Agilent Technologies 5977B Series User manual

Agilent Technologies
Agilent 5977B Series 
MSD
Operating Manual

Notices
© Agilent Technologies, Inc. 2016
No part of this manual may be reproduced in
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tronic storage and retrieval or translation
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ment and written consent from Agilent
Technologies, Inc. as governed by United
States and international copyright laws.
Manual Part Number
G7077-90026
Edition
First edition, September 2016
Printed in USA
Agilent Technologies, Inc.
5301 Stevens Creek Boulevard
Santa Clara, CA 95051
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The material contained in this docu-
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ject to being changed, without notice,
in future editions. Further, to the max-
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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.

5977B Series MSD Operating Manual 3
About This Manual
This manual contains information for operating and
maintaining the Agilent 5977B Series Mass Selective Detector
(MSD).
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 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 3 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 “Operating in CI Mode”
Chapter 4 describes additional tasks necessary to operate in CI
mode.
6 “General Maintenance”
Chapter 5 describes maintenance procedures common to both
EI and CI instruments.

4 5977B Series MSD Operating Manual
7 “CI Maintenance”
Chapter 6 describes maintenance procedures unique to CI
MSDs.

5977B Series MSD Operating Manual 5

6 5977B Series MSD 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 5977B MSD with MassHunter Quick Start
document for information on finding and installing the
documentation located on this USB and DVDs.

5977B Series MSD Operating Manual 7
Contents
1 Introduction
5977B Series MSD Version 14
Abbreviations Used 15
The 5977B Series MSD 17
MSD Hardware Description 19
Important Safety Warnings 21
Hydrogen Safety 23
GC precautions 24
Precautions 26
Safety and Regulatory Certifications 28
Intended Use 31
Cleaning/Recycling the Product 31
Accidental Liquid Spillage 31
Moving or Storing the MSD 31
To Replace the Primary Fuses 32
2 Installing 7890 GC Columns
Columns 36
To Install a Capillary Column in a Split/Splitless Inlet 38
To Condition a Capillary Column 41
To Install a Capillary Column in the GC/MS Interface Using the
Self-Tightening Column Nut 42
To Install a Capillary Column in the GC/MS Interface Using a
Standard Column Nut 47
To Install the Interface Tip Seal 50

8 5977B Series MSD Operating Manual
To Calibrate Column Flow Linear Velocity 52
The GC/MSD Interface for a 7890B Series GC 55
3 Intuvo 9000 GC Column Maintenance
Columns 58
Conditioning columns 59
Tips and hints 59
To Replace an Intuvo GC Column 61
To Replace an Intuvo 9000 GC Gasket 65
To Install a Column Guard or Jumper Chip 66
To Replace the 9000 GC/MS Tail 70
To Condition an Intuvo Capillary Column 74
To Install the Interface Tip Seal 76
The GC/MS Interface for a 9000 Series GC 77
4 Operating in EI Mode
Operating the MSD from the DS 80
Operating the MSD from the GC control panel 81
Configuring the MSD through the Web User Interface (WUI) 85
To change the network settings of the MSD 85
eModule Mini Display Readout 88
Front Panel Instrument Status LED 88
Before You Turn On the MSD 89
Pumping Down 90
Controlling Temperatures 90
Controlling Column Flow 90
Controlling JetClean Hydrogen Flow 91

5977B Series MSD Operating Manual 9
Venting the MSD 91
To View MSD Temperature and Vacuum in Manual Tune 93
To Set Monitors for MSD Temperature and Vacuum Status 95
To Set Analyzer Temperatures from the Instrument Control
View 98
To Set the MassHunter 7890 GC/MSD Interface Temperature
100
To Monitor High Vacuum Pressure 101
To Tune the MSD in EI Mode 104
To Set the Operation Mode for the Optional JetClean System 106
To Set the JetClean Parameters for the Clean Only Mode 107
To Verify EI System Performance 108
To Perform High-Mass Testing 109
To Open the MSD Covers 112
To Vent the MSD 113
To Pumpdown the MSD 116
5 Operating in CI Mode
General Guidelines 120
CI Autotune 121
To Operate the CI MSD 123
To Pumpdown the MSD in CI Mode 124
To Set Up the Software for CI Operation 125
To Operate the Reagent Gas Flow Control Module 127
To Set Up Methane Reagent Gas Flow 130
To Use Other Reagent Gases 132

10 5977B Series MSD Operating Manual
To Perform a PCI Autotune (Methane Only) 135
To Perform an NCI Autotune (Methane Reagent Gas) 137
To Verify PCI Performance 139
To Verify NCI Performance 140
To Monitor CI Mode High Vacuum Pressure 141
6 General Maintenance
Before Starting 144
Maintaining the Vacuum System 149
Maintaining the Analyzer 150
To Open the Analyzer Chamber 152
To Remove the EI HES 154
To Connect/Disconnect Wiring to the EI HES 156
To Disassemble the EI HES 157
To Clean the EI HES 160
To Assemble the EI HES 163
To Remove the EI HES filaments 168
To Install the EI HES Filament 170
To Install the EI HES 171
To Remove the EI XTR, SS, or Inert Source 172
To Connect/Disconnect Wiring from the EI XTR, SS, and Inert
Sources 173
To Disassemble the EI SS or EI Inert Source 174
To Disassemble the EI XTR Source 177
To Clean an EI XTR, SS, or Inert Source 180
To Assemble an EI SS or Inert Source 185