Clarity

Clarity Demo
Clarity ENG

Code/Rev.: M003/30A
Date: 21.5.2010

Phone: +420 251 013 400 DataApex Ltd.

Fax: +420 251 013 401 Podohradska 1
[email protected] 155 00 Prague 5
www.dataapex.com The Czech Republic
Clarity ® , DataApex ® and ® are trademarks of DataApex Ltd. Microsoft ® and Windows TM are
trademarks of Microsoft Corporation.
DataApex reserves the right to make changes to manuals without prior notice. Updated manuals can be
downloaded from www.dataapex.com.

Author: DM
Clarity Demo Table of Contents

Contents
1 Brief description of Clarity station 1
1.1 DEMO version limitations 1
1.2 Hardware and software requirements 2
2 Key features 3
2.1 Control Modules 4
2.2 Clarity Extensions 4
3 DEMO version installation 5
4 Program structure and control 6
5 Tour through the Clarity station 8
6 Running the Single Analysis 9
6.1 Instrument window 9
6.2 Single Analysis dialog 10
6.3 Data Acquisition window 12
6.4 Chromatogram window 14
7 Running the Sequence measurement 16
7.1 Sequence window 16
7.2 Calibration window 18
7.3 Linking the calibration to a chromatogram 21
7.4 Linking the calibration to the method 22
8 Alternative DEMO projects 24
8.1 GPC DEMO project 24
8.2 PDA DEMO project 24

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Table of Contents Clarity

To facilitate the orientation in the Clarity Demo manual and Clarity chromatography station,
different fonts are used throughout the manual. Meanings of these fonts are:
Instrument (blue text) marks the name of the window, to which the text refers.
Open File (italics) describes the commands and names of fields in Clarity, parameters that can
be entered into them or a window or dialog name (when you already are in the topic describing
the window).
WORK1 (capitals) indicates the name of the file and/or directory.
ACTIVE (capital italics) marks the state of the station or its part.
The bold text is sometimes also used for important parts of the text and the name of the Clarity
station. Moreover, there are text sections written in format other than normal text. These sections are
formatted as follows:

Note: Notifies the reader of possibly interesting information.

Caution: Warns the user of possibly dangerous or very important

information.

▌ Marks the problem statement or trouble question.

Description: Presents any closer information on the problem, describes its causes etc.
Solution: Marks the response to the question, presents a procedure how to remove it.

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Clarity Demo 1 Brief description of Clarity station

1 Brief description of Clarity station

The Clarity chromatography station is an effective tool for the acquisition,

processing and evaluation of data. It permits the collection of data from
virtually any gas or liquid chromatograph.
In the Clarity station, it is possible to measure on up to four
chromatographs simultaneously, of which each may be equipped with up
to 12 detectors. Each chromatograph may use further add-ons such as
Extensions (e.g. GPC, EA, CE) and Controls (LC, GC, AS control...).
Clarity supports the requirements of the FDA’s 21 CFR Part 11
guidelines.

1.1 DEMO version limitations

The DEMO version, which you have received, contains all functions of the
full version with the following limitations:
l Not possible to control instruments.
l Not possible to acquire real data.
l Not possible to import chromatograms.
l “DEMO” inscription in the header of the main Clarity window and on all
printed documents.
The DEMO version allows you to try data acquisition procedures even
without the converter board because the necessary data are simulated by
data files.
Caution: Clarity DEMO station uses only what is known as “demo data”, it cannot
process or import real chromatograms. If you want to try the evaluation of
your data in the Clarity DEMO software, let us know at
[email protected] and we will prepare the demo data from your
chromatograms.

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1 Brief description of Clarity station Clarity

1.2 Hardware and software requirements

The Clarity station will operate with any of the following Microsoft
Windows systems (in any language): 2000, XP, Vista, 7.
An equivalent to the Pentium III/700 PC with 256 MB memory is sufficient
when using Windows 2000/XP.
The minimum monitor resolution requirement is 1024×768 pixels with 64K
(16 bit – High Color) colors. However, we recommend a 1280×1024
resolution.
For more details, see Clarity Compatibility Table datasheet (D016 – for
download from www.dataapex.com).
A minimum 40 MB of HDD space is required for program installation
(depending on the number of modules and other parts you wish to install,
up to 185 MB may be necessary).

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Clarity Demo 2 Key features

2 Key features
l Measuring - Simultaneous data acquisition from up to four twelve-detector
chromatographs (4×12 configuration).
l Integration - There are extensive possibilities for modifying
chromatograms. The chromatogram can be changed by entering global
parameters or interactively, through the direct graphical modification of the
baseline.
l Overlay - Simultaneously displays a virtually unlimited number of
chromatograms and their mathematical modification, for example, mutual
deductions or derivations of any order.
l Calibration - Internal and external standard calculation methods,
calibration of groups of peaks and reference peaks for better identification.
l Automated measuring support - Sequence tables for any set of samples
with or without an autosampler.
l Postrun - Automatically displays, prints, exports and starts other programs
after completion of measurement.
l Summary result tables - Displays and prints selected results from all
simultaneously displayed chromatograms.
l User settings - User selects parameters for peak display and the
specification for axes, including color from an extensive array of color
settings. Text labels and lines, either as part of the area or anchored to a
chromatogram, may also be inserted.
l Export - Optional export of all results with or without the chromatogram, in
various formats, into a file or clipboard.
l Import - Imports chromatograms or mathematical curves, which have
been saved in text or AIA formats, from other programs.
l Method and calibration history - Each chromatogram can easily be
displayed under the same conditions as when it was printed, exported or
saved.
l Column performance - Calculations of peaks in terms of symmetry,
efficiency, resolution; all by several methods (tangent, moments, etc.).
l Batch - Automatically batch processes, displays, exports or prints any
number of chromatograms.
l User calculations - User can define custom calculations in the Result and
Summary tables. Using the integrated editor you can create your own
columns from the original columns and individual mathematical functions.
l User accounts - Sets up access rights and passwords (including their
parameters, e.g., minimum length, validity, etc.). Each user can define his
or her own station appearance.
l Audit trail - Records selected events and operations into a special file.
Records selected operations directly into a chromatogram.
l Electronic signature - Each chromatogram can be electronically signed.
Signature selection is based on the username or the signature certificate.

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2 Key features Clarity

2.1 Control Modules

Software modules that provide an interface for chromatography devices
such as GC and HPLC systems, Autosamplers, Fraction Collectors and
Valves. Direct control allows the device(s) to be controlled and monitored
from the Clarity environment. The instrument method that controls the
device is saved in the measured chromatograms.

2.2 Clarity Extensions

Software modules that enhance the capabilities of the Clarity data station.
Extensions provide features within Clarity that are specific to a given type
of analysis or for a specific task. Currently available modules are:
l SST (System Suitability Test) - Integrated module for monitoring the
quality of a measurement.
l PDA - Integrated module for evaluating analyses from PDA (Photo-Diode
Array, also called DAD - Diode Array Detectors).
l GPC - Integrated module for performing and evaluating GPC/SEC
analyses (GPC = Gel Permeating Chromatography , SEC = Size
Exclusion Chromatography).
l CE - Integrated module for performing and evaluating analyses from
Capillary Electrophoresis. Brings CE terminology to Clarity.
l EA - Integrated module for performing and evaluating Elemental
Analyses. This also includes direct control over analytical balance.
l NGA (Natural Gas Analysis) - Integrated module for evaluating the
calculations according to selected norms in analyses of natural gases and
liquefied petroleum gases.

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Clarity Demo 3 DEMO version installation

3 DEMO version installation

The Clarity DEMO can be acquired in two ways - either on the DEMO CD
or downloaded from the downloads/Demo versions section of
www.dataapex.com.
l In case of the DEMO CD:
l Insert the CD.
l If the installation does not run automatically, select and run the
INSTALL.EXE file.
l In case of downloaded version:
l Download the DEMO.
l Run the downloaded INSTALL.EXE file.
l The installation wizard will guide you through the entire installation. After
selecting the destination directory, an option of Typical or Custom
installation is to be made.
l You can simply select Typica l and keep pressing Next until the entire
installation is completed.

Note: Typical installation will provide all of the components needed for a
successful DEMO operation, although some of the control modules will be
absent. Custom installation can be used for selection of files to install.

Caution: It is recommended to uninstall any previous installation of Clarity DEMO

and delete its folder prior to installation to be able to follow this manual in
the chapter "Tour through the Clarity station" on pg 8..
After installing the software, the installer will create a Clarity DEMO
shortcut in the Start - Programs menu and a Clarity DEMO icon on the
desktop.

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Clarity Demo 4 Program structure and control

4 Program structure and control

Fig 1: Structure and components of Clarity and Clarity Lite stations

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4 Program structure and control Clarity
The Clarity software has a hierarchic structure. After start-up the main
Clarity window will be displayed with the symbols of configured
Instruments.
After clicking on the chromatograph picture and entering the User Name
(more information on User Names can be found in the Reference Guide)
the Instrument window will be displayed. This window is used for
acquisition and processing of data using the connected chromatograph.
Note: The Clarity station works with so- called Instruments. All detectors
connected to the same Instrument share a common time base.
The main Clarity window is designed to set the station’s configuration,
select access rights and basic directories for saving data.
The Instrument window is used for measuring and evaluating an analysis
from a selected chromatograph. The window is displayed by clicking on
the symbol of the relevant chromatograph in the station’s main Clarity
window. Depending on the number of the Instruments, up to four
independent Instrument windows can be displayed.
Each Instrument window contains an information table, status line and
analysis-processing diagram. Instruments are distinguished by line color
in the analysis-processing diagram and Instrument name in the header.
All dialogs relevant for performance of actions in the Instrument window
can be easily accessed from the Instrument window by using appropriate
commands from the menu or by clicking on their icons.
Note: In addition to Clarity chromatography station, DataApex company
produces Clarity Lite chromatography station. It is less expensive,
simplified version of Clarity software with limited functionality, able to
operate with only one Clarity Instrument.

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Clarity Demo 5 Tour through the Clarity station

5 Tour through the Clarity station

The following two sections will show you, step by step, the process of
performing a single analysis (the chapter "Running the Single Analysis"
on pg 9 . ) and sequence measurement ( the chapter "Running the
Sequence measurement" on pg 16 .). These chapters are shown as a
succession of steps, from which all should be performed in the given
order. Some sections may be skipped, as we prepared their output for you
to be used later. You will be notified of such sections. Also, the whole
process presents Notes - the procedures described in them are optional
and you don’t need to perform them in order to reach the goal.
The Clarity software is intuitive and easy to master even without
excessive training. The first analysis can be run in less than one minute
after installing the station and configuring the hardware.
Note: This tour assumes that the station is in the default configuration and
nothing has been changed so far. To get the Clarity DEMO station to that
state after use, it is necessary to manually delete the directory Clarity
DEMO was installed into (C:\CLARITY_DEMO by default) and then install
it once more.
This tour is primarily designed for the users who installed the Clarity
DEMO version.
Note: Although this is only a tour of the station aimed at beginners with Clarity, it
assumes users have basic knowledge specific to chromatography
principles and basic processes such as calibration.

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Clarity Demo 6 Running the Single Analysis

6 Running the Single Analysis

There is a simple project aimed on basic functions prepared on the
Instrument 2. It shows the way to start a Single Analysis, monitor the Data
Acquisition and process the resulting Chromatogram.
To open the abovementioned project, start the Clarity station.

6.1 Instrument window

l Start the Clarity DEMO station. The Clarity main window will display,
showing four configured Instruments.
l Open the second Instrument (named My LC ) by clicking on its icon
(chromatograph covered by cloth). Login Dialog will open.
l Administrator user name is pre-selected. This User Account needs no
password, thus proceed by pressing the OK button.

Note: You can create your own User accounts from the main Clarity window
using the System - User Accounts... command.

Fig 2: Instrument window

l The Instrument window will open; Fig 2 on pg 9. shows the most important
icons in this window. During the tour, we will present all windows related
to these icons.

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6 Running the Single Analysis Clarity

6.2 Single Analysis dialog

Use the Single Analysis button in the Instrument window to open the
Single Analysis dialog.

Fig 3: Single Analysis dialog

l Fields in the Analysis section carry the information on the sample. All
necessary parameters are already set for you, but we will browse through
them nonetheless.
l Sample ID and Sample fields are purely informational, whereas the
data in Amount, Dilution, ISTD Amount and Inj. Volume fields are used
for further calculations.
l Selecting the Calibration Standard and Level fields would mark this
sample as the calibration standard and save the chromatogram into the
CALIB subdirectory.
l The measurement of the sample will be performed according to the actual
modification of the template method opened in the Instrument window.
The Method... button serves to change the parameters of the actual
template method. Click the button to open the Method Setup dialog and
check the setting of the Autostop parameter (Autostop is enabled and Run
Time set to 7.5 minutes). Return to the Single Analysis dialog by pressing
OK button.
l The Chromatogram File Name field serves to enter the file name of the
resulting chromatograms. It is possible to use rigid text together with
variables adding the time, date, sample name or other parameters to
create unique chromatogram name. The resulting name can be seen just
above the field in parentheses.

Note: The complete set of available variables can be seen after clicking the field
and selecting the icon.

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Clarity Demo 6 Running the Single Analysis

l Run the analysis by clicking the Run button . The Single Analysis dialog
will close now, but if you open it again, you will see three more buttons
(Stop , Abort , Snapshot ) accessible, allowing you to stop or abort the
analysis or take snapshots (see the chapter "Data Acquisition window"
on pg 12.).
l Close the Single Analysis dialog and return to the Instrument window.

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6 Running the Single Analysis Clarity

6.3 Data Acquisition window

l In the Instrument window, look at the Status line (see Fig 2 on pg 9.). The
acquisition is now signaled by the RUNNING state and the actual run time
shown there.
l To see the data acquisition in process and possibly control it, use the Data
Acquisition icon (see Fig 2 on pg 9.) to enter the Data Acquisition
window.
l In the Data Acquisition window two signals can be seen. This is because
the analysis is set as two-detector analysis.

Fig 4: Data Acquisition window

l In the Status bar on the bottom of the Data Acquisition window, the time of
the analysis can be seen, as well as the signal for each detector in its
particular units.
l Stop and Abort icons allow for canceling the analysis. In the case
of stopping, Clarity will save all data acquired so far and cancel the
analysis, while aborting cancels the acquisition without saving any data.
l Snapshot icon is also available for creating the preview of already
measured data. After clicking it, the Chromatogram window will open with
the chromatogram file corresponding to the part of the data already
measured (more information on the Chromatogram window can be found
in the chapter "Chromatogram window" on pg 14.). If the Snapshot
chromatogram is to be preserved, it must be saved under a different
name, as it would be overwritten by the real chromatogram at the end of
the analysis.
l After 7 minutes 30 seconds (the time set in the template method used for
the measurement), the analysis will automatically stop and the
Chromatogram window will open.

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Clarity Demo 6 Running the Single Analysis

l The Chromatogram window opens because the station is set to do so.

These settings are available in the Instrument window:

Fig 5: Post-run functions of the Instrument window

l
These icons can be in the position or . The first one will open the
given window or print the report, the latter will not. Other postrun options
including export of the data or running external program are available in
the Setting - Postrun... menu of the Instrument window.

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6 Running the Single Analysis Clarity

6.4 Chromatogram window

l The Chromatogram window can also be opened manually by clicking on
the Chromatogram icon in the Instrument window.
l The Chromatogram window is divided into two halves: the Graph pane
and the Results panel.
l Enlarge any part of the graph by selecting the area to enlarge while
holding the left mouse button. Return to the view of the entire
chromatogram by double-clicking in the graph.

Fig 6: Chromatogram window

l Only one signal of the chromatogram can be active at a time. The active
signal can be recognized from the legend section in the upper right
corner of the graph (active signal is set in bold), from the icons in the
Overlay toolbar (the active signal has the depressed icon) or from the
graph outline color and table headers color. The tables change by
changing the active signal.

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Clarity Demo 6 Running the Single Analysis

l Change the active signal by double clicking on its name in the legend
section . Change the color of the currently active signal to another one
by clicking on the Not used color icon in the Overlay toolbar. All parts of
the Chromatogram window mentioned in the previous step will change
color. Return to the former active signal by clicking on its (now raised )
icon in the Overlay toolbar .
l Click anywhere in the Result table . The peak (or peaks) corresponding
to the row you just clicked onto will change color according to the color of
the signal. This change will last until the focus in the Result table is
canceled.
l To add permanent color to the peak, click the View button in the right
side of the Results tab. This will get you to the linked calibration file.
There, in the Calibration Summary Table, find the Peak Color column (see
Fig 9 on pg 19.). In the row corresponding to the peak to be colored select
the appropriate color and click OK. Return to the Chromatogram window
by using the icon in the menu. The selected peak is now colored
according to the color selected in the Calibration window.
l You can change the integration of peaks by using the interactive icons on
the toolbars on the left side of the Chromatogram window or directly on
the Integration tab . Any changes made either way will change the
Integration table and can be copied to the template method.

Note: After the copying of the Integration table contents to the template
method, new chromatograms will be automatically integrated according
to these changed parameters. Already measured results can be
reprocessed (for more details see the chapter Linking the calibration
to the method on pg 22).

l Before you proceed to work with Instrument 1, close the window of

Instrument 2. It is not mandatory, but it will be less confusing to work with
one Instrument at a time only. You will be asked to save any changed
unsaved files.

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Clarity Demo 7 Running the Sequence measurement

7 Running the Sequence measurement

Sequence operation allows automated measurement of large numbers of
samples for chromatographs equipped with autosamplers. Clarity
provides the possibility to select an ACTIVE (start controlled by the station)
or PASSIVE (start controlled by the autosampler) sequence. It is also
possible to re-process already measured sequences.
Note: It is not necessary to have the AS Control module to use the
autosampler; start synchronization can be performed even without it.
However, the control module can add direct control from Clarity for
automated sending of vial positions, injection volumes, etc., without the
need to program the AS itself.
This chapter and the demo project prepared on the Instrument 1 will lead
you through Sequence, Calibration and Method Setup windows used for
automated measurement and preparation of template methods.

7.1 Sequence window

l In the main Clarity window, open the Instrument 1 (With the label My
GC+AS).
l In the displayed Login dialog with the pre-selected Administrator user
press the OK button.
l Use the Sequence button in the Instrument window to enter the
Sequence window.

Fig 7: Sequence window

l Look at the Sequence Table. Each row of this table defines one or more
analyses, depending on fields SV (Starting vial), EV (Ending vial) and I/V
(Injections per vial) . As it can be seen, the first four rows each present a
single measurement (SV and EV is the same, I/V is 1 ), while row 5
represents eight analyses (SV is 5, EV is 8 , thus measuring 4 samples
from 4 successive vials, and I/V parameter is 2 - each sample will be
measured twice).

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7 Running the Sequence measurement Clarity

l Also, note that in the fields Std and Lvl the first four samples are marked
as standards on levels 1-4. These will be used for automatic making of the
calibration (or its recalibration, if there already were any data in the
calibration).
l The Method Name column sets the template method used for
measuring the sample. The Report Style column sets the print style
used for reporting the measurement. Each row can have its own template
method and report style; it is thus possible to measure according to
several template methods in one sequence.
l In the File Name column , the name of the resulting chromatogram file is
specified. It is possible to use variable parameters to form the
chromatogram filename, for example %Q means that the file name will
use the text from the Sample field. It is possible to combine several of
these variables with hard-set text or symbols to create a unique file name
for each chromatogram. The complete set of available variables can be
seen after clicking the field and selecting the icon.
l To check the sequence, press the icon . Clarity station will change
all symbols at the beginning of the row to or issue an error message
listing what should be corrected on which row to be able to proceed.

Note: Try to make a mistake and check the sequence once more. For example,
on the row 3, change the text in the Sample column to Std_1 and press
the icon. A warning message appears telling that there are two rows
which would produce chromatogram with the same file name. Also, the
symbol at the beginning of rows 1 and 3 will change to and holding the
mouse above either field will display the tooltip with the cause of the
problem. Set the sequence back to its original state and continue to the
next step.

l Start measuring the sequence using the icon . The state of the
ACTIVE sequence will change to WAITING FOR READY and as soon as
the Ready signal from the autosampler is detected, the measurement will
start.

Note: Even if the autosampler is not connected, the Clarity DEMO will get the
Ready signal, thus starting the sequence. However, it is not possible to
give its own DEMO data for each chromatogram, so all chromatograms
would be the same. All files are, however, already prepared for you. You
may stop or abort the sequence now or later either from the Data
Acquisition window or directly from the Sequence window. Close the
Sequence window before proceeding.

l After the first row of the Sequence table (controlling one analysis) is
measured, the Instrument will once again switch to the WAITING FOR
READY state and the autosampler will start a new measurement by

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Clarity Demo 7 Running the Sequence measurement

sending the Ready signal. Stop the sequence from the Data Acquisition
window or Sequence window at any time by pressing the Abort button
(no chromatogram saved) or Stop button (resulting chromatogram will
be saved).

7.2 Calibration window

l Use the Calibration button in the Instrument window to open the
Calibration window.

Note: The following section describes how to make a calibration. If you do not
want to do that, you can open (via the File - Open Calibrationcommand)
the calibration file DEMO1.CAL we prepared for you instead and test the
functions of the Calibration window on it. In this case you can continue with
the chapter "Linking the calibration to a chromatogram" on pg 21.

Fig 8: Calibration window - empty

l It is necessary to create a new calibration. Use the New Calibration

icon to create new calibration file.

Note: To save the calibration now, it would be necessary to change its name (no
calibration can be saved under the name NONAME.CAL) and fill in at
least the first compound name. Then the calibration can be saved using
the Save Calibration icon , File - Save or File - Save As... command.

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7 Running the Sequence measurement Clarity

l Use the Calibration Options icon and change the Display Mode(top
right corner of the dialog) to ISTD, then press OK button.
l Now, the calibration standards have to be imported to the calibration. Use
the Open Standard icon (yellow) to open the STD 1.PRM data file.
The lower part of the Calibration window now displays the chromatogram
of the calibration standard.

Fig 9: Calibration window - loaded standard

l Check that the Current Level field is set to 1 in order to set the calibration
level number 1. Use the Add All icon (blue) to move all identified
peaks to the calibration table. The Calibration table appears in the
Calibration window, ready to be completed as seen on Fig 9 on pg 19.
l As can be clearly seen in the calibration, particular peaks are now
identified according to their retention times only. Click and edit the fields in
the Compound Name column to those seen on Fig 9 on pg 19. You may
also set the peak color for some peak, for example the ISTD peak, in the
Peak Color column.
l Fill the Amount column with the concentration of the particular
compounds. In this standard mixture, all compounds except for the peak
number 6 have concentration of 0.4.
l Peak number 6 is marked as ISTD peak. In the Peak Type column,
change its type to ISTD and then set its amount in the Amount column to
2.

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Clarity Demo 7 Running the Sequence measurement

l The first calibration level is now set. On the tabs of the individual
compounds (named according to the Compound Name field) the graph
with single-point linear calibration can be seen.
l Proceed to setting the other calibration levels. The operation is quite
simple - use the Open Standard icon (yellow) again to open another
calibration standard named STD 2.PRM. Set the calibration level in the
Current Level field to 2 and use the Add All icon (blue) . Fill in the
Amount column with 1.0 values (except for the peak 6, in which the 2
value should be used again).
l Set the third calibration level accordingly using the STD 3.PRM file and
Amount of 3.0 and the fourth level (file STD 4.PRM, Amount 5.0) except for
the ISTD peak ( Amount 2 every time). On the tabs of the individual
compounds , the linear four-point calibration can be seen. Save the
calibration file now using the Save Calibration icon under the name
CALIBDEMO.CAL into the default directory.

Note: All the steps from the beginning of this chapter would be performed
automatically during the measurement of the sequence shown in the
chapter "Sequence window" on pg 16.

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7 Running the Sequence measurement Clarity

7.3 Linking the calibration to a chromatogram

l Any chromatogram can be linked to a calibration file, thus automatically
giving calibrated results. In the Instrument window, use the Chromatogram
icon to open the Chromatogram window.
l Use the Open Chromatogram icon to open chromatogram data based
on the calibration you just created. Use the SAMPLE_VIAL_ 6-1.PRM file
saved in the default directory. Other files in the directory are uncalibrated
too, but they will be used later.
l The data are uncalibrated and no information about the names of
individual compounds is available, peaks in the Result Table are just
described according to their retention times. To change this, the
appropriate calibration should be linked to these data.
l Select the Results tab (it should be opened automatically) and look at the
section on the right side of the screen. Use the Set... button in the
Calibration File (Peak Table) section to select the calibration file created
in the previous chapter (it should be in the default directory under the
name CALIBDEMO.CAL . Any peaks present in calibration are now
identified with their names. Check the Calculation field to the right - it
should list ISTD. If it does not, change it to ISTD.

Note: In case you skipped the process of making your own calibration, we
prepared the DEMO1.CAL file for you. Use this instead of
CALIBDEMO.CAL.

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Clarity Demo 7 Running the Sequence measurement

7.4 Linking the calibration to the method

In case of a large number of chromatograms, linking the calibration to
each file separately would be a time-consuming process. To avoid this,
the calibration may be linked to the resulting chromatograms
automatically.

l Return to the Instrument window and use the Calculation icon to open
the Method Setup dialog directly on the Calculation tab . Alternatively,
you can use other icons such as the Integration , Measurement or
Acquisition icon or any command from the Method menu and then
move to the Calculation tab. All of these sections (and some others) are
part of the template method; thus they are present within the same dialog
but on different tabs.

Fig 10: Method Setup - Calculation dialog

l Use the Set... button to select the calibration file and link it to the
method. Change the parameter in the Calculation field to ISTD.
l Exit the Method Setup dialog using the OK button. In the Instrument
window, use the File - Save Method command to apply this change to the
template method.
l Any chromatograms measured with this template method in the future will
have the actual calibration linked.
l To apply this updated template method to already measured data, go to
the Instrument window and use the Analysis - Batch command.

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7 Running the Sequence measurement Clarity

l Select the files to be reprocessed in the left part of the dialog; multiple files
can be selected by left-clicking them while holding the Ctrl or Shift key.
Mark all files with the names SAMPLE_VIAL_X-Y in the DATA directory to
be reprocessed, check the Reprocess by Instrument Method checkbox
and click the Proceed button. All selected chromatograms will now have
the calibration linked to it.

Note: The chromatograms to be batch processed have to be saved in the

current project directory.

l Open the Chromatogram window and load any file just reprocessed (e.g.
SAMPLE_VIAL_7-2.PRM) and look at the Result table. All peaks present
in the calibration are now identified and calibrated.
l Multiple chromatograms may be displayed at once. Switch to the Overlay
mode by pressing the Overlay button found on the Overlay toolbar (no.
in the Fig 6 on pg 14 .) and then use the File - Open command or the
Open Chromatogram icon. It is now possible to select several files to
be opened in the Open Chromatogram dialog.

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Clarity Demo 8 Alternative DEMO projects

8 Alternative DEMO projects

Other DEMO projects than those presented in this manual can be
reviewed. Two of them are already opened on Instrument 3 (GPC demo)
and 4 (PDA demo), the EA (Elemental Analysis) and NGA (Natural Gas
Analysis) demo projects can be opened manually by starting Clarity via
the Launch Manager application. To do so, use the Launch Manager
command from the Clarity Demo group accessible from the Windows
Start menu while Clarity is not running. The Select Clarity Profile dialog
will open. Here, select the desired DEMO profile and press the Launch
button.

8.1 GPC DEMO project

The abbreviation GPC stands for the Gel Permeation Chromatography
(also called SEC - Size Exclusion Chromatography). The Clarity station
provides the means to perform the GPC analyses with several modes of
calibration (Narrow, Broad, Broad on Narrow).
The DEMO project on the Instrument number 3 (named My GPC) allows to
test the capabilities of the Clarity chromatography station with the GPC
extension. Twenty chromatograms and five calibration files are prepared
for testing. For more information on the functions of the GPC module, see
the GPC extension manual (downloadable at www.dataapex.com).

8.2 PDA DEMO project

Clarity station is able to handle the data collected from PDA (Photo Diode
Array) detectors, sometimes also called DAD (Diode Array Detectors ).
The third dimension of the spectral data can be displayed in a number of
ways, including 3D rendering.
The DEMO project on the Instrument number 4 (named Agilent 1100 with
DAD) enables to test the capabilities of the Clarity chromatography
station with the PDA extension. Several prepared chromatograms and two
calibrations are prepared for the tests. For more information on the
functions of the PDA module, see the PDA extension manual
(downloadable at www.dataapex.com).

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