Agilent Technologies 7000 Triple Quadrupole GC/MS User manual

Agilent Technologies
Agilent 7000 Triple
Quadrupole GC/MS
System
Troubleshooting and
Maintenance Manual

2 Troubleshooting and Maintenance Manual
Notices
© Agilent Technologies, Inc. 2009
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
G7000-90037
Edition
Second edition, September 2009
Printed in USA
Agilent Technologies, Inc.
5301 Stevens Creek Boulevard
Santa Clara, CA 95051
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
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ticular purpose. Agilent shall not be
liable for errors or for incidental or
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Safety Notices
CAUTION
A CAUTION notice denotes a
hazard. It calls attention to an
operating 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
performed or adhered to, could
result in personal injury or death.
Do not proceed beyond a
WARNING notice until the
indicated conditions are fully
understood and met.

Troubleshooting and Maintenance Manual 3
Contents
1 Introduction
Abbreviations Used 8
The 7000 Series Triple Quad GC/MS 10
Triple Quad GC/MS Hardware Description 12
Important Safety Warnings 13
Hydrogen Safety 15
Safety and Regulatory Certifications 20
Intended Use 23
Cleaning/Recycling the Product 23
Liquid Spills 23
Moving or Storing the MS 23
2 General Troubleshooting
Troubleshooting Tips and Tricks 26
General Symptoms 27
Chromatographic Symptoms 29
Mass Spectra General Symptoms 34
Pressure Symptoms 38
Temperature Symptoms 40
Common Types of Errors 42
Air Leaks 47
Contamination 48

4 Troubleshooting and Maintenance Manual
3 CI Troubleshooting
Common CI-Specific Problems 52
Troubleshooting Tips and Tricks 53
Air Leaks 54
Pressure-Related Symptoms 58
Signal-Related Symptoms 62
Tuning-Related Symptoms 70
4 General Maintenance
Before Starting 76
Maintaining the Mainframe 80
Maintaining the Vacuum System 93
Maintaining the Analyzers and Collision Cell 107
Maintaining the GC/MS Interface 115
Maintaining the Electronics 119
5 CI Maintenance
To Minimize Foreline Pump Damage from Ammonia 124
To Replace the Methane/Isobutane Gas Purifier 125
To Clean the Reagent Gas Supply Lines 126
To Refill the CI Calibrant Vial 127
6VacuumSystem
Overview 130
Vacuum System Components 131
Common Vacuum System Problems 132
Foreline Pump 133

Troubleshooting and Maintenance Manual 5
Turbo Pump 135
Analyzer Chambers 135
Side Plates 136
Vacuum Seals 137
Foreline Gauge 139
Turbo Pump and Fan 140
Calibration Valve and Vent Valve 141
7 Analyzers and Collision Cell
Overview 146
EI Ion Source 148
CI Ion Source 150
Filaments 152
Other Source Elements 154
Quadrupole Mass Filters 156
Post- and Pre-Filters 159
Collision Cell 160
Detector 161
Analyzer Heaters and Radiators 163
8 Electronics
Power Switch 166
Ion Source Board 167
Quadrupole Boards 168
Collision Cell Board 169
Detector Board 170

6 Troubleshooting and Maintenance Manual
Electronics Module 171
Bus board 176
PLX card 176
LAN/MS Control Card (Smartcard 4) 176
Power Supplies 177
Back Panel Connectors 178
Interfacing to External Devices 180
9ReplacementParts
To Order Parts 184
Electronics 185
Local Control Panel 189
Vacuum System 190
Analyzer 195
EI GC/MS Interface 205
Consumables and Maintenance Supplies 206
Additional CI Parts 210

7
Agilent 7000 Series Triple Quadrupole GC/MS
Troubleshooting and Maintenance Manual
Agilent Technologies
1
Introduction
Abbreviations Used 8
The 7000 Series Triple Quad GC/MS 10
Triple Quad GC/MS Hardware Description 12
Important Safety Warnings 13
Hydrogen Safety 15
Safety and Regulatory Certifications 20
Intended Use 23
Cleaning/Recycling the Product 23
Liquid Spills 23
Moving or Storing the MS 23
This manual describes the troubleshooting and maintenance of the Agilent
Technologies 7000 Triple Quadrupole Mass Spectrometer (MS) system. It is
often referred to in this document as the 7000 Triple Quad GC/MS. This
manual assumes familiarity with the procedures and information detailed in
the Agilent 7000 Series Triple Quad GC/MS Operation Manual and with the
Agilent MassHunter Workstation software.
The 7000 Triple Quad GC/MS system consists of a 7890A gas chromatograph
(GC) and a 7000 triple quadrupole mass spectrometer (MS).
This section provides general information about the 7000 Series Triple Quad
GC/MS, including a hardware description, general safety warnings, and
hydrogen safety information.

8 Troubleshooting and Maintenance Manual
1Introduction
Abbreviations Used
The abbreviations in Table 1 are used in discussing this product. They are
collected here for convenience.
Table 1 Abbreviations
Abbreviation Definition
AC Alternating current
ALS Automatic liquid sampler
BFB Bromofluorobenzene (calibrant)
CC Collision cell
CI Chemical ionization
CID Collision induced dissociation
DC Direct current
DFTPP Decafluorotriphenylphosphine (calibrant)
DIP Direct insertion probe
EI Electron impact
EM Electron multiplier (detector)
EMV Electron multiplier voltage
EPC Electronic pneumatic control
eV Electron volt
GC Gas chromatograph
HED High-energy dynode (refers to detector and its power supply)
id Inside diameter
LAN Local Area Network
LCP Local control panel
m/z Mass to charge ratio
MFC Mass flow controller

Introduction 1
Troubleshooting and Maintenance Manual 9
MRM Multiple reaction monitoring
MS Mass spectrometer
MS1 Front quadrupole
MS2 Rear quadrupole
NCI Negative chemical ionization
OFN Octafluoronaphthalene (sample)
PCI Positive chemical ionization
PFDTD Perfluoro-5,8-dimethyl-3,6,9-trioxydodecane (calibrant)
PFTBA Perfluorotributylamine (calibrant)
QQQ Triple quadrupole
Quad Quadrupole mass filter
RF Radio frequency
RFPA Radio frequency power amplifier
Torr Unit of pressure, 1 mm Hg
Turbo Split flow turbomolecular vacuum pump
Table 1 Abbreviations (continued)
Abbreviation Definition

10 Troubleshooting and Maintenance Manual
1Introduction
The 7000 Series Triple Quad GC/MS
The 7000 Series Triple Quad GC/MS is a standalone capillary GC detector for
use with the Agilent 7890A Series gas chromatograph. The Triple Quad MS
features:
•One split flow turbomolecular vacuum pump
•Rotary vane foreline pump
•Independently MS heated ion source
•Chemical and electron-ionization modes available (PCI/NCI/EI)
•Two independently MS heated hyperbolic quadrupole mass filters
•Single hexapole collision cell
•High-energy dynode (HED) electron multiplier detector
•Independently GC heated GC/MS interface
•Independently GC controlled collision cell gas flows
•High sensitivity electronic upgrades for the EI source and HED available
•Local control panel (LCP) for locally monitoring the MS
Physical description
The 7000 Series Triple Quad GC/MS is a rectangular box, approximately 47 cm
high, 35 cm wide, and 86 cm deep. The weight is 59 kg for the turbo pump
mainframe. The attached foreline (roughing) pump weighs an additional 11 kg.
The basic components of the instrument are: the frame/cover assemblies, the
vacuum system, the GC/MS interface, the ion source, the electronics, the
collision cell, the detector, and the front and rear analyzers.
Local control panel
The local control panel allows local monitoring of the MS instrument status.
Vacuum gauge
The 7000 Series Triple Quad GC/MS is equipped with two ion vacuum gauges.
The MassHunter Workstation can be used to read the pressure (high vacuum)
in the vacuum manifold and at the turbomolecular vacuum pump discharge.