker with threshold If the specimen cannot be identified as required for digitization, (for example, weak contrast), it can help to encircle completely the specimen with a black marker pen. You have to draw a full circle with the pen to enable the detection.
  • Page 59 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Threshold enhancement o Remove coverslip – If selected, the edges of the coverslip are not detected as specimen to be scanned. Depending on the threshold level, it is possible that the edges of the coverslip are detected as areas to be digitized. Figure 43: Preview image with and without coverslip edge Caution! It requires lots of time (since it cannot find focus neither on the edges, nor on specks) to...
  • Page 60 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Scanmap A previously saved scanmap can be loaded and applied. • Use Threshold: Preview settings defined in the Microscope Controller Panel / Preview window are applied as the basis of scanmap. • Load scanmap: This function is useful if the slides contain areas of interest that cannot be detected by the preview camera.
  • Page 61 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Z-Stack: For Extended focus and Z-Stack scanning methods, you can determine the desired number of focus levels with the Levels selection box. The current focus value is the initial level. If you set 5 for example, then the initial level, plus four (two focus levels above and below the FOVs) are captured.
  • Page 62 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Image settings You can choose the following predefined image formats (and a subsequent custom option) from the Image Quality drop-down list in the Image Encoding section of the window: • Excellent (JPEG: 90) •...

  • Page 63: Microscope Control Panel

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.1.2 Microscope control panel The Microscope Control panel includes the main control features of the microscope. 5.1.2.1 Preview window The Preview panel offers options for threshold setting and selection of the area to be scanned.
  • Page 64 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Preview Type setting determines the type of illumination. In Brightfield mode when using MIDI II, the following preview types are available: • Brightfield preview – a normal type of illumination in the microscope for scanning the slide.
  • Page 65 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Warning! Do NOT use Remove coverslip function on TMA slides! The layout of TMA slides may mislead the detecting algorithm. Notice: If a hematology slide is detected including blood smear, the Remove Coverslip function cannot be activated and focusing on the coverslip area is not available.
  • Page 66 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Manual threshold – Set threshold value manually or calculate value on the actual preview with Calculate Threshold function which is active only if setting the value manually. This sets the sensitivity of the specimen detection. To set the desired threshold value manually, change the setting in the Specimen threshold level selection box in the range of 0-255.
  • Page 67 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Dilate mask – Adjust the slider to enlarge or decrease the scanned area. The edge is extended discretely by entering a new value each time. To switch to manual mode, click the top left corner of the button and the required value can be entered in the box Preview Toolbar This section is located at the bottom of the preview image.
  • Page 68 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Edit – The size of selected area (positive or negative) can be modified at the borderlines. Figure 51: Edited negative and positive selection masks. • Crop – Crop the area of the selected area. •...
  • Page 69 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Figure 52: TMA grid preview • TMA Grid Setting – This function is enabled only if a TMA grid has already been placed on the preview image. Set grid parameters (row and column numbers) and spot shape (round or rectangle).
  • Page 70 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Use selection box restriction – If selected, only the area inside the box is scanned. It is useful if you only want to scan the area that is equivalent with the size of the coverslip, so external specks will not be scanned. The preview image shows the area that will be digitized with a red and/or an orange mask.
  • Page 71 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Areas that will be scanned These areas are digitized based on user settings (for example, Fill holes in scan area) and not detected by the selected threshold value. Detected sample areas that will be scanned These areas are digitized.
  • Page 72 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Click the button to display barcode label area. To rotate the label area by 180°, click Figure 56: Barcode label area window – Undo / Redo modification made during specifying the Scanmap. These buttons are inactive when Use threshold function is applied.
  • Page 73 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.1.2.3 Exposure indicator Activate Exposure indicator function by clicking . Click to calculate exposure time for the actual Live image. In Brightfield mode there is no option for manually setting the values. Exposure time can be displayed in microsecond, millisecond, and also in second. Figure 58: Window of Exposure Indicator in Brightfield scan mode 5.1.2.4 Image intensity...

  • Page 74: Quick Preview Functions

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.1.3 Quick preview functions Use Ctrl+mouse wheel to zoom in or out to the preview area or the Live image. A quick preview function toolset pops up by right-clicking to the preview area. It allows a quick access to main functions: •...
  • Page 75 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Autofocus Figure 63: Autofocus • Live tools Figure 64: Live tools o Fast mode o Screenshot o Magnifier o Ruler o Image processor plugins o Add scanmap • Auto exposure Figure 65: Auto exposure MARCH 30, 2021...

  • Page 76: Fluorescence Microscope Mode

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.2 Fluorescence microscope mode Fluorescence Microscope View consist of three different sections: • Profile Settings panel: Profile settings containing parameters used for scanning. • Microscope Control Panel: Live microscope movement functions • Main functions: Located at below the window header, these functions are identical in both modes.
  • Page 77 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • D: Deconvolution can be activated per channel in this column. Figure 66: Filter table Objective settings This field displays the objective used for scanning. Figure 67: Objective settings • Objective type 20× or 40× •...
  • Page 78 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Focus Focus settings for the scanning. Focus modes can be the following: • Coarse focus: Preset the coarse focus value. By activating the Coarse focus function, the lower limit value is set to -64, and the upper limit value is set to +64 of the current focus value.
  • Page 79 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Limit the range: You can define focus limits by specifying a range for focusing. You can set the upper and lower limits by selecting the desired value in the selection boxes. This is useful if focusing was not targeted on the specimen, but on a spot on the coverslip.
  • Page 80 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS illumination time of 20ms) that is displayed in the Profile Wizard window. Scanning process is initiated with a simple Pre-Scan, the located sample with auto threshold is selected, and finally, an HR Pre-Scan is launched. •...
  • Page 81 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS o Everything within marker To scan everything within the marked area, check the Everything within marker selection box. Alternatively, click in the preview window to activate this function. Figure 70: Scan everything within the marked area (selected / not selected) •...
  • Page 82 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Important! It requires lots of time (since it cannot find focus neither on the edges, nor on specks) to digitize coverslip edges. Select Remove coverslip function to eliminate those areas. Warning! Do not use Remove coverslip function on TMA slides! The layout of TMA slides may mislead the detecting algorithm.
  • Page 83 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Custom scanmap: The scanmap drawn on the preview image is used for scanning. • If the Use selection box restriction function is activated, only the area inside the box is scanned. It is useful if you only want to scan the area that is equivalent with the size of the coverslip, so external specks will not be scanned.
  • Page 84 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Figure 74: Focus level and step size Scan settings Figure 75: Scan settings • Change filters after whole slide scan / Change filters at each field of view (two- state button) • To optimize speed, filter change takes place after the digitization of the slide with one channel / Filters are changed for each field of view if very precise colocalization is required but consider that this option is more time consuming.
  • Page 85 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Multiple shots – Take multiple shots, specified by the value set in the box. • Max exposure – A limit value can be set to determine that the exposure time cannot be longer than the time of focusing and calculation of exposure. This is necessary because the exposure time would be too long when taking image of an empty field of view.
  • Page 86 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Image settings Activate image settings by clicking this button, then choose one of the following predefined image formats (and a subsequent custom option) from the Image Quality drop-down list: • Excellent (JPEG: 90) •...

  • Page 87: Microscope Control Panel

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.2.2 Microscope control panel 5.2.2.1 Preview window Click to open the Preview panel that offers options for threshold setting and selection of the area to be scanned. Figure 78: Pre-scan preview image Threshold options This section is located at right side of the preview window.
  • Page 88 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Preview Types In FL Microscope mode the following additional preview modes are available: • Brightfield preview – a normal type of illumination for scanning. This option is recommended when scanning in Brightfield mode. •...
  • Page 89 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Remove Coverslip If selected, the edges of the coverslip are not detected as specimen to be scanned. Depending on the threshold level, it is possible that the edges of the coverslip are detected as areas to be digitized.
  • Page 90 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Remove specks If selected, the scanner does not digitize objects smaller than the predetermined size. This helps filtering specks and other uninteresting objects out. Set the maximum volume of specks manually in the setting window Threshold •...
  • Page 91 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Manual setting of Use marker with threshold If this option is selected, only the area encircled with a marker pen will be scanned. You can define the threshold level by changing the threshold value in the Marker threshold level selection box in the range of 0-255.
  • Page 92 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Preview Toolbar This section is located at the bottom of the preview image. • – Save scanmap Click this icon to save the currently selected areas to scanmap. • – Position To position the specimen holder that holds the current slide, click Position sample, and then click on the area of interest on the preview image.
  • Page 93 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • – Edit The size of selected area (positive or negative) can be modified at the borderlines or corners. Figure 82: Edited negative and positive selection masks • Crop – Crop the area of the selected area. •...
  • Page 94 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • – Rectangle tool Draw rectangle shaped area. • – Ellipse tool Draw ellipse selection. • – Polygon tool Area selection by defining a polygon shape. Finish area selection by double-clicking with the mouse at or near the starting point. •...
  • Page 95 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • – Clear scanmap The entire scanmap area will be cleared and reset to default. • – Use selection box restriction The preview image shows the area that will be digitized with a red and/or an orange mask. If the Use selection box is enabled, and the crop function is selected, a black frame displayed in the image, and only the area inside the box is scanned.
  • Page 96 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Areas that will be scanned These areas are digitized based on user settings (for example, Fill holes in scan area) and not detected by the selected threshold value. Detected sample areas that will be scanned These areas are digitized.
  • Page 97 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Figure 87: Pseudo-colorized pre-scan image Click the button to display barcode label area. To rotate the label area by 180°, click Figure 88: Barcode label area window – Undo / Redo modification made during specifying the Scanmap. These buttons are inactive when Use threshold function is applied.
  • Page 98 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Set the correct focus value of the desired preview position by clicking SetI1, SetI2, or SetI3. If you want to go back to any of the previously set focus points, click the appropriate button. To delete the stored values, click Clear Values.
  • Page 99 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Exposure Settings You can set the Exposure time weight (%) here (displayed under TW in the Channel Settings frame). Set Lumencor excitation intensity at the Excitation intensity (%) field. The defined value will be used as maximum when applying Auto Exposition time if you activate the Max. excit. Intensity option.

  • Page 100: Quick Preview Functions

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.2.3 Quick preview functions Use Ctrl + mouse wheel to zoom in or out to the preview area or the Live image. Figure 93: Settings of preview quick toolbar A Quick Toolbar pops up by right clicking any of the control menu items. It allows a quick access to main functions, and for FL these are the following: •...
  • Page 101 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Autofocus Figure 95: Autofocus • Objective type Figure 96: Objective type o 20x o 40x • Filters Figure 97: Filters MARCH 30, 2021...
  • Page 102 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Microscope mode Figure 98: Microscope mode o Brightfield o Fluorescence • Live tools o Fast mode o Screenshot o Magnifier o Ruler o Image processor plugins o Use pseudo-color o Add scanmap Figure 99: Live tools MARCH 30, 2021...

  • Page 103: Bottom Menu Bar Of The Main Window

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Auto-exposure Figure 100: Auto-exposure 5.2.5 Bottom menu bar of the main window Profile History This function can be activated by clicking in Preferences. During setting scanning profile all the previously used parameters will be saved automatically. Each modification in the profile creates a so-called Milestone unit.

  • Page 104: Planner Mode

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Click to restore a modification stage (load parameters of a milestone unit) if needed. Figure 103: Profile history tree 5.3 Planner mode The whole scanning procedure can be planned in this mode. Assign profiles to slides, modify scan- maps without performing physical loading of slides.

  • Page 105: General Functions At The Main Menu

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Figure 104: Planner mode Planner module includes three appearance types for planning scans, located under the Preferences / Planner Layout Selector menu: • – Slide view with card • – Table • – Card collection 5.3.1 General functions at the main menu Microscope/Planner selector Horizontal/Vertical selector (Available in Slide view with card mode)
  • Page 106 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Scan to – Available after loading procedure, unique settings can be defined even for each separate scanning. Start scan – Scanning of the actually loaded slide, or if the planner has been defined, the whole scanning process can be initiated.

  • Page 107: General Functions At The Tray Menu

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Before loading the CSV file, the required settings in the Planner mode must be performed. • Save CSV – Rack number, slide position, slide name, profile name, illumination type data can be saved to a CSV file. Profile management for all the magazines –...

  • Page 108: General Functions At The Slide Menu

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Profile management for selected magazine includes the following global settings applicable to all trays: o Generate random planned rack o Add current profile for all slides o Open profile to all slides o Detach current profile from all slides o Detach profiles from slides o Clear all slide results...

  • Page 109: Slide View With Card

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS • Click '+' to Open ScanContext selector and click Apply to validate the scan properties settings to all selected slides and related profiles. Figure 110: ScanContext selector 5.3.4 Slide view with card Select from Preferences / Appearance settings / Planner layout selector to activate this view.
  • Page 110 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Figure 111: Horizontal slide view with card MARCH 30, 2021...
  • Page 111 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Figure 112: Vertical slide view with card By clicking ,profiles can be added or removed for/from the slide, respectively. The parameters of the assigned profile are displayed in a card. The colors of a Brightfield and a Fluorescence profile cards are different.
  • Page 112 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS The following information are included in a profile card: • Profile name in the top left corner. • Profile status is marked with spots of different color: – Stored – Edited • Scanning mode icon representing Brightfield or Fluorescence mode •...
  • Page 113 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.3.5 Table view mode By selecting at Appearance settings, each slide will be displayed in a separate row. Click to assign profile to a slide, and to detach a profile from a slide. A slide can have more than one profile assigned to it, and these profiles can either be BF or FL if the scanner is capable to operate in these two scanning modes.

  • Page 114: Card Collection View Mode

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS 5.3.6 Card collection view mode If you click the button at Appearance settings, each of the slide previews are displayed in the window. Add profiles by clicking + and detach profiles by clicking – . Functions are the same as with the other modes.

  • Page 115: Progress Features

    PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS Figure 116: Profile editor for Scheduler window in Planner mode 5.5 Progress features The progress is visible both in Microscope and Planner modes whenever there is a running hardware operation or scanning procedure. Progress content can be therefore different depending on the type of the running procedure.
  • Page 116 PANNORAMIC® CONFOCAL 3.0.3 SCANNING MODES AND SETTINGS The following information is included in the progress log list during scanning: • Filter • Elapsed time • Location • Slide name • Free space • FOV number MARCH 30, 2021...

  • Page 117: Settings And Service

    PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE 6 Settings and service Activate Settings by clicking and Services by clicking at the right side of the main menu bar. 6.1 Settings Activate Settings by clicking at the right side of the main menu bar. –...
  • Page 118 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE Appearance settings • View Mode Selector o Text mode o Icon mode o Float Text mode o Float Icon mode • Style selector o Black Jelly o Flat style o Black Jelly light o Flat style light •...
  • Page 119 Hardware log Scanner hardware operations are contained in this log. To enable this function, first the database from the following folder must be loaded: C:\ProgramData\3DHISTECH\SlideScanner\HWLogDataBase. The following motor movements are recorded in the log list: o Camera Changer o Confocal...
  • Page 120 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE o Filter Wheel o General o Halogen Light o Microscope Part o Midi Loader o ND o Objective Changer o Preview Light o RGB Light o Relay o Scan Loader o Service o Shutter o Slide Scanner o Stage o Waterpump...
  • Page 121 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE – Basic settings Figure 119: Basic settings On this panel, you can define the swap file location, set Shutter auto close time in FL, and set the Number of compensation images for preview camera if needed. If a certain time is set for Watchdog timeout, the scanning process is canceled after this time.
  • Page 122 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE – Profile behavior settings Figure 120: Profile behavior settings • Use profile history save – With this function each profile modification is saved in Profile History from which the different stages can be reloaded. •...
  • Page 123 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE – External application call Figure 122: External application call window Two of the three settings are responsible for opening external applications (.exe or .bat) as defined (for example, CaseViewer software can be opened after scanning is finished). These calls can run only the following scripts: •...
  • Page 124 You can test whether the Scanning Error Occurred settings work by clicking Caution! If C:\ProgramData\3DHISTECH\SlideScanner\MessengerUserPreferences.xml is missing or damaged, the External application call feature will not be able to read the address book, therefore it will not operate. To solve this issue, the address book must be repaired or created again.
  • Page 125 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE • Click to test settings (by sending an e-mail to the address defined in the E- mail To field) after you have finished to check their relevancy before applying them. First click SMTP setup to display the E-mail settings window, in which you can dedicate an e-mail server through which the software sends e-mails to the selected recipients.
  • Page 126 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE – Report sender settings Figure 124: Report sender settings Add new recipients to the list by clicking + or remove selected from the list by clicking -. To send an example mail to the selected recipient, click .

  • Page 127: Service

    PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE 6.2 Service Activate Services by clicking at the right side of the main menu bar. – Service password Enter password first to enable service settings for modification. Figure 126: Enter service password – Camera settings Figure 127: Camera settings MARCH 30, 2021...
  • Page 128 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE • Set Position, Objective type, Magnification, Disk, and Immersion settings of the objective. • Use manual camera changer – Changing the cameras is performed manually. • Pre-Scan objective protection enabled – If activated, slide area near the edges will not be scanned to record fast preview image.
  • Page 129 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE Notice: If Lumencor SPECTRA 6 is configured as illumination unit, the corresponding Enable Lumencor hardware trigger option is displayed on the Filter settings form. • Stitching overlap – Set the amount how much the FOVs should extend over. •...
  • Page 130 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE On this panel you can define which filters occupy which turret positions. • The actually set filter position is marked at the Current filter hardware position field • Select filter hardware positions from the Filter hardware position: drop-down list. Notice: The maximum number of virtual filters is 20 if you insert penta filters (and this type is selected from the Filter type list) in the available 4 filter positions in the turret.
  • Page 131 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE – Z-difference This function is available only for fluorescence settings; it enables you to set the basic focus differences between the filters. This facilitates more precise focusing during scanning. Figure 129: Set focus differences –...
  • Page 132 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE • To create the compensation image(s), click Take Comp. image. Click the Stop button to interrupt the process. The progress bar at the bottom of the window displays the progress of the compensation image creation. •...
  • Page 133 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE To display an image of the barcode area, click . You can redefine the barcode reading area by dragging the edges of the blue square. To check whether the barcode reading settings are correct, display the barcode digits in the Barcode field by clicking .
  • Page 134 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE Notice: When having two barcodes on the slide, barcode layout must be consequential. • Resize image – Label image is downsized to 1:4 before barcode reading. • Apply erode algorithm – The Erode algorithm is run before barcode reading. It is a useful function for reading 2D barcode types since the algorithm completes the scuffed and faded areas of the barcode by applying the morphological erode filter to an image.
  • Page 135 PANNORAMIC® CONFOCAL 3.0.3 SETTINGS AND SERVICE • Objective guide o Step size o X / Y values or navigation arrows o Goto o Goto Preview Origin • RGB LED – Set illumination intensity per channel. • Sync with microscope • Calculate white balance •...

  • Page 136: Hosting

    PANNORAMIC® CONFOCAL 3.0.3 HOSTING 7 Hosting Hosting a live teleconsultation session gives specialists the opportunity to examine the same Live microscopic image during a real-time counseling even if being in laboratories far away from each other. This means multiple users can connect to the device at the same time. The user of the scanner will be the host with direct access to the scanner.
  • Page 137 PANNORAMIC® CONFOCAL 3.0.3 HOSTING Figure 134: Teleconsultation host data Join teleconsultation as a client 1) Start the Lite version of the scanner software. 2) Type in your nickname used during the session. 3) Enter Host address and Port number. 4) Click Connect. On Client side the following functions are unavailable/inactive: •...

  • Page 138: Using Profiles

    PANNORAMIC® CONFOCAL 3.0.3 USING PROFILES 8 Using Profiles Notice: Saved profile settings can be used only on that specific Pannoramic® scanner you are working with. If you want to scan a group of slides, it is advised to save your settings previously in a profile and continue scanning in Automatic mode.
  • Page 139 PANNORAMIC® CONFOCAL 3.0.3 USING PROFILES • Selected focus channel • Selected stitching channel • Flat field correction (ON/OFF) • Intensity statistics • Intensity reducing • Intensity equalization • Sharpening (ON/OFF) Other settings • Limitation of focus range (ON/OFF) • Enable/disable Multilayer options •...

  • Page 140: Troubleshooting And Maintenance

    9.2 Safety information Check cables, plugs and connections before operation, and if defective or cannot be replaced, contact 3DHISTECH Service for support. Check whether the device is compatible with your local line voltage. It can operate at line voltages 100V to 240V and 50-60 Hz.

  • Page 141: Cleaning The Device

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE Dust, specks, and humidity may decrease or harm the operating capability of the device. Protect it with dust cover when not in use. Switch the power off before covering it. There is crush hazard during operation in the area of input or output. Trays should be moved through software.

  • Page 142: Preventive Maintenance

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE 9.2.4 Preventive maintenance To prevent fungus growth • Do not leave the equipment in an unconditioned environment with a storage temperature above 60°C (140°F) or below 0°C (32°F), which may damage the equipment. • Maximum operating temperature is 35°C (95°F) with a relative humidity of less than 75%.
  • Page 143 • Focus range enabled Disable Limiting focus range function. Poor image quality • Imaging error (for example, chromatic aberrations) Contact 3DHISTECH Service for support. Warning! Do not modify the camera driver settings, as the default factory settings give the most accurate images.

  • Page 144: Fluorescent Applications

    TROUBLESHOOTING AND MAINTENANCE • FOVs are of different intensity on the confocal image. Recalibration must be performed. Contact 3DHISTECH Service for support. Virtual slides show poor stitching in Pannoramic® Viewer. • Scan camera is not properly adjusted (for example, due to loose fixture).

  • Page 145: Maintenance

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE 9.4 Maintenance This section describes the most common maintenance solutions that can be performed by the user of the product. For maintenance solutions not described in this manual, contact the service personnel. Notice: The security level of the device will not be altered after maintenance work is done. 9.4.1 Opening the service door To remove the pipette, perform other maintenance work, or if the running digitization procedure is interrupted because of slide or tray jamming, the service door of Pannoramic®...

  • Page 146: Replacing Fuses Of The Main Power Switch

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE The service door (1) can be opened simply by releasing the door lock (2), then the door can be manually opened. On completion of the maintenance or repair work, the service door must be closed back again and locked (a “clack”...

  • Page 147: Removing And Refilling The Pipette

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE 5. Replace fuses, put the insert back into its seating, and push it inwards until you hear a snap, so the lever locks. Figure 139: Replacing the fuses 9.4.3 Removing and refilling the pipette The pipette is capable of storing distilled water as immersion fluid for the confocal objective.
  • Page 148 PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE 3. Grab the pipette firmly at the top, then pull it outwards from its seating. Warning! Do NOT turn the pipette upside down, and make sure to hold it so that its tip points downwards during the whole process of emptying and refilling.
  • Page 149 PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE 7. Close the service door by pushing any of the two buttons at the sides of the door frame. MARCH 30, 2021...

  • Page 150: Removing A Slide

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE 9.4.4 Removing a slide If a slide got jammed or has suffered breakage during the process of digitization, stop the process and, if possible, move the slide holder to a position where the slide can be easily removed by clicking the Emergency Manual Slide Removal Position button (see chapter Service).

  • Page 151: Installing And Removing Filter Cubes

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE 9.4.5 Installing and removing filter cubes Notice: This section recites some extracts from the Aurox CC88 operating manual. For detailed information, especially instructions regarding safety, consult that manual. The Aurox CC88 Spinning Disk Confocal Imaging Attachment is a sealed unit, hence the internal optics will not be affected by normal level of ambient dust and dirt.
  • Page 152 PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE Inserting filter cubes The instrument has an initialization step which senses incorrect filter cube insertion and/or obstruction of the filter wheel. It is therefore recommended to power the instrument during filter cube change. After the first installation, during normal use, the software supplied by the system vendor provides a filter change option.
  • Page 153 PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE Warning! Do not use excessive force in this step! If you are having trouble inserting the cube it is most likely due to initial misalignment of the cube with respect to the wheel. Take the cube back out and try again.

  • Page 154: Transporting

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE Removing filter cubes Pull the filter cube outward by holding the side grip as shown in the below figure. Figure 146: Removing the filter cube 9.4.6 Transporting The following procedure shows how to transport Pannoramic® Confocal. Notice: The base unit has four carrying handles for transporting.

  • Page 155: Removing And Cleaning The Condenser

    PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE Figure 147: Transporting handles 9.4.7 Removing and cleaning the condenser The quality (intensity, cleanness) of the resulting image is highly affected by the condition of the condenser, therefore it is advised to remove the unit and clean the surface of the condenser lens on a weekly basis.
  • Page 156 PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE Important! During this procedure it is not necessary to power off the device, but make sure that no scanning operation has been started. The procedure of the removal is the following: 1. Open service door (see chapter Opening the service door).
  • Page 157 PANNORAMIC® CONFOCAL 3.0.3 TROUBLESHOOTING AND MAINTENANCE Before reinstalling the condenser unit, make sure that the grooves of the male part of the dovetail joint is clean. Figure 150: Dovetail grooves Reinstall unit by following the below procedure: 1. By caring attention to applying the unit correctly so that joint elements are interlocking, gently slide the condenser unit back to its position.

  • Page 158: Technical Data

    PANNORAMIC® CONFOCAL 3.0.3 TECHNICAL DATA 10 Technical Data Weight and dimensions (base unit) Measurement Value Weight approx. 90 kg Width approx. 950 mm Depth approx. 570 mm Height approx. 1000 mm Environmental conditions Transportation / Shipment (packed) Permissible ambient temperature -40°C to +70°C Storage Permissible ambient temperature...
  • Page 159 PANNORAMIC® CONFOCAL 3.0.3 TECHNICAL DATA Operating data Intended site closed room facilities Electrical protection class Internal protection degree IP 20 Electrical safety in compliance with DIN EN 61010-1:2001, DIN EN 61010-2- 101:2002 (IEC 61010-1:2001, IEC 61010-2-101:2002) Over-voltage category Radio interference suppression in accordance with EN 55011 class B Noise immunity in accordance with EN 61326-2-6:2012...
  • Page 160 PANNORAMIC® CONFOCAL 3.0.3 TECHNICAL DATA Scan camera pco.edge 5.5 16.6×14.0 mm sCMOS (CIS2051) Pixel size 6.5 µm x 6.5 µm Camera resolution 2560 x2160 active pixel Camera max. speed 100 fps at full resolution (2560 x2160 pixel) Bit-depth 16 bits Image resolution (in focus plane) 0,4 µm FWHM (with 40x 1.2NA objective) Cooling...

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