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Halma Ocean Optics QE65000 Installation And Operation Manual

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QE65000 Spectrometer
Installation and Operation Manual
Document Number 220-00000-000-02-0605
Offices:
E-mail:
Ocean Optics, Inc.
830 Douglas Ave., Dunedin, FL, USA 34698
Phone (727) 733-2447
Fax
(727) 733-3962
8 a.m.– 8 p.m. (Mon-Thu), 8 a.m.– 6 p.m. (Fri) EST
Ocean Optics B.V. (Europe)
Geograaf 24, 6921 EW DUIVEN, The Netherlands
Phone 31-(0)26-3190500
F ax
31-(0)26-3190505
Info@OceanOptics.com
Info@OceanOpticsBV.com
Orders@OceanOptics.com
TechSupport@OceanOptics.com (Technical support)
(General sales inquiries)
(European sales inquiries)
(Questions about orders)

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  • Page 1 QE65000 Spectrometer Installation and Operation Manual Document Number 220-00000-000-02-0605 Offices: Ocean Optics, Inc. 830 Douglas Ave., Dunedin, FL, USA 34698 Phone (727) 733-2447 (727) 733-3962 8 a.m.– 8 p.m. (Mon-Thu), 8 a.m.– 6 p.m. (Fri) EST Ocean Optics B.V. (Europe) Geograaf 24, 6921 EW DUIVEN, The Netherlands Phone 31-(0)26-3190500 F ax...
  • Page 2 Copyright © 2001-2005 Ocean Optics, Inc. All rights reserved. No part of this publication may be reproduced, stored in a retrieval system, or transmitted, by any means, electronic, mechanical, photocopying, recording, or otherwise, without written permission from Ocean Optics, Inc. This manual is sold as part of an order and subject to the condition that it shall not, by way of trade or otherwise, be lent, re-sold, hired out or otherwise circulated without the prior consent of Ocean Optics, Inc.

  • Page 3: Table Of Contents

    Table of Contents About This Manual ......................v Document Purpose and Intended Audience................v Document Summary........................v Product-Related Documentation ....................v Upgrades ......................... vi Chapter 1: Introduction ..............1 Product Overview ......................1 Features .......................... 2 System Requirements ..................... 3 EEPROM Utilization ........................3 About OOIBase32 ........................
  • Page 4 Table of Contents Chapter 3: Troubleshooting ...............13 Overview ......................... 13 QE65000 Connected to PC Prior to OOIBase32 Installation .......... 13 Remove the Unknown Device from Windows Device Manager..........14 Remove Improperly Installed Files .................... 14 Older Version of OOIBase32 Installed ................15 Chapter 4: Sample Experiments ............17 Overview .........................
  • Page 5 Table of Contents Appendix B: Specifications..............35 Overview ......................... 35 How the QE65000 Works ....................35 QE65000 Components Table....................36 QE65000 Specifications ....................37 CCD Detector Specifications ..................... 37 QE65000 Spectrometer Specifications ..................38 System Compatibility ....................... 39 Compatibility for Desktop or Notebook PCs ................39 30-Pin Accessory Connector Pinout................
  • Page 6 Table of Contents 220-00000-000-02-0605...

  • Page 7: About This Manual

    About This Manual Document Purpose and Intended Audience This document provides the user of the QE65000 Spectrometer with instructions for setting up, calibrating and performing experiments with their spectrometer. Document Summary Chapter Description Contains descriptive information about the QE65000 Spectrometer Introduction Chapter 1: and how sampling works.

  • Page 8: Upgrades

    About This Manual Upgrades Occasionally, you may find that you need Ocean Optics to make a change or an upgrade to your system. To facilitate these changes, you must first contact Customer Support and obtain a Return Merchandise Authorization (RMA) number. Please contact Ocean Optics for specific instructions when returning a product.

  • Page 9: Chapter 1: Introduction

    Introduction Product Overview The Ocean Optics QE65000 Spectrometer is a novel combination of detector, optical bench and electronics technologies that provide you with a remarkably sensitive system for demanding, low-light level applications such as fluorescence, DNA sequencing and Raman spectroscopy. The QE65000 is Ocean Optics’...

  • Page 10: Features

    1: Introduction The QE65000’s onboard module has 10 user-programmable digital I/O lines for interfacing to other equipment; and a pulse generator for triggering other devices. You can use the I/Os to flash a lamp, stop/start a process, and send a message/alarm during the spectrometer’s integration period. The spectrometer’s operating parameters can be controlled through software.

  • Page 11: System Requirements

    1: Introduction • EEPROM storage for • Wavelength Calibration Coefficients • Linearity Correction Coefficients • Absolute Irradiance Calibration (optional) • Plug-n-play interface for PC applications • 30-pin connector for interfacing to external products • CE certification System Requirements You can use the QE65000’s USB connectivity with any PC that meets the following requirements: •...

  • Page 12: Sampling System Overview

    1: Introduction Sampling System Overview How Sampling Works Ocean Optics components function in a sampling system as follows: 1. The user stores reference and dark measurements to correct for instrument response variables. 2. The light transmits through an optical fiber to the sample. 3.

  • Page 13: Shipment Components

    1: Introduction Shipment Components QE65000 Spectrometer + 5VDC power supply The following information and documentation also ships with the QE65000 Spectrometer: Packing List The packing list is inside a plastic bag attached to the outside of the shipment box (the invoice arrives separately).
  • Page 14 1: Introduction 220-00000-000-02-0605...

  • Page 15: Chapter 2: Installing The Qe65000

    Chapter 2 Installing the QE65000 Overview You must install the OOIBase32 software application prior to connecting the QE65000 Spectrometer to the PC. The OOIBase32 software installation installs the drivers required for QE65000 installation. If you do not install OOIBase32 first, the system will not properly recognize the QE65000. If you have already connected the QE65000 to the PC prior to installing OOIBase32, consult Chapter 3: Troubleshooting for information on correcting a corrupt QE65000 installation.

  • Page 16: Operator And Serial Number Dialog Box

    2: Installing the QE65000 Operator and Serial Number Dialog Box The Operator and Serial Number screen prompts you to enter a user name and software serial number into OOIBase32. Some data files created by OOIBase32 during sampling procedures use this information in the file headers.

  • Page 17: Spectrometer Configuration Screen

    2: Installing the QE65000 ► Procedure To configure hardware in USB mode, 1. Specify QE65000 in the Spectrometer Type drop-down menu. 2. Specify QE65000 in the A/D Converter Type drop-down menu. 3. Specify the serial number of the QE65000 under the USB Serial Number drop-down menu. Note The system pre-fills this drop-down menu with the serial numbers of all discovered QE65000 Spectrometers.

  • Page 18: Qe65000 Controls

    2: Installing the QE65000 3. Verify that the calibration coefficients match the coefficients from the Wavelength Calibration Data Sheet that accompanied the spectrometer. If necessary, modify these values using the USB Programmer utility. 4. Additionally, ensure that you select both the Master and Channel Enabled boxes. 5.

  • Page 19: Connect Spectroscopic Accessories

    2: Installing the QE65000 Connect Spectroscopic Accessories To find operating instructions for QE65000-compatible products (such as light sources, sampling chambers, and probes), consult the Software and Technical Resources CD or the Ocean Optics website at http://www.oceanoptics.com/technical/operatinginstructions.asp 220-00000-000-02-0605...
  • Page 20 2: Installing the QE65000 220-00000-000-02-0605...

  • Page 21: Chapter 3: Troubleshooting

    Chapter 3 Troubleshooting Overview The following sections contain information on troubleshooting issues you may encounter when using the QE65000 Spectrometer. QE65000 Connected to PC Prior to OOIBase32 Installation If you connected your Ocean Optics USB device to the computer prior to installing your Ocean Optics software application, you may encounter installation issues that you must correct before your Ocean Optics device will operate properly.

  • Page 22: Remove The Unknown Device From Windows Device Manager

    3: Troubleshooting Remove the Unknown Device from Windows Device Manager ► Procedure 1. Open Windows Device Manager. Consult the Windows operating instructions for your computer for directions, if needed. 2. Locate the Other Devices option and expand the Other Devices selection by clicking on the "+" sign to the immediate left.

  • Page 23: Older Version Of Ooibase32 Installed

    3: Troubleshooting 3. Delete the OOI_USB.INF in the INF directory. If your computer is running either the Windows 2000 or XP operating system, you must also delete the OOI_USB.PNF file in the INF directory. 4. Navigate to the Windows | System32 | Drivers directory. 5.
  • Page 24 3: Troubleshooting 220-00000-000-02-0605...

  • Page 25: Chapter 4: Sample Experiments

    Chapter 4 Sample Experiments Overview The following sections contain information on conducting sample experiments using the QE65000 and OOIBase32. Preparing for Experiments Follow the procedure below to configure the QE65000 and OOIBase32 for experiments. ► Procedure 1. Double-check that you have correctly installed the QE65000, installed OOIBase32, and configured the light source and other sampling optics.

  • Page 26: Taking Measurements

    4: Sample Experiments Taking Measurements There are four basic optical measurements from which to choose: • Absorbance Experiments) Absorbance (see • Transmission Experiments) Transmission (see • Reflection Experiments) Reflection (see • Relative Irradiance Experiments) Relative irradiance (see The type of measurement you take determines the configuration of the sampling optics for your system. Furthermore, your choice of reference and data analysis determines how the OOIBase32 presents the results.
  • Page 27 4: Sample Experiments Where: = the sample intensity at wavelength λ λ = the dark intensity at wavelength λ λ = the reference intensity at wavelength λ λ The figure below shows a typical absorbance setup. The light source sends light via an input fiber into a cuvette in a cuvette holder.

  • Page 28: Transmission Experiments

    4: Sample Experiments Note Do not put the sample itself in the path when taking a reference spectrum, only the solvent. 4. Click the Store Reference spectrum icon on the toolbar or select Spectrum | Store Reference from the menu bar to store the reference. This command merely stores a reference spectrum in memory.
  • Page 29 4: Sample Experiments Where: = the sample intensity at wavelength λ λ = the dark intensity at wavelength λ λ = the reference intensity at wavelength λ λ The following figure shows a typical transmission setup. The light source sends light via the input leg of a transmission probe into a container.

  • Page 30: Reflection Experiments

    4: Sample Experiments Click the Store Reference spectrum icon on the toolbar or select Spectrum | Store Reference from the menu bar to store the reference. This command merely stores a reference spectrum in memory. You must select File | Save | Reference from the menu bar to permanently save the spectrum to disk.
  • Page 31 4: Sample Experiments Where: = the sample intensity at wavelength λ λ = the dark intensity at wavelength λ λ = the reference intensity at wavelength λ λ The following figure shows a typical reflection setup. A light source sends light via the input leg of a reflection probe onto a sample.

  • Page 32: Relative Irradiance Experiments

    4: Sample Experiments Note If possible, do not turn off the light source when taking a dark spectrum. If you must turn off your light source to store a dark spectrum, allow enough time for the lamp to warm up again before continuing your experiment.
  • Page 33 4: Sample Experiments Typical Relative Irradiance Setup Common applications include characterizing the light output of LEDs, incandescent lamps, and other radiant energy sources such as sunlight. Relative irradiance measurements also include fluorescence measurements, which measure the energy given off by materials that have been excited by light at shorter wavelengths.

  • Page 34: Time Acquisition Experiments

    4: Sample Experiments 5. Block the light path to the spectrometer. Then, take a dark spectrum by clicking the Store Dark Spectrum icon on the toolbar or by selecting Spectrum | Store Dark from the menu bar. This command merely stores a dark spectrum in memory. You must select File | Save | Dark from the menu to permanently save the spectrum to disk.

  • Page 35: Configuring The Time Acquisition Channel Configuration Screen

    4: Sample Experiments Configuring the Time Acquisition Channel Configuration Screen ► Procedure Perform the following steps on the Time Acquisition Channel Configuration screen: 1. Select Enabled to set the time acquisition calculation for the wavelength. The time acquisition process will not calculate data if you do not select this option for at least 2.

  • Page 36: Configuring For A Combination Of Two Time Channels

    4: Sample Experiments Configuring for a Combination of Two Time Channels Configure a time acquisition process for a combination of two time channels (if desired) by selecting the Combination 1 tab on the Time Acquisition Channel Configuration screen. ► Procedure Perform the steps below to configure a combination: 1.
  • Page 37 4: Sample Experiments 2. Enable Stream Data to Disk to save time acquisition data. 3. Enter a value in the Write Data to Disk Every x Acquisitions box to set the frequency for saving data. OOIBase32 saves data more frequently if the number is smaller, or less frequently if the number is larger.
  • Page 38 4: Sample Experiments Note OOIBase32 has options to either store data for each acquisition, or to collect data only after a specified delay. Several factors affect the minimum time acquisition frequency, including integration time, number of spectrometer channels, samples averaged, and computer speed.

  • Page 39: Appendix A: Calibrating The Wavelength Of The Qe65000

    Appendix A Calibrating the Wavelength of the QE65000 Overview This appendix describes how to calibrate the wavelength of your spectrometer. Though each spectrometer is calibrated before it leaves Ocean Optics, the wavelength for all spectrometers will drift slightly as a function of time and environmental conditions.

  • Page 40: Calibrating The Spectrometer

    A: Calibrating the Wavelength of the QE65000 Calibrating the Spectrometer Preparing for Calibration To recalibrate the wavelength of your spectrometer, you need the following components: • A light source capable of producing spectral lines Note Ocean Optics’ HG-1 Mercury-Argon lamp is ideal for recalibration. If you do not have an HG-1, you need a light source that produces several (at least 4-6) spectral lines in the wavelength region of your spectrometer.
  • Page 41 A: Calibrating the Wavelength of the QE65000 Independent Values Computed Dependent from the Regression Variable Variables Output Predicted True Wavelength (nm) Pixel # Pixel # Pixel # Difference Wavelength 253.65 30625 5359375 253.56 0.09 296.73 87616 25934336 296.72 0.01 302.15 97344 30371328 302.40...

  • Page 42: Saving The New Calibration Coefficients: Usb Mode

    A: Calibrating the Wavelength of the QE65000 7. Record the Intercept, as well as the First, Second, and Third Coefficients. Additionally, look at the value for R squared. It should be very close to 1. If not, you have most likely assigned one of your wavelengths incorrectly.

  • Page 43: Appendix B: Specifications

    Appendix B Specifications Overview This appendix contains information on spectrometer operation, specifications, and system compatibility. It also includes accessory connector pinout diagrams and pin-specific information. How the QE65000 Works Below is a diagram of how light moves through the optical bench of a QE65000 Spectrometer. The optical bench has no moving parts that can wear or break;...

  • Page 44: Qe65000 Components Table

    B: Specifications QE65000 Components Table Ocean Optics permanently secures all components in the QE65000 at the time of manufacture. Only Ocean Optics technicians can replace interchangeable components, where noted. Item Name Description Secures the input fiber to the spectrometer. Light from the input fiber enters the Connector optical bench through this connector.

  • Page 45: Qe65000 Specifications

    B: Specifications QE65000 Specifications The following sections provide specification information for the CCD detector in the QE65000, as well as the QE65000 Spectrometer itself. CCD Detector Specifications Specification Value Detector Hamamatsu S7031-1006, symmetric crossed Czerny-Turner design 200-1100 nm with window, VUV option available (150nm). VUV option includes purge port and window removal (no TE cooling).

  • Page 46: Qe65000 Spectrometer Specifications

    B: Specifications Quantum Efficiency of Detector QE65000 Spectrometer Specifications Specification Value Dimensions (LxWxH) 185 mm (7.28 in.) x 115 mm (4.53 in.) x 50 mm (1.97 in.) Weight QE65000 1.18 kg (2.6 lbs.) Power Supply 0.45 kg (1 lb.) Temperature TE Cooler can only cool 40 °C below ambient temperature Operation –0 °C to +50 °C...

  • Page 47: System Compatibility

    B: Specifications Specification Value Gratings 14 gratings available Entrance aperture 5, 10, 25, 50, 100 or 200 µm wide slits Order-sorting filters 6 OF series available Focal length (input) f/4, 101 mm Optical resolution Depends on grating and size of entrance aperture (FWHM) Stray light <0.05% at 600 nm;...

  • Page 48: 30-Pin Accessory Connector Pinout Diagram

    B: Specifications Location of QE65000 30-Pin Accessory Connector 30-Pin Accessory Connector Pinout Diagram When facing the 30-pin Accessory Connector on the front of the vertical wall of the QE65000, pin numbering is as follows: Port 30-Pin Accessory Connector Pinout Diagram 30-Pin Accessory Connector –...
  • Page 49 B: Specifications Function Input/Output Description Reserved Ground Input/Output Ground C SCL Input/Output C clock signal for communication to other I C peripherals General purpose software-programmable, digital input/output GPIO (0) Input/Output (channel number) C SDA Input/Output C data signal for communication to other I C peripherals General purpose software-programmable, digital input/output GPIO (1)

  • Page 50: 30-Pin J2 Accessory Connector - Part Numbers

    B: Specifications Function Input/Output Description SPI Chip SPI Chip/Device Select signal for communication to other SPI Output Select peripherals General purpose software-programmable, digital input/output GPIO (6) Input/Output (channel number) Reserved Reserved Lamp TTL signal driven Active HIGH when the Lamp Enable command Output Enable is sent to the spectrometer...

  • Page 51: Qe65000 15-Pin Accessory Cable Pinout

    B: Specifications QE65000 15-Pin Accessory Cable Pinout Pin # Description Pin # Description Single_strobe GPIO-9 ContStrobe GND_SIGNAL V5_SW ExtTrigIn ExtTrigIn LampEnable GPIO-8 A_IN A_OUT GPIO-7 ExtTrigIn 220-00000-000-02-0605...
  • Page 52 B: Specifications 220-00000-000-02-0605...

  • Page 53: Index

    Index Numbers 15-pin accessory cable Default Spectrometer Configuration File, 8 pinouts, 43 detector, 37 30-pin accessory connector Detector Collection Lens, 36 diagram, 40 document part numbers, 42 audience, v pin definitions, 40 purpose, v summary, v accessories, 11 Accessories, 4 EEPROM, 3 accessory connector Experiments...
  • Page 54 Index memory chip, 3 TE Cooler, 1, 2, 7, 10, 38 mirror, 36 Time Acquisition, 26 Troubleshooting, 13 OOIBase32, 7 Options upgrades, vi Interface, 4 USB-ADP-PC, 4 USB-CBL-1, 4 packing list, 5 passwords, 5 Wavelength Calibration power supply (external), 2, 3, 4, 5, 7, 38 about, 31 product-related documentation, v Wavelength Calibration Data File, 5...

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