Agilent Technologies InfiniiVision 7000 Series User manual

Agilent 7000/7010 Series Triple Quadrupole
Operating Manual

Notices
© Agilent Technologies, Inc. 2019
No part of this manual may be repro-
duced in any form or by any means
(including electronic storage and
retrieval or translation into a foreign lan-
guage) without prior agreement and
written consent from Agilent Technolo-
gies, Inc. as governed by United States
and international copyright laws.
Manual Part Number
G7003-90050
Edition
First edition, January 2019
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 subject
to being changed, without notice, in
future editions. Further, to the maxi-
mum 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 lim-
ited to the implied warranties of mer-
chantability and fitness for a particular
purpose. Agilent shall not be liable for
errors or for incidental or consequen-
tial damages in connection with the
furnishing, use, or performance of this
document or of any information con-
tained herein. Should Agilent and the
user have a separate written agree-
ment with warranty terms covering the
material in this document that conflict
with these terms, the warranty terms in
the separate agreement shall control.
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.


7000/7010 Series TQ GC/MS Operating Manual 3
About This Manual
This manual contains information for operating and maintaining the Agilent
7000/7010 Series Triple Quad (TQ) Mass Spectrometer (MS) system.
1“Introduction”
Chapter 1 describes general information about the 7000/7010 Series TQ GC/MS,
including a hardware description, general safety warnings, and hydrogen safety
information.
2“Installing 8890 GC Columns”
Chapter 2 shows you how to prepare Agilent 8890 GC capillary columns for use
with the MS, install it in the GC oven, and connect it to the MS using the GC/MS
interface.
3“Installing Intuvo 9000 GC Column”
Chapter 3 shows you how to install an Agilent Intuvo column, connect a flow
path from the column through the MS transfer line and into the ion source, and
maintain the column guard chip.
4“Installing 7890 GC Columns”
Chapter 4 shows you how to prepare Agilent 7890 GC capillary columns for use
with the MS, install it in the GC oven, and connect it to the MS using the GC/MS
interface.
5“Operating in EI Mode”
Chapter 5 describes routine operations in EI mode such as setting temperatures,
monitoring pressures, tuning, venting, and pumpdown.
6“Operating in CI Mode”
Chapter 6 describes additional tasks necessary to operate in CI mode.
7“General Maintenance”
Chapter 7 describes general maintenance procedures for the 7000/7010 Series
TQ GC/MS.
8“CI Maintenance”
Chapter 8 describes maintenance procedures unique to CI MS.


4 7000/7010 Series TQ GC/MS Operating Manual
Hardware User Information
Accompanying your hardware and software is a comprehensive collection of
manuals, videos, user applications, and method development tools. These are
located on the:
•Agilent GC and GC/MS User Manuals and Tools DVD set
•Agilent GC/MS Software Information and Manuals memory stick
See the Agilent 7000/7010 Series TQ GC/MS System Quick Start document for
information on finding and installing the documentation located on this USB and
DVDs.
To Install Your Hardware Library
Insert the disk into your DVD drive and follow the prompts.
This can be installed by anyone who has authority to copy
information onto the receiving computer.
To Install Your Software Library
Insert the memory stick into a USB port and follow the prompts.
This can be installed by anyone who has authority to copy
information onto the receiving computer.

7000/7010 Series TQ GC/MS Operating Manual 5
Contents
About This Manual 3
Hardware User Information 4
1Introduction
Abbreviations Used 14
The 7000/7010 Series TQ GC/MS 16
Physical description 16
Vacuum gauge 17
7000/7010 CI MS System 17
7000/7010 Series Triple Quadrupole Hardware
Description 18
Important Safety Warnings 19
Many internal parts of the MS carry dangerous
voltages 19
Electrostatic discharge is a threat to MS electronics 19
Many parts are dangerously hot 20
The oil pan under the rotary vane foreline pump can be a fire
hazard 20
Hydrogen Safety 21
Dangers unique to GC/MS operation 21
Hydrogen accumulation in an MS 22
Precautions 23
Safety and Regulatory Certifications 24
EMC 25
Information 25
Symbols 26
Electromagnetic compatibility 26
Sound emission declaration 27
Intended Use 28

6 7000/7010 Series TQ GC/MS Operating Manual
Cleaning/Recycling the Product 28
Accidental Liquid Spill 28
Moving or Storing the MS 28
2 Installing 8890 GC Columns
Columns 30
Conditioning columns 31
Conditioning ferrules 31
Tips and hints 31
To Install a Capillary Column in a Split/Splitless Inlet 32
To Condition a Capillary Column 35
To Install a Capillary Column in the GC/MS Interface Using the
Self-Tightening Column Nut 37
To Install a Capillary Column in the GC/MS Interface Using a
Standard Column Nut 42
To Install the GC/MS Interface Tip Seal 45
The GC/MS Interface for an 8890 Series GC 47
3 Installing Intuvo 9000 GC Column
Columns 50
Conditioning Intuvo columns 51
Tips and hints 51
Handling the Intuvo 9000 GC Column and Bus
Components 52
To Replace an Intuvo GC Column 53
To Replace an Intuvo 9000 GC Gasket 57
To Install a Column Guard or Jumper Chip 58
To Replace the 9000 GC/MS Tail 62
To Condition an Intuvo Capillary Column 66

7000/7010 Series TQ GC/MS Operating Manual 7
To Install the GC/MS Interface Tip Seal 68
The GC/MS Interface for a 9000 GC 70
4 Installing 7890 GC Columns
Columns 74
Conditioning columns 75
Conditioning ferrules 75
Tips and hints 75
To Install a Capillary Column in a Split/Splitless Inlet 76
To Condition a Capillary Column 79
To Install a Capillary Column in the GC/MS Interface Using the
Self-Tightening Column Nut 81
To Install a Capillary Column in the GC/MS Interface Using a
Standard Column Nut 86
To Install the GC/MS Interface Tip Seal 89
The GC/MS Interface for an 7890 Series GC 91
To Calibrate the Column 93
5OperatinginEIMode
Operating the MS from the Data System 96
Set the IP Address and View TQ Parameters with the WUI 97
To change the network settings of the TQ 97
View the TQ parameters 99
Front Panel Instrument Status LED 101
Before You Turn On the MS 102
Pumping Down 103
Controlling Temperatures 103
Controlling Column Flow 104

8 7000/7010 Series TQ GC/MS Operating Manual
Controlling CC Flow 104
Controlling JetClean Hydrogen Flow 104
Venting the MS 105
High Vacuum Pressure in EI Mode 106
To Set Monitors for MS Temperature and Vacuum
Status 107
To Set the MS Analyzer’s Temperatures 109
To Set the GC/MS Interface Temperature from
MassHunter 111
To Configure CC Gas 112
To Set the Mode for the Optional JetClean System 113
To Set the JetClean Parameters for the Clean Only
Mode 114
To Set the CC Gas Flow Rates 115
To Autotune the MS for EI Mode 117
To Open Left Side Panel for Access to the Analyzer
Chambers 119
To Pumpdown the MS 120
To Vent the MS 124
To Set the GC/MS Interface Temperature from the
7890 GC 126
To Save a Method on the 7890 GC 127
6 Operating in CI Mode
Setting Up Your MS to Operate in CI Mode 130
Operating the CI MS 131
Start the system in CI mode 131
High Vacuum Pressure in CI Mode 132

7000/7010 Series TQ GC/MS Operating Manual 9
Analyzer vacuum with reagent gas flowing 132
Other Reagent Gases 133
Isobutane CI 133
Carbon Dioxide CI 134
CI Autotune 135
The CI Flow Control Module 137
To Operate the Reagent Gas Flow Control Module 139
To Set a Reagent Gas Flow 141
To Perform a CI Autotune 142
To Pumpdown and Switch from EI to CI Mode 144
7 General Maintenance
Before Starting 148
Scheduled maintenance 148
Tools, spare parts, and supplies 149
High voltage precautions 149
Dangerous temperatures 149
Ion source cleaning 151
Ammonia 151
Electrostatic discharge 151
Maintaining the Vacuum System 153
Periodic maintenance 153
Other procedures 153
More information is available 153
Maintaining the Analyzer 154
Scheduling 154
Precautions 154
More information is available 155
To Open the Front Analyzer Chamber 156

10 7000/7010 Series TQ GC/MS Operating Manual
To Remove the EI HES 159
To Connect or Disconnect Wiring to the EI HES 161
To Remove the EI XTR Source 162
To Connect or Disconnect Wiring to the EI XTR Source 164
To Disassemble the EI HES 165
To Disassemble the EI XTR Source 168
To Clean the EI HES 171
To Clean the EI XTR Source 174
To Assemble the EI HES 177
To Assemble the EI XTR Source 182
To Install the EI HES 185
To Install the EI XTR Source 187
To Remove a Filament from the EI XTR Source 189
To Install a Filament on the EI XTR Source 191
To Remove the EI HES Filaments 192
To Install the EI HES Filaments 194
To Close the Front Analyzer Chamber 195
To Remove Left Rear Cover 196
To Open the Rear Analyzer Chamber 198
To Replace the EM Horn 201
To Close the Rear Analyzer Chamber 203
8 CI Maintenance
General Information 206
Ion source cleaning 206
Ammonia 206

7000/7010 Series TQ GC/MS Operating Manual 11
To set up your MS for CI operation 206
Guidelines 206
To Switch from an EI XTR Source to the CI Source 207
To Remove the EI HES Radiator 208
To Connect or Disconnect EI HES Radiator Wiring 210
To Install the 7010 Series CI Source 211
To Install the 7000 Series CI Source 212
To Switch from the CI Source to the EI HES 213
To Install the EI HES Radiator 214
To Switch from the CI Source to the EI XTR Source 216
To Connect or Disconnect 7010 Series CI Source Wiring 217
To Connect or Disconnect 7000 Series CI Source Wiring 218
To Switch from the CI Source to an EI XTR Source 219
To Remove the 7000 Series CI Source 220
To Remove the 7010 Series CI Source 221
To Switch from the EI HES to the CI Source 222
To Install the CI/EI XTR Source Radiator 223
To Switch from the CI Source to the EI HES 225
To Install a CI Source Filament 226
To Remove the CI Source Radiator from the 7010
Series TQ 227
To Disassemble the CI Source 229
To Clean the CI Source 232
To Assemble the CI Source 235
To Remove the CI Source Filament 238

12 7000/7010 Series TQ GC/MS Operating Manual
To Install a CI Source Filament 240

7000/7010 Series TQ GC/MS Operating Manual 13
1Introduction
Abbreviations Used 14
The 7000/7010 Series TQ GC/MS 16
7000/7010 Series Triple Quadrupole Hardware Description 18
Important Safety Warnings 19
Hydrogen Safety 21
Safety and Regulatory Certifications 24
Intended Use 28
Cleaning/Recycling the Product 28
Accidental Liquid Spill 28
Moving or Storing the MS 28
This section provides general information about the 7000/7010 Series Triple Quad
(TQ) Gas Chromatograph (GC) / Mass Spectrometer (MS), including a hardware
description, general safety warnings, and hydrogen safety information.

1Introduction
Abbreviations Used
14 7000/7010 Series TQ GC/MS Operating Manual
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
CC Collision cell
CI Chemical ionization
CID Collision induced dissociation
CSB Ceramic source board
DC Direct current
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)
HES High Efficiency Source
id Inside diameter
Inert Standard EI source constructed of inert materials
LAN Local Area Network
LCP Local control panel
m/z Mass-to-charge ratio
MFC Mass flow controller
MRM Multiple reaction monitoring
MS Mass spectrometer

1Introduction
Abbreviations Used
7000/7010 Series TQ GC/MS Operating Manual 15
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)
Quad Quadrupole mass filter
RF Radio frequency
RFPA Radio frequency power amplifier
Torr Unit of pressure, 1 mm Hg
TQ Triple Quad (quadrupole)
Turbo Split flow turbomolecular vacuum pump
XTR EI Extractor source
Table 1 Abbreviations (continued)
Abbreviation Definition

1Introduction
The 7000/7010 Series TQ GC/MS
16 7000/7010 Series TQ GC/MS Operating Manual
The 7000/7010 Series TQ GC/MS
The 7000/7010 Series TQ GC/MS is a standalone capillary GC detector for use
with the Agilent 8890, 9000, or 7890 GCs. (See Figure 1 on page 18.) The TQ
GC/MS features:
•One split flow turbomolecular vacuum pump
•Rotary vane or optional dry scroll foreline pump
•A choice of two independently MS-heated high sensitivity EI sources
•An optional JetClean system for cleaning the ion source in place under
vacuum
•CI and EI modes available (PCI/NCI/EI)
•Two independently MS-heated hyperbolic Quads
•Single hexapole CC
•HED EM
•Independently GC-heated GC/MS interface with interface tip seal
•Independently GC-controlled CC gas flows
Physical description
The 7000/7010 Series TQ 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 and 64 kg for the mainframe with CI. The attached foreline (roughing)
pump weighs an additional 22.2 kg.
The basic components of the instrument are:
•Frame/cover assemblies
•Vacuum system
•GC/MS interface
•Ion source
•Electronics
•CC
•Detector
•Front and rear analyzers

1Introduction
Vacuum gauge
7000/7010 Series TQ GC/MS Operating Manual 17
Vacuum gauge
The 7000/7010 Series TQ GC/MS is equipped with two ion vacuum gauges. The
Agilent MassHunter GC/MS Acquisition software can be used to read the
pressure (high vacuum) in the vacuum manifold and at the turbomolecular
vacuum pump discharge.
7000/7010 CI MS System
In this manual, the term “CI MS” refers to the 7000/7010 Series TQ GC/MS CI
source system. It also applies, unless otherwise specified, to the mass flow
controller (MFC) for these instruments.
The 7000/7010 Series TQ GC/MS CI source system (preconfigured or upgrade
kit) adds to the 7000/7010 TQ MS:
•EI/CI GC/MS interface
•CI source
•Reagent gas MFC system
•JetClean option available that shares the same MFC system
•HED with high sensitivity electronics
•Bipolar HED power supply for PCI and NCI operation
A required methane/isobutane gas purifier is provided. It removes oxygen, water,
hydrocarbons, and sulfur compounds.
The CI MS system has been optimized to achieve the relatively high source
pressure required for CI while still maintaining high vacuum in the CC,
quadrupoles, and detector. Special seals along the flow path of the reagent gas
and very small openings in the ion source keep the source gases in the ionization
volume long enough for the appropriate reactions to occur.
The CI interface has special plumbing for reagent gas. A spring-loaded insulating
seal fits onto the tip of the interface.
Switching back and forth between CI and EI sources takes about 1 hour,
however, a 1- to 2-hour wait is required to purge the reagent gas lines and bake
out water and other contaminants. Switching from PCI to NCI requires about
2 hours for the ion source to cool.

1Introduction
7000/7010 Series Triple Quadrupole Hardware Description
18 7000/7010 Series TQ GC/MS Operating Manual
7000/7010 Series Triple Quadrupole
Hardware Description
Figure 1. 7000/7010 Series TQ GC/MS system with 8890 GC
ALS
7000/7010
Series TQ MS
MS power
switch
8890 GC
Drawer
GC power switch
System
status LED

1Introduction
Important Safety Warnings
7000/7010 Series TQ GC/MS Operating Manual 19
Important Safety Warnings
There are several important safety notices to always keep in mind when using
the MS.
Many internal parts of the MS carry dangerous
voltages
If the MS is connected to a power source, even if the power switch is off,
potentially dangerous voltages exist on:
•The wiring between the MS power cord and the AC power supply
•The AC power supply itself
•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 MS
electronics
The printed circuit boards in the MS can be damaged by electrostatic discharge
(ESD). 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.
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, and
oven are turned off.
WARNING
If the power cord insulation is frayed or worn, the cord must be replaced.
Contact your Agilent service representative.

1Introduction
Many parts are dangerously hot
20 7000/7010 Series TQ GC/MS Operating Manual
Many parts are dangerously hot
Many parts of the GC/MS operate at temperatures high enough to cause serious
burns. These parts include, but are not limited to the:
•Inlet
•Oven and its contents
•Valve box
•Detectors
•Column nuts attaching the column to an inlet or detector
•Foreline pump
•GC/MS transfer line
•Quadrupole
•Ion source
Always cool these areas of the system 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.
The oil pan under the rotary vane foreline pump can be
a fire hazard
Oily rags, paper towels, and similar absorbents in the oil pan could ignite and
damage the pump and other parts of the MS.
WARNING
Be careful when working behind the instrument. During cool-down cycles, the
GC emits hot exhaust that 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 in accordance with local
regulations; wash your hands with mild soap and cold water after handling the
insulation.
WARNING
Combustible materials (or flammable/nonflammable wicking material) placed
under, over, or around the foreline (roughing) pump constitute a fire hazard. Keep
the pan clean, but do not leave absorbent material such as paper towels in it.