Agilent Technologies 1260 Infinity User manual

Agilent Technologies
Agilent 1260 Infinity
Binary Pump
User Manual

1260 Infinity Binary Pump User Manual
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2010-2013
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Manual Part Number
G1312-90015 Rev. B
Edition
11/2013
Printed in Germany
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1260 Infinity Binary Pump User Manual 3
In This Guide...
In This Guide...
This manual covers the Agilent 1260 Infinity Binary Pump (G1312B).
1 Introduction to the Binary Pump
This chapter gives an introduction to the module and an instrument
overview.
2 Site Requirements and Specifications
This chapter provides information about site requirements and
specifications for the binary pump.
3 Installing the Pump
This chapter gives information about the preferred stack setup for your
system and the installation of your binary pump.
4UsingthePump
This chapter explains the operational parameters of the binary pump.
5 Optimizing Performance
This chapter gives information on how to optimize the performance of the
Binary Pump under special operational conditions.
6 Troubleshooting and Diagnostics
Overview of the troubleshooting and diagnostic features.
7 Error Information
This chapter describes the meaning of error messages, and provides
information on probable causes and suggested actions how to recover from
error conditions.

4 1260 Infinity Binary Pump User Manual
In This Guide...
8 Test Functions and Calibration
This chapter explains all test functions that are available for the binary
pump.
9 Diagnostic Signals
This chapter explains all diagnostic signals of the binary pump.
10 Maintenance
This chapter describes the maintenance of the module.
11 Parts and Materials for Maintenance
This chapter lists all parts and tools that are required for maintenance.
12 Identifying Cables
This chapter provides information on cables used with the Agilent 1200
Infinity Series modules.
13 Hardware Information
This chapter provides detailed technical information about your binary
pump.
14 Appendix
This appendix provides general safety and environmental information.

1260 Infinity Binary Pump User Manual 5
Contents
Contents
1 Introduction to the Binary Pump 9
Instrument and Operation 10
Overview of the Hydraulic Path 13
Leak and Waste Handling 18
2 Site Requirements and Specifications 21
Site Requirements 22
Physical Specifications 25
Performance Specifications 26
3 Installing the Pump 29
Unpacking the Binary Pump 30
Optimizing the Stack Configuration 33
Installation Information on Leak and Waste Handling 41
Installing the Binary Pump 45
Flow Connections with Solvent Selection Valve 48
Flow Connections without Solvent Selection Valve 51
Priming the System 54
4UsingthePump 59
Leak and Waste Handling 60
Hints for Successful Use of the Binary Pump 61
Setting up the Pump with the G4208A Instant Pilot 62
Setting up the Agilent 1260 Infinity Binary Pump G1312B with the Instrument
Control Interface 63
Solvent Information 69
Algae Growth in HPLC Systems 74
Prevent Blocking of Solvent Filters 76

6 1260 Infinity Binary Pump User Manual
Contents
5 Optimizing Performance 79
When to Use a Vacuum Degasser 80
When to Use the Active Seal Wash Option 81
When to Use Alternative Seals 82
When to Use the Low Volume Mixer 83
When to Remove Damper and Mixer 84
How to Optimize the Compressibility Compensation Setting 87
6 Troubleshooting and Diagnostics 91
Overview of the Module’s Indicators and Test Functions 92
Status Indicators 94
User Interfaces 96
Agilent Lab Advisor Software 97
7 Error Information 99
What Are Error Messages 101
General Error Messages 102
Module Error Messages 109
8 Test Functions and Calibration 125
(System) Pressure Test 126
Valve Test 131
Binary Pump Solvent Compressibility Calibration 133
Pump Elasticity Calibration 135
Leak Rate Test 137
9 Diagnostic Signals 143
Analog Pressure Output 144
Diagnostic Signals in Chromatographic Data Systems 145

1260 Infinity Binary Pump User Manual 7
Contents
10 Maintenance 147
Introduction to Maintenance and Repair 148
Warnings and Cautions 149
Cleaning the Module 151
Overview of Maintenance and Simple Repairs 152
Maintenance Procedures 153
Exchanging the Purge Valve Frit or the Purge Valve 154
Removing the Pump Head Assembly 157
Maintenance of a Pump Head without Seal Wash 159
Maintenance of a Pump Head with Seal Wash 163
Reinstalling the Pump Head Assembly 167
Seal Wear-in Procedure 169
Exchanging the Active Inlet Valve (AIV) or its Cartridge 170
Exchanging the Outlet Valve 173
Installation of the Solvent Selection Valve Upgrade Kit 175
Exchanging the Solvent Selection Valve 177
Exchanging the Optional Interface Board 180
Replacing Module Firmware 181
11 Parts and Materials for Maintenance 183
Hydraulic Path with Solvent Selection Valve 184
Hydraulic Path without Solvent Selection Valve 186
Pump Head Assembly Without Seal Wash 188
Pump Head Assembly with Seal Wash Option 190
Outlet Valve 192
Purge Valve Assembly 193
Active Inlet Valve Assembly 194
HPLC Starter Kit G4201-68707 195
HPLC Starter Kit G4202-68707 195
HPLC System Tool Kit 196
Bottle Head Assembly 197
Solvent Cabinet 198

8 1260 Infinity Binary Pump User Manual
Contents
12 Identifying Cables 201
Overview 202
Analog cables 204
Remote Cables 206
BCD Cables 209
CAN/LAN Cables 211
External Contact Cables 212
RS-232 Cable Kit 213
Agilent 1200 Module to Printer 214
13 Hardware Information 215
Firmware Description 216
Electrical Connections 219
Interfaces 221
Setting the 8-bit Configuration Switch (without On-board) LAN 228
Optional Interface Boards 232
The Solvent Selection Valve (SSV) 236
Early Maintenance Feedback 237
Instrument Layout 238
14 Appendix 239
General Safety Information 240
The Waste Electrical and Electronic Equipment Directive 243
Lithium Batteries Information 244
Radio Interference 245
Sound Emission 246
Agilent Technologies on the Internet 247

9
1260 Infinity Binary Pump User Manual
Agilent Technologies
1
Introduction to the Binary Pump
Instrument and Operation 10
Introduction to the Pump 10
Principle of Operation 11
Overview of the Hydraulic Path 13
Leak and Waste Handling 18
This chapter gives an introduction to the module and an instrument overview.

10 1260 Infinity Binary Pump User Manual
1Introduction to the Binary Pump
Instrument and Operation
Instrument and Operation
Introduction to the Pump
The binary pump comprises two identical pumps integrated into one
housing. Binary gradients are created by high- pressure mixing. An
optional degasser is available for applications that require best flow
stability, especially at low flow rates, for maximum detector sensitivity.
Pulse damper and mixer can be bypassed for low flowrate applications or
whenever a minimal transient volume is desirable. Typical applications are
high throughput methods with fast gradients on high resolution 2.1 mm
columns. The pump is capable of delivering flow in the range of 0.1 –
5 mL/min against up to 600 bar. A solvent selection valve (optional)
allows to form binary mixtures (isocratic or gradient) from one of two
solvents per channel. Active seal wash (optional) is available for use with
concentrated buffer solutions.
Figure 1 Overview of the binary pump
Purge valve
Active inlet valve
Mixer
Outlet valve

1260 Infinity Binary Pump User Manual 11
Introduction to the Binary Pump 1
Instrument and Operation
Principle of Operation
The binary pump is based on a two- channel, dual- piston in- series design
which comprises all essential functions that a solvent delivery system has
to fulfill. Metering of solvent and delivery to the high- pressure side are
performed by two pump assemblies which can generate pressure up to
600 bar.
Each channel comprises a pump assembly including pump drive, pump
head, active inlet valve with replaceable cartridge, and outlet valve. The
two channels are fed into a low- volume mixing chamber which is
connected via a restriction capillary coil to a damping unit and a mixer. A
pressure sensor monitors the pump pressure. A purge valve with
integrated PTFE frit is fitted to the pump outlet for convenient priming of
the pumping system.
Figure 2 The Hydraulic Path of the Binary Pump with Damper and Mixer
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12 1260 Infinity Binary Pump User Manual
1Introduction to the Binary Pump
Instrument and Operation
Damper and mixer can be bypassed for lowest delay volume of the binary
pump. This configuration is recommended for low flow rate applications
with steep gradients, see the Agilent 1260 Infinity Binary LC System
Manual.
Figure 3 on page 12 illustrates the flow path in low delay volume mode.
For instructions on how to change between the two configurations, see
“Convert the Binary Pump to Low Delay Volume Mode” on page 85.
Figure 3 The Hydraulic Path of the Binary Pump with Bypassed Damper and Mixer
For pump specifications, see “Performance Specifications” on page 26.
NOTE
Bypassing the mixer while the damper remains in line is not a supported configuration and
may lead to undesired behavior of the binary pump.
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1260 Infinity Binary Pump User Manual 13
Introduction to the Binary Pump 1
Overview of the Hydraulic Path
Overview of the Hydraulic Path
The solvent from the bottle in the solvent cabinet enters the pump through
an active inlet valve. Each side of the binary pump comprises two
substantially identical pump units. Both pump units comprise a ball- screw
drive and a pump head with two sapphire pistons for reciprocating
movement.
Figure 4 Pump head
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14 1260 Infinity Binary Pump User Manual
1Introduction to the Binary Pump
Overview of the Hydraulic Path
A servo- controlled variable reluctance motor drives the two ball- screw
drives in opposite directions. The gears for the ball- screw drives have
different circumferences (ratio 2:1) allowing the first piston to move at
double the speed of the second piston. The solvent enters the pump heads
close to the bottom limit and leaves it at its top. The outer diameter of
the piston is smaller than the inner diameter of the pump- head chamber
allowing the solvent to fill the gap in between. The first piston has a
stroke volume in the range of 20 µL to 100 µL depending on the flow
rate. The microprocessor controls all flow rates in a range of 1 µL/min to
5 mL/min. The inlet of the first pumping unit is connected to the active
inlet valve which is processor- controlled opened or closed allowing solvent
to be drawn into the first pump unit.
The outlet of the first pump chamber is connected by a 500 µL absorber
capillary to the second pump chamber. The outlets of the second chambers
of both pump channels joined via a small mixing chamber. A coiled
restriction capillary connects the mixing chamber via a pressure pulse
damper, a mixer and a pressure sensor to the purge valve assembly. The
outlet of the purge valve assembly is then connected to the attached
chromatographic system.
When turned on, the pump runs through an initialization procedure to
determine the upper dead center of the first piston of both pump
channels. The first piston moves slowly upwards to the mechanical stop of
the pump head and from there it moves back a predetermined path
length. The controller stores this piston position in memory. After this
initialization the pump starts operation with the set parameters for the
two pump channels.
The active inlet valve is opened and the down moving piston draws
solvent into the first pump head. At the same time the second piston is
moving upwards delivering into the system. After a controller defined
stroke length (depending on the flow rate) the drive motors are stopped
and the active inlet valve is closed. The motor direction is reversed and
moves the first piston up until it reaches the stored upper limit and at the
same time moving the second piston downwards.
Then the sequence starts again moving the pistons up and down between
the two limits. During the delivery stroke of the first piston the solvent in
the pump head is pressed through the outlet valve into the second
pumping unit. The second piston draws in half of the volume displaced by
the first piston and the remaining half volume is directly delivered into
the system. During the drawing stroke of the first piston, the second
piston delivers the drawn volume into the system.
For pump specifications, see “Performance Specifications” on page 26.

1260 Infinity Binary Pump User Manual 15
Introduction to the Binary Pump 1
Overview of the Hydraulic Path
What is Pump Elasticity Compensation?
The flow path of the pump consists of pump chambers, sapphire pistons,
polymer seals, stainless steel tubing of different dimension, pressure
sensor, and so forth. All of these parts deform when pressurized. The sum
of this deformation is called pump elasticity.
Let us look at a practical example: Piston 1 draws solvent at ambient
pressure. The movement direction is reversed and the piston 1 now
compresses the solvent until the operating pressure of the HPLC system is
reached. The outlet valve opens, and solvent is pumped by piston 1 into
pump chamber 2. Due to two factors, the solvent volume that is delivered
into the system at high pressure is smaller than it is supposed to be:
1The solvent is compressible
2The pump has a certain elasticity which causes its internal volume to
increase with pressure.
In order to compensate for these two influences, their contributions must
be known. An elasticity calibration allows separating pump properties
from solvent properties and therefore allows transferring solvent
properties, which have been obtained from one pump to another pump
with different elasticity.
Elasticity calibration is done with a solvent, which properties
(compressibility, thermal expansion) are well- known and documented:
pure water. When pumping water and using its property data for
controlling the pump, any deviations from the theoretical pressure profile
during solvent recompression are caused by the elasticity of the pump.
The Pump Elasticity Calibration calculates correction factors to
compensate for the individual elasticity of the pump that is being
calibrated. The elasticity is different for every pump and may change with
the replacement of parts in the flow path, e.g. pump seals.
All binary pumps are elasticity calibrated at the factory and require
recalibration only after preventive maintenance or major repairs to the
flow path. Replacement of capillaries or PTFE frits are not considered as
a major repair.
CAUTION
Incorrect pump elasticity calibration.
Solvent compressibility calibrations acquired with a miscalibrated pump will work, but
they are not transferable to other pumps. A correct pump elasticity calibration is an
essential prerequisite for successful solvent compressibility calibrations.
➔Calibrate the pump elasticity correctly.

16 1260 Infinity Binary Pump User Manual
1Introduction to the Binary Pump
Overview of the Hydraulic Path
What is Solvent Compressibility Compensation?
Although the compressibility of liquids is orders of magnitude lower than
the compressibility of gases, without correction a noticeable volume error
would be seen if typical chromatographic solvents are compressed to
operating pressures as high as 600 bar. In addition, the compressibility
depends on pressure, temperature and the amount of dissolved gas. In
order to minimize the influence of the latter, the use of a vacuum
degasser is mandatory for a high flow and composition precision.
Unfortunately, the influence of the temperature on compressibility is
non- linear and cannot be calculated.
The Agilent 1260 Infinity Binary Pump features a multi point
compressibility calibration. The compressibility of a solvent is determined
at different pressures from 0 – 600 bar and stored in an XML file. This
file can be distributed to other pumps because the solvent compressibility
is independent from the pump.
The binary pump and ChemStation come with predetermined solvent
compressibility data for the most common HPLC solvents like water,
acetonitrile, methanol, etc. Users can calibrate their own solvent mixtures
with the help of an easy to use calibration procedure in the Agilent Lab
Advisor software.
Let us use the practical example from the last section once again to
understand how compressibility compensation works:
Piston 1 draws solvent at ambient pressure. The movement direction is
reversed and piston 1 now compresses the solvent until the operating
pressure of the HPLC system is reached. The outlet valve opens, and
solvent is pumped by piston 1 into pump chamber 2.
Without any compensation, the delivered volume at operating pressure
would be too low. In addition, it would take a noticeable amount of time
to recompress the solvent to operating pressure. During this time frame,
no solvent would be delivered into the system and as a result a high
pressure fluctuation (known as pressure ripple) would be observed.

1260 Infinity Binary Pump User Manual 17
Introduction to the Binary Pump 1
Overview of the Hydraulic Path
When both solvent compressibility at the current operating pressure and
pump elasticity are known, the pump can automatically correct for the
missing volume by drawing the appropriate larger solvent volume at
ambient pressure and speed up the piston during the recompression phase
in the first pump chamber. As a result, the pump delivers the accurate
volume with any (calibrated) solvent at any pressure at a greatly reduced
pressure ripple. For applications that require lowest transition volume of
the pump, damper and mixer can be bypassed.
For compatibility with older methods from G1312A Binary Pumps, the
previous one- point compressibility compensation is available, too.
However, since the compressibility is a non- linear function, one single
compressibility value per solvent will only give good results at one
particular pressure
How Does Variable Stroke Volume Work?
The smaller the solvent volume in the pump chamber is, the faster it can
be recompressed to operating pressure. The binary pump allows to
manually or automatically adjust the pump stroke volume of the first
piston in the range of 20 – 100 µL. Due to the compression of the solvent
volume in the first pump chamber, each piston stroke of the pump will
generate a small pressure pulsation, influencing the flow ripple of the
pump. The amplitude of the pressure pulsation mainly depends on the
stroke volume and the compressibility compensation for the solvent in use.
Small stroke volumes generate less pressure pulsation than larger stroke
volumes at the same flow rate. In addition, the frequency of the pressure
pulsation will be higher. This will decrease the influence of flow
pulsations on retention times.
In gradient mode, a smaller stroke volume results in less flow ripple and
reduces the composition ripple.
The binary pump uses a processor- controlled ball screw system for driving
its pistons. The normal stroke volume is optimized for the selected flow
rate. Small flow rates use a small stroke volume while higher flow rates
use a higher stroke volume.
The stroke volume for the pump is by default set to AUTO mode. This
means that the stroke is optimized for the flow rate in use. A change to
larger stroke volumes is possible but not recommended.

18 1260 Infinity Binary Pump User Manual
1Introduction to the Binary Pump
Leak and Waste Handling
Leak and Waste Handling
The 1200 Infinity Series has been designed for safe leak and waste
handling. It is important that all security concepts are understood and
instructions are carefully followed.
Figure 5 Leak and waste handling concept (overview - typical stack configuration as an
example)
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1260 Infinity Binary Pump User Manual 19
Introduction to the Binary Pump 1
Leak and Waste Handling
The solvent cabinet (1) is designed to store a maximum volume of 6 L
solvent. The maximum volume for an individual bottle stored in the
solvent cabinet should not exceed 2.5 L. For details, see the usage
guideline for the Agilent 1200 Infinity Series Solvent Cabinets (a printed
copy of the guideline has been shipped with the solvent cabinet, electronic
copies are available on the Internet).
The leak pan (2) (individually designed in each module) guides solvents to
the front of the module. The concept covers also leakages on internal
parts (e.g. the detector’s flow cell). The leak sensor in the leak pan stops
the running system as soon as the leak detection level is reached.
The leak pan's outlet port (3, A) guides excessive overfill from one module
to the next, as the solvent flows into the next module’s leak funnel (3, B)
and the connected corrugated waste tube (3, C). The corrugated waste
tube guides the solvent to the next lower positioned module’s leak tray
and sensor.
The waste tube of the sampler’s needle wash port (4) guides solvents to
waste.
The condense drain outlet of the autosampler cooler (5) guides condensate
to waste.
The waste tube of the purge valve (6) guides solvents to waste.
The waste tube connected to the leak pan outlet on each of the bottom
instruments (7) guides the solvent to a suitable waste container.

20 1260 Infinity Binary Pump User Manual
1Introduction to the Binary Pump
Leak and Waste Handling