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3DHISTECH Pannoramic SCAN 150 User Manual

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Pannoramic SCAN 150
1.17
User's Guide
July 4, 2013
Rev. 1
PS1.17-UG-Rev1

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Summary of Contents for 3DHISTECH Pannoramic SCAN 150

  • Page 1 Pannoramic SCAN 150 1.17 User’s Guide July 4, 2013 Rev. 1 PS1.17-UG-Rev1...

  • Page 2: Table Of Contents

    Pannoramic SCAN 150 1.17 User’s Guide Contents Disclaimer........................5 Character Formats and Symbols..................7 Declaration of Conformity....................8 Notes Regarding Operational Safety................9 Notes on Warranty......................11 Terms and Abbreviations....................12 1 Product Description....................13 1.1 Product Overview........................13 1.1.1 Intended Use..............................13 1.1.2 Features and Benefits.............................13...
  • Page 3 Pannoramic SCAN 150 1.17 User’s Guide 4.3.3 Preview tab..............................48 4.3.4 Preview area scanned by preview camera.....................51 4.3.5 Focus tab................................57 4.3.6 Service tab..............................59 4.3.7 Display field and toolbar for live images......................60 4.3.8 Start Scan................................62 4.4 Using Brightfield Automatic Mode..................62 4.4.1 Routine work tab............................62 4.4.2 Barcodes tab..............................64...
  • Page 4 Pannoramic SCAN 150 1.17 User’s Guide Index........................... 130 July 4, 2013 - Rev. 1 3DHISTECH Ltd. 4(130)

  • 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, including the...
  • Page 6 Pannoramic SCAN 150 1.17 User’s Guide Third-Party Disclaimer (LibTIFF – TIFF Library and Utilities) 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...

  • Page 7: Character Formats And Symbols

    Pannoramic SCAN 150 1.17 User’s Guide Character Formats and Symbols Character Formats and Symbols Example Words or characters that appear on the screen. These include field names, screen and window titles, pushbutton and menu names, paths or options. Keys on the keyboard. For example, function keys (such as F11) or the Ctrl+M key combination.

  • Page 8: Declaration Of Conformity

    Character Formats and Symbols Declaration of Conformity 3DHISTECH Ltd. declares that the product Pannoramic SCAN 150 slide scanner is designed and produced with consideration of specified requirements according to the ISO 13485:2003 and IEC 61326-2-6:2005 standards, and conforms to the directives and other standards listed below: IEC 61010-1:2001 (ed.

  • Page 9: 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 SCAN 150 and in the section 1.1.3 Warning and Information Labels have the following meanings:...
  • Page 10 Please note that the digitizing process has to be interrupted and the insert moved via software to the output position before removing the insert. A defective Pannoramic SCAN 150 is not classified as domestic waste. It must be Warning! properly disposed in accordance with currently valid legal requirements.

  • Page 11: Notes On Warranty

    Notes on Warranty Notes on Warranty 3DHISTECH Ltd. – as the Product Manufacturer – warrants the Pannoramic SCAN 150 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 the amount of damage as small as possible.

  • Page 12: Terms And Abbreviations

    Pannoramic SCAN 150 1.17 User’s Guide Terms and Abbreviations Terms and Abbreviations 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:...

  • Page 13: Product Description

    1.1 Product Overview 1.1.1 Intended Use The Pannoramic SCAN 150 is designed to use transmitted light and reflected light fluorescence to digitize biological samples and specimens (typically histological sections). The target users of the product can work for example, in education, research, industry or medical sectors.

  • Page 14: Warning And Information Labels

    150 slides. 1.1.3 Warning and Information Labels The following figure contains the labels used on the Pannoramic SCAN 150 main unit, the external mains power supply unit, and the HXP 120 illuminator. Figure 1 – Warning and information labels July 4, 2013 - Rev.

  • Page 15: Base Unit

    Pannoramic SCAN 150 1.17 User’s Guide 1 Product Description 1.1.4 Base Unit The following figure shows the main parts of the base unit. Figure 2 – Main parts of base unit 1. Protective cover 2. Output stack for magazines 3. Input stack for magazines 4.

  • Page 16: System Overview

    The standard scope of delivery of the product includes the following hardware and software components. 1.2.1 Pannoramic SCAN 150 system The following figure shows the main parts of the Pannoramic SCAN 150 system. Figure 3 – Pannoramic SCAN 150 system overview 1. HXP 120 fiber-coupled illuminator (option) 2.

  • Page 17: Hardware Options

    Pannoramic SCAN 150 1.17 User’s Guide 1 Product Description 6. Keyboard 7. Pannoramic SCAN 150 base unit 8. Slide magazine with cover 1.2.2 Hardware Options The configuration of the control computer and monitor can vary depending on the product order.
  • Page 18 Base Unit options Pannoramic SCAN 150 Basic Scan Option / Fast Option – Base unit equipped with Stingray or • CIS cameras for Brightfield scanning (no fluorescent accessories included) Pannoramic SCAN 150 Basic Fluorescence Option –...
  • Page 19 Pannoramic SCAN 150 1.17 User’s Guide 1 Product Description Objectives Carl Zeiss Plan-Apochromat 20×/NA 0.8 • Carl Zeiss Plan-Apochromat 40× Corr/NA 0.95 • Warning! Do not change correction collar settings on the 40×/NA objective, if you need it to be set, contact customer service.

  • Page 20: Control Software

    Pannoramic SCAN 150 1.17 User’s Guide 1 Product Description 1.2.3 Control Software Pannoramic Scanner control software Optional: Fluorescence • Extended focus • Z-stack • Barcode reader (licensed feature) • Scan To Server • Pannoramic Viewer software (fully functional) Optional: CaseCenter •...

  • Page 21: Installation

    2 Installation 2 Installation Warning! The installation of the Pannoramic SCAN 150 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.

  • Page 22: Connectors And Cables

    Pannoramic SCAN 150 1.17 User’s Guide 2 Installation 1. Status display 2. DVD drive (RW) 3. Power on/off button 4. Earphone and microphone 3.5mm Jack ports 5. 2x USB port 6. Power supply connector 7. PS/2 mouse port 8. PS/2 keyboard port 9.
  • Page 23 Pannoramic SCAN 150 1.17 User’s Guide 2 Installation Video cable (between monitor and control computer) • Power supply cable (between 230V/110V and monitor) • Power supply cable (between 230V/110V and control computer) • Power supply cable (between 230V/110V and power supply unit) •...

  • Page 24: Operating Slides And Magazines

    Pannoramic SCAN 150 1.17 User’s Guide 3 Operating Slides and Magazines 3 Operating Slides and Magazines 3.1 Preparing Slides and Magazines This section demonstrates how to prepare slides and magazines. You can use slides and coverslips that meet the following specifications:...

  • Page 25: Affixing Barcode Stickers To Slides

    Pannoramic SCAN 150 1.17 User’s Guide 3 Operating Slides and Magazines Note: FISH fluorescent signals become more easily detectable for the scanner, therefore resulting in a brighter and better image, by treating the slide with a formula that prevents rapid photobleaching of fluorescent reagents (e.g.

  • Page 26: Inserting And Removing Slides

    Pannoramic SCAN 150 1.17 User’s Guide 3 Operating Slides and Magazines Caution! Ensure that a marginal space of 1-2 mm remains on all sides between the sticker and the label area outer limits. It is vital for barcode identification. Do not let barcode sticker protrude from slide edges, or stick on the coverslip surface (3).
  • Page 27 Broken slide can be removed only by a well-trained person! Only original 3DHISTECH magazines are allowed for use with Pannoramic SCAN 150! The magazines can contain a maximum of 25 slides.
  • Page 28 Pannoramic SCAN 150 1.17 User’s Guide 3 Operating Slides and Magazines To insert and remove magazines Figure 7 – Inserting a magazine Warning! Do not reach into the input/output stack movement area of the magazine, while magazines are loaded/unloaded. The doors must be...
  • Page 29 Pannoramic SCAN 150 1.17 User’s Guide 3 Operating Slides and Magazines 2. Open the door of the input stack (5) and put a magazine (1) into the input stack (4). The magazine’s rack (the back side of the magazine) (2) must contact with the guide rails with its open side towards the scanner.

  • Page 30: Software Description

    1. To start the program, double-click on the program icon on the desktop or start it from Start Menu \ All Programs \ 3DHISTECH \ Pannoramic Scanner 2. During start-up, all motors, the preview camera and the scan camera are initialized. After successful initialization, the program displays a Mode selection window.

  • Page 31: Exiting The Software

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.1.2 Exiting the software If you close a mode or one of the options window the Mode selection window turns active again. To exit the software, click X in the title bar of the Mode selection window, and the magazine(s) on the input stack can be unloaded to the output stack automatically if clicking Yes in the appearing message box.
  • Page 32 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Figure 11 – Barcode settings Functions To move the lowest magazine in the input stack to the loading position click • To move the magazine into the output stack, click •...
  • Page 33 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description To check whether the barcode reading settings are correct, display the barcode digits in the Barcode field by clicking Note: 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...

  • Page 34: Image Compensation

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 1D barcodes with check digit (CDV) You can select the following 1D barcodes with check digit (CDV): Code 39 • Interleaved 2 of 5 • The check digit is always the last digit of the barcode. It is an additional checking number.
  • Page 35 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Brightfield Compensation Figure 12 – Brightfield compensation Camera Selection This field displays the active camera. Currently, there is only one active camera for Brightfield mode. Objective Selection This field displays the objective used for scanning.
  • Page 36 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Preview Settings There might be specks or minor etches on the surface of the compensation slide that require modifying the threshold settings. Therefore, the scanner will not use those areas for the creation of the compensation images.

  • Page 37: Microscope Settings

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.2.3 Microscope Settings By moving the mouse cursor over the buttons, the software displays information about the setting you are interested in. Base Settings Figure 14 – Base Settings tab July 4, 2013 - Rev. 1 3DHISTECH Ltd.
  • Page 38 You can select the type and the magnification level of the objectives. Camera type If Pannoramic SCAN 150 features a manual camera changer, first activate the Use manual camera changer option, then set the appropriate camera types both for Brightfield and Fluorescent scanning modes in Pos.
  • Page 39 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Figure 15 – Camera Rotation tab July 4, 2013 - Rev. 1 3DHISTECH Ltd. 39(130)
  • Page 40 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 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 16 – Z Difference tab July 4, 2013 - Rev.

  • Page 41: External Application Call Settings

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Service Figure 17 – Service tab This tab contains control and maintenance functions. Emergency Manual Slide Removal Position The specimen holder will be moved to a position where the slide can be removed manually after opening the cover (see section 5.3.1 Opening the protective cover).

  • Page 42: Using Brightfield Manual Mode

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description These settings open any external application (.exe or .bat) as defined. For example, it might start the Viewer software after finishing scanning, or stop the computer after scanning is finished. You can define external application call settings for the following cases: Scan Finished Call •...
  • Page 43 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Figure 19 – Main window of control software 1. Tab panel with scanner functions and settings 2. Scan camera live image display area 3. Preview image recorded by the preview camera 4.

  • Page 44: Routine Work Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.3.1 Routine work tab Figure 20 – Routine work tab The Routine work tab provides basic digitization functions. Features are described in the forthcoming section. To insert and remove slides To move the lowest magazine in the input stack to the loading position click •...
  • Page 45 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description To enter the slide name To enter the slide name manually, type it into the Slide Name field. • You can also use the barcode as a slide name if a compatible barcode sticker is affixed on •...

  • Page 46: Scan Options Window

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.3.2 Scan Options window Figure 21 – Scan options window These settings will determine the resulting quality and storage location of the virtual slide. You can choose the following image formats in the Image Encoding field: JPEG –...
  • Page 47 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Scan Settings Focus distance in field-of-views – the distance of focal points can be set to create a focus • map, based on which the software calculates interpolated focus values (one step in distance means one FOV).

  • Page 48: Preview Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.3.3 Preview tab The Preview tab offers options for threshold setting and selection of the area to be scanned. Figure 22 – Preview tab Use threshold Scan specimen with auto threshold – This automatically detects the specimen in the preview •...
  • Page 49 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Scan specimen with user set threshold – 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. The default value is 35.
  • Page 50 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Figure 24 – Preview image with and without coverslip edge Caution! It requires lots of time and memory (since it cannot find focus neither on the edges, nor on specks) to digitize coverslip edges. Select Remove coverslip function to eliminate those areas.

  • Page 51: Preview Area Scanned By Preview Camera

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description To save a new mask, click Save. It will display a drop-down menu. Select whether to save preview mask or TMA grid. To load a mask, click Load. It will display a drop-down menu. Select whether to load preview mask or TMA grid.
  • Page 52 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Areas that will be scanned These areas are digitized on the basis of 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 53 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description You can select the area to be scanned with the different tools on the toolbar: Square tool • Ellipse tool • Polygon tool: you can finish the selection process with the polygon tool by •...
  • Page 54 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description TMA tool TMA tool is used for selecting TMA spots on TMA slides. You can set the selection settings on the following four tabs: Select tab Figure 29 – TMA tool: Select To create a new TMA object, click New.
  • Page 55 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Set the type of TMA block on this panel. 4. Select the shape of the TMA spots (Rectangle spots or Circle spots). 5. Enter the number of rows and columns in the Rows and Columns fields or select the appropriate values with the arrows.
  • Page 56 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Figure 32 – TMA tool Move tab with preview July 4, 2013 - Rev. 1 3DHISTECH Ltd. 56(130)

  • Page 57: Focus Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Label area To rotate the label area by 180°, select the Rotate image by 180 degrees checkbox. Figure 33 – Label area 4.3.5 Focus tab Figure 34 – Focus tab July 4, 2013 - Rev. 1 3DHISTECH Ltd.
  • Page 58 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Live To display a live image of the current specimen, click This function works only if you select an area in the preview image with the Position sample. This option has no effect on a running digitization process. To display a live image during scanning, select Show images during scanning in the Service tab.

  • Page 59: Service Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description With the Z-stack method separate layers are created and stored, and can be opened with • Pannoramic Viewer. The Z-stack slide contains the extended focus layer. Both for Extended focus and Z-Stack scanning methods, you can determine the desired number of focus levels with the Focus levels selection box.

  • Page 60: Display Field And Toolbar For Live Images

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.3.7 Display field and toolbar for live images The display field for live images displays images of the scan camera. The live image is displayed if no current digitization process is running or Show images during scanning option is enabled.
  • Page 61 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Toolbar for live images The toolbar is only available for the displayed live image, but not available for camera images during digitization. – Zoom in • – Zoom out • – One pixel on the monitor corresponds to one pixel on the camera •...

  • Page 62: Start Scan

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.3.8 Start Scan To start digitization process, click Caution! Before starting digitization process ensure that you have enough free space on the destination drive. You can check the available free disk space in the last line (Available disk space) of the information area of Current Slide Scan Progress.
  • Page 63 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description The Routine work panel provides basic digitization functions. To insert and remove slides In Automatic mode a preloaded magazine has to be placed into the main unit. This magazine is the •...

  • Page 64: Barcodes Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.4.2 Barcodes tab Figure 39 – Barcodes tab Identification features and profiles for slides can be set on this panel. July 4, 2013 - Rev. 1 3DHISTECH Ltd. 64(130)
  • Page 65 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Features on the panel 1. Apply one profile to all slides. One profile is used for all slides in a batch. • Current Profile is the profile that was loaded in Routine work / Scan Profiles.
  • Page 66 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Note: You can separate the character groups with any character you choose, it will not be read by the software. Example for barcode usage Barcode: Folder_Vir_123_prof_n • Folder is the folder for saving •...
  • Page 67 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description The number before M represents the magazine number. The number after M represents the slide position. In this example, the name indicates a slide in magazine 1, position 10. You can also define names for the slides in the table below, by entering names into the column Names / Barcodes.

  • Page 68: Preview Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.4.3 Preview tab Figure 40 – Preview tab The Preview tab offers options for threshold setting and selection of the area to be scanned. The options in Automatic mode are the same as described in Manual mode.

  • Page 69: Focus Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.4.4 Focus tab Figure 41 – Focus tab Focus You can define focus limits by selecting Limit focus range. You can set the upper and lower limits by selecting the desired value in the selection boxes.

  • Page 70: Service Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Both for Extended focus and Z-Stack scanning methods, you can determine the desired • number of focus levels with the Focus levels selection box. The current focus value is the starting point. If you set 5 for example, one current, two focus levels above and below FOVs are captured.

  • Page 71: Start Scan

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.4.6 Start Scan To start digitization process, click after checking settings in the Barcodes tab. Caution! Before starting digitization process ensure that you have enough free space on the destination drive. You can check the available free disk space in the last line (Available disk space) of the information area of Current Slide Scan Progress (see Figure 44).

  • Page 72: Using Fluorescent Manual Mode

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.5 Using Fluorescent Manual Mode 4.5.1 Routine work tab Figure 45 – Routine work tab The Routine work panel provides basic digitization functions. To insert and remove slides July 4, 2013 - Rev. 1 3DHISTECH Ltd.
  • Page 73 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description To move the lowest magazine in the input stack to the loading position click • To move the magazine into the output stack, click • To move a selected slide from its magazine to the specimen holder either enter its position •...
  • Page 74 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description You can enter the slide name manually by typing it into the Slide Name field. • You can also use the barcode as a slide name if a compatible barcode sticker is affixed on •...
  • Page 75 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description To set filter properties, select a filter and click on any of the white boxes of the TW and DG columns next to the filter name. This displays the Filter Properties window.
  • Page 76 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Digital Gain Note: This function is camera-dependent, when working with AxioCam MRm Rev3. the Index value ranges from 0 to 4, and in case using the pco.edge camera, the value ranges from 0 to 6.

  • Page 77: Scan Options

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.5.2 Scan Options Figure 48 – Scan options tab These settings determine the resulting quality and storage location of the virtual slide. July 4, 2013 - Rev. 1 3DHISTECH Ltd. 77(130)
  • Page 78 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Image Encoding You can set the image format parameters within this group. JPEG – The quality can be adjusted with the JPEG quality factor slider. Greater • values result in better quality, but larger files. The default setting is 80%.
  • Page 79 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Use stitching – By selecting, this function enables seamless stitching of digitized • tiles. Focus Exposure Time This function is used for defining time length used for determination of focus but is inactive when using AxioCam MRm Rev3 and pco.edge cameras.
  • Page 80 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Multi Filter Change Mode This is for a multi-channel digitization. To optimize speed, filter change should take place after the digitization of the slide with one channel. Filters should be changed for each field of view if very precise colocalization is required.

  • Page 81: Preview Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.5.3 Preview tab The Preview tab offers options for threshold setting and selection of the area to be scanned. Figure 49 – Preview tab Use threshold Scan specimen with auto threshold – This automatically detects the specimen in the •...
  • Page 82 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Scan specimen with user set threshold – 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. The default value is 35. Smaller values result in a more sensitive scanning, meaning that more areas will be digitized, however, this may also include specks or other imperfections of the slide.
  • Page 83 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description General threshold options Remove coverslip – If selected, the edges of the coverslip are not detected as specimen to be • scanned. Warning! Do not use Remove coverslip function on TMA slides! The layout of TMA slides may mislead the detecting algorithm.

  • Page 84: Hardware Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.5.4 Hardware tab Figure 51 – Hardware tab (selected mode: User controlled) July 4, 2013 - Rev. 1 3DHISTECH Ltd. 84(130)
  • Page 85 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Live Click to display a live image of the current specimen in the Live image display field. This option has no effect on a running digitization process where no live image is displayed.
  • Page 86 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description You can enter the Index value by typing it in the box or by selecting the value with the arrow buttons. If you raise the Index value, the exposition time is halved by every step, and the image becomes noisier.

  • Page 87: Service Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Set the correct focus value of the desired preview position by clicking Set. If you want to go back to any of the previously set focus points, click the appropriate Goto button. To delete the stored values, click Clear Values.

  • Page 88: Using Fluorescent Automatic Mode

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Show images during scanning If you select this option, you will be able to see the currently scanned image field during scanning in the live image display field. This slows down digitization process and should be activated only with purpose.
  • Page 89 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description To insert and remove slides In Automatic mode a preloaded magazine has to be placed into the main unit. This magazine • is the first one, irrespectively of the total number of magazines (1-6) to be loaded.
  • Page 90 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Filter Settings Focus channel – Choose a filter that you want to focus with. It is recommended to choose a • filter that is related to the staining that stained the most of the specimen, or where the exposition time is low.
  • Page 91 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Filter name The name of the filter is displayed here. Exposure Settings Exposure time – You can set the fix exposition time here. By selecting the Auto button, the exposition time is set to (the exposition time is calculated by <AUTO>...
  • Page 92 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Multilayer Settings By clicking the the Multilayer Settings window is displayed. The containing settings are the same as in Brightfield mode, but you can select extended focus or Z-stack value for the specific channel.

  • Page 93: Barcodes Tab

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4.6.2 Barcodes tab Figure 56 – Barcodes tab On this panel, you can set identification features to the various slides and for assigning profiles. July 4, 2013 - Rev. 1 3DHISTECH Ltd.
  • Page 94 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Modes on the tab Apply one profile to all slides • One profile is used for all slides in a batch. • Current Profile is the profile that was loaded in Routine work / Scan Profiles. You •...
  • Page 95 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Example for barcode usage Barcode: Folder_Vir_123_prof_n • Folder is the folder for saving • Vir is the name of the virtual slide • 123_prof_n is the profile name • The barcode control will then look like the following: •...

  • Page 96: Preview Tab Panel

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Load Names and Profiles from File • You can import previously saved names and assigned profiles by clicking Save Names and Profiles to File • By clicking the button, you can save the entered names and assigned profiles.

  • Page 97: Focus Tab Panel

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description The Preview tab panel offers options for threshold setting and selection of the area to be scanned. The options in Automatic mode are the same as described in Manual mode. In Automatic mode you cannot change the threshold values (it will use the threshold values that were set previously in the Manual mode), and when activating the Use selection box option, the area cannot be set.

  • Page 98: Scan To Server

    If you want to scan directly to a server, first you have to install the ScanToServer which is an embedded application that can be run under the Pannoramic SCAN 150 scanner software. Follow these steps to install the ScanToServer application: 1.
  • Page 99 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 2. Accept the License Agreement, then click Install to continue. 3. After checking the prerequisites click Install to start the installation of ScanToServer application. July 4, 2013 - Rev. 1 3DHISTECH Ltd.
  • Page 100 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 4. Click Finish to finalize the installation process of the ScanToServer application. To setup a connection with a designated server, follow the steps below: 1. Click Scan Options on the Routine Work tab panel.
  • Page 101 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description 2. Select the Scan to CaseCenter option in the Scan Option window, then click the Connect button. Figure 61 – Scan to CaseCenter option 3. Type in or select the server address from the Connect to: drop-down menu, and give the User name and password.
  • Page 102 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Slide settings in the CaseCenter window 1. In the Routine work tab panel, click the button. 2. The CaseCenter window is displayed. Slide data is displayed in a form for each magazine. If in Manual Mode, only the data of •...
  • Page 103 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Give the number of the starting (First slide) and the final slide (Last slide) to be • scanned in the appropriate field. For example, if you want to scan slides to server from 3-14, type: First slide: 3;...
  • Page 104 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Select a folder where the slide will be scanned to. After clicking the Folder drop- • down list, a path will be displayed in which the destination folder can be selected.

  • Page 105: Using Profiles

    Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Click Done when finished or Cancel to quit the CaseCenter window. If you save the • form, slides will be scanned to server according to the data recorded in the form after you start scanning.
  • Page 106 Pannoramic SCAN 150 1.17 User’s Guide 4 Software Description Use of scan everything within marked area (ON/OFF) • Remove coverslip function (ON/OFF) • Filling of holes (ON/OFF) • Use of removing specks according to the set value (ON/OFF) • Use saved scan area •...

  • Page 107: Troubleshooting And Maintenance

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5 Troubleshooting and Maintenance 5.1 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 108: Cleaning The Device

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance HXP 120 illuminator Keep inflammable and combustible materials outside the range of HXP 120 illuminator. • Do not expose yourself to the UV radiation of the HXP 120 illuminator. •...

  • Page 109: Troubleshooting

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5.2 Troubleshooting This section describes the most common troubleshooting solutions for the Pannoramic SCAN 150 product. If any problem arises that does not have solution in this manual, contact the service personnel.
  • Page 110 Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 4. Remove magazine manually (see section 5.3.7 Removing a Magazine from the Transporting System). If a jammed magazine cannot be removed, contact service personnel. 5. Reattach protective covers. 6. Reconnect 24V power supply and control computer to line power supply.
  • Page 111 Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance Virtual slides show poor stitching in Pannoramic Viewer Scan camera not properly adjusted (for example, due to loose fixture) • Contact 3DHISTECH Service for support. • Slide is often positioned incorrectly Guiding fault in transport system •...

  • Page 112: Fluorescent Applications (Optional)

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5.2.1 Fluorescent Applications (optional) The shutter of the HXP 120 cannot be triggered, in spite of trigger connection through AxioCam MRm Rev3. HXP 120: Shutter is permanently open • Activate shutter remote control with the button at the front of the HXP 120.

  • Page 113: Maintenance

    Pannoramic SCAN 150 need to be opened in order to eliminate the problem. Before removing the covers, exit the control software, switch off the 24 V power supply and disconnect the power cables.

  • Page 114: Replacing The Halogen Lamp

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance Caution! Use caution to prevent contact between the safety rails (5) and the scan camera as you take cover (1) off. 3. Turn eccentric screw at the front of the baseplate by 90° anticlockwise and use both hands to carefully raise and take cover (2) off.
  • Page 115 Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance Warning! Hot surface! Wait for the lamp surface to cool down. Keep a cool-down time of approximately 15 minutes. When changing the lamp, avoid touching the replacement bulb with the bare fingers! 1.

  • Page 116: Replacing Lamp Module (For Fluorescent Option)

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5.3.3 Replacing Lamp Module (for Fluorescent Option) This section recites some extracts from the HXP 120 operating manual. For detailed information, especially instructions regarding safety, consult that manual. Also, no alignment is required for the lamp module.
  • Page 117 Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 4. Loosen pressure bolt with the lever (1) and by keeping the lever pressed, remove lamp module (2) (see Figure 73). Figure 73 – Removing the lamp module 5. Carefully retrieve the new lamp module from its transporting container. Hold the lamp module only by its ceramic part.

  • Page 118: Removing A Slide

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5.3.4 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 4.3.6 Service tab).
  • Page 119 Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance Figure 76 – Removing a slide 1. Open the protective cover (see section 5.3.1 Opening the protective cover). 2. Push locking lever (1) to the left, and keep the lever in this position.

  • Page 120: Installing And Removing The Filter Module (Fluorescent Option)

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5.3.5 Installing and Removing the Filter Module (Fluorescent Option) Figure 77 – Installing and removing the filter module 1. Switch the HXP 120 illuminator off. Warning! Crush hazard! Stop the running digitization process before you proceed with filter module installation or removal.

  • Page 121: Removing The Magazine From The Transporting System

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5. Hold the filter module (3) by its handling pads (one on the right, one on the left (lateral) side of the module) and insert it in forward tilted position from above into the upper spring- loaded clamps (1) at the filter wheel.
  • Page 122 Note: Any manipulation performed on a mechanical component (for example transporting system) by the user must be followed by a complete Pannoramic SCAN 150 initialization routine (software restart). July 4, 2013 - Rev. 1 3DHISTECH Ltd. 122(130)

  • Page 123: Transporting Pannoramic Scan 150

    Pannoramic SCAN 150 1.17 User’s Guide 5 Troubleshooting and Maintenance 5.3.7 Transporting Pannoramic SCAN 150 The following procedure shows how to transport the Pannoramic SCAN 150. Figure 79 – Transporting handles Caution! Do not use the blue guide rail bar (1) to raise, shift or transport the...
  • Page 124 3. Turn carrying handles by 90° (B) towards the base unit to secure them. 4. Now you can transport Pannoramic SCAN 150 with the help of another person. 5. After finishing transportation, push carrying handles back into normal position (C).

  • Page 125: Technical Data

    Pannoramic SCAN 150 1.17 User’s Guide 6 Technical Data 6 Technical Data Dimensions (width x depth x height) Base unit approx. 522 mm (W) x 568 mm (D) x 457 mm (H) Base unit without fluorescence option approx. 522 mm (W) x 568 mm (D) x 457 mm (H) 24V 100W power supply approx.
  • Page 126 Pannoramic SCAN 150 1.17 User’s Guide 6 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)
  • Page 127 Pannoramic SCAN 150 1.17 User’s Guide 6 Technical Data Light sources Halogen lamp (transmitted light operation) HAL 12V, 5 W Average service life of halogen lamp 4000h Lamp module for HXP 120 (fluorescent option) 120 W Mercury short arc reflector lamp average service life...
  • Page 128 Pannoramic SCAN 150 1.17 User’s Guide 6 Technical Data Scan cameras Stingray F146C IRF Medical camera 1/2” type progressive scan CCD Pixel size 4.65µm x 4.65µm Camera resolution 1388 x 1038 pixel Camera max. speed up to 15 frames per second...
  • Page 129 Pannoramic SCAN 150 1.17 User’s Guide 6 Technical Data Bit-depth 16 bit Pixel resolution with 20x objective and 1x C-mount adapter 0.325µm Cooling Peltier with forced air (fan) Connection type dual Camera Link (full, 10 taps) Control computer, minimum system requirements...
  • Page 130 HXP 120..............14, 15, 16, 18, 19, 23, 38, 108, 112, 116, 120, 127 Lumencor..................13, 18, 19, 23, 85, 107, 112, 127 Marker..........................49, 52, 82, 105 Pannoramic SCAN 150..8, 9, 10, 11, 13, 14, 16, 17, 18, 19, 21, 27, 38, 98, 109, 113, 122, 123, 124 Pannoramic Viewer.......................20, 59, 70, 111 Pco.edge............................13 Preview..22, 25, 30, 36, 42, 43, 48, 50, 51, 52, 53, 55, 56, 58, 68, 71, 81, 83, 86, 87, 96, 97, 127...

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