Thermo Scientific Agilent 1200 Series User manual

Thermo
Agilent 1200 Series
Getting Connected Guide for LC Devices
XCALI-97250 Revision H April 2014

© 2014 Thermo Fisher Scientific Inc. All rights reserved.
Foundation, MSQ, and TSQ are trademarks, and LCQ, LCQ Fleet, LTQ, LXQ, Surveyor, Thermo Scientific,
and Xcalibur are registered trademarks of Thermo Fisher Scientific Inc. in the United States.
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registered trademarks of Adobe Systems Incorporated. Agilent and Instant Pilot are registered trademarks of
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All other trademarks are the property of Thermo Fisher Scientific Inc. and its subsidiaries.
Thermo Fisher Scientific Inc. provides this document to its customers with a product purchase to use in the
product operation. This document is copyright protected and any reproduction of the whole or any part of this
document is strictly prohibited, except with the written authorization of Thermo Fisher Scientific Inc.
The contents of this document are subject to change without notice. All technical information in this
document is for reference purposes only. System configurations and specifications in this document supersede
all previous information received by the purchaser.
This document is not part of any sales contract between Thermo Fisher Scientific Inc. and a purchaser. This
document shall in no way govern or modify any Terms and Conditions of Sale, which Terms and Conditions of
Sale shall govern all conflicting information between the two documents.
Release history: Rev A, Jan 2009; Rev B, Feb 2011; Rev C, Dec 2011; Rev D, May 2012; Rev E, July 2012;
Rev F, Dec 2012; Rev G, Dec 2013; Rev H, April 2014
Software version: Thermo Foundation (see page vii for versions), Thermo LC Devices 2.2.1 or later
For Research Use Only. Not for use in diagnostic procedures.

Thermo Scientific Agilent 1200 Series Getting Connected Guide for LC Devices iii
C
Preface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .v
Related Documentation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .vi
System Requirements . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . vii
Supported Firmware Versions. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .ix
Cautions and Special Notices . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . x
Contacting Us . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .xi
Chapter 1 Checking the Agilent Firmware Versions. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .1
Checking the Firmware Versions with the Agilent Instant Pilot. . . . . . . . . . . . . . 1
Checking the Firmware Versions from the Xcalibur Data System . . . . . . . . . . . . 2
Chapter 2 Setting Up the LAN Interface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .5
Determining the LAN Interface Type and Location . . . . . . . . . . . . . . . . . . . . . . 5
Setting the LAN Initialization Mode to “Using Default”. . . . . . . . . . . . . . . . . . . 7
Setting the Stored TCP/IP Address for the LAN Interface. . . . . . . . . . . . . . . . . . 9
Setting the LAN Initialization Mode to “Using Stored”. . . . . . . . . . . . . . . . . . . 16
Chapter 3 Setting Up the Thermo Foundation Instrument Configuration . . . . . . . . . . . . . . .19
Agilent 1200 Series LC System IP Address . . . . . . . . . . . . . . . . . . . . . . . . . . . . 19
Contact Interface Board . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20
Configuring the Agilent LC System’s Modules . . . . . . . . . . . . . . . . . . . . . . . . . 20
Adding the Agilent 1200 Series Modules to the Foundation Instrument
Configuration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20
Setting the Configuration Options for the LC Modules . . . . . . . . . . . . . . . . 21
Closing Foundation Instrument Configuration . . . . . . . . . . . . . . . . . . . . . . . 27
Chapter 4 Installing the External Contact Interface Board . . . . . . . . . . . . . . . . . . . . . . . . . . .29
Chapter 5 Connecting the Communication Cables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .33
Ethernet Communication Kit . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 33
Connecting the Ethernet Cables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 34
Connecting the Contact Closure Cable . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35
Contents

Contents
iv Agilent 1200 Series Getting Connected Guide for LC Devices Thermo Scientific
Chapter 6 Triggering Data Acquisition . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .37
Chapter 7 Vial and Well Locations for the Available Tray Types. . . . . . . . . . . . . . . . . . . . . .39
40-Vial Trays. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
100-Vial Tray . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 41
54-Vial Plates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 42
96-Well Plates or 96-Deep Well Plates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 43
384-Well Plates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 44
Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .45

Thermo Scientific Agilent 1200 Series Getting Connected Guide for LC Devices v
P
Preface
This guide describes how to connect an Agilent™ 1200 Series liquid chromatograph (LC)
system to a Thermo Scientific™ mass spectrometer (MS) and the data system computer, and
how to establish communication between the LC system and a Thermo Scientific™ MS data
system, such as Thermo Xcalibur™.
To suggest changes to the documentation or to the Help
Complete a brief survey about this document by clicking the button below.
Thank you in advance for your help.
Contents
•Related Documentation
•System Requirements
•Supported Firmware Versions
•Cautions and Special Notices
•Contacting Us

Preface
vi Agilent 1200 Series Getting Connected Guide for LC Devices Thermo Scientific
Related Documentation
In addition to this guide, you can also access the following documents as PDF files from the
data system computer.
To view the product manuals
From the Microsoft™ Windows™ taskbar, do the following:
• For an LC instrument controlled by a Thermo software application, choose Start >
All Programs > Thermo Instruments > Manuals > LC Devices > Agilent.
• For a Thermo Scientific MS, choose Start > All Programs > Thermo Instruments >
Instrument-name.
• For the Xcalibur application, choose Start > All Programs > Thermo Xcalibur >
Manuals > Xcalibur.
For access to the Xcalibur application Help, follow this procedure.
To view application-specific Help
• From the Xcalibur Instrument Setup window, choose Help > Agilent 1200 Help
and select a topic.
• If information about setting parameters is available for a specific view, page, or dialog
box, click Help or press the F1 key for information about setting parameters.

Preface
Thermo Scientific Agilent 1200 Series Getting Connected Guide for LC Devices vii
System Requirements
Your system must meet the minimum requirements as stated in the following table.
IMPORTANT Before you install the device drivers, ensure that the data system computer
has a compatible version of the Thermo Foundation™ platform as noted in the Thermo LC
Devices x.x.x Release Notes, where x.x is the version that you want to install.
System Minimum requirements
Computer • 2 GHz processor with 1 GB RAM
•DVDdrive
• 80 GB or greater available on drive C
• Video card and monitor capable of 1280 × 1024 resolution
• Network interface cards, two
•NTFSformat
Software • Adobe™ Reader™ 10
• Microsoft Windows operating system:
Windows 7 Professional (32-bit and 64-bita)
Windows XP Workstation SP3
• Thermo Scientific software:
aLC Devices 2.8.0 and later are compatible with Windows 7, 32-bit and 64-bit
LC Devices Foundation
2.6.0 and later 1.0.2 SP2 and later
2.5.0 SP3 1.0.2 SP2
2.5.0 SP1 or SP2 2.0
2.5.0 1.0.2 SP2
2.2.1–2.4 1.0 to 1.0.2 SP1 only

Preface
viii Agilent 1200 Series Getting Connected Guide for LC Devices Thermo Scientific
(Windows 7 only) If you receive a server failure error when you try to open the Xcalibur
Instrument Setup window, follow the next procedure.
To resolve a server failure for the Xcalibur data system
1. Verify that the installed versions of Thermo Foundation and LC Devices are compatible
(see page vii).
2. If the installed LC Devices software is compatible with Foundation, go to step 3. If it is
not compatible, do the following:
a. Use the Windows Control Panel to uninstall all of the modules from LC Devices.
b. Install the compatible version of LC Devices.
c. Restart the data system computer.
3. If the installed LC Devices software is compatible with Foundation, do the following:
a. Open the Windows Control Panel.
b. In the top Search box, type Change User Account Control Settings, and then select
this link to open the User Account Control Settings dialog box.
c. Move the slider to the Default position (Figure 1).
d. Click OK.
Figure 1. User Account Control Settings dialog box
Slider set at the
Default position

Preface
Thermo Scientific Agilent 1200 Series Getting Connected Guide for LC Devices ix
Supported Firmware Versions
LC Devices supports the model numbers and firmware versions of the Agilent 1200 Series
modules listed in Table 1. For instructions on how to check the firmware version, see
Chapter 1, “Checking the Agilent Firmware Versions.”
Table 1. Supported firmware versions for the Agilent 1200 Series LC system
Module Model number Firmware version
High Performance Autosampler
(and Thermostat)
G1367B
(G1330B)
A.06.12
High Performance Autosampler SL
(and Thermostat)
G1367C
(G1330B)
A.06.12
Micro Well-plate Autosampler G1377A A.06.03
Thermostatted Column Compartment G1316A A.06.10
Thermostatted Column Compartment SL G1316B A.06.10
Binary Pump G1312A A.06.10
Binary Pump SL G1312B A.06.10
Capillary Pump G1376A A.06.34
Quaternary Pump G1311A A.06.10
Diode Array Detector (DAD) G1315B A.06.10
Diode Array Detector (DAD) G1315C B.01.03
Diode Array Detector (DAD) G1315D B.01.04
Variable Wavelength Detector (VWD) SL G1314C A.06.50

Preface
xAgilent 1200 Series Getting Connected Guide for LC Devices Thermo Scientific
Cautions and Special Notices
Make sure you follow the cautions and special notices presented in this guide. Cautions and
special notices appear in boxes; those concerning safety or possible system damage also have
corresponding caution symbols.
This guide uses the following types of cautions and special notices.
The following additional caution-specific symbol appears in the Agilent 1200 Series Getting
Connected Guide for LC Devices.
CAUTION Highlights hazards to humans, property, or the environment. Each CAUTION
notice is accompanied by an appropriate CAUTION symbol.
IMPORTANT Highlights information necessary to prevent damage to software, loss of
data, or invalid test results; or might contain information that is critical for optimal
performance of the system.
Note Highlights information of general interest.
Tip Highlights helpful information that can make a task easier.
CAUTION Highlights electric shock-related hazards to human beings. Each electric shock
notice is accompanied by the international High Voltage symbol.