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3DHISTECH PANNORAMIC CONFOCAL RX 1.0 User Manual

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PANNORAMIC® CONFOCAL RX 1.0
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UIDE
May 13, 2021 – Rev.1
FOR RESEARCH USE ONLY. NOT FOR USE IN DIAGNOSTIC PROCEDURES.

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Summary of Contents for 3DHISTECH PANNORAMIC CONFOCAL RX 1.0

  • Page 1 PANNORAMIC® CONFOCAL RX 1.0 ’ UIDE May 13, 2021 – Rev.1 FOR RESEARCH USE ONLY. NOT FOR USE IN DIAGNOSTIC PROCEDURES.

  • Page 2: Table Of Contents

    PANNORAMIC® CONFOCAL RX 1.0 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.......................13 Terms and Abbreviations ..................... 14 Product Description ......................15 1.1 Product overview 1.1.1...
  • Page 3 PANNORAMIC® CONFOCAL RX 1.0 TABLE OF CONTENTS Main window functions Hotkeys Scanning Modes and Settings ..................53 Brightfield Scanning Mode 5.1.1 Profile settings panel ..................54 5.1.2 Microscope control panel ................... 61 5.1.3 Quick preview functions ..................72 5.1.4 Quick microscope functions................72 Fluorescence Microscope Mode 5.2.1 Profile Settings Panel ..................
  • Page 4 PANNORAMIC® CONFOCAL RX 1.0 TABLE OF CONTENTS 9.3.3 Cleaning the trays ..................140 9.3.4 Preventive maintenance ................141 Troubleshooting 9.4.1 Fluorescent applications..................143 Maintenance 9.5.1 Opening the service door ................. 144 9.5.2 Replacing fuses of the main power switch ............145 9.5.3 Removing and refilling the pipette ..............

  • 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

    PANNORAMIC® CONFOCAL RX 1.0 DECLARATION OF CONFORMITY Declaration of Conformity 3DHISTECH Ltd. declares that the product Pannoramic® Confocal RX is designed and produced with consideration of the quality management system certified according to the ISO 13485:2016 standard, and conforms to standards listed below: IEC 61010-1:2010 (ed.

  • Page 8: About This User's Guide

    PANNORAMIC® CONFOCAL RX 1.0 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 RX 1.0 CHARACTER FORMATS AND SYMBOLS Character Formats and Symbols The following character formats and symbols call your attention in this manual: Example (text in bold) Words or characters that appear on the screen. These include field names, screen and window titles, push-button and menu names, paths or options.

  • Page 10: Notes Regarding Operational Safety

    PANNORAMIC® CONFOCAL RX 1.0 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®...
  • Page 11 If protective devices are found to be ineffective, the Pannoramic® Confocal RX 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 RX 1.0 NOTES REGARDING OPERATIONAL SAFETY Warning! The Pannoramic® Confocal RX does not include any special facilities to protect from samples with an etching, potentially infectious, toxic, radioactive, or other health -damaging effect. You are under obligation to comply with all currently binding legislation, notably, national accident prevention rules when handling samples of this kind.
  • Page 13 PANNORAMIC® CONFOCAL RX 1.0 NOTES REGARDING OPERATIONAL SAFETY Caution! Do not position the equipment so that it is difficult to operate and to disconnect the device if necessary. Notice: The safety level of the equipment after servicing will be identical with level of the original equipment.

  • Page 14: Notes On Warranty

    NOTES ON WARRANTY Notes on Warranty 3DHISTECH Ltd. – as the Product Manufacturer – warrants the Pannoramic® Confocal RX 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 RX 1.0 TERMS AND ABBREVIATIONS Terms and Abbreviations Term Description Comma Separated Value Field of View Numerical Aperture A phenomenon that leads to a dramatic loss of fluorescence emission intensity (a Photobleaching fluorophore permanently loses the ability to fluoresce) due to photon-induced chemical damage and covalent modification, therefore fluorescent signals cannot be properly detected.

  • Page 16: Product Description

    PANNORAMIC® CONFOCAL RX 1.0 PRODUCT DESCRIPTION 1 Product Description 1.1 Product overview 1.1.1 Intended use The Pannoramic® Confocal RX 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 biological samples and specimens (histological sections, typically) based on confocal principles.

  • Page 17: Features And Benefits

    PANNORAMIC® CONFOCAL RX 1.0 PRODUCT DESCRIPTION 1.1.2 Features and benefits The Pannoramic® Confocal RX 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 RX 1.0 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 RX main unit. Figure 1: Warning and information labels 1.1.4 Base unit The following figure shows the main outer parts of the device.

  • Page 19: Connector Panel

    PANNORAMIC® CONFOCAL RX 1.0 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: System Overview

    PANNORAMIC® CONFOCAL RX 1.0 PRODUCT DESCRIPTION 1.2 System overview The standard scope of delivery of the product includes the following hardware and software components. 1.2.1 Pannoramic® Confocal RX System The following figure shows the main parts of the Pannoramic® Confocal RX system. Figure 4: Pannoramic®...

  • Page 21: Hardware Options

    PANNORAMIC® CONFOCAL RX 1.0 PRODUCT DESCRIPTION 3) Control computer 4) Monitor 5) Keyboard 6) Mouse 1.2.2 Hardware options Notice: The configuration of the control computer and monitor can vary depending on the product order. Camera 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 RX 1.0 PRODUCT DESCRIPTION Objectives • Plan-Apochromat 20×/NA 0.8 • C-Apochromat 40× Corr/NA 1.2 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 RX Fluorescent illumination unit Description Lumencor SPECTRA Light Engine...

  • Page 23: Installation

    PANNORAMIC® CONFOCAL RX 1.0 INSTALLATION 2 Installation Warning! The installation of Pannoramic® Confocal RX 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 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 RX 1.0 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: Power The Scanner On/Off

    PANNORAMIC® CONFOCAL RX 1.0 INSTALLATION • Power supply cable (between 230V/110V and control computer) • Power supply cable (between 230V/110V and the power inlet of the Pannoramic® Confocal RX) • USB cable (between preview camera and control computer) • USB control cable (between the USB control port at the connector panel of the scanner and control computer) •...

  • Page 27: Operating Slides And Trays

    PANNORAMIC® CONFOCAL RX 1.0 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: Affixing Barcode Stickers To Slides

    PANNORAMIC® CONFOCAL RX 1.0 OPERATING SLIDES AND TRAYS 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. Notice: The distance between slide edges and the edges of the mounted coverslip should be 1-2 mm, and they should be parallel with each other.

  • Page 29: Inserting And Removing Slides

    PANNORAMIC® CONFOCAL RX 1.0 OPERATING SLIDES AND TRAYS The label area is recorded by the preview camera and can be displayed by the Pannoramic® Scanner Software for research control software and viewer software. To affix barcode stickers to slides, do the following: 1) Peel off the barcode sticker (2) from the roll.
  • Page 30 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 RX! Notice: The coverslip and the label area should be on the top.
  • Page 31 PANNORAMIC® CONFOCAL RX 1.0 OPERATING SLIDES AND TRAYS To insert and remove slide trays Figure 9: Inserting the slide tray 1) Open slide tray feeder door (1). 2) Insert the tray (3) that contains at least one slide onto the tray rail (2), then push the tray until it stops.

  • Page 32: Software Description

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

  • Page 33: Main Window Functions

    PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION 4.2 Main window functions Figure 11: Pannoramic® Scanner Software for Research 1.0.0 main window The following functions are available for you to select from at the main menu bar: Switch between Microscope and Planner modes Microscope initialization –...
  • Page 34 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION The following slide markings can be displayed on the tray panel: • – There is no slide in that position • – Slide preview is not yet taken • – Slide preview has already been created •...
  • Page 35 PANNORAMIC® CONFOCAL RX 1.0 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 36 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION 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 37 PANNORAMIC® CONFOCAL RX 1.0 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 38 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION Figure 15: Select type of barcode profile Click at the left of a list item to open the Barcode editor window in which the settings of the selected profile can be edited. Figure 16: Barcode editor window If you click Add new item ...
  • Page 39 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION 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 40 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION Conversion settings • Apply conversion: Turn on to convert the slide to other formats, once the scanning has finished. • Keep original MRXS Slide: The original MRXS format of the slide is stored in the local folder.
  • Page 41 PANNORAMIC® CONFOCAL RX 1.0 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 42 PANNORAMIC® CONFOCAL RX 1.0 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) ▪...
  • Page 43 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION 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. Notice: The Pannoramic® Scanner Software for Research control software is compatible with licensed QuantCenter™...
  • Page 44 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION • Scan to Server Figure 23: Scan to server 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 45 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION Figure 24: Window of server editor Server Editor stores each of the created server 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 46 PANNORAMIC® CONFOCAL RX 1.0 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 47 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION o Pharmacode o EAN-13 o EAN-8 o UPC-A o UPC-E 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 124.
  • Page 48 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION Slide save path • Synchronize server folders: select Folder / Case / Block to synchronize folders. Caution! The current Windows user must have ownership of the destination folder, or, based on the operating system or network system settings write permission must granted for the current user to access the destination folder.
  • Page 49 PANNORAMIC® CONFOCAL RX 1.0 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 27: Take all previews selector Each preview of slides in the tray is taken automatically.
  • Page 50 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION – Open profile / New Profile Figure 28: Profile browser window The Profile Browser window is opened containing a list of previously saved profiles. Based on the Illumination type, profiles are grouped into two clusters: Brightfield and Fluorescence. Additional profiles can be created after clicking Create.
  • Page 51 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION • Illumination (None / Brightfield / Fluorescent) • Filters • Modify date • Last used date 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 52: Hotkeys

    PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION – Help In the About window the version of the Pannoramic® Scanner Software for Research control software and licensing details are included. Figure 29: About window 4.3 Hotkeys • Press F1 to open/close hotkeys window •...
  • Page 53 PANNORAMIC® CONFOCAL RX 1.0 SOFTWARE DESCRIPTION • ESC (in fullscreen mode): Exit from fullscreen mode • CTRL+mousewheel: Zoom in/out • SHIFT+mousewheel: Change Focus by step +36/-36 • W/S: Change Focus by step +1/-1 (fine-tuning) • Arrows: Move stage (within a limited area) •...

  • Page 54: Scanning Modes And Settings

    PANNORAMIC® CONFOCAL RX 1.0 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 5.1 Brightfield Scanning Mode for more information) •...

  • Page 55: Profile Settings Panel

    PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS 5.1.1 Profile settings panel Objective settings This field displays the objective used for scanning. Objective type: 20×; 40×. Figure 31: Objective settings Focus settings for the scan profile Figure 32: Focus settings for the scan profile •...
  • Page 56 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS This panel offers options for threshold setting and selection of the area to be scanned. Figure 34: Sample detection • Source: Brightfield preview – a normal type of illumination in the microscope for scanning the slide.
  • Page 57 PANNORAMIC® CONFOCAL RX 1.0 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 58 PANNORAMIC® CONFOCAL RX 1.0 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 36: 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 59 PANNORAMIC® CONFOCAL RX 1.0 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 60 PANNORAMIC® CONFOCAL RX 1.0 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 61 PANNORAMIC® CONFOCAL RX 1.0 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 62: Microscope Control Panel

    PANNORAMIC® CONFOCAL RX 1.0 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 63 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Preview Type setting determines the type of illumination. In Brightfield mode when using Confocal RX, the following preview types are available: • Brightfield preview – a normal type of illumination in the microscope for scanning the slide.
  • Page 64 PANNORAMIC® CONFOCAL RX 1.0 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 65 PANNORAMIC® CONFOCAL RX 1.0 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 66 PANNORAMIC® CONFOCAL RX 1.0 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 67 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • Edit – The size of selected area (positive or negative) can be modified at the borderlines. Figure 44: Edited negative and positive selection masks. • Crop – Crop the area of the selected area. •...
  • Page 68 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • TMA tool – TMA tool is used for selecting TMA spots on TMA slides. You can set the selection settings on the following four tabs: Figure 45: TMA grid preview • TMA Grid Setting –...
  • Page 69 PANNORAMIC® CONFOCAL RX 1.0 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.
  • Page 70 PANNORAMIC® CONFOCAL RX 1.0 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 71 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Click the button to display barcode label area. To rotate the label area by 180°, click Figure 49: Barcode label area window – Undo / Redo modification made during specifying the Scanmap. These buttons are inactive when Use threshold function is applied.
  • Page 72 PANNORAMIC® CONFOCAL RX 1.0 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.

  • Page 73: Quick Preview Functions

    PANNORAMIC® CONFOCAL RX 1.0 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 74 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • Autofocus Figure 56: Autofocus • Live tools Figure 57: Live tools o Fast mode o Screenshot o Magnifier o Ruler o Image processor plugins o Add scanmap • Auto exposure Figure 58: Auto exposure MAY 13, 2021 FOR RESEARCH USE ONLY.

  • Page 75: Fluorescence Microscope Mode

    PANNORAMIC® CONFOCAL RX 1.0 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 76 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Figure 59: Filter table Objective settings This field displays the objective used for scanning. Figure 60: Objective settings • Objective type o 20× or 40× • Confocal mode Select the mode you want to apply from the Confocal mode drop-down list: o True confocal –...
  • Page 77 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Focus Focus settings for the scanning. Focus modes can be the following: • Coarse: 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 78 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • Focus frequency: This value determines how many fields of views will pass before the sample is refocused. This value should be selected depending on the unevenness and size of the specimen. •...
  • Page 79 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • Thresholding The manually set threshold value is applied during scanning. The preview of the loaded slide is displayed in the Preview window. The set value has effect on the preview image. If threshold value is modified in the Microscope Controller preview window, that value is automatically applied in the profile in the Profile Settings panel.
  • Page 80 PANNORAMIC® CONFOCAL RX 1.0 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 63: Scan everything within the marked area (selected / not selected) •...
  • Page 81 PANNORAMIC® CONFOCAL RX 1.0 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 82 PANNORAMIC® CONFOCAL RX 1.0 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 83 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Figure 67: Focus level and step size Scan settings Figure 68: 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 84 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Caution! If the specimen area is barely visible, it is possible that the software will analyze that area as an empty one. • Multiple shots – Take multiple shots, specified by the value set in the box. •...
  • Page 85 PANNORAMIC® CONFOCAL RX 1.0 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 86: Microscope Control Panel

    PANNORAMIC® CONFOCAL RX 1.0 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 71: Pre-scan preview image Threshold options This section is located at right side of the preview window.
  • Page 87 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Preview Types In FL Microscope mode the following additional preview modes are available: o Brightfield preview – a normal type of illumination for scanning. This option is recommended when scanning in Brightfield mode. o Darkfield preview –...
  • Page 88 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Caution! 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 89 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS o Manual threshold Set value manually or calculate value by using the Calculate Threshold function (can be activated only when manual thresholding is selected). 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 90 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Dilate mask Adjust the slider to enlarge or decrease the scanned area. 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 91 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS o Edit The size of selected area (positive or negative) can be modified at the borderlines or corners. Figure 75: Edited negative and positive selection masks o Crop Crop the area of the selected area. o Place Circle You can select the area to be scanned with the different tools on the Preview toolbar.
  • Page 92 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • Polygon tool Area selection by defining a polygon shape. Finish area selection by double- clicking with the mouse at or near the starting point. • TMA tool TMA tool is used for selecting TMA spots on TMA slides. You can set the selection settings on the following four tabs: Figure 76: TMA tool •...
  • Page 93 PANNORAMIC® CONFOCAL RX 1.0 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.
  • Page 94 PANNORAMIC® CONFOCAL RX 1.0 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 95 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Figure 80: Pseudo-colorized pre-scan image Click the button to display barcode label area. To rotate the label area by 180°, click Figure 81: Barcode label area window – Undo / Redo modification made during specifying the Scanmap. These buttons are inactive when Use threshold function is applied.
  • Page 96 PANNORAMIC® CONFOCAL RX 1.0 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 97 PANNORAMIC® CONFOCAL RX 1.0 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.

  • Page 98: Quick Preview Functions

    PANNORAMIC® CONFOCAL RX 1.0 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 86: 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 99 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • Autofocus Figure 88: Autofocus • Objective type Figure 89: Objective type o 20x o 40x • Filters Figure 90: Filters MAY 13, 2021 FOR RESEARCH USE ONLY. NOT FOR USE IN DIAGNOSTIC PROCEDURES .
  • Page 100 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS • Microscope mode Figure 91: 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 92: Live tools •...

  • Page 101: Bottom Menu Bar Of The Main Window

    PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS 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 102: Planner Mode

    PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS 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. In Planner mode not only the scanning of the actually loaded tray can be planned, but also profile assignment to slides of prepared virtual trays is available to be performed.
  • Page 103 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Take all previews – Preview images of all the slides on the tray are taken automatically. Select the required preview type from the following (from top to bottom): Brightfield, Darkfield, Pre-scan, Pre-scan high-resolution, Pre-scan + high-resolution. Figure 97: Take all preview selector Load / Save Plan menu –...

  • Page 104: General Functions At The Tray Menu

    PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Profile management for all the magazines – The following profile-related tasks applicable for the planner can be performed: • Add current profile to all racks • Open profile for all racks • Detach current profile from all racks •...

  • Page 105: General Functions At The Slide Menu

    PANNORAMIC® CONFOCAL RX 1.0 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 106: Slide View With Card

    PANNORAMIC® CONFOCAL RX 1.0 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 102: ScanContext selector 5.3.4 Slide view with card Select from Preferences / Appearance settings / Planner layout selector to activate this view.
  • Page 107 PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Figure 104: 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 108 PANNORAMIC® CONFOCAL RX 1.0 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 109 PANNORAMIC® CONFOCAL RX 1.0 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 scann er is capable to operate in these two scanning modes.

  • Page 110: Card Collection View Mode

    PANNORAMIC® CONFOCAL RX 1.0 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 .

  • Page 111: Progress Features

    PANNORAMIC® CONFOCAL RX 1.0 SCANNING MODES AND SETTINGS Each of the assigned profiles are checkable and modifiable. The panel at the right side includes all of the profile settings, in coherence with the view type of the Profile Setting panel. Slide preview is displayed in the Preview window in which the scanmap can be modified until beginning the scanning process.

  • Page 112: Settings And Services

    PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES 6 Settings and Services 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 113 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES Appearance settings • Planner layout editor o Slides with card o Table o Card Collection • Initial Preview window position – Initial position – Last position – Center screen • Live mode Rendered – live image is displayed in an embedded window. External legacy –...
  • Page 114 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 RX...
  • Page 115 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES • Software log All the circumstances and states of the slide scanning procedure is saved. LogID is the sequence number of scanning performed on the scanner in use. (Profile Name, Illumination mode, Scan type, Scan Start, Scan Finished, URL, Error) Figure 111: Scanning log Filtering for the following parameters is available: o Scanning date...
  • Page 116 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Basic settings Figure 112: Basic settings • On this panel, you can define the swap file location in the Swap location field, set the value of Shutter auto close time in FL, and define a value in the Number of compensation images the preview camera should take, if needed.
  • Page 117 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Profile behavior settings Figure 113: 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 118 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – External application call Figure 115: External application call window Two of the three settings are responsible for opening external applications (.exe or .bat) as defined (for example, CaseViewer and SlideViewer software can be opened after scanning is finished).
  • Page 119 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 120 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES 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. Figure 116: Messenger Setup window In the E-mail Settings window, the following parameters can be set: •...

  • Page 121: Services

    PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Emergency slide functions This panel contains control and maintenance functions. • Emerg. position The slide holder will be moved to a position where the slide can be removed manually after opening the cover (see chapter 8.5.1 Opening the service door).
  • Page 122 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Camera settings Figure 120: Camera settings • 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 –...
  • Page 123 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES • Brightfield ICC Profile – Select an applicable preset color profile to be used for Brightfield scanning from the drop-down menu. Settings according to the profile has effect on the color set, color temperature, and gamma value of the scanned image.
  • Page 124 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Filter settings Figure 121: Filter settings 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 •...
  • Page 125 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES Notice: Whenever a selected physical filter is disabled, the filter itself must be removed from the turret. • Select Filter type, Filter channel, and Filter name. • Check Available for scanning. • Set Lumencor LED light source, set Excitation and Emission wavelength / Bandwidth values for the selected filter.
  • Page 126 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Image compensation You can use a saved compensation image whenever compensation-related issues occur (deriving from the slide, illumination, staining or embedding medium irregularities). Figure 123: Image compensation • BF cameras field displays the active camera. Currently, there is only one active camera for Brightfield mode.
  • Page 127 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Barcode settings Figure 124: Barcode settings By predefining barcode type, foreground color (black or white – the color of the barcode), and other settings, you enable the Read Barcode option when using Pannoramic® Scanner Software for Research control software.
  • Page 128 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES Notice: If you did not set the barcode type correctly, or there is no barcode in the barcode area, the software will display the following error message: “Barcode detection unsuccessful! There might be no barcode present.” •...
  • Page 129 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Microscope control Figure 125: Microscope control settings • Illumination o Condensor covered o Brightfield illumination o Barcode area light o Backlight illumination intensity • Objective guide o Step size o X / Y values or navigation arrows o Goto o Goto Preview Origin •...
  • Page 130 PANNORAMIC® CONFOCAL RX 1.0 SETTINGS AND SERVICES – Slide load tester Figure 126: Slide load tester Slide loading operation can be checked for each of the slides on the tray. Click Insert tray if the prepared tray is placed onto the feeder plate and pushed in. Click Start slide insert test button to launch the process.

  • Page 131: Point Spread Function

    PANNORAMIC® CONFOCAL RX 1.0 POINT SPREAD FUNCTION 7 Point Spread Function The Point Spread Function (PSF) is a light scattering pattern of the emission of a point-like object interpreted in three-dimensional space. The scanned image is the result of a convolution of the point object and the PSF.
  • Page 132 PANNORAMIC® CONFOCAL RX 1.0 POINT SPREAD FUNCTION 4. Find the focal plane, then use Go within range and + -Range to set how many images the Scanner should take in the Z-direction. (The distance between the two images in Z- direction is 0.2 μm).

  • Page 133: Using Profiles

    PANNORAMIC® CONFOCAL RX 1.0 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 134 PANNORAMIC® CONFOCAL RX 1.0 USING PROFILES Fluorescent settings • Filter position(s) • 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) •...

  • Page 135: Troubleshooting And Maintenance

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 9 Troubleshooting and Maintenance 9.1 Activation of the Control Software The activation of Pannoramic® Scanner Software for Research is required in order to use the service, otherwise the license validation cannot be performed despite possessing a valid Dongle or license file.
  • Page 136 PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 2) Activation web page is opened in the embedded browser. First accept the EULA, then click Continue. 3) Enter all the required data for the activation. If you do not possess a registration code, the Key field may be left blank.
  • Page 137 PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 4) Click Next to finalize installation (if the software is activated during installation), so the activation is performed, and the control software is ready for use. Offline activation 1) If the server is not connected to the internet, then Offline activation can be selected only.
  • Page 138 NOTE: The Next button is active only, if the file has successfully been saved. 3) The saved activation request file must be then copied to the device with internet https://activation.3dhistech.com web page. This step is connection, and uploaded to the mandatory only if Offline activation was selected.
  • Page 139 PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 9) Load this file in the following window (either by clicking Load..., or by drag&drop to the Drop file here... section of the window. Click Next to continue. NOTE: The Next button turns active only if file upload and validation was successful. 10) Upon successful activation the following window is displayed.

  • Page 140: Recovery Functions

    TROUBLESHOOTING AND MAINTENANCE If the license file could not be generated due to some reason, the below window appears, and in this case, you must contact 3DHISTECH Support at support@3dhistech.com. 9.2 Recovery functions PSW automated backups allow you to continue scanning after unexpected events within as little time as possible.

  • Page 141: Cleaning The Device

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE The product is not equipped with protection against hazardous materials (infectious, toxic, radioactive, corrosive substances or other effects damaging to health). Decontaminate infectious materials after use. Dust, specks, and humidity may decrease or harm the operating capability of the device. Protect it with dust cover when not in use.

  • Page 142: Preventive Maintenance

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 9.3.4 Preventive maintenance To prevent fungus growth • Do not leave the equipment in an unconditioned environment with a storag e temperature above 60°C (140°F) or below 0°C (32°F), which may damage the equipment.
  • Page 143 Prior performing this operation, the device must be powered off. • FOVs are of different intensity on the confocal image. Recalibration must be performed. Contact 3DHISTECH Service for support. MAY 13, 2021 FOR RESEARCH USE ONLY. NOT FOR USE IN DIAGNOSTIC PROCEDURES .

  • Page 144: Fluorescent Applications

    TROUBLESHOOTING AND MAINTENANCE Virtual slides show poor stitching in Pannoramic® Viewer. • Scan camera is not properly adjusted (for example, due to loose fixture). Contact 3DHISTECH Service for support. Slide is often positioned incorrectly. • Guiding fault in transport system Contact 3DHISTECH Service for support.

  • Page 145: Maintenance

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 9.5 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.

  • Page 146: Replacing Fuses Of The Main Power Switch

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE Danger of crushing! Be careful when closing the service door as your fingers may get crushed at the areas of door hinges. 9.5.2 Replacing fuses of the main power switch 1. Switch off the main power supply and disconnect the power supply cable (see section 1.1.4 Base Unit).

  • Page 147: Removing And Refilling The Pipette

    PANNORAMIC® CONFOCAL RX 1.0 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 131: Replacing the fuses 9.5.3 Removing and refilling the pipette The pipette is capable of storing distilled water as immersion fluid for the confocal objective.
  • Page 148 PANNORAMIC® CONFOCAL RX 1.0 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 RX 1.0 TROUBLESHOOTING AND MAINTENANCE 6. Place the pipette back to its seating, and make sure that there is no gap remaining at the connector area. 7. Close the service door by pushing any of the two buttons at the sides of the door frame. MAY 13, 2021 FOR RESEARCH USE ONLY.

  • Page 150: Removing A Slide

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 9.5.4 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 section Services).

  • Page 151: Installing And Removing Filter Cubes

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE 9.5.5 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 RX 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 RX 1.0 TROUBLESHOOTING AND MAINTENANCE Caution! If a light source is connected to the CC88 make sure that it is on standby or turned off before opening the filter turret door. 1. Open the service door of Pannoramic® Confocal RX. 2.
  • Page 153 PANNORAMIC® CONFOCAL RX 1.0 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 RX 1.0 TROUBLESHOOTING AND MAINTENANCE Removing filter cubes Pull the filter cube outward by holding the side grip as shown in the below figure. Figure 138: Removing the filter cube 9.5.6 Transporting The following procedure shows how to transport Pannoramic® Confocal RX. Notice: The base unit has four carrying handles for transporting.

  • Page 155: Removing And Cleaning The Condenser

    PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE Figure 139: Transporting handles 9.5.7 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 RX 1.0 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 section 9.5.1 Opening the service door).
  • Page 157 PANNORAMIC® CONFOCAL RX 1.0 TROUBLESHOOTING AND MAINTENANCE Before reinstalling the condenser unit, make sure that the grooves of the male part of the dovetail joint is clean. Figure 142: 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 RX 1.0 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 Table 3: Weight and dimension specifications Environmental conditions Transportation / Shipment (packed) Permissible ambient temperature -40°C to +70°C...
  • Page 159 PANNORAMIC® CONFOCAL RX 1.0 TECHNICAL DATA Operating data Intended site closed room facilities Electrical protection class Internal protection degree IP 20 in compliance with DIN EN 61010-1:2001, DIN EN 61010-2- Electrical safety 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 RX 1.0 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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