Beckman Coulter Navios Instructions For Use Manual
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Beckman Coulter Navios Instructions For Use Manual

Flow cytometer
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773232AH
October 2015
Beckman Coulter Ireland Inc.
Lismeehan
O'Callaghan's Mills
Co. Clare, Ireland 353-65-683-1100
Instruction For Use
Navios Flow Cytometer

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I am looking for an autoclavable waste container. Is it possible to get sth. from beckman coulter?

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Summary of Contents for Beckman Coulter Navios

  • Page 1 Instruction For Use Navios Flow Cytometer 773232AH October 2015 Beckman Coulter Ireland Inc. Lismeehan O’Callaghan’s Mills Co. Clare, Ireland 353-65-683-1100...
  • Page 2 PN 773232AH (October 2015) © 2015 Beckman Coulter, Inc. All rights reserved. Beckman Coulter, the stylized logo, COULTER and Navios are trademarks of Beckman Coulter, Inc. and are registered in the USPTO. All other trademarks, service marks, products, or services are trademarks or registereed trademarks of their respective holders.

  • Page 3: Revision Status

    This document applies to the latest software listed and higher versions. When a subsequent software version changes the information in this document, a new issue will be released to the Beckman Coulter website. For labeling updates, go to www.beckmancoulter.com and download the most recent manual or system help for your instrument.
  • Page 4 Revision Status Note: Changes that are part of the most recent revision are indicated in text by a bar in the margin of the amended page. 773232AH...

  • Page 5: Safety Notice

    Beckman Coulter Representative. Beckman Coulter, Inc. urges its customers and employees to comply with all national health and safety standards such as the use of barrier protection. This may include, but is not limited to, protective eyewear, gloves, and suitable laboratory attire when operating or maintaining this or any other automated laboratory analyzer.
  • Page 6 • This equipment is used in a manner other than specified. Operate the instrument as instructed in the Product Manuals. • You introduce software that is not authorized by Beckman Coulter into your computer. Only operate your system’s computer with software authorized by Beckman Coulter.

  • Page 7: Safety Symbols

    Safety Notice Safety Symbols Coulter service maintenance agreement, Beckman Coulter cannot guarantee that the product is fitted with the most current mandatory engineering revisions or that you will receive the most current information bulletins concerning the product. If you purchased this product from a third party and would like further information concerning this topic, contact your Beckman Coulter Representative.
  • Page 8 Safety Notice Safety Symbols viii 773232AH...

  • Page 9: Table Of Contents

    Graphics, xxxvii Use And Function, 1-1 System Components, 1-1 Cytometer, 1-2 Supply Cart, 1-2 Workstation, 1-2 Multi-tube Carousel Loader (MCL), 1-2 Navios Flow Cytometer Software, 1-3 Options, 1-3 Hardware Options , 1-3 Printer, 1-3 Workstation/Network Server, 1-3 Additional PMTs, 1-3 Third...
  • Page 10 Level, 2-3 Drainage, 2-3 System Connections, 2-4 Power and Signal Cables, 2-4 Waste and Pneumatic Tubing, 2-5 Installing Navios Software, 2-7 Before Installing Navios Software, 2-7 Install Navios Software, 2-7 Operation Principles, 3-1 What This Chapter Explains, 3-1 Sample Flow, 3-1...
  • Page 11 Contents Parameters, 3-11 TIME Parameter, 3-11 RATIO Parameter, 3-12 Plot Display, 3-13 PRISM, 3-13 Regions, 3-14 Gating, 3-14 Data Storage, 3-14 Histogram Statistics, 3-15 Linear Region Statistics, 3-15 Log Region Statistics, 3-15 Log-Log Mean Method, 3-16 Lin-Log Mean Method, 3-16 Specifications, 4-1 Sample Requirements, 4-1...
  • Page 12 , 4-34 Sensitivity, 4-34 Fluorescence, 4-34 Laser Characteristics , 4-34 Day-To-Day, 4-34 Within Day, 4-34 System Overview, 5-1 Navios Intended Use And System Description, 5-1 Intended Use, 5-1 Cytometer Controls And Indicators, 5-2 Navios Flow Cytometer, 5-2 Cytometer Indicator Panel, 5-3...
  • Page 13 Putting a Bar-Code Label on a Sample Tube, 5-8 Putting Sample Tubes in a Carousel, 5-9 Putting a Carousel in the MCL, 5-9 Removing a Carousel from the MCL, 5-11 Navios Software Shortcuts, 5-12 Keyboard Shortcuts, 5-12 Drag And Drop, 5-13 Toolbar Buttons, 5-14...
  • Page 14 Check Waste and Reagent Levels, 6-2 Power the Computer and Cytometer ON, 6-3 Turning On Power, 6-3 Logging Onto Windows Software, 6-4 Logging Onto Navios Software, 6-4 Additional Start Up Checks, 6-6 Daily Shutdown, 6-6 When to Shut Down the Cytometer, 6-6...
  • Page 15 Software Procedures, 9-1 These procedures are in the System Overview chapter., 9-1 These procedures are in the Quality Control chapter., 9-1 These procedures are in the Using Navios Software chapter., 9-1 Hardware Procedures, 9-2 Using Navios Software, 10-1 Welcome To Navios...
  • Page 16 Contents Edit Workgroups, 10-6 Add, 10-7 Delete, 10-7 Export Log, 10-7 User Account Control, 10-10 System Configuration, 10-10 Report Generator Database Utilities, 10-10 Backup, 10-10 Name, 10-10 Destination, 10-11 Comment, 10-11 Archive Data Screen, 10-11 Archive Location, 10-11 Archive Criteria On or Before [Date], 10-11 Archive Criteria Between [Date] and [Date], 10-11...
  • Page 17 10-35 File name, 10-35 Save as type combo box, 10-35 Save button, 10-35 View FCS Header, 10-35 FCS Keywords Used in Navios Software, 10-35 Edit FCS Header Attributes, 10-36 Import, 10-37 Settings From CMP File, 10-37 Print, 10-38 Print...
  • Page 18 Contents Print to PDF, 10-39 Workspace Preferences, 10-39 Workspace Preferences - LMD File Name, 10-40 First 10 characters.., 10-41 Sample ID 1, 2, 3, 4, 10-41 User ID, 10-42 Tube ID, 10-42 Automatically add unique.., 10-42 Number, 10-42 Date, 10-42 Time, 10-42 Number, 10-42 File Name...
  • Page 19 Contents Contour Travel, 10-51 AutoGating Failure, 10-51 Pause on Error, 10-51 Abort On Error, 10-51 Ignore Errors, 10-51 Live Gate Warnings Options, 10-52 Show Warnings radio button, 10-52 Do Not Show Warnings , 10-52 Workspace Preferences - Publish, 10-52 Publish Data to Text File, 10-53 Publish Data to MS Excel, 10-53...
  • Page 20 Contents Toolbars - Customize Toolbars, 10-66 Toolbars, 10-66 Toolbar Name, 10-66 Show ToolTips, 10-66 Cool Look, 10-66 Large Buttons, 10-67 New..., 10-67 Reset, 10-67 Toolbars - Customize Commands Tab, 10-67 Categories, 10-67 Buttons, 10-67 Description, 10-67 Zoom, 10-68 Customize Worklist Columns, 10-68 Reordering Columns, 10-68...
  • Page 21 Contents Output Options, 10-83 AutoMATOR Status Bar, 10-83 Listmode Playback, 10-84 Single File Mode, 10-84 List Comp Setup, 10-85 Options Tab, 10-86 AutoSetup Application Definition, 10-87 AutoSetup Scheduler, 10-87 Custom Dye Entries, 10-88 Plots Menu, 10-88 Plots - Introduction, 10-88 Duplicate Plot, 10-89 Color Dot...
  • Page 22 Setting a Single-Parameter Prism Divider, 10-105 Dual Parameter Prism, 10-106 Editing Prism Dividers, 10-107 Removing Prism Dividers, 10-107 Navios Software - Prism Compatibility, 10-107 Legend, 10-108 Data Source (Legend), 10-109 Legend - Options Tab, 10-109 Show "Phenotype Logic" Columns, 10-109...
  • Page 23 Contents Modify Color Blend, 10-120 Gate Names, 10-121 Enable, 10-121 Blend Color, 10-122 Name, 10-122 Color, 10-122 Logic, 10-122 Create Gate, 10-122 Modify Color Precedence, 10-122 Advanced Precedence, 10-123 Regions Introduction, 10-124 Region Properties, 10-124 Polygonal Region, 10-124 Polygonal Region Properties, 10-125 Region Name, 10-125...
  • Page 24 Contents Region Name, 10-132 Region Points, 10-132 Resizing a Region, 10-133 Moving a Region, 10-133 Editing and Moving a Region Name, 10-133 Deleting Regions, 10-134 From Within a Plot, 10-134 Using the Delete Button in the View / Modify Regions Dialog Box, 10-135 Re-Calculate All AutoGates, 10-135...
  • Page 25 Contents Refresh, 10-144 TrueView Setup, 10-145 Enable TrueView checkbox, 10-145 Set 1 - 5 radio buttons, 10-146 Negative Decades slider, 10-146 QuickCOMP, 10-146 Show LMD QuickCOMP Matrix, 10-147 Show Analysis Algorithm Results, 10-147 Flowpage Menu, 10-147 FlowPAGE - Introduction, 10-148 Editing FlowPAGEs, 10-148 Select a Single Item Within...
  • Page 26 Contents Cancel, 10-162 Maximum Events, 10-162 Live Gate, 10-162 Max Acquirable Events, 10-162 Cytometer Control Parameter Setup, 10-163 Collection Angle, 10-164 Filter, 10-164 Cytometer Control Compensation Tab, 10-164 See also: Cytometer Control Cytometer Control Acquisition Setup Tab, 10-164 Compensation Matrix, 10-164 Clear All Button, 10-164 Status...
  • Page 27 Contents Navios Help, 10-174 About... , 10-174 System Options, 10-174 Software, 10-175 Hardware group, 10-175 Hardware group - Firmware, 10-175 Hardware group - Lasers, 10-175 Hardware group - PMTs, 10-175 Installed Software Modules group, 10-176 List control, 10-176 Description field, 10-176...
  • Page 28 Contents Create A CPF File, 10-187 Create the Panel Report Template, 10-189 Importing a Panel Report Template, 10-189 Panel Path, 10-190 Panel Name, 10-190 Cytometer Serial Number, 10-190 Verifying A Panel Report Template, 10-191 Global Tab Settings, 10-191 Local Tab Settings, 10-192 Data Plots Tab Settings, 10-195...
  • Page 29 Contents Replace The Reagent Containers, 11-14 Clean The Sampling System, 11-16 When to Clean the Sampling System, 11-17 Routine and Sample Head Cleaning Procedures, 11-17 Clean The MCL Sample Head And The Sample Probe, 11-17 Routine Cleaning Procedure, 11-24 Testing for Residual Stain, 11-27 Clean The Vacuum Trap, 11-28...
  • Page 30 Information, 13-10 Maintenance Schedules, 13-10 Cleaning Schedule, 13-10 Replacement Schedule, 13-10 Cytometer Messages, 13-10 Display Locations, 13-11 Navios Software Screen, 13-11 Cytometer Status Messages Screen, 13-11 Instrument Setup , 13-12 Cytometer.log File, 13-12 Cytometer.log File, 13-13 How to Access the Cytometer.log...
  • Page 31 Entry, B-3 Administrator Entry, B-4 Service Log, B-6 Menu Options, B-6 File Menu, B-7 Help, B-7 Navios Maintenance Log, B-7 Using The Service Log, B-7 Enter Condition Noted, B-7 Enter Action taken, B-8 Start Date: and End Date:, B-8 References...
  • Page 32 13.6 Laser Labels on the MCL Bar-Code Reader, 13-7 13.7 International Warning Symbol Locations, 13-8 13.8 Error Message on Navios Software Screen, Example, 13-11 13.9 Cytometer Status Messages Window, Example, 13-11 13.10 Example of Error Messages in Cytometer.log File, 13-13 13.11...
  • Page 33 Table, 4-31 4.26 qc_servicelog Table, 4-31 4.27 qc_template Table, 4-31 4.28 SettingsTable, 4-32 4.29 SexTable, 4-32 Drag And Drop Table, 5-13 13.1 Navios Message Display Location Summary, 13-12 13.2 Cytometer Messages, 13-15 13.3 Software Messages, 13-25 Bar-Code Symbologies, A-5 xxxiii...

  • Page 34: Chapter.,

    Tables Code-Related Specifications, A-6 xxxiv...

  • Page 35: Introduction

    Introduction Overview Contents The system help contains the information you need to: • Perform the day-to-day running of the Navios Flow Cytometer. • Clean, adjust and replace components. • Understand the operation principles and methods. • Review the instrument specifications.

  • Page 36: Using The System Help

    Conventions The system help uses the following conventions: • Throughout the system help, your Navios Flow Cytometry System is also referred to as the system or instrument. • Blue and Underlined text indicates that you can click on the text to access related information.

  • Page 37: To Choose A Command With The Keyboard

    Introduction Graphics To Choose A Command With The Keyboard After you press , each menu name has one letter underlined to indicate which letter to use to pull down the menu. For example, the letter F in the File menu is underlined, press to pull down the File menu;...
  • Page 38 Introduction Graphics xxxviii 773232AH...

  • Page 39: Use And Function

    CHAPTER 1 Use And Function System Components The system components are shown in Figure 1.1. Figure 1.1 Navios Flow Cytometer System 773232AH...

  • Page 40: Cytometer

    Use And Function System Components 1. Cytometer 5. Keyboard 2. MCL 6. Mouse 3. Monitor 7. Supply Cart 4. Computer Cytometer This unit analyzes the sample. It contains internal sheath fluid and cleaning agent containers. Supply Cart This unit provides pressure and vacuum to the Cytometer and holds the sheath and waste containers.

  • Page 41: Navios Flow Cytometer Software

    Figure 1.2 MCL Carousel Bar-Code Labels 1. Tube position bar-code label 2. Carousel ID bar-code 3. Sample bar-code label Navios Flow Cytometer Software The Navios Flow Cytometry System contains the Acquisition software that is used when running the Cytometer. Options Hardware Options Printer Provides a printout of sample results and other information.

  • Page 42: Third Laser

    A 405 nm violet solid-state laser providing a minimum of 40 mW light regulated laser power. Reagents And Quality Control Materials Beckman Coulter recommends these reagents or their equivalents. All stated analytical characteristics and specifications in this manual are based on the use of the Navios Flow Cytometry System with the following reagents. Sheath Fluid In the Cytometer, the sample is guided into a stream of sheath fluid to make the sample cells flow single file through the laser beam.

  • Page 43: Material Safety Data Sheets (Msds)

    Additional quality control reagents are available. Contact your Beckman Coulter representative or access http://www.beckmancoulter.com. Material Safety Data Sheets (MSDS) To obtain an MSDS for Beckman Coulter reagents used on the Navios Flow Cytometry System: 1. On the internet, go to and select MSDS from the Customer http://www.beckmancoulter.com...
  • Page 44 Use And Function Material Safety Data Sheets (MSDS) 773232AH...

  • Page 45: Installation

    CAUTION Possible instrument damage could occur if you uncrate the instrument, install it, or set it up. Keep the instrument in its packaging until your Beckman Coulter Representative uncrates it for installation and setup. When you receive your instrument, carefully inspect all cartons. If you see signs of mishandling or damage, file a claim with the carrier immediately.

  • Page 46: Electrical Input

    Installation Special Requirements Specifications Height 60.5 cm (23.8 in.) Additional clearance above for servicing and lifting the Data Acquisition card cage above the sensor 45.7 cm (18 in.) min. Total clearance needed 106.2 cm (41.8 in.) Width 95.3 cm (37.5 in.) Additional clearance on right for servicing 15.2 cm (6 in.) Additional clearance on left for servicing...

  • Page 47: Power Consumption

    Ambient Temperature and Humidity Temperature fluctuations within the ambient temperature range can affect performance. For optimal performance, Beckman Coulter recommends the ambient room temperature is maintained between 15.5°C and 32°C (60°F to 90°F) and does not fluctuate more than 2.8°C (5°F) from the ambient temperature at alignment.

  • Page 48: System Connections

    Installation System Connections WARNING Risk of biohazardous contamination if you have skin contact with the waste container, its contents, and its associated tubing. The waste container and its associated tubing might contain residual biological material and must be handled with care. Clean up spills immediately. Dispose of the contents of the waste container in accordance with your local regulations and acceptable laboratory procedures.

  • Page 49: Waste And Pneumatic Tubing

    Installation System Connections Figure 2.1 Power and Signal Cable Connections Waste and Pneumatic Tubing Figure 2.2 shows the interunit connections for waste and pneumatic tubing. NOTE Ensure the waste tubing does not exceed the height of the MCL head. 773232AH...

  • Page 50: Waste And Pneumatic Tubing Connections

    Installation System Connections Figure 2.2 Waste and Pneumatic Tubing Connections 1. Vent (orange) 4. Sheath (white) 2. Air (blue) 5. Waste (red) 3. Vac (yellow) 773232AH...

  • Page 51: Installing Navios Software

    Installation Installing Navios Software Installing Navios Software Before Installing Navios Software In order to install Navios software you must have Administrator access rights in the file system, operating system, and SQL Server.. NOTE Do not change Windows locale setting. Install Navios Software If you are reinstalling Navios Software, remove the existing Navios software before proceeding with the installation.
  • Page 52 Installation Installing Navios Software I accept the terms in Read the license agreement and if acceptable, the license agreement and to install files in the default folder or to install in a different folder. 773232AH...
  • Page 53 Installation Installing Navios Software the default protocol configuration and the sample protocols you would like to install and the Installation Type and 773232AH...
  • Page 54 Installation Installing Navios Software to start the Navios installation. to exit the installation wizard. 2-10 773232AH...

  • Page 55: Operation Principles

    CHAPTER 3 Operation Principles What This Chapter Explains This chapter explains how the Cytometer measures scattered light and fluorescence as cells pass through the laser beam. The illustrations in this chapter are not exact representations of the inside of the Cytometer. They are for explanatory purposes only.

  • Page 56: Laser Beam Shaping

    Operation Principles Laser Beam Shaping The flow cell (Figure 3.1) contains a rectangular channel. A pressurized stream of sheath fluid enters the channel at the lower end and flows upward. The sensing area of the flow cell is at the center of the channel.

  • Page 57: Cell Illumination

    Operation Principles Cell Illumination Figure 3.2 Laser Beam Shaping 1. Violet laser beams 4. Horizontal beam shaping lens 2. Blue laser beam 5. Vertical beam shaping lens 3. Red laser beam Cell Illumination As cells in the sample stream go through the sensing area of the flow cell, the elliptical laser beam illuminates them.

  • Page 58: Light Collection, Separation And Measurement

    Processing, the signals are processed to measure the characteristics of the cells that scattered the light. The forward scatter detection in the Navios flow cytometer is designed to optimize the detector for your desired particle-size sensitivity. The Navios FS detector uses three software controlled settings chosen for optimal versatility of a wide range of particle size characterization.

  • Page 59: Fluorescent Light

    Operation Principles Light Collection, Separation And Measurement Figure 3.3 Side Scatter Collection 1. Violet laser beam 3. Red laser beam 2. Blue laser beam 4. Side scatter collected through fiber optic cable mounted on the right side of flow cell Fluorescent Light Band pass and Long pass filters are used to transmit color bands.

  • Page 60: Signal Processing

    Operation Principles Signal Processing Figure 3.5 Two Laser 8 Color Filter Block Configuration 755 LP 660 BP 20 655 DC SP 620 BP 30 710 DC SP 525 BP 40 755 LP 550 DC SP 550 DC SP 655 DC SP 710 DC SP 595 DC SP 730 DC SP...

  • Page 61: Voltage Pulse Formation, Peak Signal

    Operation Principles Signal Processing • Part II of Figure 3.7 shows when the cell is in the center of the laser beam and the scattered light, and therefore, the pulse height, reaches a maximum. • Part III of Figure 3.7 shows when the cell leaves the laser beam and the scattered light decreases.

  • Page 62: Integral Signal

    Operation Principles Signal Processing Integral Signal Because the total fluorescence in all three cells is the same, but the distribution is different, the pulse can be integrated to produce an integral signal (see Figure 3.8). The height of the integral pulse is proportional to the total fluorescence and is obtained when the cell exits the laser beam.

  • Page 63: Time-Of-Flight Signal

    Operation Principles Signal Processing Time-Of-Flight Signal Time-of-Flight is the transit time of a cell or particle to traverse the laser beam. The pulse width of a peak pulse is measured and can be assigned to any peak signal. An application for Time-of-Flight is doublet discrimination.

  • Page 64: Signals Generated

    TOF is available in linear only. Protocols A Protocol is a collection of information about how the Cytometer and Navios software is set up. Protocols can be created for acquiring samples or analyzing stored data. It contains the following information: •...

  • Page 65: Special Panels

    Special Panels The cleanse panel utilizes two cleanse protocols (‘cleanse bleach.PRO’ and ‘cleanse di water.PRO) that you should use at the end of the working day or shift on your Navios flow cytometer. Automated Software Features Navios software contains the following automated software features.

  • Page 66: Ratio Parameter

    Operation Principles Parameters Figure 3.10 Time vs Fluorescence plot The minimum stop time is 10 seconds, the maximum stop time (maximum duration) is 1,200 seconds and the default stop time is 300 seconds (5 minutes). When you assign the TIME parameter to a plot axis, the divisions on the axis change accordingly. To find the time (in seconds) per channel in a one-parameter histogram, divide the stop time (in seconds) by 1,024 (0.001 second = 1.0 ms).

  • Page 67: Plot Display

    Operation Principles Plot Display Plot Display The results of sample analysis appear on the Workstation screen as graphs called plots. You assign the parameters to the plot axes. Plots can be displayed in black and white or color as: • Single-parameter histogram plot •...

  • Page 68: Regions

    Operation Principles Plot Display Regions To analyze data or gate plots, you must first create and assign regions to these tasks. You can create five different types of regions (see Regions Introduction). The region types are: • Linear • Rectangular •...

  • Page 69: Histogram Statistics

    Operation Principles Plot Display Histogram Statistics Linear Region Statistics For linear signals, statistics for histogram regions are calculated as follows: Number of events in region × total ---------------------------------------------------------------------------------------------------------- - Total number of events in the gated display Number of cells in region ×...

  • Page 70: Log-Log Mean Method

    The log offset cannot be zero since a log offset of zero is 10 (minus infinity), which is not possible to represent on paper or on screen. Navios software does not allow log offset values of less than 0.1. Numbers entered in the logarithmic offset are clamped at 0.1 if a number less than this is entered.
  • Page 71 Because of this problem, Navios software does not allow log offset values of less than 0.1. Numbers entered in the Logarithmic Offset edit window are clamped at 0.1 if a number less than 0.1 is entered.
  • Page 72 Operation Principles Plot Display 3-18 773232AH...

  • Page 73: Specifications

    CHAPTER 4 Specifications Sample Requirements Sample Requirements in the Running Samples chapter for details. Instrument Specifications And Characteristics Dimensions Component Height Width Depth Weight Computer 43.2 cm 20.3 cm 45.7 cm 12.3 kg (17 in.) (8 in.) (19 in.) (27 lb) Cytometer and MCL 60.5 cm 95.3cm...

  • Page 74: Cytometer

    Specifications Instrument Specifications And Characteristics Cytometer Flow Cell Sensing area: BioSense 150 μm x 460 rectangular channel with an integral lens, mounted with a vertical (upward) flow path. See Figure 3.1. Flow Rate Continuous pressure is applied to the sample tube. The amount of pressure depends on the flow rate you specify: •...

  • Page 75: Red Laser Beam Spot Size

    An elliptical spot 8.9 μm high by 70 μm wide. Laser Beam Separation The laser beams are 125 μm (±12.5 μm) apart. Optical Filters The filters used in the Navios system are dependant upon your system configuration. See Figure 3.4, Figure 3.5 Figure 3.6.

  • Page 76: Workstation Resolution

    Specifications Instrument Specifications And Characteristics Workstation resolution 1,048,576 channels Digital Sampling rate 40Mhz Digital Accuracy <5% error Workstation The descriptions below are minimum configurations. Computer Intel Pentium Core 2 Duo microprocessor and 4 GB of RAM. RAM (Random Access Memory) The amount of available RAM in the computer determines the maximum size of a listmode file.

  • Page 77: Interfaces

    Specifications Software Specifications Interfaces • Microsoft Windows Vista operating system. • Bidirectional asynchronous serial interfaces for communication with mainframe and personal computers. Input Devices • PS/2 optical Intellimouse • Full size PS/2 keyboard. Monitor Options • Minimum requirement - color LCD with a 22-in. flat screen. •...

  • Page 78: Flow-Count (Spt) Method

    Absolute Count (cells/μL) = Total White Blood Cell Count (cells/μL) x %Lymphocytes x %Positively Stained Cells of Interest ÷ 104 Absolute counts are obtained using the Report function of the Navios Software. For information on generating a report, refer to Printing Panel Reports or the Navios System Help.

  • Page 79: Parameters

    User defined protocols can be locked or unlocked by a System Administrator and password protected to prevent inadvertent modifications. The optional application software (e.g. Navios tetra) uses locked protocols that cannot be unlocked by a System Administrator . The following software screens are disabled when using locked protocols. You cannot make changes to the locked features on these screens.

  • Page 80: Default File Extensions

    Edit FCS Headers Default File Extensions The software has a variety of standard file extensions. Many of these file extensions are not necessary for Navios itself but are required for compatibility with other programs. Standard (default) files & file extensions *.LMD FCS listmode data file (includes ASCII header information and binary listmode data).

  • Page 81: Default Generic Panels And Protocols

    • 3rd decade - high end: ±30 • 4th decade - beginning or low end: ±100 • 4th decade - high end: ±300 Default Generic Panels and Protocols The following generic protocols are included with Navios software. Panel Name Protocol 773232AH...

  • Page 82: Fcs Header - Keyword Reference

    FCS 2.0 standard. The standard also calls for an optional ANALYSIS part. The data files generated by the Navios cytometer do not contain an ANALYSIS part and its offsets are left blank in the HEADER part. Each offset specified in the HEADER part is referred to the beginning of the HEADER part itself.

  • Page 83: Fcs 2.0 Keyword Information

    Start time (HH:MM:SS 24 hour clock ':' delimiters) $BYTEORD Little endian: “1,2'” $CELLS Cells name (from Workspace Preferences) $CYT Type of flow cytometer: Navios. $DATATYPE Single character defining base data type of binary data, I=integer. $DATE DD-MMM-YY $DFCiToj Compensation matrix. % of FLi to subtract from FLj. Where FLi and FLj refer to fluorescence detector numbers.
  • Page 84 Specifications Software Specifications Table 4.1 FCS 2.0 Keyword Information FCS 2.0 Keyword Key value $PnV Voltage of sensor associated with parameter n. $PROJ Project name (from Workspace Preferences) $RUNNUMBER (See $SMNO) System defined run number, that is, a number which is incremented each time the flow cytometer is used to acquire data.
  • Page 85 Specifications Software Specifications Table 4.1 FCS 2.0 Keyword Information FCS 2.0 Keyword Key value @PnDivider Specifies the channel of the parameter n prism divider. Only present when the prism dividers are specified in the software. @PnGAIN Amplifier Gain setting of a sensor associated with parameter n. @PnQ Sensor name for parameter n, from the Cytometer Control screen.

  • Page 86: Acquisition Protocol Section

    The HEADER segment contains the offsets to the beginning and end of the other segments as specified by the FCS 3.0 standard. The standard also calls for an optional ANALYSIS segment. The data files generated by the Navios cytometers do not contain an ANALYSIS segment and its offsets 4-14...

  • Page 87: Fcs 3.0 Keyword Information

    Specifications Software Specifications are 0 in the HEADER segment. Each offset specified in the HEADER segment is referred to the beginning of the HEADER segment itself. TEXT Segment The TEXT segment contains a set of keyword - keyword value combinations delimited by the “/” character.
  • Page 88 Specifications Software Specifications Table 4.2 FCS 3.0 Keyword Information FCS 3.0 Keyword Key Value $PnB Number of bits allocated to store data for parameter n: 32 = 20 bit data per parameter plus 12 bits of padding. $PnE Lin/Log parameter calibration. This value is always “0,0” and it means linear. $PnN Name of parameter n, for example: Manufacturer assigned name, that is: SS-A, FL2-H, FL3-W.

  • Page 89: Database Structure

    FS Peak, FS Int, FS TOF, SS Peak, SS Int, SS TOF, FL1 Peak, FL1 Int, FL1 TOF, FL2 Peak, …, FL9 TOF, FL10 Peak, FL10 Int, FL10 TOF, TIME Database Structure The information in this section specifies the read-only access to Navios software for 3rd party LIS vendors. The information in this section includes, •...
  • Page 90 Specifications Software Specifications 4-18 773232AH...
  • Page 91 Specifications Software Specifications Navigate to C:\Program Files\Microsoft SQL Server\MSSQL.1\MSSQL\BINN and double click on sqlservr and close the Control Panel windows. 4-19 773232AH...

  • Page 92: Database Login

    Specifications Software Specifications Database Login For read-only access to the database you will need the following, • username cr600crown • password Feb33d1n7 Report Generator Database Schema This section lists the tables contained in the Report Generator database, and details the fields within each table.

  • Page 93: Cytorun Table

    Specifications Software Specifications Table 4.4 cytoinfo Table Column Name Data Type Length Allow Nulls transfer prot_eq varchar do_percent do_count do_opt1 do_opt2 do_result Table 4.5 cytorun Table Column Name Data Type Length Allow Nulls instance first_run nvarchar last_run nvarchar first_lmd nvarchar last_lmd nvarchar cyto_serial_run...
  • Page 94 Specifications Software Specifications Table 4.5 cytorun Table Column Name Data Type Length Allow Nulls birth smalldatetime nvarchar nvarchar specimen_type tinyint physician nvarchar hemo_instrument nvarchar hemo_datetime smalldatetime lymphs decimal 4, 2 monos decimal 4, 2 decimal 4, 2 decimal 4, 2 decimal 4, 2 platelets...

  • Page 95: Cytosamples Table

    Specifications Software Specifications Table 4.6 cytosamples Table Column Name Data Type Length Allow Nulls specimen_type tinyint sname nvarchar sortorder Table 4.7 cytospecimen Table Column Name Data Type Length Allow Nulls specimen_id nvarchar patient_id nvarchar lname nvarchar fname nvarchar nvarchar birth smalldatetime nvarchar nvarchar...

  • Page 96: Cytotemplate Table

    Specifications Software Specifications Table 4.7 cytospecimen Table Column Name Data Type Length Allow Nulls lock_user_id nvarchar lock_cyto_serial_nu nvarchar lock_datetime smalldatetime Table 4.8 cytotemplate Table Column Name Data Type Length Allow Nulls panel_name nvarchar cyto_serial_num nvarchar panel_path nvarchar si_units nvarchar count_method nvarchar auto_print nvarchar...

  • Page 97: Installationid Table

    Specifications Software Specifications Table 4.10 cytotemplate_line Table Column Name Data Type Length Allow Nulls panel_name nvarchar cyto_serial_num nvarchar panel_path nvarchar line_num smallint description nvarchar prot_eq nvarchar panel_idx smallint region nvarchar gate_type nvarchar lo_percent decimal 7, 3 hi_percent decimal 7, 3 lo_count decimal 11, 3...

  • Page 98: Instrument_Directories Table

    Specifications Software Specifications Table 4.13 instrument_directories Table Column Name Data Type Length Allow Nulls cytometer nvarchar user_id nvarchar subject nvarchar directory nvarchar Table 4.14 instrument_flags Table Column Name Data Type Length Allow Nulls Table_Name varchar Updated varchar when_updated datetime Table 4.15 instrument_installation Table Column Name Data Type Length...

  • Page 99: Qc_Base Table,

    Specifications Software Specifications Table 4.19 qc_base Table Column Name Data Type Length Allow Nulls qc_instance qc_date datetime qc_time varchar qc_cytometer varchar qc_settings_file varchar qc_seconds qc_application varchar qc_protocol varchar FL1_FL2 float FL1_FL3 float FL1_FL4 float FL1_FL5 float FL1_FL6 float FL1_FL7 float FL1_FL8 float FL1_FL9...
  • Page 100 Specifications Software Specifications Table 4.19 qc_base Table Column Name Data Type Length Allow Nulls FL4_FL1 float FL4_FL2 float FL4_FL3 float FL4_FL5 float FL4_FL6 float FL4_FL7 float FL4_FL8 float FL4_FL9 float FL4_FL10 float FL5_FL1 float FL5_FL2 float FL5_FL3 float FL5_FL4 float FL5_FL6 float FL5_FL7...

  • Page 101: Qc_Comment Table

    Specifications Software Specifications Table 4.19 qc_base Table Column Name Data Type Length Allow Nulls FL7_FL10 float FL8_FL1 float FL8_FL2 float FL8_FL3 float FL8_FL4 float FL8_FL5 float FL8_FL6 float FL8_FL7 float FL8_FL9 float FL8_FL10 float FL9_FL1 float FL9_FL2 float FL9_FL3 float FL9_FL4 float FL9_FL5...

  • Page 102: Qc_Instance Table

    Specifications Software Specifications Table 4.21 qc_data Table Column Name Data Type Length Allow Nulls qc_instance qc_seconds qc_region varchar qc_parameter varchar qc_hpcv float qc_cv float qc_mean float qc_median float qc_count float qc_abs_count float qc_volts float qc_gain float qc_percent_pos float qc_reference char qc_user_id varchar qc_inc...

  • Page 103: Qc_Mainttype Table

    Specifications Software Specifications Table 4.24 qc_mainttype Table Column Name Data Type Length Allow Nulls mn_cytometer nvarchar mn_color nvarchar mn_user nvarchar Table 4.25 qc_products Table Column Name Data Type Length Allow Nulls qc_code qc_product_deleted qc_type char qc_product varchar qc_part_no varcahr qc_lot_no varchar qc_assay qc_expiration...

  • Page 104: Settingstable,

    Specifications Software Specifications Table 4.27 qc_template Table Column Name Data Type Length Allow Nulls qc_plot_percent_mean float qc_plot_num_sd float qc_plot_mean_selection int qc_plot_limit_selection qc_plot_protocol varchar qc_plot_product varchar qc_code qc_plot_parameter varchar qc_plot_statistic varchar qc_plot_region varchar qc_user_id varchar qc_instrument varchar qc_application varchar qc_user_label varchar qc_xy Table 4.28 SettingsTable Column Name...

  • Page 105: Performance Characteristics And Specifications

    1%. Acquisition Rate The Navios was verified to analyze at least 200,000 events from FS, SS, FITC, PE, ECD, PC5.5, PC7, and APC parameters with event rates from 1384 to 40822 events per second. Electronic pulses were counted from the beads passing through the aperture as measured by discriminator events.

  • Page 106: Scatter Resolution

    Thermo Scientific. The noise was set to the bottom of the scale, using FS HV = 700, Gain at 200, Discriminator at 47 and setting the Forward Scatter detector to the Wide2 setting. The Navios was able to clearly show baseline resolution between the noise and the 0.404 μm diameter particles.

  • Page 107: System Overview

    Navios Intended Use And System Description Intended Use The Navios is a flow cytometer intended for the qualitative and quantitative measurement of biological and physical properties of cells and other particles to generate multiparametric results for In Vitro Diagnostic use.

  • Page 108: Cytometer Controls And Indicators

    System Overview Cytometer Controls And Indicators Cytometer Controls And Indicators Navios Flow Cytometer 1. Cytometer 3. Signal Amplitude Indicator 2. MCL 4. Level Sense and Flow Indicators 773232AH...

  • Page 109: Cytometer Indicator Panel

    System Overview Cytometer Controls And Indicators Cytometer Indicator Panel 1. Level Sense and Flow Indicators FLOW CLEANSE 2. Signal Amplitude Indicators STATUS WASTE SHEATH 773232AH...

  • Page 110: Signal Amplitude Indicators

    System Overview Cytometer Controls And Indicators Signal Amplitude Indicators NOTE When both log and linear parameters are selected for the same sensor, the amplitude display defaults to the log signal. 1. Blue indicates the signals from the 488 laser. FLOW CLEANSE FS, SS, FL1, FL2, FL3, FL4 and FL5 2.

  • Page 111: Level Sense Indicators

    System Overview Cytometer Controls And Indicators Level Sense Indicators CLEANSE (red when low) FLOW CLEANSE WASTE (red when full) SHEATH (red when low) STATUS WASTE SHEATH MCL (Multi-tube Carousel Loader) Workstation 773232AH...

  • Page 112: Supply Cart

    System Overview Microsoft Windows Desktop Supply Cart Printer (Optional) Operating instructions from the Printer manufacturer are included with the Printer. Microsoft Windows Desktop Windows Administrator Password Be sure to maintain your Windows Administrator password in a secure location. If you lose or forget the Windows Administrator password, you must reimage your hard drive, causing the loss of all data.

  • Page 113: Learning The Basic Operating Techniques

    MCL Carousels The Navios Flow Cytometry System starter kit has: • Two carousels, each with 32 tube positions. • A sheet of bar-code labels, numbered 01 to 99, for you to use to identify the carousels.

  • Page 114: Putting A Bar-Code Label On A Sample Tube

    System Overview Learning The Basic Operating Techniques CAUTION Sample misidentification can occur from the use of incorrect, poor quality, damaged, dirty or improperly placed bar-code labels. Follow the Bar-code Specifications to create your bar-code labels to prevent incorrect sample identification. Bar-code label incorrectly placed on sample tubes could cause misidentified tubes.

  • Page 115: Putting Sample Tubes In A Carousel

    • Do not skip tube positions within a panel. The Navios flow cytometer does not skip a protocol in a panel when a carousel tube position is empty. If you lose a sample, delete that protocol from the panel using the Acquisition Manager.
  • Page 116 System Overview Learning The Basic Operating Techniques Pick up the carousel. Line up the carousel with its turntable, and then push down. The carousel is in home position when the handle points toward the back. Close the MCL cover. 5-10 773232AH...

  • Page 117: Removing A Carousel From The Mcl

    System Overview Learning The Basic Operating Techniques Removing a Carousel from the MCL Open the MCL cover. Remove the carousel. 5-11 773232AH...

  • Page 118: Navios Software Shortcuts

    System Overview Navios Software Shortcuts Close the MCL cover. Navios Software Shortcuts Navios software uses several standard Windows techniques for providing shortcuts to functions. Keyboard Shortcuts Drag And Drop Toolbar Buttons Keyboard Shortcuts Where means hold down and press Ctrl+X...

  • Page 119: Drag And Drop

    Drag And Drop Dragging and dropping is a shortcut method of opening, moving and deleting files or other objects. Within Navios software the Drag and Drop technique can be used for several functions, with some operations can be held down to modify the default behavior.

  • Page 120: Toolbar Buttons

    Toolbar display is available. Toolbars can be moved using the Drag and Drop method with the mouse around the Navios software desktop or customized to suit the preferences of each user. See, Toolbars - Customize Toolbars.

  • Page 121: Creating Protocols

    System Overview Creating Protocols Creating Protocols File > New > New Protocol. Parameters button on the Cytometer Control Acquisition Setup Tab. Choose the Parameters to be acquired and NOTE Including TIME as a selected parameter in all protocols allows for an internal quality check on the data acquisition.

  • Page 122: Creating Regions

    System Overview Creating Regions Enter the sample information into the correct position in the Acquisition Manager Worklist. See Acquisition Manager to modify the Acquisition Manager display. Set the listmode file name options from the Workspace Preferences - LMD File Name tab.

  • Page 123: Create Rectangular Regions

    System Overview Creating Regions A Polygonal Region cursor is displayed on screen. Place the cursor at the point where you want the Region to begin. Click and release the mouse button, to fix the point (a start box is displayed on screen). Continue in this manner until the desired number of points has been chosen.

  • Page 124: Create Quadrant Regions

    System Overview Creating Regions Highlight a dual parameter plot. A Rectangular Region cursor appears in the highlighted plot. Position the cursor to the point where you want the Region to begin. Click and release the mouse button. A Rectangular Region start box is displayed on screen. By moving the mouse you can increase and decrease the size of the Rectangular Region.

  • Page 125: Repositioning A Quadrant Region

    Move the regions to the required position, if needed, then to set this position. Navios software shows the Quadrant's name in each of its four Regions. When drawing a Region, if you decide that it is not the one you want, press before the Region is completed.

  • Page 126: Create Linear Regions

    System Overview Creating Regions After repositioning FlexQuad dividers. See also: Interactive Quadrant Region Editing Create Linear Regions This option requires two points to be set giving an upper and lower channel boundary for every Region. Highlight a single parameter histogram. A Linear Region cursor appears in the current window.

  • Page 127: Create Multiple Linear Regions

    System Overview Creating Gates See also: Interactive Linear Region Editing Status Bar (Linear) X Coordinate Integral Create Multiple Linear Regions Highlight a single parameter histogram and A Parallel cursor appears in the current window. Position the cursor on the chosen plot to the point where you want the Region to begin. Click, two vertical lines with a horizontal bar is displayed.
  • Page 128 System Overview Creating Gates on the population to AutoGate. To specify the AutoGate Sensitivity and Travel, the region. 5-22 773232AH...
  • Page 129 System Overview Creating Gates b. Click the right mouse button on the region and Region Properties c. Specify the AutoGating Sensitivity Contour Travel, if necessary, and Right mouse click on the plot you want to assign the AutoGate to and select Format to display the Plot Properties dialog.

  • Page 130: Convert A Polygonal Region To An Autogate Region

    System Overview Creating Gates Apply gate to all plots Repeat steps to assign the AutoGate to other plots or NOTE If you select Apply gate to all plots you must go back to the plot that contains the AutoGate and unassign the AutoGate from the plot.

  • Page 131: Creating Flowpages

    Below is a typical example of a FlowPAGE. This is a screen view only. A full printed page outputs at a much higher resolution. See also: FlowPAGE Menu in the Using Navios Software chapter. to create a blank FlowPAGE. to insert picture.

  • Page 132: Delete Flowpages

    System Overview Creating Flowpages Insert a FlowPAGE LMD Compensation Grid. Click the right mouse button on any object on the FlowPAGE to select additional formatting options. Delete FlowPAGES in the upper left corner of the FlowPAGE window to be deleted and Close NOTE FlowPAGES in a...

  • Page 133: Creating Panels

    System Overview Creating Panels Creating Panels The Panel Wizard allows you to create a Panel for use in the Acquisition Manager. CAUTION When editing and saving a panel, any worklist containing the edited panel must be recreated. If the worklist is not re-created, the panel in the worklist may not match the newer version of the panel.
  • Page 134 System Overview Creating Panels Choose your Protocol Settings. Use Plots and Gates from Previous Test Use Plots and Gates from Protocol Use Instrument Settings Choose your Region Settings. Use Regions from Protocol Carry Regions from Previous Protocol Use Regions from This Protocol: Choose your Instrument Settings.

  • Page 135: Use Plots And Gates From Previous Test

    System Overview Creating Panels Repeat steps through for each test. Use Plots and Gates from Previous Test Allows you to use Gates and Plots from a previous Test but is not active for the first Test within a Panel. This option is not available if Use plots and gates from protocol is chosen.

  • Page 136: Use Instrument Settings From External File

    Applications or Autosetup protocols are run. • Modifications to a multi-tube panel may impact any associated panel templates or worklists. Beckman Coulter recommends that all templates and worklists containing a panel that has been modified be validated before use. CAUTION When editing and saving or deleting a protocol or panel, any worklist containing the edited or deleted protocol or panel must be recreated.

  • Page 137: Worklist Panel

    System Overview Verifying A Worklist After all the information has been added, you can use Drag And Drop to change the order. Worklist Panel Select which panel you wish to open and After all the information has been added, you can use Drag And Drop to change the order.

  • Page 138: Using The System Help

    System Overview Using The System Help Using The System Help Your Navios system provides System Help that allows you to search for information on specific Contents, Index, and Search system-related topics through the options. The Help system is an electronic version of the Instructions For Use Manual. It includes a table of contents, an index for finding information quickly, and a glossary of definitions.
  • Page 139 System Overview Using The System Help Information about the Help window and instructions for using help are displayed in the navigation pane. 1. Toolbar 3. Topic Pane 2. Navigation Bar 4. Navigation Pane 5-33 773232AH...
  • Page 140 System Overview Using The System Help 5-34 773232AH...

  • Page 141: Daily Routine

    Shutdown and restart the system computer once per day to allow the virus protection program to run. See Power the Computer and Cytometer OFF Power the Computer and Cytometer ON. Do not start a full disk virus scan while running Navios software. Daily Startup Perform the following steps to start up the system. •...

  • Page 142: Check Waste And Reagent Levels

    Daily Routine Daily Startup Check Waste and Reagent Levels Empty the waste container and verify tubing is connected to the cap. Check the sheath fluid level and Replace The 10 L External Sheath Fluid Container container if necessary. 773232AH...

  • Page 143: Power The Computer And Cytometer On

    Daily Routine Daily Startup Check the cleaning agent fill level fill the cleaning agent container if necessary. Power the Computer and Cytometer ON Turning On Power Turn on the system at the computer. 773232AH...

  • Page 144: Logging Onto Windows Software

    2. Enter your Password and NOTE If your computer is part of a network, you may need to enter the User name and Password assigned by your network manager. Logging Onto Navios Software to start the software and power up the Cytometer. 773232AH...
  • Page 145 Daily Routine Daily Startup Allow about 40 minutes to warm up the system before performing QC or running samples. Do not start a full disk virus scan while running Navios software. At the Navios Cytometer Startup Wizard [Page 1 of 2] screen: a.

  • Page 146: Additional Start Up Checks

    • Shutdown and restart the system computer once per day to allow the virus protection program to run. See Power the Computer and Cytometer OFF Power the Computer and Cytometer ON. Do not start a full disk virus scan while running Navios software. Before Performing Shut Down Perform the Routine Cleaning Procedure.

  • Page 147: Power The Computer And Cytometer Off

    Daily Routine Daily Shutdown Power the Computer and Cytometer OFF Check if the instrument is currently displaying the Idle mode: • If yes, the message Press Idle Mode button to initialize appears at the bottom of the screen. Go to step 2. •...

  • Page 148: After Instrument Shut Down

    Daily Routine Extended Shutdown After Instrument Shut Down WARNING Risk of chemical injury from bleach. To avoid contact with the bleach, use barrier protection, including protective eyeware, gloves, and suitable laboratory attire. Refer to the Safety Data sheet for details about chemical exposure before using the chemical.
  • Page 149 Daily Routine Extended Shutdown Disconnect the support collar from the external sheath fluid container. CAUTION Misleading results could occur if you contaminate the sheath fluid. Be careful not to contaminate the sheath fluid. Do not let your fingers, paper towels, or other objects touch the pickup tube assembly.
  • Page 150 Daily Routine Extended Shutdown Remove the internal sheath fluid and cleaning agent containers. Rinse the inside of both containers with water. 6-10 773232AH...
  • Page 151 Daily Routine Extended Shutdown Pour 1 L of distilled water into the internal sheath fluid container. Do NOT fill this container. A partially filled container triggers water to be pumped from the external container of distilled water into the lines during this procedure. Fill the cleaning agent container with distilled water.

  • Page 152: Cytometer Auto Startup

    Cytometer Auto Startup You can set up the system to automatically Startup or Shutdown the Cytometer. The computer must be on with Windows running to allow Auto Startup to run. > > All Programs > Navios > Cytometer Tasks 6-12 773232AH...
  • Page 153 Daily Routine Cytometer Auto Startup > > and/or Set the desired Startup and/or Shutdown time. Apply the settings as desired. > 6-13 773232AH...
  • Page 154 Daily Routine Cytometer Auto Startup 6-14 773232AH...

  • Page 155: Quality Control

    CHAPTER 7 Quality Control Introduction Perform the following quality control checks to ensure that your system is working accurately and precisely. The protocols needed for these quality control (QC) procedures are included with your system Software. In addition to doing the daily quality control procedure in this chapter, you should make a quality control check for the specific applications you are running.

  • Page 156: Discrimination Parameter

    Quality Control QC Processes Discrimination Parameter The various parameters produce differences in signals ranging from robust to weak signals which in turn affect the amount of noise in the baseline. The discriminator is applied to the parameter of your choice, based on your application. Discriminator Value A threshold value is applied to the selected parameter signal to control the amount of background that is measured.

  • Page 157: Daily Qc

    Quality Control Daily QC QC Process QC Material Used Verify fluidics and laser Flow-Check Pro Fluorospheres. Verify HPCV versus expected value. Export alignment results to the QC Database and review the QC data. Adjust high voltage and Flow-Set Pro Fluorospheres. Ascertain target mean position based upon gain for a given application application and adjust high voltage and gain daily to that target.

  • Page 158: Autosetup Scheduler

    Quality Control Autosetup Scheduler Prepare AutoSetup compensation tubes for each fluorochrome in the application you need to run. Stain with appropriate single color reagents in each fluorochrome. Prepare an AutoSetup verification tube. a. Use the appropriate amount of Immuno-Trol Cells or Immuno-Trol Low Cells according to the instructions on the package insert or reconstitute the Cyto-trol Control Cells according to the instructions on the package insert.
  • Page 159 Quality Control Autosetup Scheduler Tools > AutoSetup Scheduler. the applications you want to schedule for a given day or shift. If you want to schedule an application that does not appear in the list, use the Application Definition Wizard to define the application. NOTE Using the descriptor QC in front of any protocol name appends the results of multiple Flow-Check Pro runs to a single spreadsheet.
  • Page 160 Quality Control Autosetup Scheduler to print the Carousel Load Report. NOTE If absolute counts are required, and use the Acquisition Manager to enter the Factor. Place tubes in the carousel in the order shown on the Carousel Load Report. If you entered a CAL Factor in step 4 above, on the Cytometer Toolbar to run AutoSetup II.

  • Page 161: Wizard

    Quality Control Autosetup II Wizard Autosetup II Wizard AutoSetup II simplifies and automates application setup and QC monitoring for multiple applications simultaneously. You can perform a QC setup for all of your multicolor applications that you run during a single day or shift at the same time using the Application Definition Wizard AutoSetup Scheduler.
  • Page 162 Quality Control Autosetup II Wizard on the Carousel Load Report screen in the AutoSetup Scheduler. ALIGNMENT APPLICATIONS After data acquisition for the Alignment Application starts, view all histograms to ensure peaks fall within regions. Setup Mode on the Cytometer Control Acquisition Setup Tab.
  • Page 163 Quality Control Autosetup II Wizard e. If the HPCVs pass, on the Autosetup Wizard or to continue with Additional scheduled QC applications. If the HPCVs are not within the upper limits identified in the protocol's region name, you may need to after performing one or more of the following troubleshooting steps: 1) Ensure the Flow Rate is LOW...

  • Page 164: Wizard

    Quality Control Autosetup II Wizard The Wizard adjusts Volts and Gains to place the Flow-Set Pro fluorospheres within the regions. The Wizard dialog box displays a list of the parameters remaining to be adjusted. If the Wizard cannot adjust peaks to the regions within 60 seconds, AutoSetup aborts and the parameters that failed are listed.
  • Page 165 Quality Control Autosetup II Wizard This process is repeated for each of the compensation tubes (for example: FL2, FL3, FL4, and FL5). Verification samples are run to ensure the calculated coefficients are satisfactory for the samples and antibodies you are using in your tests. NOTE If multiple applications are scheduled together, samples common to the applications are processed in tandem without dropping the tube.
  • Page 166 Quality Control Autosetup II Wizard to print verification tube results and advance to the approve screen. CAUTION Cytosettings may not be saved if you clear the worklist prior to selecting Finish and Approve in the AutoSetup II Wizard. Do not clear the worklist before Finish is selected on the AutoSetup II Wizard and the desired Approve Instrument Settings option in Step 5 has been selected.

  • Page 167: Application Definition Wizard

    Quality Control Application Definition Wizard Review QC Results in the QC Database. Application Definition Wizard Use the Application Definition Wizard to define your applications and save the definitions for use by the AutoSetup Scheduler. The application definition captures the instrument setup, lasers, parameters, fluorochromes, target channels, verification and alignment requirements of a particular application.
  • Page 168 Quality Control Application Definition Wizard one of the following options: Application available only to current user Application available to all users (common). one of the following options: Create a new application definition Modify an existing application definition and then 7-14 773232AH...
  • Page 169 Quality Control Application Definition Wizard and select the protocol to use as the base protocol for the application. The Protocol Summary displays a description of the parameters and laser setup for the selected protocol. NOTE The Compensation Parameters in the Base Protocol must be in the first 16 Parameters selected. 7-15 773232AH...
  • Page 170 Quality Control Application Definition Wizard the filter block to use for the application and NOTE An alignment application does not require a Filter Block selected. Alignment applications must have the appropriate laser selection made. See Cytometer Control Parameter Setup. NOTE The software displays a filter configuration in the Application Definition Wizard that does not represent the default filter configuration.
  • Page 171 Quality Control Application Definition Wizard the dyes you use for each fluorescence detector and Select a QC product and enter a target channel for Forward Scatter, Side Scatter and each fluorescence detector. • Refer to Target Value Entry Description for more information. 7-17 773232AH...
  • Page 172 Quality Control Application Definition Wizard Enter names for the application and the instrument settings file and • Using the nomenclature "AS" as a prefix for the application name will cause the Application Definition Wizard to create the applications' protocols with "AS" as a part of the protocol name.
  • Page 173 Quality Control Application Definition Wizard Choose to have the wizard create a verification protocol or add a saved verification protocol or panel. Use the buttons to add, remove and reorder multiple verification protocols. NOTE Any panels used for Quality Control must be constructed with unique individual protocols. A summary report is displayed for the application you just defined.

  • Page 174: Target Value Entry Description

    Quality Control Application Definition Wizard to print the summary report and to exit the wizard. Target Value Entry Description Target regions in the Flow-Set (*_STAND) protocol are created by the Application Definition Wizard using the target channels entered by the user. The width of the Target Region is based on default values identified in the Default AutoSetup Protocols and Panels.

  • Page 175: Laser Selection

    Quality Control Application Definition Wizard Laser Selection The Laser Selection page is only displayed for Alignment Applications and replaces the Filter Block Selection page. You can select which combination of lasers the Alignment Application is to process. Only Laser Selection combinations appropriate to the current instrument hardware configuration will be enabled.

  • Page 176: Products

    Quality Control Application Definition Wizard Refer to the package insert and enter information about the QC Product in the appropriate fields. Exporting Region Results To QC Database and Assigning QC Products on a region to make it active. Right mouse click on the region and Region Properties Region Statistics exported Ensure that...

  • Page 177: Review Qc Results

    Quality Control Application Definition Wizard save the protocol. Review QC Results on the Report Generator toolbar to display the QC Levey Jennings screen. next to Application and to select an application. Template > Select Template 7-23 773232AH...
  • Page 178 Quality Control Application Definition Wizard the desired template and Repeat steps to view other QC data plots. QC Levey Jennings Screen for information about creating and editing QC plots. 7-24 773232AH...

  • Page 179: Running Samples

    CHAPTER 8 Running Samples Sample Requirements At least 0.5 mL of prepared sample is needed. It must be in a 12 x 75-mm test tube. Samples analyzed on the instrument must be in a single-cell suspension. Typically, cells are prepared before they are analyzed.

  • Page 180: Running Samples - Mcl Automatic Mode

    Running Samples Running Samples - MCL Automatic Mode CAUTION Risk of erroneous results if the Cytometer has been idle for an extended period of time or you have just performed Daily Startup. To ensure correct results, perform a prime after: •...
  • Page 181 Running Samples Running Samples - MCL Automatic Mode CAUTION When editing and saving a protocol or panel, any worklist containing the edited protocol or panel must be recreated. If the worklist is not re-created, the protocol or panel in the worklist may not match the newer version of the protocol or panel. CAUTION Possible flow cell damage.
  • Page 182 Running Samples Running Samples - MCL Automatic Mode WARNING Risk of injury. Do not open the MCL cover while the MCL is moving. To avoid injury, wait until the MCL stops moving before opening the MCL cover. Open the MCL cover and place the carousel on the MCL. Close the MCL cover.
  • Page 183 Running Samples Running Samples - MCL Automatic Mode Use the Acquisition Manager Toolbar Drag And Drop to select the Worklist, Panel or Protocol you want to use. NOTE If you load a Panel or Worklist that contains a deleted Protocol, the software prompts you to use New Panel Wizard to correct the problem.

  • Page 184: Running Samples - Mcl Manual Mode

    Running Samples Running Samples - MCL Manual Mode CAUTION Risk of reporting incorrect results. Data displays for light scatter patterns, antibody staining profiles, and all gates and boundaries used to arrive at the test result should be reviewed by a laboratory professional when interpreting the data.
  • Page 185 Running Samples Running Samples - MCL Manual Mode CAUTION Possible flow cell damage. To avoid clogging the sample probe, sample tubing or flow cell, ensure that 12 x 75 mm test tubes are free of debris before you use them. Prepare samples according to the reagent package insert.
  • Page 186 Running Samples Running Samples - MCL Manual Mode WARNING Risk of injury. Do not open the MCL cover while the MCL is moving. To avoid injury, wait until the MCL stops moving before opening the MCL cover. Open the MCL cover and place the carousel on the MCL.
  • Page 187 Running Samples Running Samples - MCL Manual Mode Use the Acquisition Manager Toolbar Drag And Drop to select the Worklist, Panel or Protocol you want to use. NOTE If you load a Panel or Worklist that contains a deleted Protocol, the software prompts you to use New Panel Wizard to correct the problem.
  • Page 188 Running Samples Running Samples - MCL Manual Mode Observe the Events/Sec counter on the Status Bar to monitor data acquisition. NOTE While running a Worklist, if the Tube ID in the Worklist does not match the bar code on the tube, a system message appears.

  • Page 189: Running Samples - Single Tube Mode

    Running Samples Running Samples - Single Tube Mode CAUTION Risk of reporting incorrect results. Data displays for light scatter patterns, antibody staining profiles, and all gates and boundaries used to arrive at the test result should be reviewed by a laboratory professional when interpreting the data.
  • Page 190 Running Samples Running Samples - Single Tube Mode Use the Acquisition Manager Toolbar Drag And Drop to select the Worklist, Panel or Protocol you want to use. NOTE If you load a Panel that contains a deleted Protocol, the software prompts you to use the Panel Wizard to correct the problem.
  • Page 191 Running Samples Running Samples - Single Tube Mode Close the MCL Tube Access door and to begin processing samples. During the sample cycle the following series of Cytometer status messages appears: Awaiting Sample Preparing Sample Acquiring Stopping. Observe the Events/Sec counter on the Status Bar to monitor data acquisition.
  • Page 192 Running Samples Running Samples - Single Tube Mode CAUTION Risk of reporting incorrect results. Data displays for light scatter patterns, antibody staining profiles, and all gates and boundaries used to arrive at the test result should be reviewed by a laboratory professional when interpreting the data.

  • Page 193: Data Review

    Running Samples Data Review Data Review Review Data Displays CAUTION There is a risk of reporting incorrect results. Data displays used to arrive at the test result for light scatter patterns, antibody staining profiles, and all gates and boundaries should be reviewed by a lab­oratory professional when interpreting the data.
  • Page 194 Running Samples Data Review 8-16 773232AH...

  • Page 195: How To

    • AutoSetup II Wizard • Application Definition Wizard (define all your applications) • AutoSetup Scheduler (multiple application AutoSetup) These procedures are in the Using Navios Software chapter. • Batch AutoMATOR • Advanced Color Precedence • Listmode Compensation • Setting a CAL Region...

  • Page 196: Hardware Procedures

    How To... Hardware Procedures Hardware Procedures For system help, click on the links below to: • Clean the MCL sample head and the sample probe - procedure. • Replace the sample probe and sample pickup tubing - procedure. • Replace the MCL sample head - procedure •...

  • Page 197: Using Navios Software

    Welcome To Navios Software This exciting new software, designed in response to customer feedback, is simpler, faster and more reliable, allowing you to obtain the best from your Cytometer. Navios Software can analyze a wide variety of listmode files. Multi-user Sign On Overview...
  • Page 198 Admin Button Next Button Displayed are the User IDs of all those who have access rights to Navios software and whether they are logged in to the system or not. If you have been previously set up on the system, highlight your User ID and enter your Password.

  • Page 199: User Id

    Password. See User Administration. is for administrative functions only. You cannot log in to Navios software with the admin button. User ID This lists all the Users that are allowed access to the system. User IDs are a minimum of 3 characters and a maximum of 24 characters.

  • Page 200: Connect

    Initializes connection to the Cytometer. If all steps in the connection process are successful, the Navios software is launched. Work Offline Launches the Navios software without connecting to the Cytometer. The software is configured according to the last instrument configuration to which the workstation was connected. Sign-on Administration...

  • Page 201: System Administrator Screen

    Using Navios Software Sign-on Administration System Administrator Screen Add User Delete User Modify User Workgroups Export Log User Account Control System Configuration Report Generator Database Utilities Add User Use this button to add a new user. See User Profile – User...

  • Page 202: Modify User

    Using Navios Software Sign-on Administration Modify User Use this button to modify an existing user. See User Profile – User Workgroups Selecting the Workgroup option allows the Administrator to set up various Workgroups of your choice depending upon your requirements. Choose any names to suit your requirements and then enable the checkbox next to the names of users you wish to add to the Workgroup.

  • Page 203: Delete

    Using Navios Software Sign-on Administration Delete to add a new Workgroup to the system. Type the new Workgroup name in the Text Edit box and Delete Highlight the appropriate Workgroup from the list displayed and to delete a particular Workgroup from the system. To edit the name of a particular Workgroup, first delete the Workgroup and then add it as a “new”...
  • Page 204 Using Navios Software Sign-on Administration Log in as Admin. Cytometer Startup Page b. Select a User ID from the pull down list. c. Enter the password for that user. d. Enter the Admin Password. Enter the date range for the log and...
  • Page 205 Using Navios Software Sign-on Administration Select the users to include in the log and Choose to direct the information to the Clipboard or to a File . If File is selected, you can either enter a valid File Name in the box or use to select an appropriate file.

  • Page 206: User Account Control

    — Letters & Numbers — Upper & Lower Case — Special Characters If a network user is unable to log into Navios software, use the DESkey Configuration (Start > Control Panel) utility to check for duplicates of the user log in.

  • Page 207: Destination

    Using Navios Software Sign-on Administration Destination The default destination is your user directory in the Navios installation folder. You can change it via the browse button. You can not type into the edit box. Comment The comment is optional. The comment is saved in a text file associated with the database Backup files.

  • Page 208: Archive Qc Data

    Using Navios Software Sign-on Administration 00:00:00 on the date six days before the current date. These values give a default range of seven whole days, which includes the current day. Clicking the Date fields allows you to specify the Dates using the Date Selection control.

  • Page 209: User Profile - User Id

    Using Navios Software Sign-on Administration While Restoration is in progress, a warning message is displayed to indicate that Restoration may take some time and that you should not exit the software until the Restoration is complete User Profile – User ID...

  • Page 210: Last Name

    Using Navios Software Sign-on Administration Last Name Accepts a minimum of 1 and a maximum of 100 characters. All printable characters are allowed. Leading and trailing spaces are removed. Title Accepts a minimum of 1 and a maximum of 500 characters. All printable characters are allowed.

  • Page 211: Overwrite Other Data Files

    Using Navios Software Sign-on Administration Overwrite other data files? If the checkbox is enabled, the User is allowed to overwrite their other files (protocols, panels, Worklists, and so on). If Access other files is enabled, enabling this checkbox allows overwriting any other User’s files.

  • Page 212: Browsing Buttons

    Shows the Home Directory Path that applies to that User. Path Details Shows the paths to the destination directories for the different File types within Navios software. Backup Shows the path to the Backup or directory for data (listmode) files. If a Backup path is specified for the current user in the User Profile dialog - Paths tab, the Back-up User Data is launched when the user logs out or exits the software.

  • Page 213: User To Back Up

    Using Navios Software File Options Toolbar User to Back Up Directories list Overwrite existing backup files Move local HST files to the recycle bin Move local LMD files to the recycle bin User to Back Up A read only field displaying the User ID of the user that will be backed up.

  • Page 214: Plot Options Toolbar

    Using Navios Software Plot Options Toolbar Open Open Listmode Data File Open the dialog box. Save Save all the FCS listmode data files that are currently open. Save Protocol Save the Protocol with the current name. If the Protocol has not yet...

  • Page 215: Regions Options Toolbar

    Region that is no longer required. Publish Results Publish Statistics to a Microsoft Excel spreadsheet or a Text file. Select Results Choose Statistics for display and export. Help Access the Help System. Beckman Coulter Go to the Beckman Coulter, Inc. web site. 10-19 773232AH...

  • Page 216: Flowpage Toolbar

    Using Navios Software Flowpage Toolbar Flowpage Toolbar New FlowPAGE Open a New FlowPAGE – Also see Insert/Blank FlowPAGE. Insert bitmap Insert a Picture into a FlowPAGE. Annotation Add a Text Box to a FlowPAGE. Line Draw a Line on a FlowPAGE to enhance the graphical layout of the page.

  • Page 217: Acquisition Manager Toolbar

    Using Navios Software Acquisition Manager Toolbar Acquisition Manager Toolbar New Worklist Clear the Acquisition Manager panel to create a new Worklist. File Open Open a selected stored Worklist file into Acquisition Manager Save Worklist Save the current Worklist with a user definable name.

  • Page 218: Cytometer Toolbar

    Using Navios Software Cytometer Toolbar AutoMATOR Setup Display the AutoMATOR Setup dialog box. Once all alterations have been made, . The toolbar becomes active once all files have been entered. A list of files for each panel is shown allowing you to choose the batch required to run first.

  • Page 219: Listmode Playback Toolbar

    Using Navios Software Listmode Playback Toolbar Pause / Rotate Pause Acquisition and rotate sample to the tube access door. Stop the Acquisition of the current sample and output Stop Acquisition ( results. Abort Acquisition ( Stop the Acquisition without saving data or outputting reports.

  • Page 220: Report Generator Toolbar

    Using Navios Software Report Generator Toolbar Sort the Worklist Minimize the Listmode Playback window Load Playback Worklist Save Playback Worklist Load Listmode Queue Save Listmode Queue Report Generator Toolbar Quality Control Display Levey-Jennings plots based on information selected in the Report QC Template and data located in the QC tables.

  • Page 221: File Menu

    Using Navios Software File Menu File Menu New Protocol New Panel New Worklist Open Listmode File Save Listmode File As Save Histogram File As Save All FCS Format Files Open Protocol Save Protocol Save Protocol As Lock Protocol Unlock Protocol...

  • Page 222: Creating A New Acquisition Protocol

    Using Navios Software File Menu If the File Name already exists, a warning box is displayed. • If you wish to replace the existing Protocol, • Selecting the option here allows you to enter a different Protocol File Name. Clicking closes the existing Protocol file and clears the workspace.
  • Page 223 Using Navios Software File Menu File > Save Protocol Save… when data presentation is satisfactory and to update the protocol with the new instrument settings. Creating a Protocol for Analysis File > New > New Protocol to clear the Workspace of all Regions, gates, statistical definitions, and plots and load the default protocol.

  • Page 224: New Panel

    Open Listmode File menu item or by using Drag and Drop. The parameters in both the protocol > and the listmode file must match in order to open a listmode file into a locked protocol. Only Navios listmode files can be opened into a locked protocol.

  • Page 225: Using The File Menu

    Using Navios Software File Menu Using the File Menu File > Open Listmode File Select the desired listmode file. a directory in the Look in: list box. Files of the type of file in the type: list box. the name of the listmode file you want to view.

  • Page 226: Save Listmode File As

    Listmode Compensation must be performed using the runtime protocol or a protocol with equivalent parameters as the runtime protocol. When loading listmode files from a different instrument This is not an Navios file appears. Select Continue to load the file.

  • Page 227: File Name

    File text box. File name In the text box, type in the desired File Name. Navios software creates a file with the name specified and stores it in the drive and folder you specified in FCS histogram format. 10-31 773232AH...

  • Page 228: Save All Fcs Format Files

    Using Navios Software File Menu Save All FCS Format Files This option saves the current listmode file to disk and saves any histograms marked for saving. Highlight the required plot. NOTE The individual Histogram’s Plot Properties must be set to save.

  • Page 229: Open Protocol

    Using Navios Software File Menu Open Protocol Use this option to open a protocol file from disk. File > Open Protocol The Open Protocol File dialog box appears. the file you wish to open from the Folders list box. NOTE Double clicking with the mouse on the file name closes the dialog box and opens the file.

  • Page 230: Lock Protocol

    File Name. Navios software gives the default file extension *.PRO. The *.PRO extension is only a suggested extension, any standard DOS characters can be used for the full File Name. You are urged to keep the extension consistent for easy file searches.

  • Page 231: Save Listmode Compensation As

    View FCS Header File > View FCS Header Information to view the FCS header information on the current file. FCS Keywords Used in Navios Software FCS Header - Keyword Reference. 10-35 773232AH...

  • Page 232: Edit Fcs Header Attributes

    Using Navios Software File Menu Edit FCS Header Attributes Use this option to edit the FCS header information, including calibration information prior to starting acquisition. You can change the displayed name of Parameters or change the scaling options. Axis calibration information can be entered here. This information is embedded in the listmode file.

  • Page 233: Import

    Listmode Compensation As option to be imported into the current protocol. File > Import > Settings from CMP File. the appropriate file and The compensation settings from the stored file are then read into the current Navios software protocol. 10-37 773232AH...

  • Page 234: Print

    Using Navios Software File Menu Print You can print plots and statistics in a variety of ways. NOTE Menu. Do not use File Print and select the PDF > To print to PDF use the Print to PDF option on the File driver from the Print name on the Print dialog box.

  • Page 235: Print To Pdf

    During installation a NaviosPDF printer driver is added to the Windows Printers folder. This driver is used for the “Print To PDF” options only. If you require additional functionality to create PDF reports, you need to use a full version of Adobe Acrobat software. This additional software is not included with Navios Software.

  • Page 236: Workspace Preferences - Lmd File Name

    Using Navios Software File Menu Workspace Preferences - Gating Workspace Preferences - Publish Workspace Preferences - Plot Display Workspace Preferences - LMD File Name Workspace Preferences - User Info Workspace Preferences - Acquisition Options Workspace Preferences - LMD File Name This tab allows you to specify a compound listmode file name, including components such as the date and the time that the sample was run as well as sample ID fields.

  • Page 237: Characters

    Using Navios Software File Menu First 10 characters..Sample ID 1, 2, 3, 4 User ID Tube ID Automatically add unique..Run Number Y2K Date Time Tag Number File Name Extension PDF File Name Extension NOTE If more than one Listmode File Name...

  • Page 238: User Id

    Using Navios Software File Menu User ID When checked, this includes the User ID as part of the listmode file name. Tube ID When checked, this includes the Tube ID as part of the listmode file name. Automatically add unique..

  • Page 239: File Name Extension

    Replace the current listmode file name extension with .PDF. This option should only be used when LMD is being used as the listmode file name extension. Workspace Preferences - Acquisition Options Sets the default Acquisition Options for Navios software during Acquisition, allowing automatic Saving, Printing and Exporting of Data. Output Options...

  • Page 240: Output Options

    Using Navios Software File Menu See also: Workspace Preferences Workspace Preferences - LMD File Name Workspace Preferences - User Info Workspace Preferences - Plot Display Workspace Preferences - Gating Workspace Preferences - Publish Output Options The Output actions occur automatically at the completion of the acquisition of each sample tube.

  • Page 241: Cytometer Control Translucency

    Using Navios Software File Menu Cytometer Control Translucency Use this slider to fade the Cytometer Controls dialog so it appears translucent. Workspace Preferences - User Info This option allows defined information and sample/project information to be stored as part of the FCS header in listmode files.

  • Page 242: Institute

    Using Navios Software File Menu Institute Institute Street Institute Town Sample Source Project Cell Type Experiment Cytometer Serial Number Currently logged on user See also: Workspace Preferences Workspace Preferences - LMD File Name Workspace Preferences - Acquisition Options Workspace Preferences - Plot Display...

  • Page 243: Cell Type

    Using Navios Software File Menu Cell Type This labels the sample with the specific cell type being analyzed in that sample. Experiment The name of the experiment being conducted is entered into this section. Cytometer Serial Number The serial number from the specific Cytometer being used is displayed here and recorded in the listmode file, as more than one Cytometer may be utilized in the same experiment.

  • Page 244: Show % In Region On Plots

    Using Navios Software File Menu Show % in Region on Plots When the show % in region option is selected, the percentage of events in a particular region is automatically displayed on new plots. For new plots all regions created will display the % gated value of that region.

  • Page 245: Baseline Offset

    Using Navios Software File Menu Baseline Offset CAUTION Risk of erroneous results. The Baseline Offset function should only be used after first viewing data with the baseline offset function turned off (unchecked). You must be satisfied that the overall results of any assay are not significantly affected by turning baseline offset on.

  • Page 246: Workspace Preferences - Gating

    Using Navios Software File Menu Workspace Preferences - Gating Automatic Gate Creation Automatic Gate Maintenance Automatic Color Precedence Dot Plot Coloring Mode AutoGating Sensitivity Elliptical Sensitivity Contour Sensitivity Contour Travel AutoGating Failure Pause on Error Abort On Error Ignore Errors...

  • Page 247: Dot Plot Coloring Mode

    Using Navios Software File Menu Dot Plot Coloring Mode This alternates Color Dot plot mode between Color Blend and Color Precedence modes: • Color Blend Mode • Color Precedence Mode (default) AutoGating Sensitivity Select the sensitivity of the AutoGate region drawn.

  • Page 248: Live Gate Warnings Options

    Using Navios Software File Menu Live Gate Warnings Options Notifies that the protocol uses a Live Gate. Only one of the following radio buttons can be selected at any one time. Show Warnings radio button Display Live Gate warning messages.

  • Page 249: Publish Data To Text File

    Enable this checkbox to publish data to an ASCI text file with a file extension of .TXT. The text file starts with the name of the application: Navios Cytometer and the date in the format Day, Month date, year time (Day, Month DD, YYYY HH:MM:SS).

  • Page 250: Log Out

    Using Navios Software Edit Menu Log Out Allows a particular user to Log Out of Navios software so that another person can Sign-On. This menu item is disabled during acquisition, including between tubes processing. Exit This option closes down the Navios software and returns you to your Windows Desktop.

  • Page 251: Copy

    Edit > Copy To Copy Statistics, Regions or Plot Images onto the Windows Clipboard, This allows for Pasting these items into other areas of Navios software or to other Windows Applications such as MS PowerPoint, Word, Excel, and so on.

  • Page 252: Paste Special

    Using Navios Software View Menu Release the mouse button to paste the Regions onto the Plot or the Plot Image plus the Statistics onto a FlowPAGE. NOTE If you use Ctrl to Drag and Drop, you get the Plot Image but not the Statistics.

  • Page 253: Acquisition Manager

    Using Navios Software View Menu Acquisition Manager The Acquisition Manager is used to create a Worklist for the Cytometer. It may also be used to create or modify existing panels. Sample and Test information may be entered here, this data is stored as part of the FCS listmode file.

  • Page 254: Float In Main Window

    Using Navios Software View Menu Float in Main Window Checking this item floats the manager in the Main application window only; un-checking it allows it to float anywhere on the desktop. If Float in Main Window is checked, double clicking the Acquisition Manager title bar maximizes it.

  • Page 255: Worklists

    Using Navios Software View Menu To remove tests, delete the entire row from the Worklist. To change any other panel information, such as how instrument settings are loaded, use the appropriate columns. When the changes are complete, to save the panel.

  • Page 256: Acquisition Manager - Panel

    Using Navios Software View Menu LMD Filename Stop Condition and Value P1 - P32 Acquisition Manager - Panel CAUTION Risk of erroneous quality control statistics. Panels containing QC regions must be constructed from individual unique protocols. Do not use a panel constructed from one protocol (with different parameter names) for QC database purposes.

  • Page 257: Acquisition Manager - Region Sources

    Using Navios Software View Menu Load the plots, and gates from the protocol, this is the default option. Pass the plots, and gates through from the previous acquisition. The “Pass Plots” option is not available for auto-setup applications. NOTE Passing Plots is effectively passing the protocol to the next line in Acquisition Manager. If the panel has different protocols in place and Pass Plots is selected, the entire protocol will be passed to the next tube in the panel.

  • Page 258: Acquisition Manager - Cytosettings

    Using Navios Software View Menu Acquisition Manager - Cytosettings Cytosettings – three-state toggle displayed as icons or bitmaps. These states being: Loads the instrument cytosettings from the protocol, Passes the instrument cytosettings through from the previous acquisition. NOTE When using the Instrument Settings column of the Aquisition...

  • Page 259: Acquisition Manager - Tube Id

    Tube ID does not match the bar-code label on the sample tube. If no Tube ID is entered, but a bar-code label is present on the sample tube and run on the Navios, the bar code is read and the Tube ID field is updated with this information.

  • Page 260: Acquisition Manager - Sample Id

    Using Navios Software View Menu Acquisition Manager - Sample ID Sample IDs – Up to four Sample ID fields may be displayed. Any required information can be entered into these fields. Sample ID1 is the same for all tubes of a panel. Sample ID's 2-4 can be edited for any tube of the panel.

  • Page 261: Acquisition Manager - Stop Condition And Stop Value

    The Resource Explorer occupies a definable area within the Workspace. It allows you to browse files, and can be used to Drag and Drop items into Navios software. Protocols, Panels and Worklists can be dragged from the Resource Explorer and dropped into an Acquisition Manager Worklist.

  • Page 262: Toolbars - Customize Toolbars

    View Menu If you are a member of a particular Workgroup, all the user folders within that Workgroup are visible. The Support tab provides a link to the Beckman Coulter web site. Toolbars - Customize Toolbars This allows you to select the style and which Toolbars are displayed.

  • Page 263: Large Buttons

    Using Navios Software View Menu Large Buttons Changes the Icon buttons to a Large size. New... Displays a dialog box to enter your customized name of your new Toolbar. Reset Resets the Toolbar to the default values. Toolbars - Customize Commands Tab This allows you to customize the Toolbars by dragging the button to the desired position within any Toolbar.

  • Page 264: Zoom

    Using Navios Software View Menu Zoom The following option allows you to zoom in on a FlowPAGE plot to 50%, 75% 100%, 200%, and To Fit. Select the desired view. Selecting 100% returns to the default size. Customize Worklist Columns Use the Customize Worklist Columns dialog box to add, remove, or edit Worklist Columns displayed.

  • Page 265: Deleting A Worklist Row

    Carousel Overflow A Navios Flow Cytometer carousel can hold a maximum of 32 tubes. Creating a worklist with more than 32 tubes in one carousel generates a carousel overflow message. to jump to the point in the worklist where a new carousel number must be added.

  • Page 266: Blank Flowpage

    Using Navios Software Insert Menu Blank FlowPAGE To open a new blank FlowPAGE, NOTE • The page displayed in the FlowPAGE is the same aspect ratio and paper orientation as used in the default Printer. • The page scaling can be changed at any time after a FlowPAGE is created.

  • Page 267: Flowpage From File

    Using Navios Software Insert Menu FlowPAGE from File When a FlowPAGE has been created, (including all the departmental logos, addresses, plots, statistics and comment boxes), the whole FlowPAGE can be saved and retrieved. NOTE If the retrieved FlowPAGE contains plots or objects not present in the current protocols, they will display as blanks or red crosses.

  • Page 268: Flowpage Plot

    Using Navios Software Insert Menu FlowPAGE Plot Insert Plot To insert plots currently displayed on the desktop into FlowPAGE. Insert > FlowPAGE Plot a plot in the list. . The plot is placed in the upper left corner of the FlowPAGE.

  • Page 269: Flowpage Statistics Table

    Insert Menu FlowPAGE Statistics Table This option is used to insert statistics into FlowPAGE. Insert > FlowPAGE Statistics Table From the list of plots currently open in Navios software, the one containing the statistics you wish to insert. or press to exit the dialog box without accepting the changes.

  • Page 270: Other Flowpage Object

    Using Navios Software Insert Menu Insert > FlowPAGE Textbox . An insert text cursor is displayed. Move the cursor to the place for the textbox and Type the required text and NOTE To preserve the integrity of the header and footer information, any text boxes placed with in the FlowPAGE header or footer space will not persist.

  • Page 271: Inserting A Line

    Using Navios Software Insert Menu and hold down the left mouse button while you drag to size the rectangle. outside the rectangle to anchor it. See also: Inserting a Line Inserting a Picture Inserting a Text File Inserting a Line FlowPAGE >...

  • Page 272: Inserting A Text File

    Using Navios Software Insert Menu Select the desired bitmap file. the desired directory in the Look in: list box. Files of the type of file in the type: list box. the name of the bitmap file you want to insert.
  • Page 273 Using Navios Software Insert Menu Select the desired text file. Look in: the desired directory in the list box. the type of file in the Files of type: list box. the name of the text file you want to insert.

  • Page 274: Tools Menu

    Using Navios Software Tools Menu Tools Menu Publish Results Now Open Excel Workbook Open PDF Open Text File AutoMATOR Listmode Playback AutoSetup Application Definition AutoSetup Scheduler Custom Dye Entries Publish Results Now Statistics are displayed under plots in resizable columns and can be exported to Microsoft Excel or ASCII text (.txt) file format.

  • Page 275: Open Excel Workbook

    Displays the Open XLS dialog which allows your to select an Excel workbook from the Windows file system. The dialog will default to your User Results directory. NOTE An error may display if a workbook is opened manually by a user and subsequently Navios attempts to open the same workbook. Open PDF Displays the Open PDF File dialog which allows you to select a PDF file from the Windows file system.

  • Page 276: Automator Setup

    Using Navios Software Tools Menu AutoMATOR Setup to display the set of files last used. If these files are not required, highlight them and Remove Files. Reordering Files Add Files Remove Files Add Blank Load Queue Save Queue Print Restore Analysis Files on Startup...
  • Page 277 Using Navios Software Tools Menu Open . The files are listed in the AutoMATOR Setup dialog box. to accept changes. does not apply any of the changes made. NOTE To select all the files, press Ctrl+A Status Icon: Pause The Auto Pause function pauses the run of tests pauses and then carries on with the rest of the panel automatically after a 15-second wait.

  • Page 278: Reordering Files

    Using Navios Software Tools Menu Reordering Files Once all files are listed, they can be arranged in File Name or Date and Time order by clicking on the relevant column title. Rearrange files by Dragging and Dropping them. on the relevant file so that it is highlighted.

  • Page 279: Save Queue

    Using Navios Software Tools Menu Save Queue Displays a save dialog box to save the queue to a file. The files are saved in the LMD subdirectory under the file extension ALQ. Print Print a listing of the files in the queue.

  • Page 280: Listmode Playback

    Using Navios Software Tools Menu Click on the Close button featured on the Status Bar while the AutoMATOR is running. This hides the bar from view. It automatically reappears again the next time the AutoMATOR is run. The Status Bar cannot be brought back onto the screen once closed down without reopening AutoMATOR.

  • Page 281: List Comp Setup

    Using Navios Software Tools Menu This mode allows for single file or panel based listmode file playback, similar to acquisition of samples. A single panel may be selected; multiple copies of this panel may be run at a time. Tubes may be added or removed from individual panels.

  • Page 282: Options Tab

    Using Navios Software Tools Menu Panels can be created within this dialog, but cannot be used for acquisition. These listmode panels are saved with a *.ppp extension. NOTE The Save button becomes active when one of the rows in the panel is highlighted.

  • Page 283: Autosetup Application Definition

    Using Navios Software Tools Menu Show File Path checkbox allows the full file path for each file. AutoSetup Application Definition CAUTION Risk of erroneous quality control statistics. Panels containing QC regions must be constructed from individual unique protocols. Do not use a panel constructed from one protocol (with different parameter names) for QC database purposes.

  • Page 284: Custom Dye Entries

    Acquisition Stop and Save Format Plot Plots - Introduction Navios software can display six Plot types including the FCS Information plot and the Legend for Color Gated Plots. When a Plot is displayed, click the right mouse button to display further menu options.

  • Page 285: Duplicate Plot

    Using Navios Software Plots Menu Legend FCS Information Duplicate Plot This option creates an exact duplicate of the currently selected Plot. may be used as a keyboard shortcut for the same function. Ctrl+D Color Dot Plot The Color Dot Plot option provides two-parameter displays of data and allows any combination of the parameters to be selected.

  • Page 286: Copy Plot Image

    Using Navios Software Plots Menu When a Plot is displayed, click the right mouse button within the plot to display further menu options. Copy Plot Image Copy Plot Data Format Plot Copy Plot Image Copies the current plot image into memory for pasting into other applications. See...

  • Page 287: And Y Parameter

    Using Navios Software Plots Menu File Read-only field of file currently populating the plot. Gate Available Gates are listed. Gates required for Advance Precedence should be selected at this point. Modify Color Precedence. X and Y Parameter Select the required parameter for display from those available in the list.

  • Page 288: No. Of Events To Show

    Using Navios Software Plots Menu See also: Workspace Preferences - Plot Display Dot Plot Data Source Font No. of Events to Show No. of Events to Show Place the cursor on the Slide bar and move to change the Apply to All Plots No.

  • Page 289: Show Plot Title On Output

    Using Navios Software Plots Menu Show Plot Title on Output Show Axis Tick Marks Show Axis Labels X and Y Axis Labels NOTE You cannot make any changes on this screen when running a locked protocol. Show Plot Title on Output Unchecking this option prevents the plot title from appearing when the plot is printed or exported.

  • Page 290: Histogram Plot

    Using Navios Software Plots Menu Histogram Plot Single parameter histograms show the frequency distribution of the chosen parameter. All histograms can be customized, that is, Colors, Gate for histogram, Scaling, and so on. To create a Histogram Plot: From the Data Source dialog box displayed, select the required File, then select desired Gates, Parameter and Regions for display.

  • Page 291: Histogram Plot Data Source

    Using Navios Software Plots Menu Histogram Plot Data Source Choose the parameter and gate for the current plot. Gating equation and regions to be displayed can be selected. File Gate Selection Parameter Apply % on plot to all plots Show % on plot...

  • Page 292: Freeze Frame

    Histogram Freeze Frame Navios software allows the display of up to three Histograms on each single parameter Histogram. The base Histogram is the one that relates to the current listmode file and the other two can be overlays from any other compatible file.

  • Page 293: Create A Histogram Freeze Frame

    Using Navios Software Plots Menu Create a Histogram Freeze Frame In order for Freeze Frame to work in Acquisition, ensure that pass protocol is set up in the Acquisition Manager. Read in a file or acquire data to be assigned as an overlay (for example: a negative control).

  • Page 294: Histogram Scaling

    Clear the appropriate Overlay Histogram checkbox to delete an overlay. or press to accept any changes. Enter or press to exit the dialog box without saving the changes. Navios software then updates the display. Histogram Scaling Clip Channels Automatic Maximum Value Set Maximum NOTE...

  • Page 295: Set Maximum

    Using Navios Software Plots Menu Set Maximum If the Automatic Maximum Value button is cleared, then any value entered here is the full scale for the histogram. Histogram Labeling Use the options here to override the default plot display options for the current plot. This is useful when capturing images for publication.

  • Page 296: Density Plot Data Source

    Using Navios Software Plots Menu Density Plot Data Source Density Level Configuration Density Plot Resolution Density Plot Labeling Stop and Save (acquisition only) NOTE You cannot make any changes on this screen when running a locked protocol. When a Plot is displayed, click the right mouse button to display further menu options.

  • Page 297: Density Level Configuration

    Using Navios Software Plots Menu File Gate Selection X and Y Parameter Apply Gate to All Plots Apply % on plot to all plots Show % on plot NOTE You cannot make any changes on this screen when running a locked protocol.

  • Page 298: Maximum Density Level

    Using Navios Software Plots Menu Continue as above until all desired changes have been made. to accept all changes. or press to exit the dialog box without saving the changes. Automatic Maximum Threshold This option allows automatic configuration of the maximum value that is used to calculate the Density Color Levels.

  • Page 299: Density Plot Resolution

    Using Navios Software Plots Menu Density Plot Resolution Set the number of channels for the X and Y Axis of the Plot. The available options allow for 64, 128, 256 and 512 channels to be displayed on the axis. A higher resolution gives an improved graphic image whereas a lower resolution allows faster redrawing of that image.

  • Page 300: Data Source (Prism)

    Using Navios Software Plots Menu An empty Prism plot window is displayed with the Data Source dialog box overlaying it. Make the desired changes. Data Source (Prism) Format Plot The plot type with the current Gate is displayed in the plot window. Ungated is the default.

  • Page 301: How Is Prism Created

    Using Navios Software Plots Menu How is Prism Created? In single parameter analysis of surface marker data, one or two regions are normally set to measure both Negative and Positive cells. We can then look at a second parameter and calculate the 2 phenotypes from parameter-1 positive populations and the two phenotypes from parameter-1 negative populations (four phenotypes in total).

  • Page 302: Dual Parameter Prism

    Using Navios Software Plots Menu Dual Parameter Prism Dual parameter prism dividers are set by placing a Dual-parameter plot in focus and selecting This simultaneously creates two prism dividers. The combinations of dividers are combined to produce 2 regions Where p is the number of prism dividers set.

  • Page 303: Editing Prism Dividers

    Prism divider you want to delete. Press Delete Navios Software - Prism Compatibility The Navios software Prism plot can interpret the Prism parameter derived from: • RXP/CXP data acquisition • EXPO data acquisition • EXPO 32 data acquisition • Elite or ALTRA data acquisition or •...

  • Page 304: Legend

    Every time the population names or colors are edited Navios software updates the Legend Window. If Navios software is in Dot Plot Mode-Color Blend mode, Legend displays the names, colors and associated statistics of the color Gate combinations. If Navios software is in Dot Plot Mode-Color Precedence mode, Legend displays the names, colors and associated statistics of the Gates with the highest precedence at the top.

  • Page 305: Data Source (Legend)

    Using Navios Software Plots Menu Data Source (Legend) Choose the File Gate to be used for the Legend plot. File Gate NOTE You cannot make any changes on this screen when running a locked protocol. See also: Legend Data Source (Legend)

  • Page 306: Absolute Count

    Using Navios Software Plots Menu % Gated Total number of events in region, as a percentage of events in a gated display. % Total Total number of events in region as a percentage of total events in the file. Number Total number of events in a Region.

  • Page 307: Info Plot Data Source

    Using Navios Software Plots Menu Info Plot Data Source Displays the name of the file that is the data source for the Info Plot. Info Plot - FCS Tab Show FCS Keyword – Enable this checkbox to display the FCS Keyword as well as the associated keyword value.

  • Page 308: Setting A Stop Counter

    Using Navios Software Plots Menu In normal blood, where lymphocytes account for about 30% of the white cell count, we have no problem with the above setup. We can predict with a normal sample that the total count from a 5,000 cell lymphocyte count is around 5,000 x 100/30 or 16,666 events total.

  • Page 309: Maximum Events

    Using Navios Software Plots Menu Use Stop Condition Maximum Events and enter To enable an FCS Histogram to be saved from this plot, check the Save Histogram Data in FCS Format checkbox. NOTE The actual histogram save action is automatically performed if the Save Histogram checkbox is...

  • Page 310: Format Plot

    Using Navios Software Analysis Menu Format Plot To display the Plot Properties dialog box, click the right mouse button on the plot and Format options differ depending on the Plot type. Select a formatting option from the table below to view detailed information about the format options available for the different types of plots.

  • Page 311: Create / Modify Gates

    Using Navios Software Analysis Menu Create / Modify Gates Use the Gating function to define populations of interest either for plot display or for sorting. NOTE You cannot make any changes on this screen when running a locked protocol. Gate and Logical Expression...

  • Page 312: Delete

    Using Navios Software Analysis Menu Delete Delete button erases any selected gates highlighted in the Create/Modify Gates dialog box. Operands The Operands function allows you to insert a combination of regions into the gating equation using the Operands buttons. Once a Region has been entered next to the new file name, the Operands have to be utilized to enable a new combination of cells to be viewed.

  • Page 313: Boolean Gating

    The same principles can also be applied to the Ungated Events Color option. Boolean Gating Navios software implements Boolean gating. Up to eight regions can be combined to form a gate. A gate is used to select a specific subpopulation of data.

  • Page 314: Gate Logic

    Using Navios Software Analysis Menu Gate Logic The shaded areas show the following logical combinations of regions. Events which are in both regions A AND region B. This is written as A AND B. Events that are in region A OR in region B. This is written as A OR B.

  • Page 315: Color Blend Mode - Introduction

    Color Blend Mode - Introduction Navios software allows the use of combinations of Gates to determine the color of dots in a dot plot. The key concept behind this process is similar to color printing and depends upon the use of colored...

  • Page 316: Modify Color Blend

    Using Navios Software Analysis Menu combinations of Gates to define a unique subpopulation. Each Gate (up to three) is given a color and the logical gate combinations give rise to populations with blended colors. Consider three gates: Gate A, set on FL1 positive cells; Gate B, set on FL2 positive cells; Gate C, set on FL3 positive cells.

  • Page 317: Gate Names

    Using Navios Software Analysis Menu Make the desired changes. Gate Names Blend Color Enable Name Logic Color Create Gate NOTE You cannot make any changes on this screen when running a locked protocol. or press to accept the changes. Enter or press to exit the dialog box without saving the changes.

  • Page 318: Blend Color

    Using Navios Software Analysis Menu Blend Color Displays the color to be associated with the selected Gate logic. Name Allows a user-defined name for the selected combination. Color Allows you to modify the predefined colors. Logic Displays the full coloring Gate logic for the selected population.

  • Page 319: Advanced Precedence

    Using Navios Software Analysis Menu the required gate so as to highlight the gate name ONLY. NOTE You cannot make any changes on this screen when running a locked protocol. to move Gates into the required order of precedence. Those with the highest precedence are at the top of the list.

  • Page 320: Regions Introduction

    Using Navios Software Analysis Menu Regions Introduction A Region identifies a specific population of cells. Up to 256 regions (total) can be set on any combination of Parameters, 32 of these are usable as Gates. Regions are drawn on a Single Parameter Histogram by setting the position of an upper and lower boundary (Region markers).

  • Page 321: Polygonal Region Properties

    Using Navios Software Analysis Menu Polygonal Region Properties Region Name Prime Automatic Region Name Positioning Region statistics exported for QC QC Product None Elliptical Contour Sensitivity Travel Minimum Count Linked Region NOTE You cannot make any changes on this screen when...
  • Page 322 Using Navios Software Analysis Menu If the Region Properties dialog for any of the quadrants is opened via right click in Protocol explorer or double clicking the name in the View / Modify regions dialog, then changing a QC product for a quadrant is only applied to this quadrant.

  • Page 323: Minimum Count

    Region. When the Region is deleted, any Gate or statistics that used the Region are also automatically deleted. When a Gate has been deleted, any plot that used the deleted gate is reset to Ungated. Navios software allows you to resize an already created Region.

  • Page 324: Rectangular Region Properties

    Gate. When the Region is deleted, any Gate or statistics that used the Region are also automatically deleted. When a Gate has been deleted, any plot, which used the deleted Gate, is reset to Ungated. Navios software allows resizing of previously created Regions.

  • Page 325: Quadrant Region Properties

    Gate or statistics that used the Region are also automatically deleted. When a Gate has been deleted, any plot, which used the deleted Gate, is reset to Ungated. Navios software allows you to reposition an already created Region.

  • Page 326: Linear Region Properties

    Gate. When the Region is deleted any Gate which used the Region is also automatically deleted. When a Gate has been deleted, any plot that used the deleted Gate is reset to Ungated. Navios software allows you to resize an already created Region. Status Bar (Linear) The status bar normally gives a brief description of selected menu items.

  • Page 327: Coordinate

    Using Navios Software Analysis Menu When drawing or modifying Regions the status bar divides into three areas of information. These update as a region is modified: • The status bar shows Channel for X parameter • The total integral count of the region •...

  • Page 328: Region Name

    Using Navios Software Analysis Menu Make the desired changes. See also: Region Name Region Points or press to accept the changes. Enter or press to exit the dialog box without saving the changes. See also: Deleting Regions Editing and Moving a Region Name...

  • Page 329: Resizing A Region

    Using Navios Software Analysis Menu X/Y coordinates of all the vertices. To display a Region's points (or bounds), click on the desired Region in the Regions list box. Resizing a Region If you want to enlarge or shrink a Region: the Region.

  • Page 330: Deleting Regions

    Using Navios Software Analysis Menu To edit the Region name, type in the desired changes, if any, click To move the Region Name, mouse over the region to get the cursor. If the region name has multiple characters, mouse over the first character to get the cursor.

  • Page 331: Using The Delete Button In The View / Modify Regions Dialog Box

    View / Modify Regions When you exit the dialog box, Navios software updates all the Windows. If a deleted Region was also specified in any statistics or Gates, then Navios software updates to reflect these changes. Re-Calculate All AutoGates Use this function to re-calculate multiple autogates in a protocol, rather than re-calculating them individually.

  • Page 332: Setting A New Dual Prism Divider

    Using Navios Software Analysis Menu See also: Setting a New Dual Prism Divider Editing a Dual Prism Divider Setting a New Dual Prism Divider Highlight the chosen dual parameter plot (current window). Analysis > Create Prism Divider > Dual Prism Divider A Dual Prism cursor is displayed in the current window.

  • Page 333: Single Prism Divider

    What is Prism? NOTE Navios software only allows one Prism divider per parameter. As a consequence modifying the Prism divider of any parameter on any plot automatically updates the divider of that parameter if it is displayed on any other plot. This includes both histogram and dual parameter plots.

  • Page 334: View/Modify Prism

    Using Navios Software Analysis Menu Editing a Single Prism Divider Editing an existing histogram plot with a set of single Prism dividers displayed essentially consists of creating a new single Prism dividers. When the second single Prism dividers are defined, the original is deleted.

  • Page 335: Select Results

    Select Results Navios software gives the flexibility of generating many different statistics and these are produced using combinations of Regions and Gates. A Gate is used to select events that may potentially be counted while Regions mark subpopulations and determine whether an event is actually counted.

  • Page 336: Statistic Type

    Navios software or obtained from sample information entered by the User. Desired items can be selected and exported during the publishing of an Excel Spreadsheet. The selected FCS information is only published and does not print with the plots within Navios software. When in Color...

  • Page 337: Total

    Using Navios Software Analysis Menu Number Total number of events in a Region. % Total Total number of events in region as a percentage of total events in the file. % Gated Total number of events in region, as a percentage of events in a gated display.

  • Page 338: Mode

    Using Navios Software Analysis Menu Mode The mode channel is the channel with the largest number of counts between region markers. Gate colors can be customized using the drop down color box and selecting the required color. Cells / μL This displays the absolute count of a population based on the calibration factor (CAL Factor) and the number of particles within a user defined CAL region.

  • Page 339: Log-Lin

    Using Navios Software Analysis Menu Log-Lin Selecting the Log-Lin mode calculates the mean values by determining the arithmetic mean of the raw ADC channels and then converting this to its relative linear channel equivalent. Automatic Statistic Percentiles This is the channel, which divides the events in a region by the percentile value. The default percentile is 50 (the median) but can be set to request any desired value.

  • Page 340: Override Runtime Cal Factor

    This option calculates the statistics for all files selected on the screen. Refresh View > Refresh Selecting , or pressing , causes Navios software to refresh the screen, all plots and FlowPAGEs. This option is useful when Windows fails to refresh the screen correctly leaving some graphical errors visible. 10-144 773232AH...

  • Page 341: Trueview Setup

    Using Navios Software Analysis Menu TrueView Setup TrueView is a patented tool which provides the ability to optimally view compensated data. Using TrueView, you can display all 1,048,576 channels of data acquisition as well as graphically display negative values in order to facilitate compensation.

  • Page 342: Set 1 - 5 Radio Buttons

    Using Navios Software Analysis Menu Set 1 - 5 radio buttons This group of radio buttons selects the required TrueView Transform. Only one Set can be selected at any one time. Set 1 - 5 affects the location of the Lin/Log threshold and the compression of the linear data range.

  • Page 343: Show Lmd Quickcomp Matrix

    Using Navios Software Flowpage Menu Show LMD QuickCOMP Matrix When you use the LMD QuickCOMP slider bars to change compensation settings, the new settings are displayed in the LMD QuickCOMP Matrix dialog box. You cannot use the LMD QuickCOMP Matrix to change a protocol’s compensation settings .

  • Page 344: Flowpage - Introduction

    Once a FlowPAGE is created, the contents of its plots and statistics windows are automatically updated to reflect new listmode data or configurations made in the Navios software analysis. All FlowPAGEs are saved with a Protocol, this retains the link between the Plots you display and how you want to format the output to the Printer.

  • Page 345: Select A Group Of Items Within Flowpage

    Using Navios Software Flowpage Menu Select a Group of Items Within FlowPAGE Click and hold the mouse button, selecting just outside the group of items required. Drag the cursor until the marquee (dotted outline) completely encompasses the items you want to select.
  • Page 346 Using Navios Software Flowpage Menu Copy Paste You can items that are selected. You can change the order of items that are selected. You can group and ungroup items that are selected. You can edit and change the alignment of text.
  • Page 347 Using Navios Software Flowpage Menu You can change how lines are displayed. You can change the fill properties of items that are selected. You can change the font properties of items that are selected. 10-151 773232AH...

  • Page 348: Edit Text

    Right mouse click on the textbox and Properties. Type in the new text. Change Plot Use Change Plot to change which Plot is displayed from those available on the Navios desktop. On the FlowPAGE, the Plot you want to replace. The edit handles appear. 10-152...

  • Page 349: Grow To Largest

    Using Navios Software Flowpage Menu FlowPAGE > Change Plot Select the plot you want to use. Grow to Largest Select the items to be changed. See Select a Group of Items Within FlowPAGE. . All items in the group grows to the size of the item which has the largest area.

  • Page 350: Align Left

    Using Navios Software Flowpage Menu button. All items in the group shrink to the size of the item which has the smallest area. Align Left Select the items to be aligned. See Select a Group of Items Within FlowPAGE. . All items are now aligned to the left of the last selected (grey handles) item.

  • Page 351: Space Evenly Across

    Using Navios Software Flowpage Menu . All items are now aligned to the bottom of the last selected (grey handles) item. Space Evenly Across Select the items to be changed. See Select a Group of Items Within FlowPAGE. . All items are now horizontally spaced equally.

  • Page 352: Do Not Show Plot Events

    Using Navios Software Flowpage Menu Specify the desired drive and folder by selecting them in the list boxes or by typing the path in the File text box. File name In the text box, type the desired File Name. FlowPAGE gives the default file extension *.PGE. The *.PGE extension is only a suggestion, any standard DOS characters can be used for the full file name.

  • Page 353: Cytometer Menu

    Using Navios Software Cytometer Menu Cytometer Menu Cytometer Control Status Page Cytometer Log Get Cytosettings from Protocol Get Cytosettings from LMD file Start Stop Pause Abort Restart Prime Cleanse Laser Control The Cytometer menu is concerned with online connection and control of the flow cytometer. The Cytometer Control menu option allows the Cytometer Control screens to be activated.

  • Page 354: Cytometer Control Acquisition Setup Tab

    Using Navios Software Cytometer Menu Cytometer Control Acquisition Setup Tab This screen is used to set the Acquisition Mode and Acquisition Limits. Additionally, the Discriminator values for the selected Parameters can be set. Label Discriminators Volts Details Setup Mode Dots...

  • Page 355: Volts

    Using Navios Software Cytometer Menu Discriminators Lists the currently selected parameter and allows the setting and modification of discriminator values. To change a value, select the discriminator you wish to alter and use the Slide Control on the right hand part of the display to change the value as appropriate.

  • Page 356: Quickcomp Mode

    Using Navios Software Cytometer Menu the Dots field to the number of Dots required. If a zero is entered, an error message displays showing range of 10 - 9999. The Dots value is stored in the Protocol QuickCOMP Mode QuickCOMP...

  • Page 357: Parameter Button

    Using Navios Software Cytometer Menu Parameter Button Selecting this displays the Setup Parameter Screen. Limits The Limits grid allows you to specifyAcquisition Limits for Acquisition Time, Elapsed Time, Maximum Events and Live Gate. Set Acquisition/Elapsed Time The 'Set Acquisition/Elapsed Time' dialog will allows you to set the required Acquisition and Elapsed times for the current protocol.

  • Page 358: Maximum Events

    Using Navios Software Cytometer Menu Cancel Pressing Cancel will close the dialog without updating the Acquisition or Elapsed Time settings in the Cytometer Control dialog. Maximum Events This is the maximum number of events, which may be acquired on the next Acquisition. To change this, enter the new number required in the input field.

  • Page 359: Cytometer Control Parameter Setup

    Using Navios Software Cytometer Menu Cytometer Control Parameter Setup This screen is used to select the Signals required in the protocol. The signals that are available are selectable by checking the options you require. NOTE If you add a parameter to an existing protocol, the Detector Names revert to the default names shown below.

  • Page 360: Collection Angle

    Using Navios Software Cytometer Menu Collection Angle Select the required Forward Scatter Collection Angle for the Protocol. The FS Angle icon will toggle between Wide angle (W), Enhanced Wide Angle (W2)and Narrow angle (N). ND Filter Activate or deactivate Neutral Density Filters on the Side Scatter Detector.

  • Page 361: Cytometer Log

    Using Navios Software Cytometer Menu Status Page displays the Cytometer settings currently in use and allows you to print these if required. Selecting the Print button displays the standard Windows Print dialog box. Printed status pages also contain the protocol filename, date, time and cytometer serial number.

  • Page 362: Get Cytosettings From Lmd File

    Using Navios Software Cytometer Menu Cytosettings from LMD file Get Cytosettings From LMD File option allows Cytometer Instrument Settings to be obtained from a listmode file. Choose and Open the required listmode file. Start The Start button initiates acquisition of the current sample.

  • Page 363: Abort The Tube

    Using Navios Software Cytometer Menu Abort the Tube? Abort the Panel? Abort the MCL / worklist? Repeat the Tube? Repeat the Panel? Abort the Tube? Stops acquisition, marks the current tube as aborted and the instrument proceeds to the next tube.

  • Page 364: Pause And Rotate

    Using Navios Software Cytometer Menu Pause and Rotate CAUTION Risk of sample misidentification. Sample misidentification can occur if you use the Pause and Rotate button and remove the sample tube and replace it with a different sample tube. To prevent sample misidentification, do not swap sample tubes when using Pause and Rotate button.

  • Page 365: Status Bar

    Using Navios Software Cytometer Menu You control the On/Standby state of the Red and Violet lasers by clicking on the appropriate icon. Additionally, if the Blue laser is in the Standby state, switch it on by clicking on the Blue laser icon.

  • Page 366: Number Of Events

    Using Navios Software Cytometer Menu When in Pause mode, the Acquisition time on the status bar does not continue to increment although the Elapsed time does continue to increment. The total Acquisition/Elapsed time can also be viewed from the FCS Keywords associated with the beginning time and end time of acquisition.

  • Page 367: And Y Coordinates

    Using Navios Software Window Menu X and Y Coordinates The X and Y channel values are the coordinates of the cursor position given by a scaling factor. This scaling factor depends upon whether the respective parameters are linear or logarithmic amplification and whether you have calibrated the parameters or not.
  • Page 368 Using Navios Software Window Menu File > Workspace Preferences > New plots are sized equally according to the default size setting in Plot Display. Plots may be ordered by File, Gate, or Parameter or any combination of these. At the start of each row, the Plot Type Icon is displayed.

  • Page 369: Arrange Icons

    This option is very useful when minimized plots have been "lost" on the desktop. Choosing Window > Arrange Icons places all the icons along the bottom of the Navios software Window. Force Square Each window is squared so that horizontal and vertical sides are the same length. That is, aspect ration is forced to 1:1.

  • Page 370: Help Menu

    The System Options screen will display details of the current instrument hardware, together with any installed software modules. If you are asking for technical support by telephone, fax, or email, please quote the Navios software build number, which is accessible from menu Help >...

  • Page 371: Software

    Using Navios Software Help Menu Software Hardware group Hardware group - Firmware Hardware group - Lasers Hardware group - PMTs List control Description field Software The information in the Software group describes the software version and build number. Hardware group The information in the Hardware group describes the current instrument configuration.

  • Page 372: Installed Software Modules Group

    • Beckman Coulter Web Site If you have an Internet connection and you click the mouse on http:// www.beckmancoulter.com you can access the Beckman Coulter Web Site through your Web Browser program. You can then access the latest information concerning the up-to-date software releases and other items of interest.

  • Page 373: Qc Levey Jennings Screen

    Using Navios Software Quality Control Report QC Levey Jennings Screen on the Report Generator toolbar to display the QC Levey Jennings screen. Instrument Application Data Table Remove Points Reference Points Delete Plot New Plot Instrument Choose the instrument that you want to view QC data from.

  • Page 374: Reference Points

    Using Navios Software Quality Control Report Remove on a data point and To restore the data point, Remove to clear the checkbox. Removed data points are displayed green and are excluded when calculating the mean and SD on the Levey Jennings plot.

  • Page 375: Delete Plot

    Using Navios Software Quality Control Report To restore the data point, Reference to clear the checkbox. Reference points are displayed orange and when assigned, the Mean and SD of the Levey Jennings plot can be calculated from the Reference points.

  • Page 376: File Menu

    Using Navios Software Quality Control Report File Menu Print Print the displayed QC data. Print Preview Preview the QC data printout. Page Setup Set page orientation and margins. Close Close the QC Levey Jennings screen. Template Menu The dataplot definitions of the Levey Jennings screen can be saved as a QC template.
  • Page 377 Using Navios Software Quality Control Report On the QC Levey Jennings screen Default in the Instrument field. Template > Select Template. Highlight the desired template and Template > Save Template As enter the template name and 10-181 773232AH...

  • Page 378: Modifying Template Files

    Using Navios Software Quality Control Report Modifying Template Files You can modify a default template to collect QC data from different protocols and parameters. NOTE Do not modify or edit IQAP templates. Use the IQAP templates to submit control data to the IQAP Program.

  • Page 379: Select Mean

    Using Navios Software Quality Control Report Region and choose, • the Region • • the Statistic. Select Mean (Mean) one of the choices, • Computed Mean. • Manual Mean and enter value. 10-183 773232AH...

  • Page 380: Select Limits

    Using Navios Software Quality Control Report Select Limits (Mean+) (Mean-) one of the choices, • Mean+/-nSD and enter a number. • Mean+/-%Mmean and enter percent. • Mean+/-Value and enter value. QC Data Table The QC Data Table displays the information from the Levey Jennings plots in tabular format. Each column of the table displays the data from one Levey Jennings plot.

  • Page 381: File Menu

    Using Navios Software Quality Control Report to display the Data Table. in the scroll box to scroll both data tables together. and drag a scroll bar to scroll a data table individually. File Menu Create Spreadsheet File Creates a text file (*.txt) that contains the data table information. You can import the file into a spreadsheet program for analysis.

  • Page 382: Iqap Menu

    Using Navios Software Panel Report Template IQAP Menu The IQAP information entered here is saved to the printout and spreadsheet file. Edit IQAP IQAP > Edit IQAP to display the IQAP information. Enter your IQAP information and Panel Report Template...

  • Page 383: Creating And Importing Panel Report Templates

    Using Navios Software Creating And Importing Panel Report Templates Any panel can be saved as an export panel. See Creating a New Panel Report Template Creating Panels. When you open the desired panel report template, it is important to understand how the template affects the printed report.
  • Page 384 Using Navios Software Creating And Importing Panel Report Templates Right click on the panel in Acquisistion Manager and Type a name for the panel, Export Results of panel to Report Generator 10-188 773232AH...

  • Page 385: Create The Panel Report Template

    Using Navios Software Creating And Importing Panel Report Templates Create the Panel Report Template File > Open, select the CPF file you want to use for patient reports and Use the Global, Local Data Plots tabs to enter the information you want on the patient report.

  • Page 386: Panel Path

    Using Navios Software Creating And Importing Panel Report Templates File > Import. Panel Path Panel Name Cytometer Serial Number Panel Path Enter the path of the template file. This field allows a maximum of 199 characters. All printable characters are allowed.

  • Page 387: Verifying A Panel Report Template

    Using Navios Software Creating And Importing Panel Report Templates Verifying A Panel Report Template Before using the report template, verify that it is working as expected. Check that the result lines are organized in the desired sequence. NOTE The row that an equation is created on must be constructed using information from rows above the equation row.

  • Page 388: Local Tab Settings

    Using Navios Software Creating And Importing Panel Report Templates Allows you to select the number of decimal places used. Decimal places are just for results and considered in flagging. Select only combo box. The options are 0, 1, 2, 3, & 4.
  • Page 389 Using Navios Software Creating And Importing Panel Report Templates The equation result is selected from a drop-down list that includes: %&# (Both) = Percent result is calculated from percents and is placed in the Result column and Count result is calculated from counts and is placed in the Count column.
  • Page 390 Using Navios Software Creating And Importing Panel Report Templates Indicates if item prints on the report: N = not printed; used for calculations; do not enter ranges for these items Y = printed B = blank NOTE A panel report template may be formatted to include blank lines. These intended blank lines are observed when viewing Panel Reports from the Gallios workstation display and/or exported to Excel or Data Innovations Instrument Manager (for LIS connectivity).

  • Page 391: Data Plots Tab Settings

    Using Navios Software Editing Panel Report Templates Data Plots Tab Settings Allows you to select up to 16 data plots to include in the report. Displays the protocol name and index number. The index number represents the protocol order in the panel.
  • Page 392 Using Navios Software Editing Panel Report Templates • enable/disable the auto-print feature (when enabled, the report prints automatically at the end of acquisition) NOTE The panel report auto-print feature is in addition to FlowPAGEs, plots and/or statistics that auto- print per the Workspace Preferences setup (see Workspace Preferences, Acq Options tab).
  • Page 393 Using Navios Software Editing Panel Report Templates To select/deselect SI units, enable/disable auto-print, or to add/enter a report comment, Global NOTE If editing a global report comment, only future reports will be printed with the updated text; reports generated prior to the change will not contain the updated comment.
  • Page 394 Using Navios Software Editing Panel Report Templates Data Plots To select data plots for the report, File > Save to save the template with your changes. Verifying A Panel Report Template. File > Print to print a copy of the template for your records.

  • Page 395: Panel Report

    Using Navios Software Panel Report Panel Report CAUTION The panel must be selected for export so results go to the database. Below is an example of a patient panel report with data only. Each area is defined for the purpose of helping you better understand the origin of the report information.
  • Page 396 Optional statistics: X or Y mean, X or Y mode, X or Y median, X or Y CV, X or Y HPCV Cell count results (may come from Navios listmode file or can be calculated by the Report Generator depending on the template selected) and expected range of cell count (for expected ranges entered at Local Tab in report template;...
  • Page 397 Using Navios Software Panel Report Below is an example of a panel report with data and plots. Navios Navios Navios 10-201 773232AH...
  • Page 398 Using Navios Software Panel Report Below is an example of a panel report with plots only. Navios Navios Navios NOTE When a tube in an multi-tube export panel is aborted, no listmode file is created, however, the panel report is printed as INCOMPLETE REPORT and includes results for the aborted tube. Upon completion of the export panel, the panel report prints as INCOMPLETE REPORT and ERR for the aborted tube.

  • Page 399: Printing Panel Reports

    Using Navios Software Panel Report Printing Panel Reports Auto-Printing If auto-print was selected in the template, the panel report prints automatically after acquisition ends. Manually Printing Panel Reports Do this procedure to manually print a panel report (if auto-print is disabled).
  • Page 400 Using Navios Software Panel Report Once you have selected the desired report(s), the Reports View & Print screen appears. Patient tab. Using , review the reports as needed. displays first report displays previous report displays next report displays last report...

  • Page 401: Tips For Selecting Reports

    Using Navios Software Panel Report Print the desired reports: • To print all reports as a batch, • To print the report currently displayed, Print (save) the desired reports as a PDF or an XLS file: 1) saves the selected report to XLS file.

  • Page 402: Editing Report Comments

    Using Navios Software Panel Report • To select multiple reports in sequence: 1. Highlight the first report you want to select. 2. Press while you the far left column of the last file to be selected. Shift 3. Release and the mouse button.
  • Page 403 Using Navios Software Panel Report Search for the desired report using the following search criteria: patient ID, last name, sample ID1, or analysis date: a. Enter the search criteria information. Search NOTE To do a global search and locate every sample report in the database, leave all search criteria Search.

  • Page 404: Patient Database Editor

    Manager software to transmit results to a host laboratory information system. In order to prevent misidentification of sample results, you must use Instrument Manager software to edit Patient Demographics, not the database in the Navios software. The Database Information screen is where you enter/edit information for: •...

  • Page 405: Entering/Editing Database Information

    (for example, 2005 not 05). Entering/Editing Database Information Keep in mind that you should enter/edit information prior to acquisition or listmode replay. The database links the information to Navios by Sample ID1. Database Management CAUTION Regarding hematology information, if Flow-Count was not used for a single-...
  • Page 406 Manager software to transmit results to a host laboratory information system. In order to prevent misidentification of sample results, you must use Instrument Manager software to edit Patient Demographics, not the database in the Navios software. This figure shows fields of information downloaded from Instrument Manager to Navios.

  • Page 407: Archive Data

    Using Navios Software Database Management NOTE allows you to edit all information except Sample ID. allows you to enter new specimen information for this patient, as well as edit existing information, including Sample ID; all demographic information is retained. Save Edit the information as needed and to save the changes.
  • Page 408 Using Navios Software Database Management • If all QC Records have been archived before restoring a QC Record archive, the current QC Records in the database must be archived, followed immediately by restoring the QC Record Archive. Log in as Admin.

  • Page 409: Restore Archive

    Using Navios Software Database Management Restore Archive The Restore Archive dialog is a standard Windows File Open dialog which allows you to select an Archive file to restore. To ensure sucessful Archive/Restore of QC Records: • Make sure there are QC Records remaining in the QC Database (In other words: DO NOT ARCHIVE ALL QC RECORDS).

  • Page 410: Report Generator Error Log

    Using Navios Software Report Generator Error Log Select the Archive file (*.rgarch) The system validates the archive file. If it is valid, a confimation message is displayed. While Restoration is in progress, a warning message is displayed to indicate that Restoration may take some time and that you should not exit the software until the Restoration is complete.

  • Page 411: Error Log Screen

    Using Navios Software Report Generator Error Log Error Log Screen Error messages list Print Save Error messages list The dialog displays a list of the errors (the contents of RepGenError.rgl file). All error messages display the time and date at which they were created, together with information to allow you identify the cause of the issue.
  • Page 412 Using Navios Software Report Generator Error Log 10-216 773232AH...

  • Page 413: Cleaning Procedures

    CHAPTER 11 Cleaning Procedures What This Chapter Explains This chapter contains the following cleaning procedures: • Clean The Sampling System • Clean The MCL Sample Head And The Sample Probe • Clean The Air Filters • Clean The Internal Sheath Fluid Container •...

  • Page 414: Location Of Air Filters

    Cleaning Procedures Clean The Air Filters Location Of Air Filters The instrument has four air filters located on the: • Cytometer Left Side (2) • Supply Cart, rear panel. Prepare to Clean the Air Filters Power the Cytometer OFF. Unplug the Supply Cart power cord from the wall outlet. Remove the Cytometer filters from the left side of the Cytometer.

  • Page 415: Rinse And Return The Air Filters

    Cleaning Procedures Clean The Air Filters Remove the Cytometer filters from their frames. NOTE eplace any torn filters. Remove the filter from the rear of the Supply Cart. Replace any torn filters. Rinse and Return the Air Filters Rinse the filters in water (1), and then shake them out (2). Set the filters aside and let them dry out for about 30 minutes.

  • Page 416: Filters,

    Cleaning Procedures Clean The Air Filters Use paper towels to check that the filters are completely dry. Return the Cytometer filters to their frames. Slide the Cytometer filters back into their respective locations on the left side of the Cytometer. Return the Supply Cart filter to it’s location on the rear of the Supply Cart.

  • Page 417: Put The Cytometer In The Idle Mode

    Put The Cytometer In The Idle Mode Plug the Supply Cart power cord into the wall outlet. Power the Cytometer Only ON Power the Cytometer and Navios Software ON. Record that the air filters were cleaned on the electronic Maintenance Log.

  • Page 418: Remove The Reagent Containers

    Cleaning Procedures Remove The Reagent Containers Remove The Reagent Containers Remove a reagent container to perform these procedures: • Clean the sheath fluid container • Clean the cleaning agent container • Replace a reagent container. Clean any new reagent container before using it. Procedure Check if the instrument is currently displaying the Idle mode: •...
  • Page 419 Cleaning Procedures Remove The Reagent Containers (3) Sheath fluid container. Disconnect the tubing on the top of each reagent container by pushing in on the metal clips on the connectors. 11-7 773232AH...

  • Page 420: Clean The Internal Sheath Fluid Container

    Cleaning Procedures Clean The Internal Sheath Fluid Container Slide the container out of the instrument. Clean The Internal Sheath Fluid Container Misleading results could occur if you contaminate the sheath fluid container. Be careful not to contaminate the sheath fluid container. Do not let your fingers, paper towels, or other objects touch the inside of the container or the inside of its cap.
  • Page 421 Cleaning Procedures Clean The Internal Sheath Fluid Container Empty the container as completely as possible. Position a funnel into the sheath fluid container. Pour about 50 to 100 mL of fresh IsoFlow sheath fluid or equivalent into the sheath fluid container.

  • Page 422: Container,

    Cleaning Procedures Clean The Internal Sheath Fluid Container Swirl the sheath fluid in the sheath fluid container, rinsing all surfaces. Empty the container as completely as possible. Fill The Internal Sheath Fluid Container Record that the sheath container was cleaned on the electronic Maintenance Log.

  • Page 423: Clean The Cleaning Agent Container

    Cleaning Procedures Clean The Cleaning Agent Container Clean The Cleaning Agent Container • Remove and clean the cleaning agent container every 60 days. See Maintenance Log. • Clean a new cleaning agent container before placing it into the reagent drawer. Remove The Reagent Containers to remove the cleaning agent container.
  • Page 424 Cleaning Procedures Clean The Cleaning Agent Container Screw the cap back on the cleaning agent container. Swirl the sheath fluid in the cleaning agent container, rinsing all surfaces. Empty the container as completely as possible. Position a funnel into the cleaning agent container. 11-12 773232AH...
  • Page 425 Cleaning Procedures Clean The Cleaning Agent Container Pour about 50 to 100 mL of fresh FlowClean cleaning agent or equivalent into the cleaning agent container. Empty the container as completely as possible. 11-13 773232AH...

  • Page 426: Replace The Reagent Containers

    Cleaning Procedures Replace The Reagent Containers Carefully pour cleaning agent into the cleaning agent container (approx 1L), filling it just to the bottom of its neck (1). Record that the cleaning agent container was cleaned on the electronic Maintenance Log. Replace The Reagent Containers to replace the cleaning agent container.
  • Page 427 Cleaning Procedures Replace The Reagent Containers Slide the reagent container back in part way. Keep the neck of the reagent container out. Reconnect the tubing assembly by pushing down on the tubing inserts so that the tubing snaps into the connector. Fill each reagent container as instructed in these procedures: •...

  • Page 428: Clean The Sampling System

    Cleaning Procedures Clean The Sampling System Slide the reagent container back into place. Close the Front Cover Clean The Sampling System Routine daily cleaning helps to minimize instrument downtime. 11-16 773232AH...

  • Page 429: When To Clean The Sampling System

    Cleaning Procedures Clean The Sampling System When to Clean the Sampling System Routine and Sample Head Cleaning Procedures Perform both the routine and the sample head/probe cleaning procedures before you perform Daily Shutdown and: • When you change laboratory application procedures, especially if you are using vital fluorescent stains.

  • Page 430: System,

    Cleaning Procedures Clean The Sampling System Open the Front Cover. Remove the Front Left Side Panel. a. Unscrew the thumbscrew that attaches the left side panel to the front frame. 11-18 773232AH...

  • Page 431: System,

    Cleaning Procedures Clean The Sampling System b. Remove the left side panel by pulling it towards you and down. Prepare a cleaning solution of 1 part of high-quality, fragrance-free bleach (1 ) (5% or 6% solution of sodium hypochlorite - available chlorine) and 9 parts distilled water or IsoFlow sheath fluid While wearing suitable laboratory protective gloves, apply the 10% bleach solution to a...
  • Page 432 Cleaning Procedures Clean The Sampling System (1 ) Carefully push the moistened gauze pad up against the inside of the MCL sample head scrub away any debris inside and around the sample probe. Continue scrubbing the sample head and probe by pushing the head up and down 10 times during a 60-second period.
  • Page 433 Cleaning Procedures Clean The Sampling System Clean the top of the MCL sample head and the bottom of the sample probe holder. Replace the Front Left Side Panel. a. Slide in the left side panel, aligning the post on the top of the panel with the cut out on the frame.
  • Page 434 Cleaning Procedures Clean The Sampling System b. Screw in the thumbscrew to attach the left side panel to the front frame. Close the Front Cover. 11-22 773232AH...
  • Page 435 Cleaning Procedures Clean The Sampling System Close the MCL cover. Record that the sample head cleaning procedure was performed on the electronic Maintenance Log. Power the Cytometer Only ON Power the Cytometer and Navios Software ON. 11-23 773232AH...

  • Page 436: Routine Cleaning Procedure

    Cleaning Procedures Clean The Sampling System Routine Cleaning Procedure Perform this procedure as often as described in the heading When to Clean the Sampling System. WARNING Risk of chemical injury from bleach. To avoid contact with the bleach, use barrier protection, including protective eyeware, gloves, and suitable laboratory attire.
  • Page 437 Cleaning Procedures Clean The Sampling System Load the carousel: Put the test tube of bleach solution into carousel position 1. Put three freshly prepared tubes, each containing about 2 mL of distilled water or IsoFlow sheath fluid, into positions 2, 3, and 4 of the carousel. Select the cleaning panel if it is not currently selected: •...
  • Page 438 Cleaning Procedures Clean The Sampling System Put the carousel into the MCL sample loader and close the MCL cover. Carousel No. Location Enter the in the Worklist. The tube numbers automatically appear. 11-26 773232AH...

  • Page 439: Testing For Residual Stain

    Cleaning Procedures Clean The Sampling System When the cleaning panel is done, remove the carousel. Close the MCL cover and When the cleanse cycle completes, the Supply Cart will automatically turn off and Press Idle Mode button to initialize appears at the bottom of the screen when the Cytometer is depressurized.

  • Page 440: Clean The Vacuum Trap

    Cleaning Procedures Clean The Vacuum Trap Clean The Vacuum Trap • Clean the vacuum trap as needed. • If the vacuum trap is more than one-quarter full of fluid, empty it and rinse with tap water. To clean the Vacuum Trap, perform these procedures: •...

  • Page 441: Find And Pull Out The Vacuum Trap

    Cleaning Procedures Clean The Vacuum Trap Find and Pull Out the Vacuum Trap Lift the vacuum trap assembly out of its bracket so that you can grasp the top of the assembly. While using one hand to hold the top of the vacuum trap assembly, use the other hand to unscrew the vacuum trap.

  • Page 442: Rinse And Return The Vacuum Trap To Its Bracket

    Cleaning Procedures Clean The Vacuum Trap Rinse and Return the Vacuum Trap to Its Bracket Rinse the vacuum trap with water, and then shake out the excess water. Insert the white center post, pointed end up, into the vacuum trap assembly. If the white center post in the vacuum trap assembly is stuck in the up position 1), pull it into the down position 2).
  • Page 443 Return the vacuum trap assembly to its bracket. Wipe up any spills. Plug the Supply Cart power cord into the wall outlet. Power the Cytometer Only ON Power the Cytometer and Navios Software ON. 11-31 773232AH...

  • Page 444: Power The Cytometer Only On/Off

    Power the Cytometer Only ON Use this procedure if the computer is already on and you do not need to start the Navios software. On the Windows desktop: to power up ONLY the Cytometer.
  • Page 445 Cleaning Procedures Power The Cytometer Only On/off On the Windows desktop to turn off ONLY the Cytometer. 11-33 773232AH...
  • Page 446 Cleaning Procedures Power The Cytometer Only On/off 11-34 773232AH...

  • Page 447: Replace/Adjust Procedures

    CHAPTER 12 Replace/Adjust Procedures What This Chapter Explains List of Replacement and Adjustment Procedures This chapter has these replacement and adjustment procedures: • Replace Reagents • Replace The 10 L External Sheath Fluid Container • Fill The Internal Sheath Fluid Container •...

  • Page 448: Replace Reagents

    Replace/Adjust Procedures Replace Reagents Replace Reagents About the Reagent Containers • The Cytometer has an external 10 L sheath fluid container and internal containers for cleaning agent (1) and sheath fluid (2). • For best use of reagents, refill the internal reagent containers only when the instrument indicates that they are low.
  • Page 449 Replace/Adjust Procedures Replace The 10 L External Sheath Fluid Container • The Sheath Cube Level Error appears. FLOW CLEANSE STATUS WASTE SHEATH Check if the instrument is currently in the Idle mode: • If yes (Press Idle Mode button to initialize appears), go to step 2. •...
  • Page 450 Replace/Adjust Procedures Replace The 10 L External Sheath Fluid Container Remove the cap and seal from the new sheath fluid container. Be sure to completely remove the foil seal. Unscrew the plastic cap that secures the pickup tube assembly into the old sheath fluid container.
  • Page 451 Replace/Adjust Procedures Replace The 10 L External Sheath Fluid Container Lift the pickup tube assembly straight up and out. Inspect the pickup tube assembly and replace it if necessary. Carefully insert the pickup tube assembly straight into the new sheath fluid container. 12-5 773232AH...
  • Page 452 Replace/Adjust Procedures Replace The 10 L External Sheath Fluid Container Tighten the cap. Insert the plastic support collar that secures the pickup tube assembly. Place the 10 L external sheath fluid container in a location that is lower than the internal sheath fluid container.

  • Page 453: Fill The Internal Sheath Fluid Container

    Replace/Adjust Procedures Fill The Internal Sheath Fluid Container Record the new sheath fluid container information on the electronic Maintenance Log. Fill The Internal Sheath Fluid Container Perform this procedure whenever: • You clean or replace the sheath fluid container. • The error message Internal Sheath Tank Level Warning appears. Check if the instrument is currently in the Idle mode: •...
  • Page 454 Replace/Adjust Procedures Fill The Internal Sheath Fluid Container Pull out the sheath fluid container far enough to access the cap. Remove the cap: (1) Unscrew the cap on the sheath fluid container. (2) To avoid contaminating the sheath fluid, lay the cap upside down on the counter. 12-8 773232AH...
  • Page 455 Replace/Adjust Procedures Fill The Internal Sheath Fluid Container Position a funnel into the sheath fluid container. Carefully pour sheath fluid into the sheath fluid container, filling it just to the bottom of its neck. Carefully wipe up any spills. 12-9 773232AH...
  • Page 456 Replace/Adjust Procedures Fill The Internal Sheath Fluid Container Screw the cap back on. Slide the sheath fluid container back into place. 12-10 773232AH...

  • Page 457: Fill The Cleaning Agent Container

    Replace/Adjust Procedures Fill The Cleaning Agent Container Close the Front Cover. Fill The Cleaning Agent Container Perform this procedure whenever Cleanse Level Warning or Cleanse Level Error appears. Check if the instrument is currently displaying the Idle mode: • If yes (Press Idle Mode button to initialize appears), go to step 2. •...
  • Page 458 Replace/Adjust Procedures Fill The Cleaning Agent Container Pull out the cleaning agent (1) container. Unscrew the cap on the cleaning agent container (1). To avoid contaminating the cleaning agent, lay the cap upside down on the counter (2). 12-12 773232AH...
  • Page 459 Replace/Adjust Procedures Fill The Cleaning Agent Container Carefully pour cleaning agent into the cleaning agent container, filling it just to the bottom of its neck (1). Carefully wipe up any spills. Screw the cap back on. Slide the cleaning agent container back into place. 12-13 773232AH...

  • Page 460: Empty The 20L Waste Container

    Replace/Adjust Procedures Empty The 20L Waste Container Close the Front Cover. Before running samples, to initialize the system. Empty The 20L Waste Container • Empty the 20 L waste container when: FLOW CLEANSE • You perform your daily startup. • The Waste Full indicator is red.
  • Page 461 Replace/Adjust Procedures Empty The 20L Waste Container • If no, Put The Cytometer In The Idle Mode. NOTE Wait until any instrument function is done before emptying the waste container. Lift the waste container and swirl it before removing the cap. Unscrew the cap and lay it on a leakproof disposable container, such as a glove or beaker.
  • Page 462 Replace/Adjust Procedures Empty The 20L Waste Container WARNING Risk of chemical injury from bleach. To avoid contact with the bleach, use barrier protection, including protective eyeware, gloves, and suitable laboratory attire. Refer to the Safety Data Sheet for details about chemical exposure before using the chemical.

  • Page 463: Replace The Sheath Fluid Filter

    Replace/Adjust Procedures Replace The Sheath Fluid Filter Replace the cap on the new waste container and securely tighten. NOTE Properly dispose of the leakproof disposable container used in step after you screw the cap back on the waste container. The system automatically performs an initialization cycle if you emptied the waste container Waste Full after the indicator appeared.
  • Page 464 Replace/Adjust Procedures Replace The Sheath Fluid Filter • Whenever the sample flow rate is too high (repeated Data Rate Warning or System Pressure Error messages appear). Procedure Check if the instrument is currently displaying the Idle mode: • If yes (Press Idle Mode button to initialize appears), go to step 2. •...
  • Page 465 Replace/Adjust Procedures Replace The Sheath Fluid Filter Undo the flexible strap holding the sheath fluid filter. Pick up the old sheath fluid filter, and notice how the three tubes are connected (1), (2) and (3) and notice the direction of the arrow on it. Get the new filter and hold it with the arrow going in the same direction as the arrow on the old filter.

  • Page 466: Replace The Sample Probe And Sample Pickup Tubing

    Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing Close the Front Cover. Record that the sheath fluid filter was replaced on the electronic Maintenance Log. Replace The Sample Probe And Sample Pickup Tubing Replace the sample probe and sample pickup tubing when: •...
  • Page 467 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing Open the MCL cover. NOTE If a carousel is present, remove it. Open the Front Cover. Remove the Front Left Side Panel. 12-21 773232AH...
  • Page 468 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing a. Unscrew the thumbscrew that attaches the left side panel to the front frame. b. Remove the left side panel by pulling it towards you and swivel it up and out of the instrument.
  • Page 469 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing Unscrew the sample pickup tubing connector from the bottom of the flow cell compartment. Pull the sample pickup tubing out through the left (MCL) side of the instrument. Remove the e-ring from the sample probe using needle nose pliers or a hemostat. Retain the clip.
  • Page 470 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing Lift the sample probe up and out of its holder. Discard the old sample pickup tubing and probe assembly in accordance with your local regulations and acceptable laboratory procedures. (1 ) (2 ) Ensure that the rubber washer and O-ring...
  • Page 471 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing Thread the sample pickup tubing through the instrument. Insert the new sample probe into the sample probe holder. Guide the sample probe tip into the MCL sample head. Insert the clip removed in step into the groove on the sample probe.
  • Page 472 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing Screw on the connector from the sample pickup tubing to the bottom of the flow cell compartment until it is “finger tight.” Replace the Front Left Side Panel. 12-26 773232AH...
  • Page 473 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing a. Swivel the left side panel into the instrument, aligning the post on the top of the panel with the cut out on the frame and then push the panel back into place. b.
  • Page 474 Replace/Adjust Procedures Replace The Sample Probe And Sample Pickup Tubing Close the front cover. Close the MCL cover. Power the Cytometer Only ON Power the Cytometer and Navios Software ON. 12-28 773232AH...

  • Page 475: Replace The Mcl Sample Head

    Replace/Adjust Procedures Replace The Mcl Sample Head After the prime cycle is done, again. Replace The Mcl Sample Head Use this procedure when: • Liquid from the cleaning adaptors does not draw up properly. • Cleaning the sample head does not fix your excessive carryover problem. •...
  • Page 476 Replace/Adjust Procedures Replace The Mcl Sample Head Open the Front Cover. Remove the Front Left Side Panel. a. Unscrew the thumbscrew that attaches the left side panel to the front frame. 12-30 773232AH...
  • Page 477 Replace/Adjust Procedures Replace The Mcl Sample Head b. Remove the left side panel by pulling it towards you and swivel it up and out of the instrument. Use a 0.050 in. Allen wrench to loosen the side (1 ) and front (2 ) setscrews on the sample head.
  • Page 478 Replace/Adjust Procedures Replace The Mcl Sample Head Pull off the sample head. Pull the sample head and tubing through the instrument behind the frame. Loosen the thumbscrew holding the left tubing manifold. NOTE You might find it easier to unscrew the thumbscrew with a screwdriver. Pull off the tubing manifold.
  • Page 479 Replace/Adjust Procedures Replace The Mcl Sample Head Discard the old sample head and tubing assembly in accordance with your local regulations and acceptable laboratory procedures. Place the new tubing manifold into the bracket in the pneumatic drawer and tighten the thumbscrew.
  • Page 480 Replace/Adjust Procedures Replace The Mcl Sample Head Position and hold the sample head up against its bracket. Tighten the side setscrew first. Then tighten the front (2 ) setscrew. Replace the Front Left Side Panel. a. Swivel the left side panel into the instrument, aligning the post on the top of the panel with the cut out on the frame and then push the panel back into place.
  • Page 481 Replace/Adjust Procedures Replace The Mcl Sample Head b. Screw in the thumbscrew to attach the left side panel to the front frame. Close the front cover. 12-35 773232AH...

  • Page 482: Adjust The System Pressure

    Adjust The System Pressure Close the MCL cover. Power the Cytometer Only ON Power the Cytometer and Navios Software ON. Adjust The System Pressure Adjust the system pressure if the System Pressure gauge is not reading 30 ±2 psi. 12-36...
  • Page 483 Replace/Adjust Procedures Adjust The System Pressure Open the Supply Cart front door and locate the Pressure Adjustment knob (1). Pull the collar around the Pressure Adjust knob out toward you. Adjust the pressure to 30 ±2 psi. (1) To decrease, turn to the left. 12-37 773232AH...
  • Page 484 Replace/Adjust Procedures Replace An Optical Filter (2) To increase, turn to the right. 30 ±2 PSI Push in on the collar to lock it into place. Replace An Optical Filter Perform this procedure when: • When there is a loss of signal power - replace the old filter with a new filter of the same type. •...

  • Page 485: Remove Filter Holder

    Replace/Adjust Procedures Replace An Optical Filter Remove Filter Holder Wear powder-free gloves to perform this procedure. Open the Front Cover. Loosen the four thumbscrews on the filter array cover and remove it. NOTE You need to unscrew the upper left thumbscrew with a screwdriver. 12-39 773232AH...
  • Page 486 Replace/Adjust Procedures Replace An Optical Filter Remove the filter holder containing the filter you want to replace. NOTE There are two types of filter holders. See, • Replace Dichroic Filter • Replace Bandpass Filter. Use the appropriate instructions for the type of filter holder used on the filter you are going to replace.

  • Page 487: Replace Dichroic Filter

    Replace/Adjust Procedures Replace An Optical Filter Replace Dichroic Filter Use the special tool provided to loosen the metal ring on the filter holder. NOTE You might find it easier to finish loosening the metal ring by turning it with your gloved fingers. Insert the tool into the metal ring’s two slots and turn to the left.
  • Page 488 Replace/Adjust Procedures Replace An Optical Filter Identify Coated Side Of Dichroic Filter to determine correct orientation. Place the metal ring over the filter in the filter holder. For the metal ring fastener, insert the special tool into the metal ring’s two slots and turn to the right to tighten.

  • Page 489: Replace Bandpass Filter

    Replace/Adjust Procedures Replace An Optical Filter Replace Bandpass Filter Remove the set screw (1) and remove the filter (2). Orient the new filter correctly and insert the filter into the filter holder. • For BCI filters: Position the filter into the filter holder so the arrow points away from the counterbore. •...

  • Page 490: Identify Coated Side Of Dichroic Filter

    Replace/Adjust Procedures Replace An Optical Filter Place the filter (2) in the filter holder and tighten the set screw (1). Identify Coated Side Of Dichroic Filter Determine which is the coated side (1 ) of a non-BCI filter: a. Take the eraser end of a pencil and hold it close to the filter, near its edge. b.

  • Page 491: Replace Filter Holder

    Replace/Adjust Procedures Replace An Optical Filter a. The coated side should face the metal ring when you insert it. Replace Filter Holder Place the filter holder containing the filter you replaced back in the filter array. 12-45 773232AH...
  • Page 492 Replace/Adjust Procedures Replace An Optical Filter Replace the filter array cover. NOTE You need to use a screwdriver to tighten the upper left thumbscrew. Close the Front Cover 12-46 773232AH...

  • Page 493: Troubleshooting

    The Cytometer contains two lasers (standard configuration) and the MCL bar-code reader contains one laser. The Cytometer can also include an optional third laser. Beckman Coulter's design and manufacture of the instrument complies with the requirements governing the use and application of a laser as specified in regulatory documents issued by the: •...

  • Page 494: Laser Labels On The Sensing Compartment Cover

    Troubleshooting Precautions/Hazards CDRH-required warning labels are located: Figure 13.1 for the Sensing Compartment cover warning label. Figure 13.2 for the Sensing Compartment interior (cover removed) warning labels. Figure 13.3 for the Lasers in the Sensing Compartment warning labels. Figure 13.4 for the Filter Array (cover removed) warning labels.

  • Page 495: Laser Labels In The Sensing Compartment, Cover Removed

    Troubleshooting Precautions/Hazards Figure 13.2 Laser Labels in the Sensing Compartment, Cover Removed CAUTION Laser radiation when open and interlock defeated. DO NOT STARE INTO BEAM. LASER RADIATION AVOID EXPOSURE TO BEAM CLASS 3B LASER PRODUCT 13-3 773232AH...

  • Page 496: Labels On The Lasers In The Sensing Compartment, Cover Removed

    Troubleshooting Precautions/Hazards Shown left to right below are, the red laser, the blue laser and the optional violet laser. Figure 13.3 Labels on the Lasers in the Sensing Compartment, Cover Removed LASER APERTURE LASER APERTURE CLOSE OPEN CLOSE OPEN SHUTTER SHUTTER LASER RADIATION LASER RADIATION...

  • Page 497: Laser Labels On The Filter Array, Cover Removed

    Troubleshooting Precautions/Hazards Figure 13.4 Laser Labels on the Filter Array, Cover Removed CAUTION Laser radiation when open and interlock defeated. DO NOT STARE INTO BEAM. CAUTION Laser radiation when open and interlock defeated. DO NOT STARE INTO BEAM. 550 DC SP 655 DC SP 710 DC SP 480 DC SP...

  • Page 498: Laser Label On The Cytometer Back Panel

    PROVISIONS OF THE 21 CFR, SUBCHAPTER J, SECTIONS 1040.10 AND 1040.11. MADE IN USA Manufactured: DATE: SEPTEMBER 2009 Beckman Coulter Ireland, Inc. BECKMAN COULTER, INC. Lismeehan, O’Callaghan’s Mills 250 S. Kraemer Blvd. Co. Clare, Ireland Brea, CA 92821 USA B28656...

  • Page 499: Laser Labels On The Mcl Bar-Code Reader

    Troubleshooting Precautions/Hazards Figure 13.6 Laser Labels on the MCL Bar-Code Reader LASER LIGHT IS EMITTED AVOID EXPOSURE FROM THIS APERTURE CAUTION VORSICHT LASER LIGHT DO NOT STARE INTO BEAM 670 nm LASER DIODE 1.0 MILLIWATT MAX CLASS II LASER PRODUCT CAUTION LASER LIGHT WHEN OPEN-DO NOT STARE INTO BEAM.

  • Page 500: Warning Labels On Ups

    Troubleshooting Precautions/Hazards Warning Labels on UPS label located next to the power switch on the Pneumatic Supply instructs you to refer to product documentation before powering up the instrument. Figure 13.7 International Warning Symbol Locations FILTER FILTER WATER WATER TRAP TRAP TRAP TRAP...

  • Page 501: Disposal Of Electrical Instrumentation

    European Union. For products under the requirement of WEEE directive, please contact your dealer or local Beckman Coulter office for the proper decontamination information and take back program which will facilitate the proper collection, treatment, recovery, recycling, and safe disposal of device.

  • Page 502: Disposal Precaution

    Troubleshooting Maintenance Schedules Disposal Precaution WARNING Risk of biohazardous contamination if you have skin contact with the waste container, its contents, and its associated tubing. The waste container and its associated tubing might contain residual biological material and must be handled with care.

  • Page 503: Display Locations

    Troubleshooting Cytometer Messages Display Locations Cytometer messages can appear at the bottom of the Navios software screen, in the Cytometer Status Messages screen, and in the cytometer.log file. Navios Software Screen At the bottom of the Navios software screen, the last message appears. See Figure 13.8.

  • Page 504: Instrument Setup

    Troubleshooting Cytometer Messages Instrument Setup Table 13.1 Navios Message Display Location Summary Navios Message Display Locations Printouts Message Type Workstation FlowPAGE + Plots Statistics Panel Report Cytometer Status Field Header Footer located at the No Panel Report is bottom of the...

  • Page 505: Cytometer.log File

    The Cytometer messages are located in the cytometer.log file. NOTE Messages over 30 days old are automatically removed from the cytometer.log file and placed into the cytometerarchive.log file. How to Access the Cytometer.log File From Navios Software • Press . See Figure 13.10.

  • Page 506: From Windows Desktop

    Troubleshooting Cytometer.log File From Windows Desktop Start > Programs > Accessories > Windows Explorer > My Computer > (C:) drive > Navios 2. Highlight cytometer.log 3. Double click on cytometer.log to open. See Figure 13.10. Cytometer.Log Entry Description All cytometer.log message entries are posted in chronological order. Each message entry consists of...

  • Page 507: Change Font

    These are the messages produced by the Cytometer. contact your local Beckman Coulter Representative if: • The recommended action does not solve the problem. • You need help.
  • Page 508 Blue Laser Comms Error Unable to communicate with blue Restart the entire system. If error persists, laser. contact your local Beckman Coulter Representative. Blue Laser Fault A fault occurred on the blue laser Restart the entire system. If the error...
  • Page 509 Cleaning Agent Container. low level of cleaning agent. Cleanse sensor failed if the cleaning contact your local Beckman Coulter agent container is full but this error Representative. message displayed. Cleanse Level Warning Low cleaning agent.
  • Page 510 Restart the and the instrument. entire system. If the error persists, contact your local Beckman Coulter Representative. Detector X Incorrect Type The type of detector X does not Restart the entire system. If error persists,...
  • Page 511 Front Panel Connection Fault – SCA2 A fault was detected in the Restart the entire system. If error persists, connection between the data contact your local Beckman Coulter acquisition board SCA 2 and the front Representative. panel display board. Front Panel Connection Fault – SCA3 A fault was detected in the Restart the entire system.
  • Page 512 If the optics temperature does not stabilize stabilizing. within a reasonable time then restart the entire system. If the problem persists then contact your local Beckman Coulter Representative. Optics Temperature Warning The temperature of the optics differs Wait till the temperature of the optics is...
  • Page 513 If the laser does not initialize within a reasonable time then restart the entire system. If the problem persists then contact your local Beckman Coulter Representative. Red Laser Not Calibrated The instrument is not calibrated to Calibrate the red laser.
  • Page 514 Start of Data Decode Error The header at the beginning of the Restart the entire system. If error persists, data that is passed from the contact your local Beckman Coulter instrument to the workstation could Representative. not be decoded. System Pressure Error During acquisition the system Restart the entire system.
  • Page 515 Connect the vacuum line at the back of the between the power module and the instrument. Cytometer. Hardware problem. contact your local Beckman Coulter Representative. TEC Board Not Found Optics temperature control board Restart the entire system. If error persists, could not be detected.
  • Page 516 Waste Cube Level Warning The waste container is full. Empty the waste container. See Empty The 20L Waste Container. If the waste container is not full, the contact your local Beckman Coulter waste sensor failed. Representative. 13-24 773232AH...

  • Page 517: Software Messages

    Software Messages Navios Software Messages Table 13.3 lists the Navios software messages, with their cause and what to do about them. These are messages produced by the Software. contact your local Beckman Coulter Representative if: • The recommended action does not solve the problem.
  • Page 518 The program will not be able to work The software failed to find the Reboot the computer, if problem persists properly because it failed to access administrator account. contact your local Beckman Coulter the administrator user settings. representative. Please close the application immediately.

  • Page 519: Operating System Error Messages

    Error opening a connection to the Database information – connection Restart software; if problem persists contact database. to database failed a representative of Beckman Coulter Could not save this record. Database information – failed to save Try again; Restart software; if problem specimen_id’<sample ID>’...

  • Page 520: Waste Full

    Troubleshooting Cytometer Control Window Cannot Be Viewed Waste Full When the Waste Full indicator (see Figure 13.12) appears: • During sample analysis, you have 5 minutes to finish analyzing the current sample. • You cannot analyze samples or use the instrument until the waste container is emptied. •...
  • Page 521 Troubleshooting Cytometer Control Window Cannot Be Viewed Drag the Cytometer Control window into full view. 13-29 773232AH...
  • Page 522 Troubleshooting Cytometer Control Window Cannot Be Viewed 13-30 773232AH...

  • Page 523: Bar-Code Specifications

    APPENDIX A Bar-code Specifications Bar-code Sample Identification Bar-code symbols are a highly accurate and efficient procedure for identifying and processing laboratory samples. Beckman Coulter instruments use four bar-code symbologies (types) to identify specimens: • Code 128 • Code 39 • Codabar •...

  • Page 524: Correct Placement Of The Bar-Code Label

    When viewed at eye level, the full symbol, including the quiet zones, must be visible through the slot and above the bottom of the carousel. Note: The Navios Flow Cytometry System rotates the tube as needed so the bar-code label can be read.

  • Page 525: Label Size And Thickness

    Bar-code Specifications Bar-code Label Specifications Label Size and Thickness The length of the label must be less than 44.45 mm (1.75 in.). The label includes the bar-code symbol and a minimum quiet zone of 3.5 mm (0.14 in.) at each end of the symbol. Refer to Figure A.3.

  • Page 526: Bar-Code Error Rate

    • Fixed length code symbols • Narrow bar sizes of 0.25 mm (0.010 in.) minimum. Bar-code Symbologies Beckman Coulter instruments use four bar-code symbologies for specimen identification, see Table A.1.Within the given specifications, the MCL reader and the optional handheld bar-code...

  • Page 527: Bar-Code Labels

    Bar-code Specifications Bar-code Labels Table A.1 Bar-Code Symbologies Bar-Code Type Description • Variable length Code 128 (also known as USD-6) • Alphanumerics; 107 character set • Self-checking • Continuous code; intercharacter space is part of code structure for higher density of code per square inch; compact bar code •...

  • Page 528: Bar-Code Label Optical Characteristics At 670 Nm ±10

    Bar-code Specifications Mcl Bar-code Reader Sample misidentification can occur from the use of incorrect, poor quality, damaged, dirty or improperly placed bar-code labels. Follow the specifications in this section to create your bar-code labels to prevent incorrect sample identification. See also Putting a Bar-Code Label on a Sample Tube.

  • Page 529: Checksum Algorithm

    To prevent incorrect identification of sample tubes, do not use FNC1, FNC4, and FS (hexadecimal 1C) characters in your bar-code information. Checksum Algorithm Beckman Coulter strongly recommends the use of bar code checksums to provide automatic checks for read accuracy. Use of bar codes is an extremely accurate and effective method of positive patient identification.
  • Page 530 Bar-code Specifications Checksum Algorithm 773232AH...

  • Page 531: Maintenance And Service Logs

    APPENDIX B Maintenance And Service Logs Introduction The Report Generator contains two log screens you can use to record maintenance and service activities. Use the Maintenance Log to record daily and periodic maintenance. Use the Service Log to record service conditions noted and actions taken. Maintenance Log The Maintenance Log lists actions that need to be performed and how often they are needed.

  • Page 532: Maintenance Log

    Maintenance And Service Logs Maintenance Log Control Panel > Personalization If you switch to Larger scale (120 DPI) font settings in , the columns on the Maintenance Log screen become mis-aligned and truncated. The instrument serial number and facility name are displayed at the top. The boxes corresponding to the current day's date are highlighted.

  • Page 533: Admin

    Exit - Exits the Maintenance Log. performs the same function. Admin Prompts for the Navios Administrator password. performs the same function. Legend Displays a legend that shows the list of user names and the corresponding color used for the visual display.

  • Page 534: Administrator Entry

    Maintenance And Service Logs Maintenance Log The presence of a comment in a box is indicated by a small red square in the upper right-hand corner of the box and is visible on the printout. The Gallios User ID precedes the comment. on the Maintenance Log indicates there is a comment associated with this entry.
  • Page 535 Maintenance And Service Logs Maintenance Log Admin will log out when you exit the screen. on any empty box and the letter A is displayed in the box. Delete Right click on any box and to erase it and a hyphen '-' is displayed in the box. To enter a comment on any of the boxes, right-click on the box and select Insert Comment .

  • Page 536: Service Log

    Maintenance And Service Logs Service Log Service Log Date that the Condition Noted entry was made. User who made the entry. This field is non-editable and it is filled in automatically by the system when the Date is entered. The instrument serial number and facility name are displayed at the top. Enter text (up to 255 characters) to describe the condition noted.

  • Page 537: File Menu

    • If a print out or saving of the December Maintenance Log is required after entering log records for any subsequent months, backup the database prior to printing or saving (see Report Generator Database Utilities Backup CHAPTER 10, Using Navios Software) and restore the database after printing or saving (see Report Generator Database Utilities Restore Archive CHAPTER 10, Using Navios Software).

  • Page 538: Enter Action Taken

    Maintenance And Service Logs Service Log Double-click the Condition Noted field and type the text describing the condition noted. to save the Service Log. Enter Action taken Double-click the Date column and select the date on the calendar corresponding to the action taken.

  • Page 539: References

    References 1. American Identification Manufacturer’s group (AIM), Uniform Symbology Specifications Code 39, Interleaved 2 of 5, Codabar, and International Symbology Specifications Code 128. ANSI/AIM BC1, BC2, BC3, BC4, 1995. http://www.aimusa.org 2. American National Standards Institute (ANSI) Bar Code Print Quality Guidelines. X3. 182-1990 (R2000).
  • Page 540 References References-2 773232AH...

  • Page 541: Glossary

    Channel - In an analog-to-digital converter, the number of equally spaced divisions of the amplified input signal voltage. All Navios flow cytometer signals are resolved into 1024 channels. For dual- parameter histograms, the number of channels is reduced to 64, 128, or 256.
  • Page 542 Glossary Color compensation - The subtraction of a percentage of the signal from one fluorescence light sensor, from the signal from another fluorescence light sensor, to correct for the overlap of one dye's emission into another dye's emission measurement. Continuous code - Each character in the bar-code symbol starts with a black bar and ends with a white space.
  • Page 543 Glossary Fixed code length - A specific length of sample ID code, (usually enabled when all sample IDs are the same length) to make sure that only one length sample ID is accepted. Flow cell - A device through which particles pass, in a stream of fluid, one at a time, through a laser beam.
  • Page 544 Glossary IQAP - Abbreviation for Beckman Coulter's Interlaboratory Quality Assurance Program. A service for all worldwide users of Immuno-Trol cells and CYTO-TROL control cells, the IQAP statistically compares your control data with that of other laboratories. Laser - Abbreviation for light amplification by stimulated emission of radiation.
  • Page 545 Glossary Pop-up window - A rectangular area that appears on top of the current screen displayed on the Workstation. You must close the window before you can use the current screen again. Positives analysis - Analysis performed on the negative control to set regions automatically to exclude the negative population from the positives statistics.
  • Page 546 Glossary Side scatter - The amount of laser light scattered at about a 90° angle to the axis of the laser beam. The amount of side scatter is proportional to the granularity of the cell that scattered the laser light. Side scatter (SS) sensor - Collects the side scatter and generates voltage pulse signals.

  • Page 547: Index

    Index Symbols key value, 4-12 @PnC @ABSCALFACTOR key value, 4-12 key value, 4-12 @PnGAIN @ACQTIME key value, 4-13 key value, 4-12 @PnQ @ACQUISITIONPROTOCOLOFFSET key value, 4-13 key value, 4-12 @PnU @BARCODE key value, 4-13 key value, 4-12 @PnX @BASELINEOFFSET key value, 4-13 key value, 4-12...
  • Page 548 Index key value, 4-13 $PAR @SETTINGSFILE key value, 4-11 key value, 4-13 $PnB @SETTINGSFILEDATETIME key value, 4-11 key value, 4-13 $PnE @STOPREASON key value, 4-11 key value, 4-13 $PnG @TUBENO key value, 4-11 key value, 4-13 $PnN @VIOLETLASERPOWER_END key value, 4-11 key value, 4-13...
  • Page 549 10-167 enter the carousel ID number, 8-5, repeat the tube, 10-167 introduction, 10-57 about help LMD filename, 10-64 lists Navios software build number, 10-174 modifying panels, 10-58 absolute count determination modifying worklists, 10-59 Flow-Count (Direct) Method, P1-P32, 10-65...
  • Page 550 PDF file name extension, LMD file schedule, 13-10 name, 10-43 system pressure, 12-36 appending a new test admin button current panel, 10-58 signing on to Navios software, 10-3 application administration control, verify, add user/modify user, 10-13 Application Definition create export logs, 10-4 Wizard,...
  • Page 551 Index abort on error, 10-51 target region, 10-130 ignore errors, 10-51 verification tubes, pause on error, 10-51 wizard, running, region Wizard,definition, Glossary-1 creating, 10-129 autosetup sensitivity, 10-51 scheduler, contour sensitivity, 10-51 wizard contour travel, 10-51 AutoSetupII elliptical sensitivity, 10-51 save settings, 7-12 automated software autostandardization...
  • Page 552 Index basic operating techniques, Blue Laser Power Warning, 13-16 carousel and tube, illustration, boolean gating, 10-117 correct placement, gate logic, 10-118 label quality, bottle, waste label size, See waste container labeling sample tubes, BP filters optical characteristics, definition, Glossary-1 orientation in carousel, browsing buttons, 10-16 print quality,...
  • Page 553 Index See also MCL air filters, 11-1 carry bleaching, 11-24 cytosettings, 10-62 cleaning agent container, 11-11 gates, 10-60 MCL sample head, 11-17 plots, 10-60 routine, 11-24 regions from previous protocol, 5-29 sample probe, 11-17 regions from previous tube, 10-61 sampling system, when to clean, 11-17 regions from protocol, 10-61...
  • Page 554 Index collimate coefficients, 7-10 definition, Glossary-1 components color See system components precedence, automatic, 10-50 computer color blend mode, 10-119 electrical input requirements, modify color blend, 10-120 front view, color compensation power off, 11-32 adjust, power on, 11-32 calculating coefficients, 7-10 specifications, definition, Glossary-2...
  • Page 555 Index and indicators, Cytometer, boolean gating, 10-117 and indicators, definition, Glossary-2 color blend mode, 10-119 CYTO-COMP cells, gate and logical expression, 10-115 CYTO-TROL control cells, gate color, 10-116 definition, Glossary-2 gate logic, 10-118 Flow-Check Pro fluorospheres, gate name, 10-120 Flow-Count fluorospheres, modify color blend, 10-120 Flow-Set Pro fluorospheres,...

  • Page 556: Before You Begin,

    Index repeat the tube, 10-167 gain, 10-159 auto shutdown, 6-12 names, 10-158 auto startup, 6-12 volts, 10-159 cleanse, 10-168 drag and drop functions, 5-14 control translucency, acquisition parameter setup, 10-163 options, 10-45 QuickCOMP, 10-160 controls and indicators, QuickSET, 10-160 cytosettings cytometer messages get cytosettings from LMD file, 10-166...
  • Page 557 Index set up auto shutdown, 6-12 definition, Glossary-2 set up auto startup, 6-12 plot size, 10-49 shutdown, definitions, Glossary-1 startup, delete startup procedure, FlowPAGE objects, 10-149 daily startup histogram freeze frame overlay, 10-97 before you begin, prism plot dividers, 10-107 See also startup regions, 10-134...

  • Page 558: Mode,

    Index dimensions show axis labels, 10-93 computer, show axis tick marks, 10-93 Cytometer, show plot title on output, 10-93 instrument, x and y axis labels, 10-93 supply cart, drag and drop Workstation, acquisition manager, functions DiOC5(3) available, 5-14 definition, Glossary-2 AutoMATOR Setup, functions available, 5-14 discrete code...
  • Page 559 Index paste, 10-55 Exit, 10-54 paste special, 10-56 experiment, user info, 10-47 prism plot export billing information dual parameter prism dividers, 10-136 user administration, 10-7 single parameter prism divider, 10-138 export data prism plot dividers, 10-107 QC data, quadrant region, re-position, 5-19 export file redo,...
  • Page 560 Index plot data source, 10-91 sensing area, protocol, save as, 10-33 specifications, references in data, 10-53 flow cytometry save all FCS format files, 10-32 definition, Glossary-3 save protocol, 10-33 flow cytometry standard file name definition, Glossary-3 extension, LMD file name, 10-43 flow rate file references in data,...
  • Page 561 Index drag & drop plot, 10-72 prepare per package inserts, 7-3, 7-7, 7-13 from file, 10-71 protocols, line, 10-75 running AutoSetup, picture, 10-75 running Flow-Check Pro, plot, 10-72 usage chart, rectangle, 10-74 focusing, hydrodynamic statistics table, 10-73 description, text file, 10-76 font textbox,...
  • Page 562 Index for setting region widths for Flow-Set Pro, gain adjust, definition, Glossary-3 run AutoSetup to set, hardware settings options, Cytometer Control, 10-159 Hardware Made Safe, 13-19 Gallios maintenance log, hazards Gallios software radiation exposure, 13-1 where error messages appear, 13-11 heat dissipation, gate help...
  • Page 563 See controls menu, 10-69 Immuno-Trol Cells installation QC process used for, category, See also controls laser power requirements, IMMUNO-TROL Low cells Navios software, description, system power requirements, See controls institute Immuno-Trol Low Cells address, 10-46 QC process used for, user info,...
  • Page 564 Index location, CDRH-required, 13-1, 13-2 software specifications, disposal of electrical instrumentation, space needed, warning, 13-9 unpacking, laser warning, 13-4 view, laser, warning, 13-1, 13-2 Instrument Manager pneumatic supply, warning, 13-8 editing patient demographics, 10-208 RoHS caution, 13-9 instrument settings RoHS environmental, 13-9 definition, Glossary-2...
  • Page 565 10-85 logarithmic amplification compensation panel extension, definition, Glossary-4 data, definition, Glossary-4 logged in description, 3-14 signing on to Navios software, 10-3 FCS file log-log save as, 10-30 mean method, 3-16 file, open, 10-28 long pass (LP) filters maximum file size,...
  • Page 566 Index material safety data sheets (MSDS) cytometer, description, 13-10 how to order, cytometer, log, 13-13 cytometer, where displayed, 13-11 definition, Glossary-4 error, where displayed, 13-11 MCL (Multi-Tube Carousel Loader) minimum count, 10-127 check vortex function, minimum event counter definition, Glossary-4 definition, Glossary-4 description,...
  • Page 567 5-29 basic operating techniques, new panel wizard components description, See panel wizard controls and indicators, next button do not transfer settings files, 7-12 signing on to Navios software, 10-3 illustration, installation, bar-code, intended use, purpose, specifications, 4-1, view of instrument,...
  • Page 568 10-13, 10-14, 10-15 Panel Report enter at log on, definition, Glossary-4 how to create for sign on, 10-4 panel report signing on to Navios software, 10-3 generate, 5-27 paste panel report template edit menu, 10-55 include blank lines,...
  • Page 569 Index See also signals data source performance specifications color dot plot, 10-90 sensitivity, 4-34 density plot, 10-100 throughput, 4-33 histogram plot, 10-95 phenotype info plot, 10-111 definition, 3-13 legend plot, 10-109 photo sensors prism plot, 10-104 See sensors deleting photodiodes prism plot dividers, 10-107 FS and SS sensors,...
  • Page 570 Index FL sensors, when to request, specifications, Prime region See also high voltages definition, Glossary-5 pneumatic supply principles of operation, warning labels, 13-8 print, 10-38 pneumatic tubing connections dots black, plot display, 10-48 location, FlowPAGE, 10-39 plot frames, plot display, 10-48 extension for panel file, plots,...
  • Page 571 Protocol Explorer QC Levey Jennings, 10-177 drag and drop functions, 5-13 QC materials protocol preview pane listing, signing on to Navios software, 10-4 QC processes used for, protocols See also quality control (QC) AS, description, 3-11 quadrant region AutoSetup, defaults, 4-8,...
  • Page 572 Index listmode playback, 10-147 creating, 5-17, 10-127 LMD, 10-146 interactive information, 10-128 QuickCOMP 2 kit properties, 10-128 description, See also regions and quadrant region See controls red laser QuickCOMP 4 kit shutter open indicator, description, redo, edit menu, 10-54 See controls refresh, 10-144 QuickSET...
  • Page 573 Index properties, 10-124 requirements, sample, 4-1, linear region properties, 10-130 residual stain polygonal region properties, 10-125 from old cleaning solution, 11-24 quadrant region properties, 10-129 testing for, 11-27 rectangular region properties, 10-128 resolution quadrant region, 5-18, 10-128 color dot plot, 10-92 interactive information, 10-129...
  • Page 574 Index symbols, -vii cleaning, 11-17 safety precautions clip, location, 12-23 laser, 13-1 how to avoid clogging, 8-3, 8-7, 8-11 sample how to replace, 12-20 checks before running, leaking, 12-20 flow, description, no or erratic sample flow, 12-20 how to handle after power failure, O-ring, location, 12-24 ID 1, 2, 3, 4, LMD file name,...
  • Page 575 Index security in solution for sample head/probe Windows Administrator password, cleaning, 11-19 select internal container, filling, 12-7 definition, Glossary-5 low indicator, 5-5, 12-2, 13-27 select results, 10-139 use in routine cleaning, 11-24 advanced statistics configuration, 10-142 used to clean reagent containers, 11-9, 11-11 automatic statistic percentiles, 10-143...
  • Page 576 Index when to use, example, software signal amplitude indicators, online help system, 5-32 signal cables shortcuts, 5-12 connections, signing on to Navios software, signals specifications, amplification, See also Navios software generated, 3-10 software messages integral, description, list of, 13-25 integral, illustration,...

  • Page 577: System Components,

    10-19 system status bar components, Automator, 10-83 connections, region editing, 10-130 controls and indicators, integral, 10-131 See also Navios x coordinate, 10-131 system components description system status, 10-169 Cytometer, elapsed time, 10-169 supply cart, event rate, 10-169 Workstation, flow rate,...
  • Page 578 Index Cytometer, 10-22 file options, 10-17 tag number FlowPAGE, 10-20 LMD file name, 10-42 gate color options, 10-19 target channels, laboratory’s gate options, 10-19 establish target channels, 7-7, 7-13 help, 10-19 Taskbar plot options, 10-18 buttons, region options, 10-19 description, statistic options, 10-19 icons,...
  • Page 579 USD-1 sample source, 10-46 bar-code, workspace preferences, 10-45 USD-1.25 user name bar-code, at software installation, 10-1 USD-3 signing on to Navios software, 10-3 bar-code, view all users, 10-6 USD-4 user privileges bar-code, add user/modify user, 10-14 USD-6 user profiles bar-code,...
  • Page 580 Index select region, 10-132 welcome to Navios software, 10-1 Violet Laser Comms Error, 13-23 when to shutdown, Violet Laser Power Error, 13-24 whole blood Violet Laser Power Warning, 13-24 run as a control, virus protection program window shutdown computer, See pop-up window...
  • Page 581 Index row, deleting in acquisition manager, 10-69 test, 5-31 worklist, verifying, 5-31, workspace preferences, 10-39 acquisition options, 10-43 gating, 10-50 LMD file name, 10-40 plot display, 10-47 publish, 10-52 user info, 10-45 Workstation definition, Glossary-6 description, front view, server option, specifications, zoom, 10-68...
  • Page 582 Index Index-36...
  • Page 583 Beckman Coulter Product software. Because some states do not allow the exclusion or limitation of liability for consequential damages, the above limitation might not apply to you.
  • Page 584 Beckman Coulter, Inc. Customer End User License Agreement Warranty-2 773232AH...
  • Page 586 Navios Flow Cytometer System Documentation Instructions for Use PN 773232AH • Introduction • Use and Function • Installation • Operation Principles • Specifications • System Overview • Daily Routine • Quality Control • Running Samples • How to... • Using Navios Software •...

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