Agilent Technologies 5975 Series User manual

Agilent 5975/5977 MSD for OpenLAB CDS
Operating Manual

Notices
© Agilent Technologies, Inc. 2019
No part of this manual may be repro-
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Manual Part Number
G7077-90031
Edition
First Edition, January 2019
Printed in USA
Agilent Technologies, Inc.
5301 Stevens Creek Boulevard 
Santa Clara, CA 95051
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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.

5975/5977 Series MSD Operating Manual 3
About This Manual
This manual contains information for operating and maintaining the Agilent 5975
through 5977 series of MSD with OpenLAB CDS software. Agilent OpenLAB CDS
is a new operating system for Agilent instruments.
The Agilent 5977B Series Mass Selective Detector (MSD) is the base instrument
described in this manual. Agilent instruments manufactured prior to the 5977B
share many features and hardware with this new instrument. Where older Agilent
models differ from the 5977B, that difference is usually noted. Please refer to the
operating and maintenance documentation that was delivered with your
instrument if other hardware differences are found.
1“Introduction”
Chapter 1 describes general information about the 5977B Series MSDs, including
a hardware description, general safety warnings, and hydrogen safety
information.
2 “Installing 7890/7820/6890/6850 GC Columns”
Chapter 2 shows you how to prepare a capillary column for use with the MSD,
install it in the GC oven, and connect it to the MSD using the GC/MSD interface.
3 “Intuvo 9000 GC Column Maintenance”
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 “Operating in EI Mode”
Chapter 4 describes basic tasks such as setting temperatures, monitoring
pressures, tuning, venting, and pumpdown. Much of the information in this
chapter also applies to CI operation.
5 “General Maintenance”
Chapter 5 describes maintenance procedures common to both EI and CI
instruments.

4 5975/5977 Series MSD Operating Manual
Hardware User Information
5977B MSD
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.
See the Agilent 5977B MSD System Quick Start document (G7077-90103) for
more details on how to install this information on your computer.
5975/5977 Series MSD prior to the 5977B
MSD
Users of Agilent MSD instruments manufactured prior to the 5977B should refer
to the documentation delivered to them when their MSD was purchased. The
information in this manual is intended to supplement that documentation.
Information included here will help you more effectively use the OpenLAB CDS
operating system with your instruments.
Additionally, there is extensive online Help and Learning material provided with
OpenLAB.

5975/5977 Series MSD Operating Manual 5
Contents
Hardware User Information 4
5977B MSD 4
5975/5977 Series MSD prior to the 5977B MSD 4
1Introduction
5977B Series MSD Version 10
Abbreviations Used 11
The 5977B Series MSD 13
MSD Hardware Description 15
Important Safety Warnings 16
Hydrogen Safety 19
GC precautions 19
Precautions 21
Safety and Regulatory Certifications 23
Intended Use 26
Cleaning/Recycling the Product 26
Accidental Liquid Spillage 26
Moving or Storing the MSD 26
To Replace the Primary Fuses 27
2 Installing 7890/7820/6890/6850 GC Columns
Columns 30
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 36

6 5975/5977 Series MSD Operating Manual
To Install a Capillary Column in the GC/MS Interface Using a
Standard Column Nut 41
To Install the Interface Tip Seal 44
To Calibrate Column Flow Linear Velocity 46
The GC/MSD Interface for a 7890B Series GC 49
3 Intuvo 9000 GC Column Maintenance
Columns 52
Conditioning columns 53
Tips and hints 53
Handling the Intuvo 9000GC Column and Bus
Components 54
To Replace an Intuvo GC Column 55
To Replace an Intuvo 9000 GC Gasket 59
To Install a Column Guard or Jumper Chip 60
To Replace the 9000 GC/MS Tail 64
To Condition an Intuvo Capillary Column 68
To Install the Interface Tip Seal 70
The GC/MS Interface for a 9000 Series GC 72
4OperatinginEIMode
Operating the MSD from the DS 76
Operating the MSD from the GC Control Panel 77
Configuring the MSD Through the Web User Interface
(WUI) 81
To change the network settings of the MSD 81
Operating the 5975/5977 MSD From the Local Control Panel
(LCP) 84
Modes of operation 84

5975/5977 Series MSD Operating Manual 7
LCP Status Messages 86
To view system status during startup 87
eModule Mini Display Readout 91
Front Panel Instrument Status LED 91
The GC/MSD Interface 92
Before You Turn On the MSD 94
Pumping Down 95
Controlling Temperatures 95
Controlling Column Flow 95
Venting the MSD 96
Set MS Analyzer Temperatures 97
Enable the GC/MS Interface and Oven 99
View MSD Temperatures and Vacuum 100
To Run an Autotune 102
To Open the MSD Covers 103
Vent the MSD 104
To Pump Down the MS 106
To Move or Store the MSD 109
5 General Maintenance
Before Starting 112
Maintaining the Vacuum System 116
Maintaining the Analyzer 117
To Open the Analyzer Chamber 119
To Remove the EI HES 121
To Connect/Disconnect Wiring to the EI HES 123

8 5975/5977 Series MSD Operating Manual
To Disassemble the EI HES 124
To Clean the EI HES 127
To Assemble the EI HES 130
To Remove the EI HES filaments 135
To Install the EI HES Filament 137
To Install the EI HES 138
To Remove the EI XTR, SS, or Inert Source 139
To Connect/Disconnect Wiring from the EI XTR, SS, and Inert
Sources 140
To Disassemble the EI SS or EI Inert Source 141
To Disassemble the EI XTR Source 144
To Clean an EI XTR, SS, or Inert Source 147
To Assemble an EI SS or Inert Source 151
To Assemble the EI XTR Source 154
To Replace a Filament in an EI XTR, SS, or Inert Source 157
To Install the EI XTR, SS, or Inert Source 159
To Replace the Electron Multiplier Horn 160
To Close the Analyzer Chamber 162

5975/5977 Series MSD Operating Manual 9
1Introduction
5977B Series MSD Version 10
Abbreviations Used 11
The 5977B Series MSD 13
MSD Hardware Description 15
Important Safety Warnings 16
Hydrogen Safety 19
Safety and Regulatory Certifications 23
Intended Use 26
Cleaning/Recycling the Product 26
Accidental Liquid Spillage 26
Moving or Storing the MSD 26
To Replace the Primary Fuses 27
This chapter describes general information about the MSD, including a hardware
description, general safety warnings, and hydrogen safety information.

1Introduction
10 5975/5977 Series MSD Operating Manual
5977B Series MSD Version
The 5977B Series MSDs are equipped with a turbomolecular (turbo) pump and a
choice of four foreline pumps or a diffusion pump paired with a Pfeiffer DUO 2.5
foreline pump. There are three types of electron ionization (EI) sources available
on the 5977B Series MSD, a standard EI stainless steel (SS) source, an EI
Extractor (XTR) source available on the Inert+ MSD model, and a high efficiency
source (HES). The serial number label displays a product number that indicates
what type of MSD you have. (See Table 1.)
Table 1 Available high vacuum pumps

Model name
Product
number*

Description

Ionization mode/Type
5977B MSD Diff Pump G7080B Diffusion pump EI/SS
5977B MSD Turbo Pump G7081B Turbo pump EI/SS
5977B Inert+ MSD EI Turbo G7077B Turbo pump MSD EI/XTR
5977B EI/CI MSD G7078B Turbo pump MSD EI /XTR
CI /PCI, NCI
5977B HES MSD G7079B Turbo pump MSD EI HES
field upgradeable to CI
* Operation in CI mode or with the JetClean option is not supported in OpenLAB CDS 2.1.