Jul. 2014
UVProbe
Tutorial
Read this manual thoroughly before you use the product.
Keep this manual for future reference.
Getting Started with
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UVProbe Tutorial i
CONTENTS
Chapter 1 Introduction
1.1 Introducing UVProbe ......................................................................................................................... 1-2
1.2 About this Manual .............................................................................................................................. 1-3
1.3 UVProbe Installation Requirements................................................................................................... 1-4
1.3.1 Minimum Software Requirements......................................................................................... 1-4
1.3.2 Installing UVProbe ................................................................................................................ 1-4
1.3.3 Step 1 - Installing Shimadzu User Authentication Tool......................................................... 1-4
1.3.4 Step 2 - Installing UVProbe................................................................................................... 1-5
1.3.5 Step 3 - Installing Virtual COM Port Driver for USB.............................................................. 1-5
1.3.6 About updating the device driver .......................................................................................... 1-6
1.3.7 Uninstalling UVProbe............................................................................................................ 1-6
1.4 Application Mode ............................................................................................................................... 1-7
1.5 About UVProbe.................................................................................................................................. 1-9
1.6 Starting UVProbe............................................................................................................................. 1-10
1.7 UVProbe – The Basic Interface ....................................................................................................... 1-11
1.7.1 Output Window ................................................................................................................... 1-12
1.7.2 Instrument Bar .................................................................................................................... 1-12
1.7.3 Photometer Status Bar........................................................................................................ 1-12
1.7.4 Standard Toolbar ................................................................................................................ 1-12
1.8 System Administration ..................................................................................................................... 1-13
1.8.1 Assign User Permissions (Rights) ...................................................................................... 1-13
1.8.2 Permissions ........................................................................................................................ 1-14
1.8.3 Adding a Group................................................................................................................... 1-21
1.8.4 Assigning Group Permissions............................................................................................. 1-22
1.8.5 Removing a Group.............................................................................................................. 1-23
1.8.6 Adding a User ..................................................................................................................... 1-24
1.8.7 Editing a User ..................................................................................................................... 1-25
1.8.8 Enabling/Disabling Users.................................................................................................... 1-25
1.8.9 Changing a Password......................................................................................................... 1-26
1.9 Using the Modules ........................................................................................................................... 1-27
1.9.1 Panes that Vary between Modules ..................................................................................... 1-27
1.9.2 Unique Menus and Toolbars............................................................................................... 1-28
1.10 UVProbe Functions.......................................................................................................................... 1-29
1.10.1 Communicating with the Spectrophotometer ...................................................................... 1-29
1.10.2 Shortcut Menus and Properties Pages ............................................................................... 1-31
1.10.3 Graph Modes ...................................................................................................................... 1-32
1.10.4 File Properties, Storages, and Data Sets............................................................................ 1-33
1.10.5 Precision of Internal Data Processing................................................................................. 1-34
1.10.6 Lighting Time of Lamps: Display and Reset Function......................................................... 1-34
1.11 The UVProbe Tutorial ...................................................................................................................... 1-37
1.11.1 Lesson 1 - The Spectrum Module....................................................................................... 1-37
1.11.2 Lesson 2 - The Photometric Module ................................................................................... 1-37
1.11.3 Lesson 3 - The Kinetics Module.......................................................................................... 1-38
1.11.4 Lesson 4 - The Report Generator ....................................................................................... 1-38
ii UVProbe Tutorial
2.3.4 Step 4 - Collect the Data....................................................................................................... 2-6
2.3.5 Step 5 - Save the Data.......................................................................................................... 2-8
2.4 Exercise 2 - Basic Spectrum Operations ........................................................................................... 2-9
2.4.1 Step 1 - Adjust the Parameters of a Peak Pick Table........................................................... 2-9
2.4.2 Step 2 - Create a Peak Area Table..................................................................................... 2-14
2.4.3 Step 3 - Manipulate a Peak Area Table and Graph ............................................................ 2-15
2.4.4 Step 4 - Create a New Region ............................................................................................ 2-16
2.4.5 Step 5 - Manipulate a Data Set........................................................................................... 2-17
2.5 Exercise 3 - Advanced Techniques ................................................................................................. 2-19
<Part 1 - Acquire Data with a Cell Positioner>.................................................................... 2-19
2.5.1 Step 1 - Load and Modify a Saved Data Collection Method ............................................... 2-19
2.5.2 Step 2 - Configure the Positioner........................................................................................ 2-21
2.5.3 Step 3 - Remove Data from Memory .................................................................................. 2-21
2.5.4 Step 4 - Collect the Data..................................................................................................... 2-22
<Part 2 - Use UVProbe with Windows WordPad> .............................................................. 2-23
2.5.5 Step 1 - Copy and Paste a Bitmap to WordPad.................................................................. 2-23
2.5.6 Step 2 - Copy and Paste a Table to WordPad.................................................................... 2-24
INDEX
iv UVProbe Tutorial
1 Introduction
Chapter 1 Introduction 1
1
CONTENTS
Welcome to the UVProbe personal software package. UVProbe's modular approach to data
1
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
1
or embedded data, which can be instantly printed from within any module.
Other features include:
1 • 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.
1 • Instant machine control with real-time feedback, including onscreen readings of absorbance,
transmittance, energy, or reflectance values.
• Flexible output to files and printers.
1 • 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.
1 • Import and export features used to share data with other Windows applications.
• Comprehensive Online Help, including context-sensitive Help for each dialog box.
The purpose of this manual is to help the user become familiar with UVProbe. It briefly introduces key
1
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 the Online Help.
1
This section describes the minimum software necessary to run UVProbe, as well as how to install and
1
remove the software from the system.
1
NOTE
If the set-up program does not run automatically, double-click the AutoRun.exe icon in the CD-
1 ROM.
1
In the order of Step 1 -> Step 2 -> Step 3, install "Shimadzu User Authentication Tool", "UVProbe", and
"Virtual COM Port Driver for USB".
1
NOTE
1
If a USB driver of the latest version is installed in a PC in which an older version has already
installed, follow the procedure described below to update the device driver.
1
1
3. Follow the instructions shown on the screen, and execute automatic search on the PC.
1 The latest version of the device driver will be retrieved and updating is automatically done.
4. When the updating is done, open the "Properties" screen, select "Driver" tab, and confirm that the
device driver version is updated.
1
1.3.7 Uninstalling UVProbe
1. Select Windows [Start] > [Control Panel].
2. Click [Programs and Features].
1 3. Select [UVProbe] from the list of programs, then click the [Uninstall] 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.
Application modes are provided in three types: Normal, Security, and GLP.
1
The available functions differ depending on each mode.
Function Normal Security GLP function
Security function
When the security function is disabled, you will need to enter a User Name and Password when you 1
log-in to the system, and this will limit access to the system. Assigning permissions to each user limits
the UVProbe functions they can use. Also, the user name of the log-in user is automatically used as
the analyst name. The analyst name cannot be changed. 1
For the details, see "UVProbe Functions" and "System Administration" in the "Introduction" chapter.
1
NOTE
When the security function is enabled, users cannot overwrite the files in the photometric module
with the default permissions. 1
GLP function
1
The GLP function enables 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 the Windows > Lock command.
1 • The Instrument History information can be transmitted to the database.
• Unsaved files are automatically saved to the disk when you exit UVProbe.
• When printing unsaved data, the resulting print will be printed as "Status: Temporary".
1
Kinetics / Spectrum module
• Newly measured and created calculation data sets are automatically saved to disk.
1 • 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.
1 • Saving at the existing file name is prohibited.
Photometric module
• Sample rows and standards rows can only be excluded, not deleted.
1 • 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.
1 • After Saved file, it cannot change the factor on a standard table and a sample table.
Verification and changing the application mode
1 The installed UVProbe application mode can 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 1. Select Option from the Edit menu of UVProbe.
2. Click the Security Mode button and give a checkmark.
NOTE
It is not possible to change from the other mode to the GLP mode and vice versa. In this case,
1 UVProbe must be reinstalled after it is uninstalled once.
Although UVProbe is a unified software package with a shared set of capabilities, it can be viewed as
1
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 1-29.
1
When UVProbe is started, the window is displayed in the same configuration as when the program
1
was last 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 > All Programs > Shimadzu > UVProbe, or double-click the UVProbe icon
on the desktop.
1
1
Double-click to start
UVProbe
1
1
3. Enter the User Name and Password into the User Login dialog box when Security is enabled,
1 then click OK. When Security is not enabled, this dialog box will not appear.
1
NOTE
When the system starts for the first time after installation, the user ID of the administrator is
1 "admin". It is not necessary to enter a password.
Opening a module
Click on a module in the Window menu.
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.
1
Photometer Status Bar Instrument Bar Output Window
1
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. 1
• Set options
• Perform system administration functions
• Add, configure, and remove instruments 1
• Add custom tools to the Tools menu
For details on performing the above procedures, refer to Online Help.
1
1
New Tool Print Tool Spectrum Module
Redo Tool
This section explains basic system administration. When security is disabled, and will not be used,
1
skip to Communicating with the Spectrophotometer on page 1-29. 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.
1
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. 1
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 1
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 1
using this dialog box.
The tabs (pages) other than Change Password tab are available for the users registered in the
Administrator group. 1
1 1.8.2 Permissions
The permissions that can limit the operation are divided in 18 components. The permissions contained
in each component and the ones already made available in UVProbe are described as follows:
Also, no permissions to operate the UVProbe are given to the Guest group.
Shimadzu Activity table Control (Kinetics Module)
1 Right Description Administrator Developer Operator
Clipboard A function to copy the rows or columns of the
Operations activity table to the clipboard.
1
Shimadzu Command Container
Right Description Administrator Developer Operator
1
Access Report A right to use report generator module. It is a
Generator function to create/save/read the report files and
1 report template in which objects are arbitrary lay
out.
Edit Options A right to use Option in the Edit menu. It is the
1 function to toggle UVProbe's application modes
(Normal mode and Security mode only).
Modify Tools A right to use the Tools menu. It is a function to
1 Menu add the other application software in the
UVProbe menu command Adding a program in
the Tools menu.
1
Shimadzu Data print Control (Spectrum/Kinetics Module)
Right Description Administrator Developer Operator
1
Clipboard A right to copy the rows or columns of the Data
Operations Print table to the clipboard
1 Shimadzu Kinetics Main Table Control
Right Description Administrator Developer Operator
1 Clipboard A right to copy the rows or columns of the main
Operations table to the clipboard
Modify A right to enter Edit, Coefficient/Comment to the
1 main table. The right to toggle display/non-
display of the columns on the table is also
included.
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.
1
NOTE
The rows of the Sample table cannot be deleted in the GLP mode.
1
NOTE
The rows of the S.E.P table cannot be deleted in the GLP mode.
1
Shimadzu Sewing Box Control (Spectrum/Kinetics Module)
Right Description Administrator Developer Operator 1
Shear A right to use the Shear function that is one of
Sewing Box in the Operations menu. It is a
1
function to cut out a part of the selected data
set.
Stitch A right to use the Stitch function that is one of
1
Sewing Box in the Operations menu. It is the
function to connect two data sets to create a
new data set.
1
Shimadzu Spectroscopy Instrument Bar
Right Description Administrator Developer Operator 1
Add 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. 1
Configure A right to use the Configure function in the
Instrument Instrument menu. It is the function to perform
the COM port change and instrument baseline 1
correction (with UV-1600/1700/1800 series
only) of the registered instruments.
Remove A right to use the Configure function in the 1
Instrument Instrument menu. It is the function to perform
the COM port change and instrument baseline
correction (with UV-1600/1700 series only) of
1
the registered instruments.
1
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.
1
NOTE
In the GLP mode, the rows of the standard sample table cannot be deleted. 1
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 permissions of the existing groups. 1
Creating a new group:
1. Click the Add button of the Group page to open the Edit Group dialog box. 1
2. Enter the group name you wish to add in the Group dialog box and the group's description in the
Description edit box.
1
3. → (To Procedure 3 in "1.8.4 Assigning Group Permissions".)
1
Using the Administrative dialog box
1. Click the group you wish to set permissions in the group list in the Group page.
1
2. Click the + mark next to the target module or object in the Current permissions list.
3. Give check marks to the boxes next to the each right and assign the right as shown in the figure.
1 4. Repeat steps 2 and 3 to set the permissions.
5. When setting of the right is complete, click the Close button to confirm the setting.
NOTE 1
Groups cannot be deleted while they contain a list of users.
The registered groups cannot be deleted.
The Administrator group cannot be deleted. 1
1
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.
1 2. Enter the User ID, User Name, and Password of the user you wish to register.
3. Select the group into which the new user is registered from the Group Combo Box.
1 4. Click the OK button to close the dialog box.
5. Click the Close button to confirm that the user has been added.
1
NOTE
Once registered, the user cannot be deleted.
1
NOTE 1
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 more than one group. 1
NOTE
1
The registered users cannot be deleted.
To toggle user enabled/disabled, it is necessary to enter the reason.
1
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.
1
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 1
change.
1
NOTE
The minimum number of lower-case letters for a password is set by the Shimadzu authentication
tool.
1
A password requires a combination of numbers and alphabetical letters.
The password differentiates between upper-case letters and lower-case letters.
1
1
Peak Pick Table in Operation Pane Spectrum Toolbar
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 1
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.
1
This section describes some of the functions that must be understood before starting the tutorial,
1
including:
• Communicating with the spectrophotometer
• Shortcut menus and Properties pages
• Graph modes
1 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.
1 Some instruments contain internal serial numbers. When this is the case, UVProbe will
automatically enter this information.
1
9. Click Finish to display a button on the Instrument Bar with the name of the installed
spectrophotometer. The screen should resemble the following.
1
1
Instrument Name
1 NOTE
Move the mouse along the button on the Instrument bar to display a ToolTip to identify the type of
the instrument.
1
Connect to the spectrophotometer
1 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.
1
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
1
window similar to the following may appear.
NOTE
1
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
1
Instrument History is not stored. To ensure that instrument history is stored, connect to the
instrument immediately after turning it on.
1
When necessary, click OK when initialization is complete. UVProbe stores the initialization information
in the Instrument History for future use.
1
1.10.2 Shortcut Menus and Properties Pages
A Shortcut menu is a context-sensitive menu that can be accessed by right-clicking the mouse. A 1
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 1
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 1
Pick Properties page.
The Properties page can be moved like any other window or dialog box. Close the Properties page by
1
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.
1 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.
1
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.
File
Storage 1
Data Set
1
File Properties
On the File menu, Properties refers to the File Properties dialog box. (This is different from a
Properties page.) Refer to Online Help for more information. 1
Storage
1
A storage is a data unit contained within a file. There is one storage for each scan, and each storage
contains one or more data sets, including the RawData set (the data collected in the scan) and any
data sets created when manipulating the data.
Data Set
A data set is that part of a file that contains data collected in a scan or created in some other way, such
1 as manipulating the scanned data. Data sets are grouped into storages.
Advantages
The advantages of the File, Storage, Data Set architecture becomes apparent when the Store All Data
1
in a Single File feature is enabled. When this feature is enabled several options are possible:
• Measurements taken using a cell positioner can be stored together.
1 • Every measurement for a given day can be stored in a single file under a different storage thus
reducing the total number of files that reside on disk.
• Measurements of similar samples can be stored together in one disk file.
1
1.10.5 Precision of Internal Data Processing
1 Calculations in UVProbe are performed using double-precision floating-point values. The data stored
in a file also retains the same precision.
The data, either shown on-screen or printed, is rounded to either the user-specified or the default
1 number of digits. This rounding process applies only to the on-screen or printed image and does not
affect the precision of the stored data or any subsequent calculations. For example, a manually
calculated operation result that is based upon on-screen or printed tabular data and the operation
1 result that is calculated by UVProbe using double-precision floating-point values may appear to be
different.
1
NOTE
Double-precision Floating Point:
1 Compliant to IEEE. Mantissa: 53 bit, Exponent: 11 bit.
Equivalent decimal system: 16 digit * 10±308
Rounding Process: The number is rounded up when it is five and above and any number under five
1 is rounded down.
In Ver. 2.50 or later, calculation using a rounded value for the digits following a decimal point is
possible for photometrics. For the target calculation kind and setting procedure, refer to the Help
1 section of the software. (Input "Settings" as the keyword, and select "Settings - Photometrics".)
3. Click Lighting Time of Lamp tab, then WI Lamp and D2 Lamp show how long these lamps have
1
been on.
(The figure for UV-3600 and SolidSpec-3700 is shown below.)
1
1
Tips: Lighting Time of Lamp is automatically read during the initialization of the unit and recorded
on Instrument History on the output window.
The lighting time of the lamp is reset, displayed on the screen when the reset operation is done as
"0 hours", and the count of the lighting time starts newly.
Tips: Resetting the Lighting Time of Lamp is recorded on Instrument History on.
1
1 NOTE
The record of the lighting time is memorized in the memory of the spectrophotometer. When the
power supply of the device is turned off, the record in the memory is maintained with the backup
1 battery. Therefore, please note that all records will be lost when the batteries are exchanged or all
of the record partially in the memory in some causes are lost. When the lighting time is managed,
we will recommend being regularly recorded.
1
NOTE
1 The model of the spectrophotometer might not support the recording the lighting time of the lamp.
In that case, Lighting Time of Lamp tab is not displayed.
1
NOTE
It is likely not to correspond according to the version of the firmware though it is a model that
1 supports the recording the lighting time of the lamp. Each function cannot be used though Lighting
Time of Lamp tab is displayed in that case.
After the software is installed, you are ready to begin the tutorial which includes four lessons, one
1
each for the Spectrum, Photometric, and Kinetics modules, and one for the Report Generator. We
recommend that lessons be completed in order; however, you can also skip to the lesson for a specific
module. It is important to note that Lesson 4 on the Report Generator makes use of files created in
Lesson 1; therefore, Lesson 4 cannot be completed without Lesson 1.
It is also important that the UVProbe Functions section be read and understood (see page 1-29), as
certain procedures are explained that must be understood to successfully complete the tutorial.
1
All data files required by the tutorial can be located in the data subdirectory from which UVProbe was
installed, e.g.,
C:\Program Files\Shimadzu\UVProbe\Data 1
NOTE
All procedures in this tutorial are performed with GLP and security disabled. 1
1
1.11.1 Lesson 1 - The Spectrum Module
Basic Measurements
In Exercise 1, perform a Baseline Correction, create and save a data collection method, and collect 1
and save spectral data.
Basic Spectrum Operations 1
Exercise 2 contains basic Spectrum operations, including how to display and configure a Peak Pick
table, how to create and manipulate a Peak Area table, and how to perform basic arithmetic
operations on Spectrum data sets. 1
Advanced Spectrum Techniques
In Exercise 3, data is acquired with a cell positioner. Also, bitmap graphics are copied from the
Spectrum module and pasted into WordPad. 1
The basic purpose of the Spectrum module is to control the spectrophotometer and scan through a range of
2
wavelengths, while recording absorbance, transmittance, reflectance, or energy readings at each wavelength in
the scanned range.
The module is easy to use and flexible, allowing design of simple or complex methods for collecting data. The
2
instrument and attachment types can be configured for data collection. The user can save collection parameters,
view collected data on graphs in various ways, manipulate the data with features such as Data Print and Peak
2
Pick, save the data, and print it directly from within the module.
NOTE
2
Ver. 2.40 or later versions can perform processes from data acquisition to operation sequentially. Operation
parameters must be configured in Method. For information about operation types and setting methods, see
the help menu of this software. (Type in "Operations" as a keyword and select "Method (Spectrum)".)
2
The module includes three panes: Operation, Method, and Graph.
• The Operation pane is positioned in the upper left and contains all the data viewing and manipulation
functions, such as Data Print, Peak Area, and Peak Pick. 2
• The Method pane is positioned below the Operation pane and displays the data collection method information
for the active data set.
• The Graph pane is positioned on the right and contains the Active, Overlay, and Stacked graphs. 2
CONTENTS
2
Operation Pane Spectrum Toolbar
2
Method Pane Graph Pane
2
View Graph Tool Edit Method Tool Sewing Box Tool
In this exercise:
2
• Perform a Baseline Correction
• Create a data collection method
• Save a data collection method
2
• Collect the data
• Save the data
Before beginning, maximize the UVProbe window and ensure that the Photometer Status bar,
Photometer buttons, Instrument bar, and Output window are displayed. When necessary, select these
items on the View menu.
2
NOTE
If an instrument was not added and configured as described in the Introduction, please do so now.
2 See page 1-29, Communicating with the Spectrophotometer.
2
2.3.1 Step 1 - Create a Data Collection Method
A data collection method will be created using a wavelength range of 600 to 450, a medium scan
2 speed, and a sampling interval of 1.0 nm. The absorbance of a didymium filter will be measured. (Any
available filter or sample may be used as a substitute.)
1. Select Edit > Method, or click the Method icon to display the Spectrum Method dialog box.
2
2. To set the Wavelength Range, enter 600 in the Start box and 450 in the End box.
3. Select Medium in the Scan Speed list.
4. Select 1.0 in the Sampling Interval list. This will set the machine to take a reading every 1.0 nm.
5. Click Single under Scan mode to take a single reading across the selected Wavelength Range.
6. Click the Instrument Parameters tab.
2
7. Select Absorbance in the Measuring Mode list.
8. Click OK to send the parameters to the instrument. Notice the "Photometer Setup" message in
the Photometer Status display. (This displays very briefly.) 2
Leave all other method settings in their default state. Please refer to Online Help for more
information about these settings. To access context-sensitive Help, right-click an item on the
dialog box, then click What's This?
2
NOTE
Perform a Baseline Correction periodically to compensate for drift.
After a Baseline Correction completes, UVProbe stores information about the Baseline Correction in
2
the Instrument History, including the analyst, date and time.
2 NOTE
Before starting the Baseline Correction, ensure that neither the sample nor the reference beam is
obstructed and that there are no samples in the sample compartment. Refer to the instrument
manual for help in identifying the sample or reference beam.
2
NOTE
When more than one instrument is installed, click the button on the Instrument bar that represents
the desired instrument.
2
2
Baseline Correction Listing
2
2.3.4 Step 4 - Collect the Data
2 The absorbance of the didymium filter will now be measured using the method above. First, configure
the Y-axis of the Overlay graph to display the data as it is collected. Whenever a reading is initiated,
UVProbe automatically switches to the Overlay graph and sets the X-axis to the wavelength range in
2 the method. However, the Y-axis may have to be manually set to properly display data.
Configure the Overlay graph
1. Click the Overlay tab to place the graph in Overlay mode.
2. Click the minimum absorbance value on the Y-axis, and change it to -1.
3. Click the maximum absorbance value on the Y-axis, and change it to 3.
2
Click on the Abs.values to change the range
2
NOTE
Either of the following techniques can be used after a scan completes.
2
• To ensure that all the collected data displays properly on the graph, use the Auto Scale function.
After the scan completes, right-click and select Auto Scale on the Shortcut menu to adjust the graph
coordinates to fit the data. 2
• To zoom in on a region of the graph, hold down the left mouse button and drag it to form a box
around the area to be viewed. The graph will adjust immediately when the mouse key is released.
2
Perform a spectral scan
1. Place the didymium filter into the sample compartment of the spectrophotometer. For additional
information, refer to the instrument manual. 2
2. Click the Start button on the Instrument bar.
3. Enter “Didymium” as the file name in the New Data Set dialog box that appears on-screen. 2
4. Enter “Data1” as the name of the data storage and click OK to start the measurement.
2
NOTE
There are two ways to view the parameters of the data set.
2 1. Open File Property dialog box and select Data Set Icon. Parameter will be displayed in the
Method tab.
2. On the Legend Window, double click on the data set. Parameter will be displayed in the Method
2 pane.
In this exercise:
2
• Open a Peak Pick table, adjust the threshold, and modify the table to annotate the graph.
• Create a Peak Area table.
• Manipulate a data set using Arithmetic and Transformations manipulation types to create two new
2
data sets.
2
2. Right-click on the Peak Pick table and select Mark Peaks on the Shortcut menu. Repeat the
above step and select Mark Valleys. Notice that the peaks and valleys are no longer labeled on
2
the graph, as in the following figure.
3. Enter 10 into the Threshold box and press Enter. Observe the change in the Peak Pick table. The 2
table should resemble the following.
2
4. Enter 20 into the Threshold box and press Enter. Notice that the number of entries in the table
decreases as the threshold value is increased. This is because the higher the threshold value,
the fewer the number of peaks and valleys detected.
For additional explanation of the Peak Pick threshold algorithm, see Online Help.
2. In the Description column of the Peak Pick table, enter the following information. When Mark
2 Peaks and Mark Valleys are enabled, these entries will appear on the graph.
The screen should now resemble the following figure. Notice that on the Active graph, each peak and
valley is labeled with the descriptions entered in the Peak Pick table.
2
Change the baseline to zero
1. Change the Y-axis minimum to -10 to see the results of the operation.
2
2. Click on the Peak Area table to update the pinned Properties page.
3. On the Peak Area Properties page, click the Baseline to Zero check box. Notice that the
calculated area and result are updated, and that the baseline of the Peak Area region on the 2
graph is now set to zero.
2 4. Drag the right reader bar until the value reads 340. There is now a second defined region on the
graph.
Define a color and fill style
2 1. For Region 2 in the Peak Area table, click either the Color button or the down arrow next to the
Color button in the Color column.
2 2. Select a color and fill style that contrasts with the color and fill style in the previous region. Click
OK.
3. Click on the Baseline to Zero check box. Notice that the color and fill style for Region 2 changes
2 on the graph and resembles the figure below.
NOTE
A custom color is defined by clicking the C (custom) button on the Color menu.
This is useful when using a large number of regions.
In this exercise:
2
• Acquire data with a cell positioner using Auto Scan.
• Use UVProbe to copy and paste bitmaps and tables into WordPad (Word processor included with
Windows 9x/NT).
2
2
3. Select the Measurement tab and verify the following:
2 • Start wavelength: 600
• End wavelength: 450
• Scan speed; Medium
2 • Sampling interval: 1.0
4. Under Scan Mode, click Auto to switch to the Auto Scan mode.
5. In the File Name box, enter AutoCell to designate a base file for the scanned data.
2
6. Click the Instrument Parameters tab.
7. Verify that the Measuring Mode is Absorbance.
2
2
2. Select the positioner from the list of attachments.
3. Enter 3 for the Number of Cells. 2
4. Click Initialize, and note that the spectrophotometer is moving the positioner into place.
5. When the cell positioner is in place, click OK and notice that the Photometer Button bar now 2
contains two buttons for repositioning the cells.
2
2.5.3 Step 3 - Remove Data from Memory
The file anthracene.spc will be removed from memory so that the only remaining data sets will be
those collected using the cell positioner. 2
1. Select File > Properties.
2. In the Loaded Data box of the File Properties dialog box, expand the data tree, click each file in
2
turn, and click Delete for each file.
3. When a dialog box appears stating that the last data set is being removed with the last file, click
Yes.
4. Click Close after removing all the files from memory.
2
6. Click Close.
Save all data
• Select File > Save All.
2
NOTE
The data may have to be manipulated so that it aligns with the proper column headings.
2
You have completed the Spectrum lesson.
3
Chapter 3 The Photometric
Module, Lesson 2
3
The basic purpose of the Photometric module is to determine the concentration of a substance in a sample; take
3
measurements with a spectrophotometer to create Standard Curves and use the curves to calculate the concentration
value of unknown samples; and derive values based on equations that can be created and customized.
The module includes four panes - Standard table, Standard Curve, Sample/S.E.P. table, and Sample graph. Each 3
pane has only one function, with the exception of the Sample/S.E.P. table pane, which can display either a Sample
table or a Standard Error of Prediction table (see Online Help for information on toggling between these tables).
3
NOTE
If a data file (refer to the following list) is obtained by a type of instrument that is different from that selected in
UVProbe, do not immediately open the file. 3
If it is opened, information unique to the instrument type will not be able to be loaded, and Measurement
Parameters (such as slit width) contained in the file will be reset, causing information acquired during
measurement to be lost.
3
• Photometric File (*.pho) • Photometric Method File (*.pmd)
• Standard Files (*.std) • UVPC related software files (*.std, *.mwq, *.qnt, *.pho)
• Unknown File (*.unk)
3
In that case, select the instrument type in the instrument bar in the Main screen before opening the file. The
instrument bar can be displayed or hidden in the "View" menu.
For details about the instrument bar, see the help menu. (Type in "Instrument" as a keyword and select "Bar".)
If the instrument type is not registered in UVProbe, select "Introduction" - "UVProbe Functions" - "Communicating 3
with the Spectrophotometer" - "Add and configure an instrument" in this manual to add the instrument type.
3
Standard Table Photometric Toolbar Standard Curve
3
Repetition Number
3
View Standard Table Tool Settings Tool Make Standard Tool
When a new Photometric Method is created, the Photometric Method Wizard starts.
3
Complete the Method according to the instructions of Wizard.
If a Photometric Method has been already created or if Method File is open, the Wizard does not start,
instead the Photometric Method Property Sheet opens. The created measurement method can be
edited here. However, there are parameters that prohibit editing if sample measurement has already
started.
3
Newly creating measurement method
Editing measurement method
3 Set Wavelengths
This window sets the wavelength and wavelength range to be measured. The wavelength or
3 wavelength range set here are added as a column in the table. The measured value is indicated in
each wavelength column or wavelength range column.
1. Select either Point or Range in the Wavelength Type box.
3 2. If you have selected Point, please see the following:
Add point wavelength. (measurement wavelength)
3
<<Exercise 1 - Part1 - Step 1>>
3
Photometric Method Wizard - [Calibration] Page
3
Select [Multi point] or [Single Point] Select [K-Factor] or [Raw Data]
3
Photometric Method Wizard - [Measurement Parameter (Sample Table)] Page
3
Complete the Photometric Method Wizard
3
Photometric Method Dialog - Set the other Parameter
3
3
<<Exercise 1 - Part - Step 2>> Save a Data Collection Method
3
<<Exercise 1 - Part2 - Step 1>>
* Create a Data Collection Method
3
<<Exercise 1 - Part2 - Step 3>> Read the Standard Sample
3
[Standard Table File (*.std)]
<<Exercise 1 - Part3 - Step 4>> Save the Data Save the Data
NOTE NOTE
Photometric Files contain both Standard and Unknown Files contain Sample table
Sample table information. information.
In this exercise:
3
• Create a Standard Curve
• Read unknown samples
3
6. In the Type box, select Multi Point to base the Standard Curve on multiple data points.
NOTE
This page sets the file information of the data to be measured. When measurement is executed
following creation of measurement method, enter file names and the like in this page. This section
describes procedure to create and save the measurement method, and so the page settings are
not described.
16. Photometric measurement method window opens. Click Instrument Parameter tab.
3
3
17. Select Absorbance as the Measuring Mode.
18. In the Slit Width (nm) box, select 2.0. (When the instrument has a fixed slit width, skip this step.)
Leave all other settings at their default values. 3
19. Click Close. Verify that both the Standard and Sample tables now include columns labeled
WL530.0, WL550.0, and Result.
3
NOTE
It is not necessary to prepare standard samples if you enter the data manually. In such cases, use
the same operations fas in the procedures below. When entering data, enter the same values
indicated as the measurement result.
NOTE
To create a measurement method and then perform measurement, enter the file information in the
3
Measurement Method Wizard.
This section describes the procedure to perform measurement using the saved measurement
method.
3 2. Enter the following sample ID and concentration values into the table.
Sample ID Concentration
DyeA 0.0
DyeB 25.0
3
DyeC 50.0
DyeD 75.0
DyeE 100.0
NOTE
To enter the values into the table manually instead of taking instrument readings, proceed to 3
Manually Enter Standard Curve Data on the following page.
2. Place the first standard into the sample compartment. Click the Read Std. Button, or push the F9 3
key.
3
NOTE
When the following message displays, click Yes. "There is no associated blank for this
standard. Do you wish to continue?" 3
The spectrophotometer will slew to each wavelength, measure the absorbance, and UVProbe will
enter the WL530.0, WL550.0, and Result values into the Standard table. 3
3. Place each of the five samples into the sample compartment after slewing is complete to take a
reading.
3
NOTE
When setting the method (wavelength, slit width etc.) is finished, enter Sample ID and 3
Concentration in the Standard Table. This operation will make the <ReadStd.> button active and
you can read standard data.
3
Manually Enter Standard Curve Data (optional step)
3
NOTE
Skip this step when reading concentrations with the spectrophotometer. 3
1. Select Edit > Method > Measurement Parameters (Standard) tab, and verify that the data will be
acquired by User Entry which allows the wavelength values to be entered directly into the table. 3
2. Click Close.
Enter the following values into the Standard table:
Sample ID Concentration WL530.0 WL550.0
DyeA 0 0.040 0.040
DyeB 25 0.300 0.050
DyeC 50 0.520 0.030
DyeD 75 0.920 0.175
DyeE 100 1.080 0.070
After UVProbe calculates the result, the table should resemble the following.
3
3
3. Repeat the preceding steps, and change the Order of Curve to 1st.
As shown, the 3rd order curve most closely matches the data points, while the 1st order curve (not
shown) creates a straight line.
4. Change the Order of Curve back to 3rd.
3
3.4.9 Step 2 - Read the Unknown Sample
Now take a reading of the unknown samples, unless the data is manually entered. To enter the values 3
in the Sample table manually instead of taking instrument readings, proceed to Manually Enter
Sample Table Data below.
3
NOTE
Perform collection of the standard sample table by manually entering the data.
In the sample table, set the data acquisition method to Manual in the Measurement Parameter 3
(Standard Sample) of the Photometric Measurement Method.
The instrument will take a reading at each wavelength, then determine the concentration of the 3
sample by comparing the calculated result to the Standard Curve.
3. Repeat this process for the remaining four unknown samples. Notice the results. The
concentration values are based on the Standard Curve.
NOTE
Save the samples for use in Exercise 2.
NOTE
When setting the method (wavelength, slit width etc.) is finished, enter Sample ID in the Sample
Table. This operation will make <ReadUnk.> button active and you can read unknown data.
3
NOTE
When the Order of Curve is not 3rd, the results will be different.
3
3.4.10 Step 3 - View the Sample Graph
3 The Order of Curve will now be changed to view the effects on the Sample table and Sample graph.
Change the Order of Curve
3 1. Select Edit > Method.
2. Click the Calibration tab, then change the Order of Curve to 1st.
3. Click Close and notice the change in the concentrations.
4. Repeat the above process and change the Order of Curve to 2nd. Notice that the fifth point cannot
be plotted. The concentration could not be determined since the result for Dye J is not located on
the 2nd order Standard Curve.
In this exercise:
3
• Use Auto Fill and repeat scan to build a Standard table
• Use repetitions to build a Standard table
• Calculate unknown concentrations using various Standard Curves
• Show statistics
• Perform a reciprocal operation on the data
3
NOTE
Use the samples created in Exercise 1 for this exercise.
3
6. For the sample ID Batch, enter 1.0 in the Conc. (concentration) column of the Standard table.
7. Insert a standard sample into the sample compartment of the instrument.
Notice that a sample ID name is automatically entered for the next sample when the reading is
3
complete.
9. Repeat the above steps for the other four samples using concentration values of 2 through 5.
Save the Standard table
1. Select File > Save As. Verify that Data (directory) is in the Save In box.
2. In the File name box, enter Auto Fill, then select Standard Files (*.std) for the Save as Type. 3
3. Click Save.
3
3.5.2 Step 2 - Use Repetition to Populate a Standard Table
Another Standard table will be created using PhotoMeth.pmd and repetitions will be used to take the
3
measurements.
Open a saved method
1. Select File > New. 3
2. Select File > Open. Verify that the Data directory is open.
3. In the Files of type box, select Methods (*.pmd), and double-click PhotoMeth. 3
File Property window opens. In this step, file is not saved. Do not change anything and click the Close
button.
Use repetitions to take a measurement
3
1. Select Edit > Method. Verify that Instrument is selected for Data Acquired By.
2. Click on the Measurement Parameters tab, change the Sample Repetitions to 3, and click Close. 3
NOTE
To display a message after each reading and enable the option to change samples, place a 3
checkmark in the Prompt Before Repeat box on the Measurement Parameters tab.
3. Enter the following sample IDs and concentrations into the Standard table. 3
Sample ID Concentration
3
BatchA 1
BatchB 3
3
BatchC 4
BatchD 6
NOTE
When the following message displays, click Yes. "There is no associated blank for this
standard. Do you wish to continue?"
Notice that the instrument takes three readings and the sample IDs automatically update.
NOTE
3 To set the repetition count of the unknown sample, and set number in the Sample Repetitions in
Measurement Parameter (Sample) of the Photometric Method Property Sheet.
3 Hide repetitions
1. Right-click the Standard table.
3 2. Click Show Repeats and notice that, in the Type column, only the averages from each set of
repetitions are displayed.
NOTE
3 Use the unknown samples created in Exercise 1 for this step.
NOTE
To manually enter the data into the Sample table, review Exercise 1, Manually Enter the Sample
Table Data on page 3-14, before continuing.
3
1. Place an unknown sample into the sample compartment of the spectrophotometer.
2. Enter SampleA for the first sample ID, SampleB for the second, SampleC for the third, and
SampleD for the fourth.
3. Click the Read Unk button. The instrument will take a reading at each wavelength, and determine
the concentration of the sample by comparing the calculated result to the Standard Curve.
4. Repeat the above steps until each sample has been read. 3
Save a file
3
NOTE
As the file name was set when the standard sample table was loaded, the file is overwritten when
3
saved.
3
5. Select File > Open.
6. Select Standard Sample File (*.std) from File Type list and double-click "AutoFill.std" to open it.
7. File Property window opens. File is not saved in this step. Do not change anything and click 3
Close button.
8. Notice the different values in the Concentration column of the Sample table.
3 5. Click in the check boxes next to Equation, Correlation Coefficient, and Residual Standard
Deviation. Notice that the statistics are displayed at the bottom left of the Standard Curve.
3 Standard Curve
3
Abs.
Conc. (mg/l)
3
y = 0.00008 x3 - 0.01422 x2 + 0.71800 x - 0.07714
r2 Correlation Coefficient = 0.39964
Residual Standard Deviation = 4.50601
3
Conc. (mg/l)
y = 0.11246 x + 3.38095
r2 Correlation Coefficient = 0.39964 3
Residual Standard Deviation = 5.48836
3
3.5.5 Step 5 - Perform a Reciprocal Transformation on the Data
The Manipulate operation will now be applied to the Photo1.pho file used in the previous step to
create a new column in the Sample table. 3
1. Click on the Sample table to activate it.
2. Select Operations > Manipulate. 3
3. Click the Transforms tab.
4. In the Source Column box, select WL550.
3
5. Select 1/Y in the Operators box, then click Add.
6. Click Close. Notice that the result is calculated and placed in the TRANSFORM_1 column of the
3
Sample table.
NOTE
3 When the entire column name is not visible, expand the column header. See Online Help for
details.
Techniques
In this exercise:
3
• Create custom equations
• Perform data acquisition with a sipper attachment
NOTE
3
For this part of the exercise, data is manually entered instead of using an instrument.
The custom equations and factors used in this exercise are based on the following: 3
3
where
A [VA] = Total volume of initial sample
3
The mg/L alpha, mg/L beta, and mg/L backgrounds use the following equations.
Alpha Acids (mg/L) [Aacids] = ((-51.56*WL1)+(73.79*WL2)–(19.07*WL3))
3
3. Select Edit > Method, or click the Method icon.
4. Enter 350 into the Wavelength (nm) box.
3 5. Change WL350 in the Column Name box to WL1, then click Add. This adds a column named
WL1 to the Entries list. (The name of the column is changed to reduce the column width, since
the table will have many columns.)
3
6. Enter 325 into the Wavelength box, then change the Column Name to WL2. Click Add.
7. Enter 275 into the Wavelength box, then change the Column Name to WL3. Click Add. The
3 screen should resemble the following.
10. Click Next button and open Measurement Parameter (Unknown sample) for sample table.
3
11. Select Manual in Data Acquisition Method.
12. Click Next button to open the File Property page.
13. Enter HopsAcid in the File Name box. It is not necessary to enter the file extension.
14. When adding a title or comment to the measurement data as information, enter them in the Tile
and Comment dialog box respectively. Here, however, leave them blank.
3
15. Click the Finish button.
Add a Factor
1. Click the Equations tab, then click the Factors button.
2. Enter VA for the Column name and click Add. As column names are case-sensitive, please enter
uppercase letters. 3
3. Repeat step 2 with the following column names: VB, VC, SW, ALQA, ALQB. The screen should
resemble the following.
3
3
4. Click Close and leave the Equation tab active.
Create a custom equation
1. In the Type list on the Equations page, select Custom to enter a custom equation. 3
2. Enter Dil for the Column Name.
3. In the Equation box, enter: ((VA*VB*VC)/(SW*ALQA*ALQB)). Ensure that there are no spaces in 3
the equation. Spaces are not allowed between characters in equations.
3
NOTE
Alternatively, double-click on the column names and operators to build an equation.
3
4. Click Add to add the Dil column to the table.
5. Enter the following equations using the preceding procedure. 3
Name Equation
Aacids ((-51.56*WL1)+(73.79*WL2)–(19.07*WL3))
Bacids ((55.57*WL1)–(47.59*WL2)+(5.10*WL3))
Bkg ((8.34*WL1)–(15.74*WL2)+(37.19*WL3))
%Aacids Aacids*Dil*100
%Bacids Bacids*Dil*100
%Bkg Bkg*Dil*100
Column Value
3
VA 0.01
VB 50
3
VC 25
SW 166.5
ALQA 1
3
ALQB 2
3
3. Enter the following values into the Wavelength columns. Normally, the results of an instrument
reading would appear in these columns.
3
Column Value
WL1 0.833
3
WL2 0.833
WL3 0.195
3
Save the file
3
NOTE
As the file name was set when the standard sample table was loaded, the file is overwritten when 3
saved.
NOTE
3 Results may differ due to different decimal place settings. See Online Help for more information.
4. Hide the Bacids and Bkg columns using the above step.
NOTE
The column name can be double-clicked to Show or Hide the column.
In this exercise:
• Install a sipper attachment 3
• Load a Photometric file
• Modify the data collection method
• Collect unknown data
NOTE 3
The Maintenance tab is enabled only when connected to an instrument.
NOTE
The Set Zero Order Light function is not available on all instruments. This is indicated by a dimmed
appearance. When this feature is not available, set the wavelength to 540 nm using the GoToWL
button as a substitute for steps 7, 8, and 9 above.
10. Check that the light beam comes through centered on the opening to the sipper cell.
3
11. Click OK when the alignment is finished. Notice that Zero Order Light is not maintained when the
dialog box is closed.
NOTE
When the sipper cell needs alignment, adjust the large screws in front of the cell. Slide the cell
3
around until the beam strikes the opening evenly.
3
3.6.8 Step 3 - Collect the Unknown Data
Auto Zero the sipper
3 1. Using water, check the Sip and Dwell times by clicking Sip on the Photometer Button bar. Make
sure there are no bubbles.
2. Click the Auto Zero button to Auto Zero the instrument using the water in the flow cell.
3
3. Click the Sample table to activate it.
4. Enter three sample IDs into the table: Sample1, Sample2, Sample3.
3 5. Hold the container of an unknown sample up to the sipper tube. Press the sipper lever to take a
reading. (Clicking on Read Unk does not activate the sipper.)
Repeat step 5 for the last two samples.
3
NOTE
When the Method Properties dialog box is closed, the Photometrics method does not change the
wavelength setting of the monochromator. Please use the λ Go to WL button to move the
3 monochromator to a specific wavelength that is to be used for the Auto Zero setting.
This lesson introduces the Kinetics module that controls the spectrophotometer unit to observe time-dependent
4
changes of samples in absorbance, transmittance, reflectance, or energy.
The module is flexible and easily used to:
• Design simple or complex methods for collecting data.
4
• Configure various instrument and attachment types for data collection.
• Save collection parameters, and view collected data on graphs and tables of various types, including
4
Michaelis-Menten.
• Manipulate the data with features such as Data Print and Peak Pick, save the data, and print it directly from
within the module.
4
The module includes four panes: Operation, Information, Time Course graph, and Enzyme graph.
• The Operation pane displays in the upper left and contains all of the data viewing and manipulation functions,
such as Data Print, Peak Area, and Peak Pick. The Operation pane also displays the Main table and Activity
4
table.
• The Information pane is positioned below the Operation pane and displays the data collection method
information, or the Event table or a Michaelis-Menten table. 4
• The Time Course graph is positioned in the upper right and displays the change in value (absorbance,
transmittance, reflectance, or energy) of the sample over time. The X-axis displays Time. The Y-axis displays
Value. 4
• The Enzyme graph is positioned under the Time Course graph and displays Michaelis-Menten, Hill, or
Inhibitor relationships.
This lesson includes three exercises: 4
• Basic Measurements
• Basic Kinetics Operations
• Advanced Kinetics Techniques
4
CONTENTS
4.1 Kinetics Window ................................................................................................................................ 4-2
4.2 Kinetics Toolbar ................................................................................................................................. 4-3
4.3 Exercise 1 - Basic Measurements ..................................................................................................... 4-4
4.4 Exercise 2 - Basic Kinetics Operations.............................................................................................. 4-7
4.5 Exercise 3 - Advanced Kinetics Techniques.................................................................................... 4-11
4
Operation Pane Kinetics Toolbar Time Course Graph Pane
4
Information Pane Enzyme Graph Pane
4
View Time Course Graph Tool
4
File Properties Tool
Settings Tool
Properties Tool
4
Method Tool
4
Data Print Tool Main Table Tool
In this exercise:
4
• Create a data collection method
• Prepare a powder sample of EDTA with a base solution of deionized water
• Perform a Time Course Reading
Ensure that the instrument is connected. If an instrument was not added and configured as described
in the Introduction, please do so now. See page 1-29, Communicating with the Spectrophotometer.
4. Click Auto Timing Mode to set the total measurement time and automatically calculate the Cycle
4 Time and Number of Readings. Use the Auto mode for this exercise.
5. Enter 120 for the Total Time.
4 6. In the Type box under Wavelengths (nm), verify that Single wavelength is the selected
wavelength type. This means that UVProbe will take readings at one wavelength only.
7. Enter 550 in the WL1 box to measure the sample at 550 nm. Leave all other settings at the
default.
8. Click the Instrument Parameters tab.
4
9. Select Absorbance as the Measuring Mode.
10. Click OK. The Photometer Status bar will display "Slewing" and then the current wavelength
value of 550 nm. 4
4
4. Add a small amount of EDTA to the cuvette that contains the deionized water.
5. Shake or stir the sample and place it into the sample compartment of the spectrophotometer.
6. Ensure that the initial absorbance value is close to 1.5 on the Photometer Status bar. When the
absorbance value is too low, add more EDTA. When too high, dilute with deionized water.
3. Shake or stir the powder sample and place it into the sample compartment of the
4
spectrophotometer.
4. Click the Start button on the Instrument bar (or push the F9 key).
Enter “EDTA” in the File name box and “Test” in the Storage name box in the New Data Set dialog
box that appears on-screen.
4
5. Click Finish to start Time Course measurement. The system's status bar will display the
measured absorbance at each sampling pitch, and real-time data will be displayed in the Time
4 Course graph pane.
4 2. Select Time Course (*.kin) as the data type in the Select Active File dialog box.
3. Click OK.
In this exercise:
4
• Perform a Point Pick and save the Point Pick template
• Perform a cell blank operation
• Collect a second set of data to observe the effects of the cell blank operation
• Open a previously saved Point Pick template
• Modify the Main table to recalculate the activity of a data set
10 A 4
30 B
60 C 4
90 D
120 E 4
2. Right-click the Point Pick table and select Properties on the Shortcut menu. 4
3. In the Labels list, click Description. (A check mark indicates that the option is selected.)
4. In the Mark Style list, choose a style.
4
5. Right-click the Point Pick table again, click Mark Points and observe the appearance of the marks
on the graph.
4
NOTE
4 Ensure that the spectrophotometer is connected and that the Photometer Button bar is displayed. A
cell blank must be performed before collecting the data.
4
NOTE
If the data collection method was changed since completing Exercise 1 of this lesson, please reset
the method to the settings used in Exercise 1.
4
NOTE
The mouse can be hovered over the number on the index tabs below the Point Pick table to display 4
the name of the data set.
Notice that the Point Pick table is now populated with the saved Time and Description values and that
4
the absorbance column contains new data extracted from the active data set.
4
4.4.6 Step 6 - Modify the Main Table
Files that will not be used will now be removed from memory, and the Main table will be modified by 4
hiding columns to provide more space on the screen. Then the Start and End values will be changed,
and the Factor will be changed to recalculate the activity of a data set.
Remove files from memory 4
1. Select File > Properties.
2. In the File Properties dialog box, click each file in turn, then click Delete. 4
3. Click Close after removing all the files from memory.
Hide columns on the Main table
4
1. Select File > Open.
2. In the Files of Type box, click Time Course files.
3. In the Data directory, select Achn00.tmc, Achn01.tmc, Achn02.tmc, and Achn03.tmc. (Hold down 4
the Shift key and click on the files to select all.) Click Open.
4. Select Operations > Main Table. 4
5. Right-click the Main table, and select Properties on the Shortcut menu.
6. On the Properties page, double-click on the following columns to hide them: Sample ID, 4
Wavelength, Initial Reading, SD, mAbs/Min, Comments. Verify that the following columns are
showing: G, R, Activity, Start, End, Factor, and Correction Factor.
7. Click off the Properties page. Do not click Reset or the settings will revert to the original settings.
Recalculate the activity value of a data set
1. Click the check boxes in the R column to view the activity region for a data set, displayed as a
dotted line on the graph.
2. In the table, change the Start value to 200 and the End value to 600 for the four data files. Notice
that the Activity value is recalculated and the region on the graph is updated. The Start and End
values can also be modified using the reader bars when in the Active graph pane.
3. Change the factors to 1, 4.5, 9 and 11 and press Enter. Notice the changes in the Activity values
in the table.
In this exercise:
4
• Perform a Michaelis-Menten calculation
• Configure the custom Kinetics graph
• Create an Inhibitor table using values from the Michaelis-Menten table
• Acquire data with a cell positioner
4
NOTE
To display a different type of Enzyme table, select either Inhibitor or Hill from the Shortcut menu to
change the currently active table type.
Populate the Michaelis-Menten table using the Load button
1. On the Michaelis-Menten table, click the Load button in the File column.
NOTE
4 Data files can also be dragged and dropped from the Main table into the Michaelis-Menten table.
Refer to Online Help for instructions.
4
2. In the Select Activity Data Set dialog box, expand the tree of the Kinetics1 file to the RawData
Set.
4
NOTE
When the entire file name is not displayed, use the size gripper in the bottom right corner of the
4 dialog box to enlarge it.
3. Click the RawData set associated with Kinetics1 and click OK.
4. Load the data sets associated with the Kinetics2, Kinetics3, and Kinetics4 files in the same way.
5. Change the substrate concentration ([S] column) of the Michaelis-Menten table, using the values
0.3, 3.0, 15.0, and 45.0, respectively.
4
NOTE
The Concentration of Substrate can also be entered in the Select Activity Data dialog box shown
above.
6. Note the calculated Km and Vmax values at the bottom of the table.
4. The X and Y axes of the graph pane are converted from "1/V" to "V" and from "1/[S]" to "[S]"
respectively. Double click on the graph or right-click on the graph to display the shortcut menu. 4
Then select "Auto Scale" to adjust the graph scale.
4
The Km value is displayed.
3. Click the Custom graph tab in the Graph Properties dialog box.
4
4
4. Verify that the Type of Data is Michaelis-Menten.
5. In the Type of Transformation list, click Hanes, then click Add. Repeat the process using Woolf
4 and Eadie-Hofstee from the Transformation list.
6. Verify that the Orientation is Tiled, and click OK.
4 7. Select each graph in turn on the Enzyme graph pane, right-click and select Auto Scale on the
Shortcut menu to display a graph pane resembling the following figure with one graph for each
Transformation type.
4
4
4. To select the Km and Vmax values from the Michaelis-Menten table. Click the beside MM1 and
Kinetic, then click Dataset1.
4
NOTE
To manually enter the Km and Vmax values, select Edit Km and Vmax in the Source list box at the 4
top of the dialog box.
5. Click Hanes under Transformation, then click Next. When the Set Common Substrate 4
Concentration dialog box appears, click Finish to accept the default and display an empty
Inhibitor table, as shown below. 4
6. Click the Overlay tab in the Enzyme graph pane to display the Dixon graph.
NOTE
Data files can also be dragged and dropped from the Main table into the Inhibitor table. Refer to
Online Help for instructions.
2. In the Select Activity Data Set dialog box, expand the Kinetics1 file to the RawData Set.
4 3. Click the RawData set associated with Kinetics1.
4. Click OK.
4
5. Load the data sets associated with the Kinetics2, Kinetics3, and Kinetics4 files in the same way.
6. Change the Inhibitor concentration ([I] column) for each data set using values 0.3, 3.0, 13.0, and
4 45.0. The table should resemble the following.
7. In the Method box, change the method to Hanes. Notice the change in the KI value.
8. In the substrate [S] box, enter 3, then click the Apply button. Notice the change in the KI value. 4
4
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The Report Generator is a report formatting tool that is used to create, format, save, and print customized
5
reports. Reports can include graphics, text, and embedded objects, as well as links to data from the UVProbe
modules.
This lesson includes the following exercises:
5
• Creating a Basic Report with Embedded Objects
• Creating a Basic Report with Linked Objects
5
• Advanced Reporting Techniques
CONTENTS
5
5.1 Object Modes of Operation (selecting objects).................................................................................. 5-2
5.2 Embedded vs. Linked Objects ........................................................................................................... 5-3
5.3 Report Generator Main Window ........................................................................................................ 5-4
5
5.4 Report Generator Toolbar ................................................................................................................. 5-5
5.5 Report Generator Object Toolbar ...................................................................................................... 5-6
5
5.6 Exercise 1 - Create a Basic Report with Embedded Objects ............................................................ 5-8
5.7 Exercise 2 - Create a Basic Report with Linked Objects ................................................................. 5-12
5.8 Exercise 3 - Advanced Reporting Techniques................................................................................. 5-15 5
To create a report in the Report Generator, insert an object (graph, table, text object) on the page. An
5
object in Report Generator has three modes of operation: Edit, Selected, and Unselected.
5 In Edit mode, when the cursor changes to as it approaches the object's side, the object can be
moved.
5
5.1.2 Selected Mode
5 To select an object, click outside the object to take it out of Edit mode, then click the Unselected
object. The border is a solid line and contains handles at the corners and the middle of each side. In
this mode, the content of the object cannot be edited; however, it can be cut or copied, and a
5 Properties menu can be accessed to perform actions specific to the object. In the case of a Shimadzu
control, this is how active data is linked.
A different cursor , which signals that the object can be moved, also distinguishes the Selected
5 mode from other modes.
Before beginning this lesson, the meaning of embedding and linking objects must be understood.
5
Basically, these are different ways of placing objects on reports and determining how the objects
obtain their data.
Horizontal Ruler
5 Photometric Objects
Spectrum Objects Page Number
Cursor Position
5
Grid Margin
5
New Page Tool Detail List Page Size List
File Properties
Settings
Properties 5
Rectangle Tool
5
Kinetics Graph Tool Kinetics Peak Pick Tool
5
5.5.4 Spectrum Objects
5
Spectrum Graph Tool Spectrum Peak Pick Tool
5
Spectrum Method Tool
Embedded Objects
The data collected in Exercise 1 of the Spectrum lesson will now be used to create a report with
5
embedded data.
Close the Instrument bar, Photometer Status bar, and the Output window. Ensure that all toolbars are
displayed by checking the View menu.
In this exercise:
• Configure the blank report page to display a grid with 10 mm spacing
• Copy the Overlay graph from the Spectrum module, and embed it on the report
• Create a report title
• Print a report
5 NOTE
The markers on the horizontal ruler can also be used to change the margins.
5
5.6.2 Step 2 - Embed a Graph
The file Didymium.spc that was saved in the Spectrum module tutorial will be opened, and the Overlay
5
graph will be copied and embedded on the report.
Open a Spectrum file and copy the Overlay graph
5 1. Select Window > Spectrum.
2. Select File > Open.
5 3. Click Didymium in the Data directory, and click Open.
4. In the Graph pane, click the Overlay tab.
5. Right-click the graph, then select Auto Scale on the Shortcut menu.
5
6. Select Edit > Copy.
5
NOTE
Alternatively, when both the Spectrum and Report Generator windows are displayed, the Spectrum
graph can be dragged and dropped onto the report. See Online Help for more information.
NOTE
Hold down the Shift key while enlarging the graph in Selected mode to size proportionally. (The 5
graph must be in Selected mode to do this.)
NOTE
To create a text box that repeats on the top of every page, click Insert > Header
4. Right-click the text object and select Properties from the Shortcut menu.
5. Click the Fonts tab. Choose a font style and size, then click on the report. The screen should
resemble the following.
5
6. Select File > Print Preview to view the report as it will appear when printed.
NOTE
When the Print icon is selected, the Report Generator immediately prints one copy without
displaying the Print dialog box and a page range or number of copies cannot be selected.
Objects
Next, use the data collected in Exercise 1 of the Spectrum Lesson to create a report using linked data.
5
In this exercise:
• Link a graph object to the Spectrum module
• Link a Peak Pick table object to the Spectrum module
• Create a report title
• Print a report
5 3. Right-click the Selected mode object and select Properties on the Shortcut menu.
4. Click on the upper left corner of the Properties page to pin it.
5
NOTE
Keep the Properties page pinned for the three exercises which follow.
5
6. Click the Active Spectrum check box. The graph is now linked to the Active Spectrum. Select File
5
> Print Preview to view the appearance of the graph when printed. Notice that the graph displays
data in the preview because it is now linked to the Active Spectrum. When the report is printed,
the Report Generator will update the graph with data from the Active Spectrum and print data with
the graph. Close the Print Preview to return to the module.
NOTE
The previous action will only work when a file is open in the Spectrum module. When no file is
open, there is no data to which to link.
7. Click once on the graph to place it into Selected mode, then grab the border and move the graph
down two grid squares and align it to the left margin. 5
4. On the Properties page Data tab, click Active Spectrum. The table is now linked to the Active
Spectrum. Select File > Print Preview to view the appearance of the graph when printed. Notice
that the table now contains peak data from the Active Spectrum. Click Close on the Print Preview
toolbar to leave the Print Preview mode.
5
NOTE
The exact location and size of the text box can also be entered on the Printing Options tab of the
5 Properties page.
In this exercise:
5
• Add pages, numbers, and linked text objects to a report
• Configure Quick Print in the Spectrum module to use a saved report
• Quick Print a report from the Spectrum module
4. Move the Text box to the bottom left of the page. The number will appear in this position on every 5
page of the report.
Insert a date
5
1. Select Insert > Date.
2. On the Properties page, click the Printing Options tab, then click Print on Every Page.
3. Move the text box to the bottom right of the page. The date will appear in this position on every 5
page of the report. (The Properties page may have to be moved.)
Insert the instrument type 5
1. Scroll back to the top of the page and click the Linked Text tool on the Object toolbar.
2. On the Properties page, click the Text Links tab. 5
3. In the Categories list box, click Active Instrument Information.
4. In the Field Names list box, double-click Instrument Type. Notice that the instrument type appears
5
in the text box.
5. Enlarge the box to fit the text and move the box to the upper right of the page. The screen should
resemble the following.
5 NOTE
Other types of text links, such as Logged in User and Registered Company, are supported. For
more information, see Linked Text Field Object in Online Help.
5
Save the report
1. Select File > Save As.
5
2. Enter Report4 as the File name.
3. Click the Save button.
5
5
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IX
INDEX
IX
IX
IX
IX
IX
IX
IX
IX
IX Numerics
95% Confidence Level ................................................................................................................................... 3-20
A
Absorbance value ..................................................................................................................................... 2-6, 4-5
Activity value .................................................................................................................................................... 4-9
Arithmetic manipulation ................................................................................................................................. 2-17
Auto Fill .......................................................................................................................................................... 3-16
Auto Scale ....................................................................................................................................................... 2-7
B
Baseline Correction ......................................................................................................................................... 2-5
Baseline to Zero ............................................................................................................................................. 2-15
Bitmap
copying and pasting to WordPad ............................................................................................................ 2-23
C
Calculation results ......................................................................................................................................... 3-28
Cell blank operation ......................................................................................................................................... 4-8
Cell positioner ................................................................................................................................................ 2-19
IX collect data .............................................................................................................................................. 2-22
Color menu .................................................................................................................................................... 2-16
Columns
IX show/hide ................................................................................................................................................ 3-28
Custom equations ................................................................................................................................. 3-23, 3-25
IX
D
Data
collect ........................................................................................................................................................ 2-6
IX save .......................................................................................................................................................... 2-8
Data sets ............................................................................................................................................... 1-33, 1-34
activity value ............................................................................................................................................. 4-9
IX Date
insert on report ........................................................................................................................................ 5-15
Divisor ............................................................................................................................................................ 2-15
IX
E
IX Embedded objects .................................................................................................................................... 5-3, 5-8
Enzyme graph pane ................................................................................................................................ 4-1, 4-14
Enzyme table ................................................................................................................................................. 4-11
Equation type ................................................................................................................................................. 3-26
IX
F
Factor ............................................................................................................................................................. 3-25
File properties ................................................................................................................................................ 1-33
remove files from memory ............................................................................................................... 2-17, 4-9
Fonts ................................................................................................................................................................ 5-9
G
Graph
embedded ................................................................................................................................................. 5-8
linked ....................................................................................................................................................... 5-12
H
Header ............................................................................................................................................................. 5-9
Hops acid analysis ......................................................................................................................................... 3-23
I
Information pane ..................................................................................................................................... 4-1, 4-11
Inhibitor concentration ................................................................................................................................... 4-16
Inhibitor table ................................................................................................................................................. 4-15
create ...................................................................................................................................................... 4-15 IX
populate .................................................................................................................................................. 4-16
Initialization .................................................................................................................................................... 1-31
Installing UV Probe .......................................................................................................................................... 1-4 IX
Instrument
add .......................................................................................................................................................... 1-29
bar .................................................................................................................................................. 1-12, 1-30
IX
configure ................................................................................................................................................. 1-29
history .............................................................................................................................................. 1-12, 2-6
initialization ............................................................................................................................................. 1-31
serial numbers ........................................................................................................................................ 1-30 IX
Instrument parameters ....................................................................................................................... 2-4, 3-8, 4-4
Instrument type
insert on report ........................................................................................................................................ 5-15 IX
K IX
Ki value .......................................................................................................................................................... 4-16
Kinetics
collect data ................................................................................................................................................ 4-8 IX
window ...................................................................................................................................................... 4-2
Kinetics method
instrument parameters .............................................................................................................................. 4-4
Km value ...................................................................................................................................... 4-11, 4-12, 4-15
IX
L
Linked
graph ....................................................................................................................................................... 5-12
objects ...................................................................................................................................................... 5-3
Peak Pick table ....................................................................................................................................... 5-13
Load button ........................................................................................................................................... 4-12, 4-16
Login dialog box ............................................................................................................................................. 1-10
IX M
Main table ........................................................................................................................................................ 4-9
show/hide columns ................................................................................................................................... 4-9
Manipulate ..................................................................................................................................................... 3-21
data sets ................................................................................................................................................. 2-17
operators ................................................................................................................................................. 3-21
source column ......................................................................................................................................... 3-21
Transforms tab ........................................................................................................................................ 3-21
Measuring mode .............................................................................................................................................. 2-5
Menus ............................................................................................................................................................ 1-28
color ........................................................................................................................................................ 2-16
shortcut .......................................................................................................................................... 1-31, 1-34
Method
Kinetics ..................................................................................................................................................... 4-4
pane .......................................................................................................................................................... 2-1
Photometric ............................................................................................................................................... 3-7
save .......................................................................................................................................................... 2-5
Spectrum ................................................................................................................................................... 2-4
Michaelis-Menten calculation ......................................................................................................................... 4-11
Hanes ............................................................................................................................................. 4-11, 4-14
Lineweaver-Burk ..................................................................................................................................... 4-11
Michaelis-Menten table .................................................................................................................................. 4-11
populate .................................................................................................................................................. 4-12
IX Modes of operation .......................................................................................................................................... 5-2
Edit mode .................................................................................................................................................. 5-2
Selected mode .......................................................................................................................................... 5-2
IX Unselected mode ...................................................................................................................................... 5-2
Modules ......................................................................................................................................................... 1-27
open ........................................................................................................................................................ 1-10
IX Multiple data points .......................................................................................................................................... 3-8
IX
O
Objects
embedded ................................................................................................................................................. 5-3
linked ......................................................................................................................................................... 5-3
IX Operation pane ......................................................................................................................................... 2-1, 4-1
Operators ....................................................................................................................................................... 3-21
Order of Curve ...............................................................................................................................3-8, 3-12, 3-14
IX Orientation ..................................................................................................................................................... 4-14
Output Window .............................................................................................................................................. 1-12
Overlay graph
IX configure ................................................................................................................................................... 2-6
IX P
Page number
insert on report ........................................................................................................................................ 5-15
Panes ...................................................................................................................................................... 1-27, 2-1
graph ......................................................................................................................................................... 2-1
method ...................................................................................................................................................... 2-1
operation ................................................................................................................................................... 2-1
Password ....................................................................................................................................................... 1-10
Peak Area table ............................................................................................................................................. 2-14
define a region ........................................................................................................................................ 2-14
define color and fill style .......................................................................................................................... 2-16
divisor ...................................................................................................................................................... 2-15
manipulating ............................................................................................................................................ 2-15
Q IX
Quick Print
configure ................................................................................................................................................. 5-16
IX
R
Reader bars .......................................................................................................................................... 2-14, 2-16 IX
Reciprocal Transformation .................................................................................................................... 2-18, 3-21
Regionsee Peak Area table ........................................................................................................................... 2-16
Remove files from memory ............................................................................................................................ 2-17
Repetition ....................................................................................................................................................... 3-17
IX
hide repeats ............................................................................................................................................ 3-18
Report
configure grid ............................................................................................................................................ 5-8
copy graph ................................................................................................................................................ 5-8
insert date ............................................................................................................................................... 5-15
insert instrument type .............................................................................................................................. 5-15
insert page number ................................................................................................................................. 5-15
page margins ............................................................................................................................................ 5-8
paste graph ............................................................................................................................................... 5-9
print ......................................................................................................................................................... 5-14
printing .................................................................................................................................................... 5-11
save ............................................................................................................................................... 5-11, 5-14
title ................................................................................................................................................... 5-9, 5-14
IX S
Sample IDs ..................................................................................................................................3-10, 3-13, 3-16
Auto Fill ................................................................................................................................................... 3-16
Sample table .................................................................................................................................................. 3-13
Concentration column ............................................................................................................................. 3-19
populating ............................................................................................................................................... 3-27
Sample/S.E.P. table ......................................................................................................................................... 3-1
Sampling interval ............................................................................................................................................. 2-4
Scan mode ....................................................................................................................................................... 2-4
Scan speed ...................................................................................................................................................... 2-4
Shortcut menus ..................................................................................................................................... 1-31, 1-34
Sipper ............................................................................................................................................................ 3-29
Auto Zero ................................................................................................................................................ 3-30
installation ............................................................................................................................................... 3-29
Slit width .......................................................................................................................................................... 3-9
Software requirements ..................................................................................................................................... 1-4
Spectral scan ................................................................................................................................................... 2-7
Spectrophotometer
communicate with ................................................................................................................................... 1-29
connect to ............................................................................................................................................... 1-30
Spectrum method
create ........................................................................................................................................................ 2-4
instrument parameters .............................................................................................................................. 2-4
IX loading a saved method .......................................................................................................................... 2-19
measuring mode ....................................................................................................................................... 2-5
modify ..................................................................................................................................................... 2-19
IX sampling interval ....................................................................................................................................... 2-4
scan mode ................................................................................................................................................ 2-4
scan speed ................................................................................................................................................ 2-4
IX wavelength range ...................................................................................................................................... 2-4
Standard
read samples .......................................................................................................................................... 3-11
IX Standard Curve ....................................................................................................................................... 3-1, 3-12
graph statistics ........................................................................................................................................ 3-21
numeric equations ................................................................................................................................... 3-20
statistics .................................................................................................................................................. 3-20
IX Standard Error of Prediction (S.E.P.) ............................................................................................................. 3-20
Standard table ................................................................................................................................................. 3-1
concentration .......................................................................................................................................... 3-10
IX open ........................................................................................................................................................ 3-18
populating ............................................................................................................................................... 3-17
Sample ID ............................................................................................................................................... 3-10
IX save ............................................................................................................................................... 3-17, 3-18
Start UV Probe ............................................................................................................................................... 1-10
Statistics
IX correlation coefficient .............................................................................................................................. 3-20
equation .................................................................................................................................................. 3-20
Residual Standard Deviation .................................................................................................................. 3-20
Storages ............................................................................................................................................... 1-33, 1-34
Substrate concentration ........................................................................................................................ 4-12, 4-17
System Administration ................................................................................................................................... 1-13
T
Time Course
graph pane ................................................................................................................................................ 4-1
reading ...................................................................................................................................................... 4-5
Timing mode
auto ........................................................................................................................................................... 4-4
manual ...................................................................................................................................................... 4-4
U
Uninstall UV Probe .......................................................................................................................................... 1-6
Unknown concentrations ............................................................................................................................... 3-18
calculate .................................................................................................................................................. 3-18
compare in Standard tables .................................................................................................................... 3-19
Unknown samples ......................................................................................................................................... 3-13
read ......................................................................................................................................................... 3-19
UV Probe Functions ....................................................................................................................................... 1-29
IX
V
Vmax value .................................................................................................................................. 4-11, 4-12, 4-15 IX
W
Wavelength Range .......................................................................................................................................... 2-4
IX
Windows WordPad ........................................................................................................................................ 2-23
IX
IX
IX
IX
IX
IX
IX
IX
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IX
IX
IX
IX
IX
IX