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 ........................
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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 .........................
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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................
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.
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.
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’...
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.
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: •...
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.
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).
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.
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.
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.
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.
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...
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2: Installing the QE65000 220-00000-000-02-0605...
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.
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.
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.
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.
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.
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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.
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.
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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.
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.
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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.
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.
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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.
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.
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.
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.
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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.
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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.
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.
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.
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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...
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.
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;...
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.
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).
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...
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;...
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 –...
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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)
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...
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