Agilent Technologies 5973N Manual

Agilent Technologies
5973N and 5973 inert
Mass Selective Detector
Hardware Installation

2Hardware Installation
Notices
© Agilent Technologies, Inc. 2003
No part of this manual may be reproduced in
any form or by any means (including elec-
tronic storage and retrieval or translation
into a foreign language) without prior agree-
ment and written consent from Agilent
Technologies, Inc. as governed by United
States and international copyright laws.
Manual Part Number
G2589-90073
Edition
First edition, August 2003
Replaces part number G2589-90006
Printed in USA
Agilent Technologies, Inc.
2850 Centerville Road
Wilmington, DE 19808-1610 USA
Warranty
The material contained in this docu-
ment is provided “as is,” and is sub-
ject to being changed, without notice,
in future editions. Further, to the max-
imum extent permitted by applicable
law, Agilent disclaims all warranties,
either express or implied, with regard
to this manual and any information
contained herein, including but not
limited to the implied warranties of
merchantability and fitness for a par-
ticular purpose. Agilent shall not be
liable for errors or for incidental or
consequential damages in connec-
tion with the furnishing, use, or per-
formance of this document or of any
information contained herein. Should
Agilent and the user have a separate
written agreement with warranty
terms covering the material in this
document that conflict with these
terms, the warranty terms in the sep-
arate agreement shall control.
Safety Notices
CAUTION
A CAUTION notice denotes a haz-
ard. It calls attention to an operat-
ing procedure, practice, or the like
that, if not correctly performed or
adhered to, could result in damage
to the product or loss of important
data. Do not proceed beyond a
CAUTION notice until the indicated
conditions are fully understood and
met.
WARNING
A WARNING notice denotes a
hazard. It calls attention to an
operating procedure, practice, or
the like that, if not correctly per-
formed or adhered to, could result
in personal injury or death. Do not
proceed beyond a WARNING
notice until the indicated condi-
tions are fully understood and
met.
Acknowledgements
Microsoft® and Windows® are U.S. regis-
tered trademarks of Microsoft Corporation.
Swagelok® is a registered trademark of the
Swagelok Company.

Hardware Installation 3
Contents
1 General Information
Introduction 8
Important Safety Warnings 10
Many internal parts of the MSD carry dangerous voltages 10
Electrostatic discharge is a threat to MSD electronics 10
Many parts are dangerously hot 11
Hydrogen 11
Safety and Regulatory Certifications 13
Information 13
Symbols 14
Electromagnetic compatibility 15
Sound emission certification for Federal Republic of
Germany 15
Cleaning 16
Recycling the Product 16
Customer Responsibilities 17
Before You Start 18
Other Documentation 19
2 Installation
Overview 22
Unpacking and Inspecting the Materials 23
Installing the GC 24
Connecting the Helium Lines to the GC 26

4Hardware Installation
Configuring the GC 28
Conditioning the Column 29
Preparing the MSD for Installation 30
Preparing the Vacuum System 32
Plumbing the Methane Line to the CI MSD Flow Module 35
Connecting the MSD and the GC 37
Installing the ChemStation PC 40
Verifying EI System Performance 41
Verify the tune performance 41
Verify the sensitivity performance 41
Switching from EI to CI Operating Mode 42
Verifying CI System Performance 43
Verify PCI performance 43
Verify NCI performance 43
Familiarizing the Customer 44
3 Checklists
Installation Checklist 46
Verifying that site preparation is complete 46
Unpacking and inspecting the shipped materials 46
GC installation 47
MSD installation 48
MSD ChemStation PC installation 50
Performance verification 50
Instrument Log Book Updated 51
Customer Familiarization Checklist 53
Topics not included in familiarization 53
Hardware overview 54
System operation 54

Hardware Installation 5
MSD ChemStation software overview 54
MSD ChemStation software autotune descriptions 55
Methods 55
Data Acquisition 55
Data analysis 56
Sequence 56
MSD ChemStation maintenance 56
EI Instrument user maintenance 56
Troubleshooting (Diagnostics) 57
Remote operation/modem setup (if applicable) 57
Tune charts 58
Additional support information 58

6Hardware Installation

7
5973N and 5973 inert Mass Selective Detector
Hardware Installation
Agilent Technologies
1
General Information
Introduction 8
Important Safety Warnings 10
Safety and Regulatory Certifications 13
Cleaning 16
Recycling the Product 16
Customer Responsibilities 17
Before You Start 18
Other Documentation 19
This section provides information on how to identify
specifically what type of MSD you are working with as well as
how to properly clean and dispose of the instrument. Also
included in this section are the “Important Safety Warnings”
which list critical safety precautions for all users.

8Hardware Installation
General Information
Introduction
This document provides installation instructions for the Agilent
Technologies 5973N and 5973 inert Mass Selective Detector
(MSD). Installation must be performed by an Agilent
Technologies service representative.
The Agilent Technologies 5973N Mass Selective Detector (MSD)
is a diffusion pump MSD while the 5973 inert Mass Selective
Detectors (MSDs) are turbo pump MSDs. This document will
refer to the 5973N MSD or 5973 inert MSD as 5973 Series MSD
unless otherwise noted.
The 5973 Series MSD system consists of:
•5973N or 5973 inert MSD
•Optional 59864B vacuum gauge controller (required for CI
operation)
•Gas Chromatograph
6890 Series GC, with options for MSD use
7683 Automatic Liquid Sampler (optional)
•PC and MSD ChemStation software
Refer to your MSD ChemStation documentation for
additional information
Table 1 lists possible configurations for the 5973 Series MSD.
Figure 1 identifies many of the common parts.

General Information
Hardware Installation 9
Table 1 Possible configurations
G2577A G2578A G2579A G2589A
High vac
pump
Diffusion
Pump
Standard turbo
pump
Performance
turbo pump
Performance
turbo pump
CI No No No PCI/NCI
59864B
gauge
controller
Recommended Recommended Recommended Required
DIP
compatible
(3rd party)
Yes Ye s Yes No
Figure 1 5973 Series MSD system
6890 Series
Gas Chromatograph
5973 Series
MSD
6
890 Series
A
LS tower
CI gas flow module
(EI/PCI/NCI MSDs only)
6890 Series
ALS tray
59864B high vacuum
Gauge Controller
5973 Series MSD LCP

10 Hardware Installation
General Information
Important Safety Warnings
Before moving on, there are several important safety notices
that you should always keep in mind when using the 5973 Series
MSD.
Many internal parts of the MSD carry dangerous voltages
If the MSD is connected to a power source, even if the power
switch is off, potentially dangerous voltages exist on the wiring
between the MSD power cord and the AC power supply, the AC
power supply itself, and the wiring from the AC power supply to
the power switch.
With the power switch on, potentially dangerous voltages also
exist on:
•All electronics boards in the instrument.
•The internal wires and cables connected to these boards.
•The wires for any heater (oven, detector, inlet, or valve box).
Electrostatic discharge is a threat to MSD electronics
The printed circuit (PC) boards in the MSD can be damaged by
electrostatic discharge. Do not touch any of the boards unless it
is absolutely necessary. If you must handle them, wear a
grounded wrist strap and take other antistatic precautions.
Wear a grounded wrist strap any time you must remove the MSD
right side cover.
WARNING All these parts are shielded by covers. With the covers in place, it
should be difficult to accidentally make contact with dangerous
voltages. Unless specifically instructed to, never remove a cover
unless the detector, inlet, or oven are turned off.
WARNING If the power cord insulation is frayed or worn, the cord must be
replaced. Contact your Agilent service representative.

General Information
Hardware Installation 11
Many parts are dangerously hot
Many parts of the MSD operate at temperatures high enough to
cause serious burns. These parts include but are not limited to:
•The inlets
•The oven and its contents
•The detectors
•The column nuts attaching the column to an inlet or detector
•The valve box
You should always cool these areas of the MSD to room
temperature before working on them. They will cool faster if you
first set the temperature of the heated zone to room
temperature. Turn the zone off after it has reached the setpoint.
If you must perform maintenance on hot parts, use a wrench
and wear gloves. Whenever possible, cool the part of the
instrument that you will be maintaining before you begin
working on it.
Hydrogen
Hydrogen gas may be used as carrier gas, and/or as fuel for the
FID. When mixed with air, hydrogen can form explosive
mixtures.
WARNING Be careful when working behind the instrument. During cool-down
cycles, the MSD emits hot exhaust which can cause burns.
WARNING The insulation around the inlets, detectors, valve box, and the
insulation cups is made of refractory ceramic fibers. To avoid
inhaling fiber particles, we recommend the following safety
procedures: ventilate your work area; wear long sleeves, gloves,
safety glasses, and a disposable dust/mist respirator; dispose of
insulation in a sealed plastic bag; wash your hands with mild soap
and cold water after handling the insulation.

12 Hardware Installation
General Information
When using hydrogen gas, check the system for leaks to prevent
possible fire and explosion hazards based on local
Environmental Health and Safety (EHS) requirements. Always
check for leaks after changing a tank or servicing the gas lines.
Always make sure the vent line is vented into a fume hood.
WARNING When using hydrogen (H2) as the carrier gas or fuel gas, be aware
that hydrogen gas can flow into the oven and create an explosion
hazard. Therefore, be sure that the supply is off until all connections
are made, and ensure that the inlet and detector column fittings are
either connected to a column or capped at all times when hydrogen
gas is supplied to the instrument.
Hydrogen is flammable. Leaks, when confined in an enclosed space,
may create a fire or explosion hazard. In any application using
hydrogen, leak test all connections, lines, and valves before
operating the instrument. Always turn off the hydrogen supply at its
source before working on the instrument.
WARNING The MSD cannot detect leaks in inlet and/or detector gas streams.
For this reason, it is vital that column fittings should always be either
connected to a column, or have a cap or plug installed.

General Information
Hardware Installation 13
Safety and Regulatory Certifications
The 5973 Series Mass Selective Detector conforms to the
following safety standards:
•Canadian Standards Association (CSA): C22.2 No. 1010.1
•CSA/Nationally Recognized Test Laboratory (NRTL): UL
61010A–1
•International Electrotechnical Commission (IEC): 61010–1
•EuroNorm (EN): 61010–1
The 5973 Series Mass Selective Detector conforms to the
following regulations on Electromagnetic Compatibility (EMC)
and Radio Frequency Interference (RFI):
•CISPR 11/EN 55011: Group 1, Class A
•IEC/EN 61326
•AUS/NZ
This ISM device complies with Canadian ICES-001. Cet appareil
ISM est conforme a la norme NMB—001 du Canada.
The 5973 Series Mass Selective Detector is designed and
manufactured under a quality system registered to ISO 9001.
Information
The Agilent Technologies 5973 inert Mass Selective Detector
meets the following IEC (International Electro-technical
Commission) classifications: Safety Class I, Transient
Overvoltage Category II, Pollution Degree 2.
This unit has been designed and tested in accordance with
recognized safety standards and is designed for use indoors. If
the instrument is used in a manner not specified by the
manufacturer, the protection provided by the instrument may
be impaired. Whenever the safety protection of the 5973 Series

14 Hardware Installation
General Information
Mass Selective Detector has been compromised, disconnect the
unit from all power sources and secure the unit against
unintended operation.
Refer servicing to qualified service personnel. Substituting
parts or performing any unauthorized modification to the
instrument may result in a safety hazard.
Symbols
Warnings in the manual or on the instrument must be observed
during all phases of operation, service, and repair of this
instrument. Failure to comply with these precautions violates
safety standards of design and the intended use of the
instrument. Agilent Technologies assumes no liability for the
customer’s failure to comply with these requirements.
See accompanying instructions for more
information.
Indicates a hot surface.
Indicates hazardous voltages.
Indicates earth (ground) terminal.
Indicates explosion hazard.
Indicates radioactivity hazard.
Indicates electrostatic discharge hazard.

General Information
Hardware Installation 15
Electromagnetic compatibility
This device complies with the requirements of CISPR 11.
Operation is subject to the following two conditions:
•This device may not cause harmful interference.
•This device must accept any interference received, including
interference that may cause undesired operation.
If this equipment does cause harmful interference to radio or
television reception, which can be determined by turning the
equipment off and on, the user is encouraged to try one or more
of the following measures:
1Relocate the radio or antenna.
2Move the device away from the radio or television.
3Plug the device into a different electrical outlet, so that the
device and the radio or television are on separate electrical
circuits.
4Make sure that all peripheral devices are also certified.
5Make sure that appropriate cables are used to connect the
device to peripheral equipment.
6Consult your equipment dealer, Agilent Technologies, or an
experienced technician for assistance.
7Changes or modifications not expressly approved by Agilent
Technologies could void the user’s authority to operate the
equipment.
Sound emission certification for Federal Republic of Germany
Sound pressure
Sound pressure Lp < 70 dB am according to ISO 7779:1988.
Schalldruckpegel
Schalldruckpegel LP < 70 dB am nach EN 27779:1991.

16 Hardware Installation
General Information
Cleaning
To clean the unit, disconnect the power and wipe down with a
damp, lint-free cloth.
Recycling the Product
For recycling, contact your local Agilent sales office.

General Information
Hardware Installation 17
Customer Responsibilities
The following are not included in the standard installation.
They are the responsibility of the customer, unless previous
arrangements have been made between the customer and the
Agilent Technologies Customer Service Organization.
•Preparation of all site facilities including the provision of
adequate space, supporting bench, and power to match the
unit(s) purchased. See the 5973N and 5973 inert MSD Site
Preparation Guide for details
•Operating supplies: high-purity carrier and reagent gas(es),
syringes, pipettes, vials, and solvents. See the 5973N and
5973 inert MSD Site Preparation Guide for details
•Installation and testing of additional detectors on the 6890
Series GC
•Training for programs not specifically listed in this document
•Tests of customer-supplied samples, equipment, and/or
method development
•Any tasks not described in this manual
In addition, the customer is required to:
•Provide someone to help lift the GC and MSD onto the bench
•Have the primary user and, if possible, all other users of the
MSD present during installation to receive familiarization
instruction from the Agilent Technologies service
representative

18 Hardware Installation
General Information
Before You Start
Verify that all the conditions specified in the 5973N and 5973
inert MSD Site Preparation Guide have been met:
•Adequate space is available for the MSD system
•Suitable supporting bench
•Adequate electrical power is available at the correct voltages
and frequencies
•Environmental control systems are adequate
•Adequate preparations for safe exhaust venting
•Supplies necessary for instrument operation are available,
including solvents, helium carrier gas, and methane reagent
gas (for CI MSDs)
•Computer supplies, including diskettes and printer paper
•Conveniently located telephone
Lifting the GC and MSD will require the assistance of another
person to prevent injury.
NOTE Installation and verification will only be performed using helium carrier
gas.
Product Weight, kg Weight, lb
5973 Series MSD
G2577A Diffusion Pump EI MSD 36 80
G2578A Standard turbo EI MSD 39 85
G2579A Performance turbo EI MSD 44 95
G2589A EI/PCI/NCI Performance Turbo MSD 46 100
6890 Series GC 50 110

General Information
Hardware Installation 19
Other Documentation
Additional information is contained in the following
documentation:
•5973N and the 5973 inert Mass Selective Detector Hardware
Manuals, which are located on the 5973N and 5973 inert
Mass Selective Detector User Information CD-ROM
•5973N and 5973 inert Mass Selective Detector Site
Preparation Guide
•6890 Series GC manuals
•GC accessories (autosampler, etc.) manuals
•G1701DA MSD Productivity ChemStations software manuals
and online help
•The sensitivity specifications for your instrument, Agilent
publication 5988-9991EN
•Hydrogen Carrier Gas Safety Guide (5955-5398)
•For updated information, see the Agilent Technologies web
site at http://www.agilent.com/chem

20 Hardware Installation
General Information