Getting Started with UVProbe

Transcription

1 C Getting Started with UVProbe Tutorial Version 1.1 Read the instruction manual thoroughly before you use the product. Save this instruction manual with care so that you can use it any time you need it.

2 Getting Started with A Tutorial for the Spectrum, Photometric, Kinetics, and Report Generator Modules

3 P/N Getting Started with UV Probe Tutorial Version 1.0 Shimadzu Scientific Instruments, Inc Riverwood Drive Columbia, MD U.S.A /

4 First Edition: September 1999 Copyright Shimadzu Corporation, All rights are reserved, including those to reproduce this publication or parts thereof in any form, without the express written permission of Shimadzu Corporation. Shimadzu Corporation Provides this publication "As Is" without warranty of any kind, either express or implied, including, but not limited to, the implied warranties of merchantability or fitness for a particular purpose. Some states do not allow disclaimer of express or implied warranties in certain transactions, therefore this statement may not apply to you. Any technical inaccuracies, omissions, or typographical errors in this publication will be corrected as soon as feasible. Changes are periodically made to the information herein and incorporated into new editions of the publication. Shimadzu may make improvements and/or changes in the product(s) and/or the program(s) described in this publication at any time. It is possible that this publication may contain reference to, or information about, Shimadzu products (instruments and programs), programming, or services that are not announced in your country. Such references or information must not be construed to mean that Shimadzu intends to announce such products, programming, or services in your country. This document and the software described in it are furnished under license from Shimadzu Corporation and may be copied only in accordance with the terms of such license. Shimadzu may use or distribute any of the information which you supply in any way it believes appropriate without incurring any obligations whatsoever. The following registered trademarks are used throughout this document: IBM, PC DOS and PS/2 are registered trademarks of International Business Machines, Inc. Microsoft and MS-DOS are registered trademarks and Microsoft Windows is a trademark of Microsoft Corporation.

5 Table of Contents Table of Contents CHAPTER 1 INTRODUCTION INTRODUCING UVPROBE ABOUT THIS MANUAL UVPROBE INSTALLATION REQUIREMENTS Minimum Computer Hardware Requirements Minimum Software Requirements Installing UVPROBE Step 1 Installing Shimadzu User Authentication Tool Step 2 Installing UVPROBE Uninstalling UVPROBE APPLICATION MODE ABOUT UVPROBE STARTING UVPROBE UVPROBE THE BASIC INTERFACE Output Window Instrument Bar Photometer Status Bar Standard Toolbar SYSTEM ADMINISTRATION Assign user's rights Rights Add a group Assign group rights Remove a group Add a user Edit a user Enabling / disabling user Change a password USING THE MODULES Panes that vary between modules Unique menus and toolbars UVPROBE FUNCTIONS Communicating with the Spectrophotometer Shortcut Menus and Properties Pages Graph Modes File Properties, Storages, and Data Sets Precision of Internal Data Processing THE UVPROBE TUTORIAL Lesson 1 The Spectrum Module Lesson 2 The Photometric Module Lesson 3 The Kinetics Module Lesson 4 The Report Generator CHAPTER 2 THE SPECTRUM MODULE, LESSON SPECTRUM WINDOW SPECTRUM TOOLBAR EXERCISE 1 BASIC MEASUREMENTS Step 1 Perform a Baseline Correction Step 2 Create a Data Collection Method Step 3 Save a Data Collection Method Step 4 Collect the Data Step 5 Save the Data EXERCISE 2 BASIC SPECTRUM OPERATIONS Step 1 Adjust the Parameters of a Peak Pick Table Step 2 Create a Peak Area Table Step 3 Manipulate a Peak Area Table and Graph Step 4 Create a New Region Step 5 Manipulate a Data Set UV Probe Manual i

6 Table of Contents EXERCISE 3 ADVANCED TECHNIQUES Part 1 Acquire Data with a Cell Positioner Step 1 Load and Modify a Saved Data Collection Method Step 2 Configure the Positioner Step 3 Remove Data from Memory Step 4 Collect the Data Part 2 Use UVProbe with Windows WordPad Step 1 Copy and Paste a Bitmap to WordPad Step 2 Copy and Paste a Table to WordPad CHAPTER 3 THE PHOTOMETRIC MODULE, LESSON PHOTOMETRIC WINDOW PHOTOMETRIC TOOLBAR SET AND EDITO PHOTOMETRICB METHOD EXERCISE 1 BASIC MEASUREMENTS Part 1 Create a Standard Curve Step 1 Create a Data Collection Method Step 2 Save a Data Collection Method Part 2 Measure Standard Samples Step 1 Entering File Information Step 2 Populate a Standard Table Step 3 Read the Standard Samples Step 4 View the Standard Curve Step 5 Save the Standard Table Part 2 Read Unknown Samples Step 1 Create a Sample Table Step 2 Read the Unknown Sample Step 3 Manually Enter Sample Table Data Step 4 View the Sample Graph Step 5 Save the Data EXERCISE 2 BASIC PHOTOMETRIC OPERATIONS Step 1 Use Auto Fill to Build a Standard Table Step 2 Use Repetition to Populate a Standard Table Step 3 Use Various Standard Curves to Calculate Unknown Concentrations Step 4 Show Statistics Step 5 Perform a Reciprocal Transformation on the Data EXERCISE 3 ADVANCED PHOTOMETRIC TECHNIQUES Part 1 Custom Equations Step 1 Create a Data Collection Method using Custom Equations Step 2 Save a Data Collection Method Step 3 Populate the Sample Table Step 4 Verify the Calculation Results Step 5 Display Necessary Columns Part 2 Use a Sipper to Collect Data Step 1 Install a Sipper Attachment Step 2 Modify a Data Collection Method to Use the Sipper Step 3 Collect the Unknown Data CHAPTER 4 THE KINETICS MODULE, LESSON KINETICS WINDOW KINETICS TOOLBAR EXERCISE 1 BASIC MEASUREMENTS Step 1 Create a Data Collection Method Step 2 Prepare a Powder Sample Step 3 Perform a Time Course Reading EXERCISE 2 BASIC KINETICS OPERATIONS Step 1 Perform a Point Pick Step 2 Save the Point Pick Table as a Template ii UV Probe Manual

7 Table of Contents Step 3 Perform a Cell Blank Operation Step 4 Collect a Second Set of Data Step 5 Open a Previously Saved Point Pick Template Step 6 Modify the Main Table EXERCISE 3 ADVANCED KINETICS TECHNIQUES Step 1 Perform a Michaelis-Menten Calculation Step 2 Configure a Custom Kinetics Graph Step 3 Create and Populate an Inhibitor Table CHAPTER 5 THE REPORT GENERATOR, LESSON OBJECT MODES OF OPERATION (SELECTING OBJECTS) Edit Mode Selected Mode Unselected Mode EMBEDDED VS. LINKED OBJECTS Embedded Objects Linked Objects REPORT GENERATOR MAIN WINDOW REPORT GENERATOR TOOLBAR REPORT GENERATOR OBJECT TOOLBAR Text Objects Kinetics Objects Photometric Objects Spectrum Objects EXERCISE 1 CREATE A BASIC REPORT WITH EMBEDDED OBJECTS Step 1 Configure the Grid and Set Page Margins Step 2 Embed a Graph Step 3 Create a Report Title Step 4 Print and Save a Report EXERCISE 2 CREATE A BASIC REPORT WITH LINKED OBJECTS Step 1 Link a Graph to the Active Spectrum Step 2 Link a Peak Pick Table to the Active Spectrum Step 3 Create a Title and Print a Report EXERCISE 3 ADVANCED REPORTING TECHNIQUES Step 1 Insert Text Object and Repeat on Each Page Step 2 Configure the Quick Print Function UV Probe Manual iii

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9 Introduction Chapter 1 Introduction Introducing UVProbe Welcome to the UVProbe personal software package. UVProbe s modular approach to data collection, analysis, and reporting provides a rare combination of simplicity and power. UVProbe includes four basic components. A Spectrum module for wavelength scanning and analysis. A Kinetics module for Time Course measurement and Michaelis-Menten calculations. A Photometric module for quantitative data analysis. A powerful and flexible Report Generator that is used to create and print custom reports with linked or embedded data, which can be instantly printed from within any module. Other features include: An intuitive screen layout that can be customized for simple layouts with just a graph and Photometer control buttons to more complex layouts with Instrument History and status displays, as well as multiple graphs and tables. Instant machine control with real-time feedback, including onscreen readings of absorbance, transmittance, energy, or reflectance values. Flexible output to files and printers. Various tables used to display, collect, and control data. Three graph modes to display data while being collected or after it is collected. Numerous other post-processing procedures, such as Point Pick, Peak Pick, and Peak Area. Import and export features used to share data with other Windows applications. Comprehensive Online Help, including context-sensitive Help for each dialog box. About this Manual The purpose of this manual is to help the user become familiar with UVProbe. It briefly introduces key concepts, explains the layout of the software, then guides you through the basics with a four lesson tutorial. The tutorial contains important basic procedures for each module and some advanced techniques. Before beginning the tutorial, read the preliminary information contained in the following sections. For more detailed explanations of features or procedures, refer to Online Help. UVProbe Installation Requirements This section describes the minimum hardware and software necessary to run UVProbe, as well as how to install and remove the software from the system. Minimum Computer Hardware Requirements An IBM PC or PC compatible with a Pentium (200MHz) processor; a Pentium II (300MHz) is recommended. UVProbe Manual 1-1

10 Introduction Approximately 128 MB RAM. Approximately 35 MB free hard disk space. SVGA video adapter and monitor: 800x600 resolution required, 1024x768 recommended. Parallel and serial adapters. Graphic printer or plotter (recommended for printing data). Mouse or a similar pointing device. CD ROM. Minimum Software Requirements Microsoft Windows XP/NT4.0/2000 operating system Installing UVProbe Install UVProbe as follows: Install Shimadzu Authentication Tool and UVProbe following the procedures from Step 1 to Step 2. If you install the optional software, UVPC Validation Software, you are required to click Help button and follow the viewed procedure to install Support files for UVPC validation. Step 1 Installing Shimadzu User Authentication Tool 1 Click Shimadzu User Authentication Tool. 2 Welcome dialog box appears. Read the description well and click the Next button. 3 When installation starts, the next window will appear. If it is the first installation, click Yes. In the case of reinstallation or ADO has been already installed by Office and the equivalent, click No. 4 When installation is complete, Setup Complete dialog box appears. If you restart the PC immediately, click Finish. If you restart the PC later, click No, I will restart the PC later first, and then click Finish. Step 2 Installing UVProbe 1 Start up the setup file from the CD-ROM. Then click the [UVProbe] button. NOTE : The install program can be started using the Run command in MS-Windows/NT/2000/XP. Choose [Start] -> [Run] to open the Run dialog box. Click the [Browse] button and choose the SETUP.EXE program from the root folder on the CDROM. Click the [OK] button to run the setup program. 2 Please read the information in the Welcome box and click Next. 3 Please read the software license agreement and click Yes to accept. 1-2 UVProbe Manual

11 Introduction 4 Enter your Name, Company, and Product ID Number in the User Information Box. Click Next. (The Product ID number is on the front cover of this tutorial.) 5 In the Choose Destination Location dialog box, use the Browse key to choose a folder for UVProbe, or accept the default folder (Program Files Shimadzu UVProbe). Click Next. 6 In the Option Selection dialog box, select the application mode of the UVProbe you wish to install and click Next. For the details of each mode, see Application Mode in this document, UVProbe Help. 7 In the Create Shortcut box, click the check box to place an icon on the desktop, then click Next. 8 When the software has finished loading, click in the box to view the ReadMe file. Click Finish to complete the setup. 9 Restart the computer. The Shimadzu icon should appear on the Windows desktop. Uninstalling UVProbe 1 Select Windows Start > Settings > Control Panel. 2 Double-click Add/Remove Programs. 3 Select UVProbe from the list of programs, then click the Add/Remove button. 4 Click Yes to confirm deletion of the program. NOTE: When UVProbe is uninstalled, all sample data files are removed with the program. However, uninstalling does not remove any files that have been created and saved to disk. 5 Click OK when the process has finished. Application mode Application modes are provided in three types: Normal, Security, and GLP. The available functions differ depending on each mode. Function Normal Security GLP function Security function Disabled Enabled Enabled GLP function Disabled Disabled Enabled Security function When security function is disabled, entering User Name and Password is necessary at the time of log-in to the system, and this will limit access to the system. Assigning rights to each user limits the available UVProbe functions. Also, the user name of the log-in user is automatically used as analyst name. The analyst name cannot be changed. For the details, see UVProbe Functions and System Administration in the Introduction chapter. NOTE : When security function is valid, the right to overwrite the files in photometric module does not exist in the default state. UVProbe Manual 1-3

12 Introduction GLP function GLP function supports the system to cope with GXP (GLP: Good Laboratory Practices, GMP: Good Manufacturing Practices, etc ) When the GLP function is enabled, the following limitations apply in the operation of each module. Common UVProbe system can be locked using Windows > Lock command. Information of Instrument History can be transmitted to the database. The unsaved file is automatically saved in the disk at the exit of UVProbe or at the printing. Kinetics / Spectrum module Newly measured and created by data calculation data sets are automatically saved to disk. The Sewing Box feature is disabled. Renaming of data files, storage names, and data set names is prohibited, except for Enzyme files. Deletion of storages and data sets contained in data files is prohibited, except for Enzyme files. Saving at the existing file name is prohibited. Photometric module Deletion of samples rows and standards rows is prohibited, only excluded. Deletion of samples columns and standards columns is prohibited. A User Entry cannot be chosen as a data acquisition method of a sample table. Saving at the existing file name is prohibited. After Saved file, it cannot change the factor on a standard table and a sample table. Verification and changing the application mode The installed UVProbe application mode cannot be verified in Option of the Edit menu. It is also possible to toggle the Normal mode and the Security mode. Switching over from the Normal mode to the Security mode 1 Select Option from the Edit menu of UVProbe. 2 Click the Security Mode button and give a checkmark. 3 Click the OK button to close the dialog box. 4 A message telling mode selection is displayed from the next start-up. 5 When UVProbe is restarted after it is closed once, a log-in dialog box is displayed and it is requested to enter the user ID and the password. 6 Administrator that owns every right is already registered as User ID. Password is not set. Enter admin for User ID and click the OK button. NOTE: It is not possible to change from the other mode to the GLP mode and vice versa. In this case, UVProbe must be reinstalled after it is uninstalled once. 1-4 UVProbe Manual

13 Introduction About UVProbe Although UVProbe is a unified software package with a shared set of capabilities, it can be viewed as four programs in one, with the Spectrum module, Photometric module, Kinetics module, and Report Generator comprising the four programs. Each opens in its own window within the larger UVProbe window, and each has a unique purpose and capabilities. They also have similar, yet differing interfaces, with their own toolbars, menus, tables, graphs, and screen arrangements. The following information guides you through the basics from the common to the unique. For a more precise explanation of the procedures, refer to UVProbe Functions on page 1-2. Starting UVProbe When UVProbe is started, the window is displayed in the same configuration as when the program was exited. For example, the toolbars and windows are restored to the same position; however, no data is displayed. 1 Turn on the monitor, computer, and spectrophotometer. 2 Select Windows Start > Programs > Shimadzu > UVProbe, or double-click the UVProbe icon on the desktop. Double-click to start UVProbe 3 Enter the User Name and Password into the User Login dialog box when Security is enabled, then click OK. When Security is not enabled, this dialog box will not appear. NOTE: When the system starts for the first time after installation, the user ID of the administrator is admin. It is not necessary to input password. Open a module On the Window menu, click on a module. UVProbe Manual 1-5

14 Introduction All modules can be open at the same time. Use the Window menu to quickly switch from module to module, or to arrange multiple modules using the Cascade and Tile choices. Modules can also be dragged and sized. UVProbe The Basic Interface Menu Bar Standard Toolbar Photometer Status Bar Instrument Bar Output Window This is an example of the basic UVProbe window with no open modules. Notice that it includes a Menu bar, a Standard toolbar, an Output window, an Instrument bar, and a Photometer Status bar. The following capabilities are available before either a module or the Report Generator is opened. Set options Perform system administration functions Add, configure, and remove instruments Add custom tools to the Tools menu For details on performing the above procedures, refer to Online Help. 1-6 UVProbe Manual

15 Introduction Output Window The Output window is dockable and can be positioned anywhere within the UVProbe workspace. It displays useful system information at the bottom of the UVProbe window and contains two tabs Output and Instrument History. Output displays general messages while the software is running. This is temporary information that will be cleared the next time the system is started. Instrument History displays information related to the currently active instrument, such as initialization time, baseline information, etc. The information changes when switching between instruments to display information specific to the currently active instrument. Neither Output nor Instrument History information can be printed or saved. Instrument Bar The Instrument bar is a dockable toolbar that can be positioned anywhere within the UVProbe workspace. It displays a button for each available instrument. To switch between the instruments, click the desired instrument. Photometer Status Bar The Photometer Status bar is a dockable status and control bar that can be positioned anywhere within the UVProbe workspace. Using the Photometer Status bar, any number of machine manipulation functions can be performed. The appearance of the Photometer Status bar can be configured to control the font style, size, and color, and the background color for the status display. Right-click the Photometer Status bar and choose Properties. See UVProbe Help for more details. Standard Toolbar New Tool Print Tool Spectrum Module Open File Tool Save File Tool Print Preview Tool Undo Tool Redo Tool Cut Tool Copy Tool Paste Tool Report Generator Kinetics Module Photometric Module UVProbe Manual 1-7

16 Introduction System Administration This section explains basic system administration. When security is disabled, and will not be used, skip to Communicating with the Spectrophotometer on page Basically, security enables a system administrator to determine the access privileges of everyone authorized to use the system. There are three procedures to master: adding groups, assigning group privileges, and adding users. When UVProbe is first installed, there are only four groups Administrator,Developer,Operator and Guest. The Administrator group controls all access privileges, i.e., when a user is added to this group, that user receives unrestricted access to UVProbe. To effectively control system access, create groups for each level of access that is to be granted, then assign users to the appropriate groups. For example, a group can be restricted from using the Peak Area table or the Report Generator. Groups cannot be restricted from individual modules. Use security to control access to the system, track users, and the operations that are performed by individual users. When security is enabled, the User Name is automatically entered into the analyst field that is saved with the data (in the New Data Set Information dialog box). View user and operation information on the Instrument History tab in the Output window, or in the File Properties dialog box History tab. In the Report Generator, the logged-in user can be printed on the report. Click Security in the Edit menu to display the Administrative dialog box. System control is performed using this dialog box. The tabs (pages) other than Change Password tab are available for the users registered in the Administrator group. Assign user s rights For convenience and ease of administration,every user must belong to a group. Group users carefully to control their rights within the system. The following rules apply to users and groups. A group is a collection of users. Each user must belong to a group,and cannot belong to more than one group. Groups have rights. All members of a group acquire the rights of the group. 1-8 UVProbe Manual

17 Introduction Rights Clipboard Operations Access Generator Edit Options Modify Menu Clipboard Operations Clipboard Operations Modify The rights that can limit the operation are divided in 18 components. The rights contained in each components and the ones already made available in UVProbe are described as follows: Also, no operation right of the UVProbe is given to the Guest group. Shimadzu Activity table Control (Kinetics Module) Right Description Administrator Developer Operator A function to copy the rows or columns of the activity table to the clipboard. Shimadzu Command Container Right Description Administrator Developer Operator Report Tools A right to use report generator module. It is a function to create/save/read the report files and report template in which objects are arbitrary lay out. A right to use Option in the Edit menu. It is the function to toggle UVProbe s application modes (Normal mode and Security mode only). A right to use the Tools menu. It is a function to add the other application software in the UVProbe menu command Adding a program in the Tools menu. Shimadzu Data print Control (Spectrum/Kinetics Module) Right Description Administrator Developer Operator A right to copy the rows or columns of the Data Print table to the clipboard. Shimadzu Kinetics Main Table Control Right Description Administrator Developer Operator A right to copy the rows or columns of the main table to the clipboard. A right to enter Edit, Coefficient/Comment to the main table. The right to toggle display/non-display of the columns on the table is also included. Shimadzu Kinetics Module Right Description Administrator Developer Operator Acquire Data A right to perform measurement Activity Table A right to create activity table. Cell Blank A right to use cell blank function Data Print A right to use data print function Edit Method A right to use the Method function in the Edit menu. It is the function to create/edit the measurement method. UVProbe Manual 1-9

18 Introduction Edit Settings Right Description Administrator Developer Operator A right to use the Settings function in the View menu. It is the function to set the number of digits of the data to be displayed, link setting of the report and template, whether message is displayed or not, display format of the dataset names, setting of the delimiters used at the time of saving text, etc Enzyme Table A right to create Enzyme file. File Properties A right to use File Property. File Property is a function to confirm the file loaded on RAM and to change the names such as file names, storage names, and dataset names. Go to Wavelength A right to perform wavelength transfer Load File A right to use the Open function in the File menu. It is a function to read Kinetics files, Enzyme files, Measurement Methods, and various templates. Main Table A right to create Main Table Manipulation A right to use data manipulation. Peak Area A right to create the Peak Area table. Peak Pick Perform Zero Auto A right to use the Peak Pick function of the Operation menu. A right to use auto-zero function Perform Baseline A right to use baseline correction function. Point Pick A right to use Point Pick function. Print Report Properties Save File A right to use Print Preview and Print functions in the File menu. They are the functions to perform printing using the report template linked to each pane. A right to use the Properties function in the View menu. It is the function to edit or set the display of graphs and tables in each pane. A right to use the Open function in the File menu. It is a function to open Kinetics files, Enzyme files, Method files, and various templates. Sewing Box A right to use the sewing box function. NOTE : The data operation function is disabled in the GLP mode. NOTE : File names, Storage names, and Dataset names cannot be changed in the GLP mode. Arithmetic Shimadzu Manipulation Control (Spectrum/Kinetics Module) Right Description Administrator Developer Operator Blank Subtract A right to use the Blank Subtract function that is one of Manipulate in the Operations menu. It is a function to create a new dataset by performing four operations of calculation of the constant number to the specified data sets. A right to use the Blank Subtract function that is one of Manipulate in the Operations menu. It is a function to create a new dataset by performing blank corrections on the specified data set UVProbe Manual

19 Introduction Right Description Administrator Developer Operator Ensemble Average Data Set Interpolation Normalization Transformations A right to use the Ensemble Average function that is one of Manipulate in the Operations menu. It is a function to create one dataset using the average value per point with regard to the specified two or more data sets. A right to use the Data Set function that is one of Manipulate in the Operations menu. It is a function to create a new dataset using four operations of calculation among data sets. A right to use the Interpolation function that is one of Manipulate in the Operations menu. It is a function to interpolate datasets in arbitrary pitch and to create a new data set. A right to use the Normalization function that is one of Manipulate in the Operations menu. This function enables easier view of the datasets with different kinds of measurement values on the overlay graph. A right to use the Transformation function that is one of Manipulate in the Operations menu. It is a function to create a new dataset using differential transformation, reciprocal transformation, and Abs/T% transformation. Clipboard Operations Shimadzu Michaelis-Menten Control (Kinetics Module) Right Description Administrator Developer Operator Create New Data Delete Row(s) Edit A right to copy the rows and columns of Michaelis-Menten Table to the clipboard. A right to newly create of Michaelis-Menten Table. A right to delete (cut out) the columns of Michaelis-Menten Table. A right to change the numerical value in Michaelis-Menten Table. Clipboard Operations Edit Shimadzu Peak Area Control (Spectrum/Kinetics Module) Right Description Administrator Developer Operator A right to copy the rows and columns of the Peak Area table. A right to change the numerical values and comments in the Peak Area table. Delete Region A right to delete the areas in the Peak Area table. Clipboard Operations Edit Shimadzu Peak Pick Control (Spectrum/Kinetics Module) Right Description Administrator Developer Operator A right to copy the rows or the columns of the peak pick table. A right to change the comment of the peak pick table. UVProbe Manual 1-11

20 Introduction Shimadzu Photometric Module Right Description Administrator Developer Operator Acquire data A right to perform measurement. Cell Blank A right to use the Cell Blank function. Edit Method Edit Settings A right to use the Method function in the Edit menu. It is a function to create/edit the measurement method. A right to use the Settings function in the View menu. It is a function to perform settings such as link settings of report template, whether to display messages, dataset name display format, and delimiters used at the time of text saving. Go to Wavelength A right to perform wavelength movement. Load File Make Standard Manipulation Overwrite File Perform Zero Auto A right to use the Open function in the File menu. It is a function to load the photometric files, standard files, method files, etc A right to use the Make Standard function of the Operation menu. It is a function to move the data on the table to the standard sample table. A right to use the Manipulate function in the Operations menu. A right to use the Save function in the File menu. A right to use Auto-Zero function Perform Baseline A right to use baseline correction function. Print Report Properties Save File Statistical Analysis A right to use the Print Preview and Print functions in the File menu. It is the function to perform printing using the report template linked to each pane. A right to use the Properties function in the View menu. It is a function to perform edit/display setting of the graphs and table on each pane. A right to use Save and Save as functions in the File menu. It is a function to save/overwrite the photometric files, standard files, ASCII files, method files, etc A right to use the Statistical Analysis function in the Operations menu. It is a function to add the column to display the calculation results of the statistical analysis (standard deviation and average) on the sample table. Shimadzu Point Pick Control (Spectrum/Kinetics Module) Right Description Administrator Developer Operator Clipboard Operations Edit Remove Points A right to copy the rows or columns of the Point Pick table to the clipboard. A right to change the wavelength and comment of the Point Pick table. A right to delete the rows within the Point Pick table UVProbe Manual

21 Introduction Modify Print Save File Shimadzu Report Generator Right Description Administrator Developer Operator A right to create/edit the report files. It is a function to insert objects onto the report or change the positions of objects. A right to use Print Preview and Print functions in the File menu. They are functions to print reports from the report generator. A right to use Save and Save as functions in the File menu. It is a function to save the created report files. Clipboard Operations Shimadzu Sample Table Control (Photometric Module) Right Description Administrator Developer Operator A right to copy the rows or columns of the Sample table to the clipboard. Delete rows A right to delete the rows within the Sample table. NOTE : The rows of the Sample table cannot be deleted in the GLP mode. Clipboard Operations Shimadzu SEP Table Control (Photometric Module) Right Description Administrator Developer Operator Right to copy the rows or columns of S.E.P table to the clipboard. Delete rows A right to delete the rows within the S.E.P table. NOTE : The rows of the S.E.P table cannot be deleted in the GLP mode. Shear Stitch Shimadzu Sewing Box Control (Spectrum/Kinetics Module) Right Description Administrator Developer Operator A right to use the Shear function that is one of Sewing Box in the Operations menu. It is a function to cut out a part of the selected data set. A right to use the Stitch function that is one of Sewing Box in the Operations menu. It is the function to connect two data sets to create a new data set. Shimadzu Spectroscopy Instrument Bar Right Description Administrator Developer Operator Add Instrument Configure Instrument Remove Instrument A right to use the Add function in the Instrument menu. It is a function to add instruments to be used for the system. A right to use the Configure function in the Instrument menu. It is the function to perform the COM port change and instrument baseline correction (with UV-1600/1700 series only) of the registered instruments. A right to use the Configure function in the Instrument menu. It is the function to perform the COM port change and instrument baseline correction (with UV-1600/1700 series only) of the registered instruments. UVProbe Manual 1-13

22 Introduction Shimadzu Spectrum Module Right Description Administrator Developer Operator Acquire Data A right to perform measurement. Data Print A right to use data print function Edit Method Edit Settings File Properties A right to use the Method function in the Edit menu. It is the function to create/edit the measurement method. A right to use the Settings function in the View menu. It is the function to set the number of digits of the data to be displayed, link setting of the report and template, whether message is displayed or not, display format of the dataset names, setting of the delimiters used at the time of saving text, etc A right to use File Property. File Property is a function to confirm the file loaded on RAM and to change the names such as file names, storage names, and dataset names. Go to Wavelength A right to perform wavelength transfer Load File A right to use the Open function in the File menu. It is a function to read ASCII files, Measurement Methods, and various templates. Manipulation A right to use data manipulation function. Peak Area Peak Pick Perform Zero Auto A right to create the Peak Area table on the Spectrum module. A right to use the Peak Pick function of the Operation menu. A right to use auto-zero function Perform Baseline A right to use baseline correction function. Point Pick A right to use Point Pick function. Print Report Properties Save File A right to use Print Preview and Print functions in the File menu. They are the functions to perform printing using the report template linked to each pane. A right to use the Properties function in the View menu. It is the function to edit or set the display of graphs and tables in each pane. A right to use Save, Save All, and Save as functions in the file menu. It is a function to save/overwrite Spectrum files, Measurement Methods, various templates, and various files. Sewing Box A right to use the Sewing Box function. NOTE : The data operation function is disabled in the GLP mode. NOTE : File names, Storage names, and Dataset names cannot be changed in the GLP mode UVProbe Manual

23 Introduction Clipboard Operations Shimadzu Standard Table Control (Photometoric module) Right Description Administrator Developer Operator A right to copy the rows and columns of the standard table. Delete Rows A right to delete the rows of the standard table. NOTE : In the GLP mode, the rows of the standard sample table cannot be deleted. Add a group Groups are added in the Group page of the Administrative dialog box. Groups can be added in addition to the existing user group. Two methods to add groups are available: one that creates new groups and the other that refers to the rights of the existing groups. Creating a new group: 1 Click the Add button of the Group page to open the Edit Group dialog box. 2 Enter the group name you wish to add in the Group dialog box and the group s description in the Description edit box. 3 (To Procedure 3 in Group right setting? Using Edit Group dialog box.)[tm3] Referring to the right of the existing groups 1 Click the group to refer to in the group list in the Group page. 2 Click the Copy button to view the Edit Group dialog box. 3 Enter the group name you wish to add in the Group dialog box and the group s description in the Description edit box. 4 (To Procedure 3 in Group right setting? Using Edit Group dialog box.) UVProbe Manual 1-15

24 Introduction Assign group rights Rights of the group are set in the Group page of the Administrative dialog box. Two methods to set group rights are available: one that uses the dialog box and the other that uses the Current Right list. Using the Edit Group dialog box 1 Click the group you wish to set rights in the group list in the Group page. 2 Click the Properties button to open the Edit Group dialog box. 3 Select the target component from the Object combo box. 4 Click the target right, and then click the arrow button to transfer the right between the Available Functions list and the Selected Functions list. 5 Repeat steps 3 and 4 to set the rights. 6 When setting of the right is complete, click the Close button to confirm the setting. Using the Administrative dialog box 1 Click the group you wish to set rights in the group list in the Group page. 2 Click the + mark next to the target module or object in the Current Rights list. 3 Give check marks to the boxes next to the each right and assign the right as shown in the figure. 4 Repeat steps 2 and 3 to set the rights. 5 When setting of the right is complete, click the Close button to confirm the setting UVProbe Manual

25 Introduction Remove a group A group is deleted in the Group page of the Administrative dialog box. 1 Click the group you wish to delete in the group list of the Group page. 2 Click the Remove button and confirm that the target group is deleted from the group list. 3 Click the Close button to confirm that it has been deleted. NOTE : When users exist within the group, that group cannot be deleted. The registered groups cannot be deleted. Administrator group cannot be deleted. UVProbe Manual 1-17

26 Introduction Add a user A user can be added in the User page of the Administrative dialog box. You can add a new user in addition to the existing user. 1 Click the Add button in the above User page to view the Add a User dialog box. 2 Enter User ID, User Name, and Password of the user you wish to register now. 3 Select the group into which the new user is registered from the Group Combo Box. 4 Click the OK button to close the dialog box. 5 Click the Close button to confirm that the user has been added. NOTE : Once registered, the user cannot be deleted UVProbe Manual

27 Introduction Edit user User can be edited in the Users page in the Administrative dialog box. The group to register the user and the password can be changed here. 1 In the user list of the Users page, click the user whose contents you wish to edit. 2 Click the Properties button to open the Edit User dialog box. 3 Edit the items you wish to change. Select the group to register the user into from the Group Combo box. To change the user password, enter a new password. 4 Click the OK button. 5 Click the Close button to close the Administrative dialog box. NOTE : User Name and Full Name cannot be changed when UVProbe is set to the GLP mode. Only a system administrator can use this function. The same user cannot be registered in two or more groups. Enabling/disabling user To enable/disable user is toggled in the Users page of the Administrative dialog box. Here, the registered users can be disabled or the disabled users can be enabled. NOTE : The registered users cannot be deleted. To toggle user enabled/disabled, it is necessary to enter the reason. 1 Click the user you wish to disable/enable in the user list of the User page. 2 Click the Enable (Disable) button to open the Input a Reason dialog box. 3 Enter the reason to enable or disable the user in the Edit Dialog box. 4 Click the OK button to close the dialog box. 5 Confirm that the target user is enabled or disabled, and then click the Close button to confirm the change. UVProbe Manual 1-19

28 Introduction Changing a password Password is changed in the Change Password page in the Administrative dialog box. 1 Enter the current password that the user is using. 2 Enter a new password. 3 Enter the password that has been entered in 2 in the Confirm edit box. 4 Click the Change button to confirm the password change. NOTE : The minimum number of lower-case letters for a password is set by Shimadzu authentication tool. A password requires combination of numbers and alphabetical letters. A password differentiates upper-case letters and lower-case letters UVProbe Manual

29 Introduction Using the Modules Peak Pick Table in Operation Pane Spectrum Toolbar Method Pane Photometer Button Bar Graph Pane This is a graphic of the UVProbe window with an open Spectrum module. The Spectrum module is in its own window within the larger UVProbe window, and includes a Menu bar, a Standard toolbar, a Spectrum toolbar, an Instrument bar, a Photometer Button bar, and a Photometer Status bar. Use the View menu to enable/disable any of the toolbars or display elements. Panes that vary between modules The Spectrum window is divided into panes, with the Operation pane in the upper left, the Graph pane to the right, and the Method pane in the bottom left. The Kinetics and Photometric modules also contain panes. Each pane has a specific function or set of functions. For example, the Spectrum module Graph pane displays three different types of graphs. The Method pane displays the data collection method information for the current data set, and the Operation pane displays data collected or manipulated by various operations, such as Peak Pick or Peak Area. Use the View menu to enable/disable the panes. Resize panes by dragging the horizontal and vertical splitter bars. UVProbe Manual 1-21

30 Introduction Unique menus and toolbars Although the modules share some menus, the available menus change from module to module and the choices within the menus also change. For example, the Spectrum and Kinetics modules each have a Graph menu, while the Photometric module does not. However, the Graph menu provides different choices depending on whether the Spectrum or Kinetics module is active. The modules also have their own toolbars, once again with both shared and unique capabilities. For a detailed depiction of a module and a description of its purpose, see the introduction to the lesson for that module. UVProbe Functions This section describes some of the functions that must be understood before starting the tutorial, including: Communicating with the spectrophotometer Shortcut menus and Properties pages Graph modes Communicating with the Spectrophotometer Once the PC is physically connected to the spectrophotometer (refer to the Instrument Installation Manual), and UVProbe had been installed and started, the software is almost ready to take measurements. The final step is to add and configure the instrument to work with UVProbe. Add and configure an instrument 1 Select View > Instrument Bar. 2 Select Instrument > Add to initiate the Add Instrument Wizard. 3 Click Next to view a list of instruments UVProbe Manual

31 Introduction 4 Click the instrument model, then click Next. 5 In the Instrument name box, enter a name for the instrument. This will appear on the Instrument bar button. 6 Click Configure, then select the communications port for the instrument, usually COM1 or COM2. (When uncertain, look at the back of the computer. When the communication ports are not labeled, refer to the PC hardware manual.) Click OK. 7 Click Next. 8 Enter the model name and the serial number of the instrument. Be sure to enter them as each is recorded as one piece of data set information (summary). NOTE: The serial number cannot be changed after it has been entered. When the serial number is incorrect, remove the instrument and add it again. Some instruments contain internal serial numbers. When this is the case, UVProbe will automatically enter this information. 9 Click Finish to display a button on the Instrument Bar with the name of the installed spectrophotometer will display. The screen should resemble the following. Instrument Name NOTE: Move the mouse along the button on the Instrument bar to display a ToolTip to identify the type of the instrument. Connect to the spectrophotometer 1 Select Window > Spectrum, Kinetics, or Photometric. A module must be active before the spectrophotometer can be connected. 2 On the Instrument bar, select the instrument button. When only one instrument is installed, it is automatically selected. 3 Ensure that the spectrophotometer is on, then click the Connect button. When connected to the instrument, the Connect button changes to Start and the Photometer buttons become active, as shown in the next figure. Now create a data collection method for any module and begin taking readings. If instrument initialization has not yet completed when connecting to the spectrophotometer, a window similar to the following may appear. UVProbe Manual 1-23

32 Introduction NOTE: On some instruments, initialization is performed when the power is turned on. If the initialization has completed before the software is connected to the instrument, this screen will not display, and Instrument History is not stored. To ensure that instrument history is stored, connect to the instrument immediately after turning it on. When necessary, click OK when initialization is complete. UVProbe stores the initialization information in the Instrument History for future use. Shortcut Menus and Properties Pages A Shortcut menu is a context-sensitive menu that can be accessed by right-clicking the mouse. A Properties page is a pane-specific dialog box used to set features or perform actions specific to the current pane and the current situation. For example, right-click the Spectrum graph to display a Shortcut menu with options specific to the Spectrum graph. Or, right-click a Spectrum Operation pane containing an active Peak Pick table to display a Shortcut menu with options unique to Peak Pick, and select Properties to display the Peak Pick Properties page. Manipulating a Properties page The Properties page can be pinned so that it is always visible. Click in the upper left corner of the page to pin it. When moving from pane to pane, or module to module, the Properties page remains visible and dynamically updates with new choices and new information, depending on the contents of the active pane. The Properties page can be moved like any other window or dialog box. Close the Properties page by clicking, or, when it is not pinned, click outside the box to close it. When data is entered into a Properties page, the entry takes effect when either the Return or Tab key is pressed or the mouse is clicked outside the Properties page UVProbe Manual

33 Introduction Graph Modes Each module contains graphs for tracking data. There are three graph modes for the Spectrum and Kinetics modules: Active, Overlay, and Stacked. In the Kinetics module there is also a Custom graph mode. The Photometric module has only two graphs: the Standard Curve and the Sample Graph. Active Graph Mode The Active graph mode displays a single line of data that represents the currently active data set. The data does not show in this mode until after it has been collected. To watch the graph update as UVProbe collects data, switch to the Overlay or Stacked mode. The Active mode is for viewing or manipulating data that is already in memory. Overlay Graph Mode The Overlay graph mode simultaneously displays all of the data sets in memory. For example, when there are three data sets in memory, this graph will display a line for each. It may be necessary to use the Auto Scale function on the Shortcut menu to fit all of the data into the graph. The Overlay mode also includes a graph legend to help distinguish between different lines on the graph. The legend can be hidden when not in use and is accessed on the Shortcut menu. Whenever data is collected with the spectrophotometer, UVProbe automatically switches to Overlay mode and displays the data in real-time as it is collected. Stacked Graph Mode The Stacked graph mode displays a separate graph for each data set in memory. The graphs are stacked on top of one another. As more data sets are loaded into memory, each graph becomes smaller, until a scroll bar appears to the right. At that time, it becomes necessary to scroll to see the graphs. This scrolling option may be disabled to compress the graphs to fit within the plotting area. The X-axis labels disappear to conserve space. See Online Help for more information. Custom Graph Mode The Custom graph mode displays a custom graph arrangement only in the Enzyme graph pane of the Kinetics module. Its basic purpose is to simultaneously view Michaelis-Menten data acquired with several linear transform types. Standard Curve The Standard Curve is based on data in the Standard table. UVProbe uses points from the Standard table to calculate the curve and then uses the curve to determine the concentration value of the unknown samples in the Sample table. The Y-axis displays absorbance values and the X-axis displays concentration values. The Y-axis can also display transmittance, energy, or reflectance values, depending on the Measuring Mode set in Photometric > Method > Instrument Parameters. Sample Graph The Sample graph displays a point for each entry in the Sample table. The X-axis contains one point for each value in the table, and the Y-axis displays concentration values for each point. From the Graph menu, the graph can be changed to display absorbance values for each point on the Y-axis. UVProbe Manual 1-25