Troubleshooting The Alliance HPLC 1692029818

715003674 REV.
C COMPANY CONFIDENTIAL - PROPRIETARY INFORMATION - FOR INTERNAL USE ONLY 1 OF 85
Alliance HPLC System Troubleshooting Guide

This manual is a reference tool for field service engineers troubleshooting problems in Alliance HPLC
Systems.
Table of contents
Troubleshooting errors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . . 2
All errors/warnings index . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . . 2
System level errors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . . 7
Solvent manager errors. . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 16
Sample manager errors. . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 26
Degasser errors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 49
Column device errors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 53
Detector control errors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 58
Dissolution errors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 60
Alliance HPLC 2795 and 2796 errors . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 64
Reference information . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 73
Purpose
This document outlines recommended steps for troubleshooting system‐level symptoms in the Alliance
HPLC System.
Scope
This document is valid for the following Alliance HPLC systems:
• Alliance 2690, 2695, and e2695 Systems
• Alliance 2790, 2795, and 2796 Systems
This document contains error troubleshooting information for each of the following modules:
• Alliance HPLC System • Degasser • Detector control

• Solvent Manager • Column device • Dissolution
• Sample Manager
How to use
1. Find the relevant problem in each section and click the corresponding link to troubleshoot.
2. Perform troubleshooting steps in the numbered order listed in the troubleshooting tables.
Note: Troubleshooting recommendations are formatted in easy‐to‐scan tables that list possible
causes and corrective actions, ranked by number from most likely cause/least invasive action
to least likely cause/most invasive action (typically, component replacement).
TABLE OF CONTENTS
715003674 REV. C COMPANY CONFIDENTIAL - PROPRIETARY INFORMATION - FOR INTERNAL USE ONLY 2 OF 85
Troubleshooting errors
This section outlines troubleshooting for the Alliance HPLC error states for the system and each system
module.
Additional troubleshooting information
For additional troubleshooting information for your specific Alliance HPLC System, see:
• Alliance 2690/2695/e2695 System Service Key Documents
• Alliance 2790/2795/2796 System Service Key Documents
Major repairs and requalification
Major repairs require requalification. If troubleshooting results in a major repair or you are uncertain if a
repair qualifies as major, consult the requisite qualification documentation for your specific system.
All errors/warnings index
Table 1 is an alphabetical list of all Alliance HPLC errors and warnings. Select the first letter of the error to
jump to the relevant section (see below), or select the specific error/warning (within Table 1):
A B C D E F G H I J K L M
N O P Q R S T U V W X Y Z
Table 1: All errors and warnings
Initial letter Error or warning
# • 410 detector fault, page 58
• 410/2410 detector fault, page 64
• 486 detector fault, page 59
A • A failure occurred in attempting to download an instrument method [Empower error], page 7
• Accumulator over pressure, page 16
• Auto Shutdown Invoked, page 7
B • Bath speed tolerance, page 60
• Bath temp tolerance, page 60
• Bubble found on compression, page 16
• Bubble found on intake, page 17
TROUBLESHOOTING ERRORS
C • Can't understand requested well, page 64
• Cannot reach minimum pressure, page 18
• Carousel carrier jammed, page 26
• Carousel ID sensor fault, page 26
• Carousel is busy, page 27
• Carousel malfunction, page 28
• Carousel Z axis malfunction (1), page 30
• Carrier is busy, page 65
• Carrier lockpin movement failed, page 65
• Carrier malfunction, page 65
• Column heater door open, page 53
• Column heater not ambient, page 53
• Column heater running, page 53
• Column temp h/w fault (1), page 54
• Column temp over limit (X°), page 55
• Compression check failed, page 34
• Compression leak test failed, page 34
• Controller Internal Error, page 7
D • Default separation method created, page 66
• Degasser ambient pressure, page 49
• Degasser high leak rate, page 49
• Degasser h/w fault (1), page 50
• Degasser minimum pressure, page 51
• Degasser pressure fault (X), page 51
• Diskette removed while logging, page 7
• Dissolution, page 60
• Dissolution (bad state), page 60
• Dissolution (carousel), page 61
• Dissolution (comm error), page 61
ALL ERRORS/WARNINGS INDEX
D • Dissolution (couldn’t continue), page 61
• Dissolution (couldn’t dispense), page 62
(continued)
• Dissolution (dispenser move), page 62
• Dissolution (TM sensor), page 63
• Dissolution (TM syringe), page 63
• Dissolution (vial scan), page 63
• Door is Closed, page 8
• Door is Open, page 8
E • Eluent Monitor Disabled, page 66
• Eluent Monitor Error, page 66
• Error 109, page 8
• Error 110, page 8
• Error changing column position, page 56
• Error writing log to disk, page 8
• Exceeded maximum plunger stroke, page 19
F • Fan failed, page 9
• Flow too high for stroke volume, page 19
G • General electronics fault, page 9
• General instrument error, page 9
• General instrument fault, page 9
• General solv delivery fault, page 20
• GPV h/w fault, page 20
H • HWERROR1, page 9
I • Initialization fault, page 9
• Inject Valve movement failure, page 66
• Injection parameters incorrect, page 66
• Injector internal error, page 20
• Instrument Failure Error, page 10
• Internal error, page 10
L • Loop too small for sample, page 35
• Lost Prime, page 21
• Low column temp (X°), page 57
• Low sample temp (X), page 35
M • Missed a dissolution sample, page 63
• Missing carousel, page 36
• Missing vial, page 36
• Must degas solvents for SysPrep, page 66
N • Needle is busy, page 38
• Needle malfunction, page 38
• Needle malfunction (bottom sensor), page 39
• Needle malfunction (top sensor), page 41
• No‐Flow Shutdown Invoked, page 67
O • Options not recognized, page 10
• Overpressure: check inline filter, page 67
P • Parameter range error, page 11
• pH/Cond. Monitor Disabled, page 67
• pH/Cond. Monitor Error, page 67
• Plate height error, page 68
• Plate parameters are incorrect, page 67
• Plate X axis parameters incorrect, page 68
• Plate Y axis parameters incorrect, page 68
• Plunger homing fault, page 21
• Plunger homing over pressure, page 22
• Power down, page 11
• Power up, page 11
• Primary over pressure, page 22
• Primary transducer range (X), page 23
• Procedure interrupted, page 12
R • Restriction missing, page 42
• RS‐232 Valve Comm Error, page 68
• RS‐232 Valve Error, page 69
• RS‐232 Valve Missing, page 69
S • Sample heater/cooler running, page 42
• Sample syringe over pressure (X), page 42
• Sample temp h/w fault 1, page 43
• Sample temp not ambient, page 43
• Sample temp over limit (X), page 43
• Sample too large for configuration, page 69
• Sample transducer range (X), page 46
• Seal pack geometry fault (X), page 46
• Seal wash internal error, page 23
• Seals not adjusted, page 47
S • Server busy, page 12
• Solv delivery h/w fault, page 24
(continued)
• Solv delivery internal error, page 24
• Solv delivery motor lost sync (X), page 25
• Sparge internal error, page 52
• StopFlow, page 12
• Stop Flow input was received, page 13
• Stop Flow key was pressed, page 13
• Stop Flow request from remote, page 13
• Syringe movement malfunction, page 47
• SYSERROR1, page 13
• SysPrep requires a degasser, page 69
• System over pressure, page 14
• System transducer range (X), page 25
• System under pressure, page 14
T • Top and bottom needle sensors active, page 70
U • User‐programmed alert, page 15
V • Vial internal error, page 48
• Vial sensor test failed, page 48
W • Well depth error, page 70
• Wrong carousel in position, page 48
X • X axis malfunction, page 71
Y • Y axis malfunction, page 72
System level errors
This section lists the system level errors and warnings in alphabetical order. Locate the relevant error or
warning in the left column and follow the appropriate troubleshooting steps.
Table 2: System level errors or warnings
Error or warning Possible cause Corrective action
A failure occurred in attempting to Firmware problem Update the firmware.

download an instrument method (This may occur when controlling 1. Go to: e2695 Separations
[Empower error] the 2695 with Ethernet.) Module Firmware Revision 3.02
(667004916)
(eAlliance system error; message Note: This problem is corrected in 2. Read the Release Notes.
displayed at the Empower Message eAlliance firmware version
Center) 3. Install the firmware.
3.02.
Note: This error only affects 4. Relaunch the Run Samples
systems under Ethernet application.
control. IEEE‐controlled Note: If necessary, reboot the
Alliance systems are not node to reestablish
affected. communication with the
instrument.
Auto Shutdown Invoked The Auto Shutdown feature has No action required. This is normal/

applied the initial conditions of a expected behavior.
separation method after a set To deactivate, click Clear.
amount of idle time Note: You can adjust the settings
for separation method and
idle time from the Auto
Shutdown window.
Controller Internal Error Firmware encountered an 1. Examine the trace log to

unexpected condition determine instrument activity at
This is a generic message. the time of failure.
2. Contact GSS and be prepared to
describe the conditions leading
to this error.
Diskette removed while logging Floppy disk removed during a data Reinsert the floppy disk.

save Note: Remove the disk only when
The data being saved to the disk is the instrument is in an idle
lost. state.
Dust inside the floppy drive Clean the inside of the drive using
compressed air.
Disk‐drive problem Replace the drive.
SYSTEM LEVEL ERRORS
Table 2: System level errors or warnings (continued)
Door is Closed Door is closed when it should be 1. Open the door.

open 2. Resume or restart the diagnostic.
The sample compartment or col‐
umn heater door is closed, but the Door switch problem 1. Inspect the switch and the cable
currently running diagnostic that connects it to the PCB.
requires that it be open. 2. Replace if necessary.
Door is Open Door is open when it should be 1. Close the door.

closed 2. Resume or restart the diagnostic.
The sample compartment or col‐
umn heater door is open, but the Door switch problem 1. Inspect the switch and the cable
currently running diagnostic that connects it to the PCB.
requires that it be closed. 2. Replace if necessary.
Error 109 An internal system error has 1. Examine the trace log to

occurred determine instrument activity at
the time of failure.
to this error.
Error 110 An internal system error has 1. Examine the trace log to

to this error.
Error writing log to disk Missing disk Ensure that there is a floppy disk in

the drive.
The system tried to write data to
the disk, but failed. Data may be Incorrectly formatted disk Format the disk.
lost. Write‐protected disk Ensure that the floppy disk is not
write‐protected.
Insufficient disk capacity Ensure that the floppy disk has
enough free space to store the data
being written.
Note: It takes a very long time to
fill a floppy disk using the
"Report to floppy disk"
feature. Replace the disk if it
has been in use for a long
time.
Ensure that the disk contains no
more than 256 files.
Corrupted disk Replace the disk.
SYSTEM LEVEL ERRORS
Error writing log to disk Dust in disk drive Clean the inside of the drive using

compressed air.
(continued)
Disk drive problem Replace the disk drive.
Fan failed Cooling fan problem Replace the fan.
General electronics fault A general electronics problem 1. Examine the trace log to

determine instrument activity at
to this error.
General instrument error Firmware encountered an 1. Examine the trace log to

to this error.
General instrument fault Firmware encountered an 1. Examine the trace log to

to this error.
HWERROR1 A hardware problem has occurred 1. Examine the trace log to

to this error.
Initialization fault An internal system error has 1. Examine the trace log to

occurred during initialization determine instrument activity at
to this error.
SYSTEM LEVEL ERRORS
Instrument Failure Error Optional component problem Replace the optional component if

necessary.
[Empower error message]
Occurs in e2695 Auto Addition with
time delay under Ethernet control.
Notes: —This error affects only
systems under Ethernet
control.
—Auto Addition with time
delay under IEEE control and
in stand‐alone mode are
immune to this issue.
Internal error A problem in the valves, needle, or 1. Examine the trace log to

syringe determine instrument activity at
2. Inspect, adjust, or replace
affected valves, needle, or
syringe.
A hardware problem has occurred 1. Examine the trace log to
to this error.
Options not recognized Failure of an optional component 1. Power‐off system and disconnect

connection all optional components except
one.
See service note: Options Not 2. Power‐on and look for the same
Recognized (link opens in IBM failure message.
Notes)
3. Repeat steps 1 and 2 for each
optional component until you
find the component causing the
error.
4. Examine the J2 through J5
positions on the CPU PCB and
reconnect if necessary.
5. Replace cables if necessary.
Optional control cable problem 1. Inspect/Reconnect/Replace.
SYSTEM LEVEL ERRORS
Options not recognized CPU connector problem 1. Inspect the CPU connector and

cable.
(continued) 2. Reconnect.
3. Try another connector (J2‐J5) to
verify that the problem is not the
CPU connector.
4. Replace.
Optional component problem Replace the optional component if
necessary.
Alliance CPU PCB problem Replace the Alliance CPU PCB
board.
See technical reference sheet,
Alliance CPU PCB (715003814)
Parameter range error The data system sent a corrupt Recreate the data system

separation method to the separation method to fix the
This is a generic message indicating instrument corruption.
that the firmware encountered an
unexpected condition. Too many gradient lines • Revise the method to require 16
Note: The maximum number of gradient lines or fewer.
gradient lines supported in • Verify that the temperature and
separation methods is 16. stroke volume values in the
instrument method are within
range.
Firmware encountered an 1. Examine the trace log to
to this error.
Power down System power is off No action required.

This is normal/expected behavior.
This message is added to the error
log whenever the instrument is
powered‐off. It allows users to track
when the instrument is powered‐
on and off.
Power up System power is on No action required.

This is normal/expected behavior.
This message is added to the error
log whenever the instrument is
powered‐on. It allows users to track
when the instrument is powered‐
on and off.
SYSTEM LEVEL ERRORS
Procedure interrupted A diagnostic with a countdown No action required.

timer (such as, sample heater/ This is normal/expected behavior.
cooler) or other time‐critical test
was interrupted by the user, The procedure must be halted or
invalidating the test results aborted before continuing.
Server busy Interactions between Empower No action required.

and the Quickset window cause a • This issue was resolved in
freeze Empower 2 Feature Release 5 and
in all subsequent releases.
• If using any version of Empower 2
prior to FR5, avoid using the
abort button during acquisition.
For more information, see Server
Busy Error: Troubleshooting, page
83
StopFlow Firmware encountered an 1. Examine the trace log to

The solvent management system the time of failure.
has been set to zero flow rate, and 2. If possible, resolve the root
any current function has been inter‐ cause identified in the trace log.
rupted.
3. If you cannot resolve the root
cause of the error, contact GSS
See related:
and be prepared to describe the
• Stop Flow input was received conditions leading to this error.
• Stop Flow key was pressed
• Stop Flow request from remote Electrical short on rear terminal 1. Disconnect the wire between the
connector of the solvent manager Stop Flow input terminals and
or on the CPU test to see if the error still
Note: When using a MS, there is a occurs.
wire from the rear terminal • If the error reoccurs, the ter‐
of the pump to the MS stop minal may be shorted.
flow terminal. During a a. Inspect connectors for
hardware fault, the system short and resolve.
sends a signal via this wire to b. If connector is shorted
stop flow to prevent internally or cannot
flooding the MS. A short in otherwise be resolved,
this wire will also cause replace the PCB.
StopFlow. • If the error no longer occurs
with the wire removed,
replace the wire and retest.
2. If you cannot resolve the root
cause of the error, contact GSS
and be prepared to describe the
conditions leading to this error.
SYSTEM LEVEL ERRORS
Stop Flow input was received Accidental activation If the activation is unintentional,

reconfigure the instrument to no
The Stop Flow rear‐panel input was Note: If connected, mass longer signal a stop flow.
activated by an electrical signal. spectrometers are known to (Use the "Events In" window to
frequently stop flow for valid disable the Stop Flow rear‐panel
See related: StopFlow reasons. input.)
Wiring issue—the wrong wire may 1. Inspect the rear‐panel input
be connected to the Stop Flow rear‐ wiring.
panel input 2. Verify proper operation using the
Inputs and Outputs diagnostic.
Rear‐panel IO connector block 1. Inspect/replace.
problem 2. Verify proper operation using the
Inputs and Outputs diagnostic.
Failure of electrical connections 1. Inspect/Reconnect/Replace..
between the rear‐panel IO 2. Verify proper operation using the
connector block and the CPU PCB Inputs and Outputs diagnostic.
board
board.
Alliance CPU PCB (715003814).
Stop Flow key was pressed A user pressed the front‐panel Stop No action required.

Flow key This is normal/expected behavior.
See related: StopFlow
Stop Flow request from remote By pressing the data system’s No action required.

faucet icon, a user issues a stop‐ This is normal/expected behavior.
The data system (Empower, Mass‐ flow command
Lynx, etc.) sent a stop flow request
to the instrument.
See related: StopFlow
SYSERROR1 An internal system error has 1. Examine the trace log to

to this error.
SYSTEM LEVEL ERRORS
System over pressure Excessive column or system Reduce the amount of system

pressure pressure by reducing the amount of
System pressure exceeds the limit restriction in the system.
set in the current separation
method and remains high for at Flow rate is too high for the column Reduce the flow rate or change the
least five seconds. or solvents in use column or solvents.
The separation method contains a Change the system pressure limit in
limit that is too low for the column, the separation method.
flow rate, and solvent or solvents.
Column problem 1. Remove column to reduce
pressure and replace if
necessary.
2. Verify and adjust flow rate if
necessary.
3. Clean or replace the in‐line filter.
4. Change the system pressure limit
in the separation method if
necessary.
Clogged in‐line filter Clean or replace the filter.
See:
• 269x: Replacing the In‐Line Filter
• 2790/2795: Replacing the In‐Line
Filter
• 2796: 2796 In‐Line Filter
System under pressure Fluidics leak Inspect for fluid leakage and repair.
System pressure falls below the Lack of solvent Ensure that there is sufficient

limit set in the current separation solvent.
method and remains low for at The minimum system pressure in Change the system pressure limit in
least 30 seconds. the separation method is too high the separation method.
for the column, flow rate, or
solvents
Failed check valve Replace the primary inlet check
valve.
See:
• Check Valve Cartridge Summary
• 296x: Replacing the Check Valves
• 2790/2795:
Replacing the Check Valves
• 2796: Replacing the 2796 Check
Valves
SYSTEM LEVEL ERRORS
User‐programmed alert The user specifies conditions under No action required.

which the system issues an alert This is normal/expected behavior.
Users can program alerts into the
timed event tables for their separa‐
tion methods. At the given time,
this message is displayed on the
front‐panel.
SYSTEM LEVEL ERRORS
Solvent manager errors
This section lists the system errors and warnings specific to the solvent manager in alphabetical order.
Locate the relevant error or warning in the left column and follow the appropriate troubleshooting steps.
Table 3: Solvent manager errors and warnings
Accumulator over pressure Excessive column or system Inspect the following components

restriction for sources of restriction and
The pressure in the pump's accumu‐ eliminate them.
lator head exceeded its safety limit. • in‐line filter
• vent valve
• column
• other components if necessary
Zero the accumulator pressure
transducer by restarting the
instrument.
The flow rate is too high for current Reduce the flow rate or change
column or solvent or solvents solvents.
Inspect the cable that runs from
the accumulator pressure
transducer to the CPU board and
replace.
Pressure transducer problem Replace the transducer.
See Transducer Replacement
For additional information, see:
Carousel and dogpin parts diagram Adjust the accumulator pressure
(2695 only), page 78 transducer voltage to 0.5V ± 0.2V.
board.
Bubble found on compression A gas bubble momentarily Ensure that the solvent lines are

interrupted solvent flow properly connected and are not
The solvent management system allowing air into the system.
detected a bubble during its com‐ • The solvent delivery system is
pression cycle. Ensure that the solvents are
operating at near its maximum
properly degassed.
• Criteria for bubble detection: pressure vs. flow envelope
• The failure of the pre‐com‐ • High gas loading of solvents Condition the fluidics by running
pression stroke to achieve (inadequate solvent conditioning the Wet Prime function with
system pressure within 20% within degas or sparge system) organic solvent, such as 100%
of the working stroke. methanol.
• The C/D ratio is 1.8 or greater.
(compression/decompres‐
sion)
SOLVENT MANAGER ERRORS
Table 3: Solvent manager errors and warnings (continued)
Bubble found on compression Degasser vacuum chamber 1. Verify that the degasser pressure

problem is .9 psi or less (functioning
(continued) properly).
2. Inspect the degasser vent lines
for liquid. If liquid is present,
there is a problem with the
chamber.
3. Replace the chamber.
See Degasser Assembly Component
Replacement
Degasser vacuum pump problem Replace the degasser component.
Replacement
Plunger seal problem 1. Replace plunger seals.
2. Pressurize the seals to 4,000–
4,500 psi for 10 minutes.
Clogged filter 1. Clean the inlet reservoir filter.
2. Replace the filter if necessary.
See Replacing the In‐line Filter
Cable connection or problem 1. Verify that the cable connecting
the primary pressure transducer
to the CPU board is connected
and operational.
2. Replace the cable if necessary.
Pump primary pressure transducer Replace the transducer.
problem See Transducer Replacement
Carousel and dogpin parts diagram
(2695 only), page 78
board.
Bubble found on intake A bubble in the solvent Ensure that the solvent lines are

(degasser or sparge system) properly connected and are not
The solvent delivery system has allowing air into the system.
failed to detect the completion of
the solvent decompression phase Poor solvent conditioning, resulting Ensure that the solvents are
during an intake stroke. in high gas loading properly degassed.
Bubble found on intake Failed degasser vacuum chamber 1. Inspect the degasser vent lines

for liquid. If liquid is present,
(continued) there is a problem with the
chamber.
2. Replace the chamber.
Degasser problem 1. Verify that the degasser pressure
is .9 psi or less (functioning
properly).
2. Replace the degasser
component.
Replacement
Poor fluidics conditioning Condition the fluidics by running
the Wet Prime function with
organic solvent, such as 100%
methanol.
Plunger seal problem 1. Replace plunger seals.
2. Pressurize the seals to 4,000–
4,500 psi for 10 minutes.
Clogged filter Clean or replace the inlet reservoir
filter.
Cable problem Inspect/Reconnect/Replace. the
cables that run from the pump
pressure transducers to the CPU
board.
Primary pressure transducer Replace the transducer.
See Carousel and dogpin parts
diagram (2695 only), page 78
board.
Cannot reach minimum pressure Solvent line connection issue Ensure that the solvent lines are

properly connected and are not
The solvent‐management system allowing air into the system.
generates less than the minimum
pressure required for the static leak
test.
Cannot reach minimum pressure Solvent gas 1. Ensure that the solvents are

properly degassed.
(continued) 2. Verify that the degasser pressure
is .9 psi or less (functioning
properly).
Poorly conditioned fluidics Condition the fluidics by running
the Wet Prime function with
organic solvent, such as 100%
methanol.
Leaky components 1. Inspect for leaks in the pin plug,
cap, check valves, plunger seals,
and fluid lines.
2. Repair or replace any
components with problems.
Exceeded maximum plunger stroke Solvent line connection issue Ensure that the solvent lines are

The solvent‐management system allowing air into the system.
displaces too much volume while
generating the required pressure. Leaky components 1. Inspect for leaks in the pin plug,
cap, check valves, plunger seals,
and fluid lines.
2. Repair or replace any
components with problems.
Flow too high for stroke volume User attempts to change either Confirm the compatibility of flow

flow rate or stroke volume to a rate and stroke volume.
The requested flow rate and stroke value incompatible with the other (See table 4)
volume are incompatible.
For example: setting a flow rate of
5 mL/min under a 50‐µL stroke
volume
Table 4: Flow rates and compatible stroke volumes
Flow rate (mL/min) Stroke volume (µL)
<10 130
<3.03 100
<1.23 50
<0.53 25
General solv delivery fault Firmware encountered an 1. Examine the trace log to

The solvent management system the time of failure.
has detected an operational error. 2. Contact GSS and be prepared to
to this error.
Blown 7a fuse on pump driver Replace the 7a fuse.
board See Pump Driver Board Fuses
Problem with the lower Replace the fan or heater/cooler.
compartment cooling fan or sample
heater/cooler fans
Power supply problem 1. Inspect the power supply.
2. Replace if necessary.
Plunger driver board problem Replace the board.
Note: Plunger driver board = pump See Pump Driver Board
driver board. Replacement
See Pump Driver PCB ‐ Reference
Information
Alliance CPU PCB problem 1. Verify and reconnect the CPU to
plunger PCB cable.
1. Replace the CPU to plunger PCB
cable.
2. Replace plunger driver PCB.
3. Replace the Alliance CPU PCB
board.
GPV h/w fault A short in one or more GPV Replace the GPV.

solenoid windings causes the See GPV Replacement
The Gradient Proportioning Valve failure or malfunction of the GPV or
(GPV) driver electronics detected a pump driver board Replace the pump driver board.
solenoid over‐current condition. See: See Pump Driver Board
Replacement
• GPV Assembly
• Pump Driver PCB ‐ Reference
Information
Injector internal error A problem in the valves, needle, or 1. Examine the trace log to

syringe has been detected determine instrument activity at
to this error.
Lost Prime Lack of solvent 1. Ensure that there is sufficient

solvent.
The solvent management system 2. If problem persists, inspect and
has lost prime (run out of solvent reconnect solvent tubing.
during operation).
Solvents improperly prepared 1. Ensure that the solvents are
The criteria for loss of prime is sol‐ properly degassed.
vent volume of less than 25 psi for 2. Ensure that the solvent lines
50 cycles, or the detection of suc‐ have been wet primed.
cessive bubbles. The system shuts
down to prevent excessive wear of Lack of flow rate or pressure Increase the flow rate or pressure.
the seals and pistons.
Failure of primary inlet check valve Replace the valve.
See:
• Check Valve Cartridge Summary
• 296x: Replacing the Check Valves
• 2790/2795:
Replacing the Check Valves
• 2796: Replacing the 2796 Check
Valves
A gas bubble momentarily Ensure that the solvent lines are
interrupted solvent flow properly connected and are not
Note: The criterion for detection of allowing air into the system.
a bubble is the failure of the
Ensure that the solvents are
pre‐compression stroke to
properly degassed.
achieve system pressure
within 20% of the working Condition the fluidics by running
stroke. the Wet Prime function with
• The solvent delivery system is organic solvent, such as 100%
operating at near its maximum methanol.
pressure vs. flow envelope
• High gas loading of solvents
(inadequate solvent conditioning
within degas or sparge system)
Plunger homing fault Loose wires Reconnect or tighten the wires to

the pump motor driver position
The solvent‐delivery system fails to encoder.
detect home position during
plunger registration. Problem with position encoder in Replace the encoder.
the pump motor driver
Pump motor problem Replace the motor.
Information
Plunger homing over pressure The pin plug restriction has not 1. Verify that the pin plug

been removed restriction has been removed.
The solvent delivery system detects 2. Remove the pin plug restriction if
excessive pressure while the pump necessary.
plungers move toward their home
registration positions. Clogged in‐line filter Clean or replace the filter.
See:
• 269x: Replacing the In‐Line Filter
Filter
Waste‐line blockage Clear all blockages.
Excessive restriction between the Reduce the restriction.
pump and sample loop
Vent valve problem 1. Ensure that the sample loop can
vent the pump to atmosphere by
opening valves V1, V2, and V3.
2. Inspect valves.
3. Replace valves if necessary.
Primary over pressure Excessive column or system Between the two check valves,

restriction between the two check inspect the following components
The pressure in the pump's primary valves for sources of restriction and
head exceeds the hardware limit. eliminate them.
• in‐line filter
• vent valve
• column
• other components if necessary
Zero the accumulator pressure
transducer by restarting the
instrument.
Accumulator check valve problem Replace the check valve.
See Replacing the Check Valves
Flow rate too high for column or Reduce the flow rate or change the
solvent solvent.
Cable problem Inspect/Replace the cable that runs
from the primary pressure
transducer to the CPU board.
Incorrect transducer voltage Adjust the primary pressure
transducer voltage to 0.5V ±0.2V.
See Carousel and dogpin parts
diagram (2695 only), page 78
Primary over pressure Pressure transducer problem Replace the transducer.

(continued) For additional information, see:
board.
Primary transducer range (X) A blockage increased system 1. Clear the blockage.

pressure 2. Restart the instrument.
(where X is the faulting voltage)
Cable problem or disconnection 1. Verify that the cable that runs
Voltage offset is too high after zero‐ from the primary pressure
ing the primary pressure trans‐ transducer to the CPU board is
ducer. operational and connected to
For additional information, see: the correct port.
Carousel and dogpin parts diagram 2. Reconnect or replace the cable if
(2695 only), page 78 necessary.
Transducer voltage out of range Adjust the system pressure
transducer voltage to 0.5V ±0.2V
See service note: Transducers,
Errors, and Adjusting (link opens in
IBM Notes)
Transducer problem 1. Verify functionality of the
primary pressure transducer.
Seal wash internal error A problem in the plunger seal wash 1. Examine the trace log to

system has been detected determine instrument activity at
This is a generic message indicating the time of failure.
that the firmware encountered an 2. Contact GSS and be prepared to
unexpected condition. describe the conditions leading
to this error.
Plunger Seal Wash Pump problem 1. Inspect the single seal wash
pump.
See Plunger Seal Wash Option
Installation
Seal wash internal error Plunger driver board problem Replace the board.

(continued) driver board. Replacement
Information
Solv delivery h/w fault Blown fuse 7a on pump driver Replace the fuse.

board See Pump Driver Board Fuses
Failure of the pump driver board
electronics Malfunction of a lower Replace the fan or heater/cooler.
compartment cooling fan (without See:
the sample heater/cooler installed) • Sample Heater/Cooler Testing,
or a sample heater/cooler fan page 74
• Installing the Sample Compart‐
ment Heater/Cooler Assembly
(715002495)
Cable connection problem Reseat the cable connecting the
between the plunger drive PCB and plunger driver PCB and the CPU
the CPU PCB PCB.
Information
board.
See Alliance CPU PCB (715003814)
Solv delivery internal error Firmware encountered an 1. Examine the trace log to

A fault in the solvent delivery the time of failure.
system has been detected. 2. Contact GSS and be prepared to
to this error.
Incorrect cable connection Verify that the cables from the
motors and encoders are
connected correctly.
Piston drive problem 1. Inspect the piston drives.
Note: Piston drive = torpedoes. 2. Replace if necessary.
See:
• New‐Style Piston Drive
• Piston Drive Assembly Replace‐
ment
Solv delivery internal error Plunger driver board problem Replace the board.

(continued) driver board. Replacement
Information
Solv delivery motor lost sync (X) Attempted pump operation outside 1. Inspect the pressure and flow

the recommended pressure vs. rate.
(where X displays as 0 or 1 flow‐rate envelope 2. If the value is outside the
• 0 = primary recommended value, specify a
• 1 = accumulator) value within the envelope.
See PSI vs. Flow Envelope, page 73
The pump motor is out of sync with
its position encoder. Plunger drive problem Replace the plunger drive if
necessary.
See Plunger Cleaning/Replacement
Problem with cables or incorrect 1. Inspect the cables for damage.
cable connection 2. Inspect the cables for proper
connectivity.
3. Reconnect or replace cables if
necessary.
Information
System transducer range (X) System blockage, yielding high 1. Clear the blockage.

pressure 2. Restart the instrument.
Cable problem or disconnect 1. Verify that the cable that runs
The solvent‐management system’s from the primary pressure
pressure transducer was zeroed, transducer to the CPU board is
but the resulting voltage offset is operational and connected to
too high. the correct port.
For additional information, see: 2. Reconnect/Replace.
(2695 only), page 78 Transducer voltage out of range Adjust the system pressure
transducer voltage to 0.5V ±0.2V
See service note: Transducers,
Errors and Adjusting (link opens in
IBM Notes)
System pressure transducer Replace the transducer.
Sample manager errors
This section lists the system errors and warnings specific to the sample manager in alphabetical order.
Locate the relevant error or warning in the left column and follow the appropriate troubleshooting steps.
Table 5: Sample manager errors and warnings
Carousel carrier jammed Dusty carrier drive position sensor 1. Dampen a lint‐free cloth with

and encoder wheels prevent carrier only water and carefully wipe
An attempted carousel carrier from moving to requested carousel the dust off the encoder wheels
move results in inaccurate confir‐ position and sensor.
mation from the position sensor. (Compressed air is an acceptable
alternative to the dampened
cloth.)
2. Allow the encoder wheels and
sensor to dry to avoid the
attraction of dust.
Problem with cable between 1. Inspect the cable between
carrier drive position sensor and carrier drive position sensor and
fluidics driver board fluidics driver board (J4).
Misaligned carrier drive position 1. Inspect position sensor
sensor alignment.
2. Adjust if necessary.
Sample compartment debris Remove debris or obstacles from
sample compartment floor.
Carrier drive problem 1. Replace the carrier motor.
2. Replace the carousel carrier
drive assembly.
See Replacing the Carousel/Carrier
Drive (715004110)
Carousel carrier drive assembly Replace the carousel carrier drive
problem assembly.
Drive (715004110)
Fluidics driver board problem Replace the fluidics board.
See Fluidics Driver PCB
Carousel ID sensor fault Unclean sample compartment floor Clean sample compartment floor.
The carousel ID sensor could not
detect the carousel ID magnet, or
detected multiple carousel ID mag‐
nets.
SAMPLE MANAGER ERRORS
Carousel ID sensor fault Carousel height 1. Disconnect carousel ID cable

from fluidics driver PCB.
(continued) 2. Lower carousel by two turns.
3. Reconnect carousel ID cable to
fluidics driver PCB.
Carousel magnet missing, Replace the carousel.
incorrectly positioned, or of
incorrect polarity
Carousel ID sensor problem 1. Inspect the sensor and the cable
See Carousel/Carrier Normal that connects it to the PCB.
Operation 2. Replace if necessary.
Carousel is busy This error usually occurs because a Wait until vial‐selection operations

user is interacting with the front‐ are complete before interacting
The carrier/carousel positioning panel and is inadvertently trying to with the front‐panel.
mechanism is currently in use for use one of the vial‐selection Note: Most vial selection
another process. components operations take place at the
start of injections.
A vial‐selection operation was in
progress when another process The carrier failed to move to the 1. Ensure that the carrier drive
tried to use one of the necessary requested carousel position position sensor and encoder
components (carrier drive, carousel wheel are free of dust.
drive, needle drive, etc.). 2. Clean them if necessary.
1. Inspect the cable that runs from
the carrier drive position sensor
to the Fluidics Driver board.
Ensure that the carrier drive
position sensor is properly aligned.
Remove any debris or obstacles
from the floor of the sample
compartment that may be affecting
the carrier.
Carrier drive problem Replace the carousel carrier drive
assembly.
Drive (715004110)
Carousel carrier drive assembly Replace the carousel carrier drive
problem assembly.
Drive (715004110)
Carousel malfunction Symptoms
• Attempted carousel move yields inaccurate confirmation from the
position sensor.
• Carousel drive encoder wheel unmapped during start‐up.
• Carousel moves, but the position sensor is inactive at the end of the
move.
Note: Carousel malfunction vs. carousel z axis malfunction
• Carousel malfunction: The carousel fails to find home, fails to map,
or fails to locate the encoder‐wheel slot positions.
• Carousel Z‐axis malfunction (X): The Z‐ram fails to engage the
carousel for one of five reasons.
Dusty encoder wheels or sensors 1. Dampen a lint‐free cloth with
only water and carefully wipe
the dust off the carousel and
carriage encoder wheels and
sensor. (Compressed air is an
acceptable alternative to the
dampened cloth).
2. Allow the encoder wheels and
sensor to dry to avoid the
attraction of dust.
Dirty sample‐compartment floor 1. Clean floor.
2. Verify that the carousels move
easily.
Carousel’s bottom side is rough, 1. Clean carousel bottom.
causing drag 2. Carefully polish the bottom with
800‐grit sand paper.
3. Replace carousel.
Needle pierce is outside of the Adjust the carrier position.
center of septa See Adjusting the Z‐Axis Ram
Height and the Carousel Carrier
Position (715002039)
Misaligned vial sensor impedes the Push back the vial sensor tube
carousels (located on the right‐hand side).
Note: The tip of the sensor must
The result is sporadic carousel extend no more than 0.1
malfunctions or z axis 5 errors inch from the surface of the
during, or shortly after, installation foam compartment.
Carousel malfunction The carousel under the needle has 1. Recalibrate the carrier position.

been moved since the last injection 2. Clean the sample compartment
(continued) Note: This occurs only when a user floor.
reaches into the sample 3. Try another carousel if necessary.
compartment and moves
the carousel under the 4. Ensure that the carousel under
needle, or moves the carrier the needle is unmoved between
enough to move the injections.
carousel indirectly.
Carousel is not engaged by dogpin; 1. Inspect the dogpin slot on the
as a result, carrier improperly carousel for damage.
positions carousel under drive shaft 2. If damaged, replace the carousel.
Carousel drive problem Replace the carousel drive.
Drive (715004110)
Incorrect Z ram height 1. Verify the height of the Z‐ram
using the Z‐ram height gauge
The position of the carousel drive (700001022).
shaft may be too far up or down 2. Adjust position of sensors on the
when it engages a carousel drive shaft as necessary.
See Adjusting the Z‐Axis Ram
The carrier plate may be out of Adjust the position sensors on the
alignment and putting too much carrier drive.
lateral force on the carousel,
preventing it from rotating
Firmware encountered an 1. Examine all carousel‐positioning
unexpected condition components and take action as
necessary.
2. If still unresolved, examine the
trace log to determine
instrument activity at the time of
failure.
to this error.
Carousel Z axis malfunction (1) Sensors disconnected from fluidics Inspect cables and reconnect if

driver board (home or dogpin) necessary.
The z axis move was attempted but
failed because both the dogpin and Dusty sensors (home or dogpin) Clean the sensor.
home sensors are on. Sensor problem (home or dogpin) Replace the sensor if necessary.
Note: This error applies only to
Alliance 2690 and 2695. Fluidics driver board problem Replace the fluidics board.
Z axis motor problem 1. Ensure that the z axis motor is
connected to the fluidics driver
board.
2. Ensure that the motor is moving
the z axis.
3. Replace the z axis motor if
necessary.
Dogpin misaligned Carousel carrier drive has a blunt‐
cut dogpin that has difficulty
See Carousel and dogpin parts dropping into a carousel slot.
diagram (2695 only), page 78 1. Ensure that the dogpin is seated
properly within notches.
Height of carousel carrier drive in Adjust height (gauge block
compartment 700001022).
Black, plastic, optical fence hits Note: The bracket may be out of
sensor or does not position into tolerance. The small change
sensor properly in tolerance is amplified
onto the optical fence
sensor.
The sensor is located at the bottom
of the metal bracket.
1. Monitor the drive while it is in
motion to determine if the
optical fence’s downward
movement causes the fence to
rub against the inside wall of the
sensor.
2. Adjust the bracket adjustment
screw until alignment is
achieved, if necessary.
Carousel Z axis malfunction (1) Carousel carrier drive shaft doesn't 1. Verify by pushing up on dogpin

move freely area.
(continued) 2. Replace carousel carrier drive if
necessary.
Loose encoder wheel due to 1. Ensure that the encoder staking
improper staking is within tolerance.
2. If encoder wheel is too loose,
replace carousel carrier drive.
Carousel misaligned 1. Inspect carousel.
2. Align carousel if necessary.
Debris Verify that the floor is clean and the
carrier plate moves correctly.
Misaligned vial sensor impedes Push back the vial sensor tube
Note: The tip of the sensor must
extend no more than 0.1
inch from the surface of the
foam compartment.
Carousel Z axis malfunction (2) Home sensor disconnected from Inspect cable and reconnect if

fluidics driver board necessary.
The z axis failed to home to top
switch. Dusty home sensor Clean the sensor.
Note: This error applies only to Home sensor problem Replace the carousel carrier drive if
Alliance 2690 and 2695. necessary.
board.
the z axis.
necessary.
Carousel Z axis malfunction (3) Home sensor disconnected from Inspect cable and reconnect if

fluidics driver board necessary.
The z axis was moved up, but failed
because the home sensor did not Dusty home sensor Clean the sensor.
activate. Home sensor problem Replace the sensor.
Alliance 2690 and 2695.
Carousel Z axis malfunction (3) Fluidics driver board problem Replace the fluidics board.

(continued)
board.
the z axis.
necessary.

The z axis was moved down, but
failed because the home sensor Dusty sensors (home or dogpin) Clean the sensor.
was active. Sensor problem (home or dogpin) Replace the sensor if necessary.
Alliance 2690 and 2695. Fluidics driver board problem Replace the fluidics board.
board.
the z axis.
necessary.

The dogpin is off and the z axis is
down. Dusty sensors (home or dogpin) Clean the sensor.
Note: This error applies only to Dogpin sensor problem Replace carousel carrier drive if
Alliance 2690 and 2695. necessary.
board.
the z axis.
necessary.
Carousel Z axis malfunction (5) Dogpin misaligned Carousel carrier drive has a blunt‐

cut dogpin that has difficulty
(continued) See Carousel and dogpin parts dropping into a carousel slot.
diagram (2695 only), page 78 1. Ensure that the dogpin is seated
properly within notches.
Height of carousel carrier drive in Adjust height using gauge block,
compartment 700001022.
Black, plastic, optical fence hits Note: The bracket may be out of
sensor or does not position into tolerance. The small change
sensor properly in tolerance is amplified
onto the optical fence
sensor.
The sensor is located at the bottom
of the metal bracket.
1. Monitor the drive while it is in
motion to determine if the
optical fence’s downward
movement causes the fence to
rub against the inside wall of the
sensor.
2. If necessary, adjust the bracket
adjustment screw until
alignment is achieved.
Carousel carrier drive shaft doesn't 1. Verify by pushing up on dogpin
move freely area.
2. Replace carousel carrier drive if
necessary.
Loose encoder wheel due to 1. Ensure that the encoder staking
improper staking is within tolerance.
2. If encoder wheel is too loose,
replace carousel carrier drive.
Carousel misaligned 1. Inspect carousel.
2. Align carousel if necessary.
Debris Verify that the floor is clean and the
carrier plate moves correctly.
Carousel Z axis malfunction (5) Misaligned vial sensor impedes Push back the vial sensor tube

(continued) Note: The tip of the sensor must
extend no more than 0.1
inch from the surface of the
foam compartment.
Compression check failed Solvent‐line connection Ensure that the solvent lines are

The Purge function was run with allowing air into the system.
the "Compression check” feature
enabled, but Compression pressure Poor solvent conditioning 1. Confirm the proper degassing of
failed to achieve minimum within solvents.
the configured compressible 2. Verify the absence of bubbles in
volume. the syringe.
Seal problems 1. Inspect for seal leaks and resolve.
2. Rerun Adjust seal pack.
3. Replace/rebuild seals as
necessary.
See:
• Installing an Alliance injector seal
pack
• Seal Pack Replacement/Rebuild
Kits
Syringe leak 1. Inspect the syringe for presence
of bubbles.
2. Replace the syringe if necessary.
Valve leak 1. Run automated valve leak test.
2. Inspect and if necessary, replace
valves V1, V2, or V3.
Compression leak test failed Solvent‐line connection 1. Ensure that the solvent lines are:

• properly connected
The system fails to maintain the
• not allowing air into the
pressure level required during the
system
compression check of the surge
• primed
function.
2. Ensure that the degasser is
working.
Poor solvent conditioning 1. Confirm the proper degassing of
solvents.
2. Confirm the absence of bubbles
in the syringe.
Compression leak test failed Seal problems 1. Inspect for seal leaks and resolve.

2. Rerun Adjust seal pack.
(continued)
3. Replace/Rebuild seals as
necessary.
See:
pack
Kits
Syringe leak 1. Inspect syringe for presence of
bubbles.
Valve leak 1. Inspect all valves.
2. Run automated valve test.
3. Replace valve if necessary.
Loop too small for sample Attempted injection with a sample 1. Go to Configuration.

volume larger than the installed 2. Ensure that the sample loop
sample loop volume volume matches the volume of
the installed sample loop, and
that it is large enough for the
requested sample volume.
Low sample temp (X) Insufficient equilibration time Confirm that there is enough

equilibration time between sample
(Where X is the faulting tempera‐ temperature changes to allow the
ture) temperature to reach the set
point.
The sample temperature falls
below the minimum specified (X) in Frequent door openings Ensure that the sample
the current separation method. compartment door is not opened
frequently.
For testing information, see Sample Sample heater/cooler set point too Ensure that the temperature set
Heater/Cooler Testing, page 74 close to ambient temperature point value is set to a minimum of
5 °C above ambient.
Damaged cable 1. Inspect the cable that runs from
the sample heater/cooler
thermistor (J9 on PCB) to the
column heater PCB.
2. Replace.
Low sample temp (X) Thermistor problem Inspect/Reconnect/Replace.

Note: Replacing the sample h/c
(continued) thermistor requires
soldering or replacing the
engine.
Sample heater/cooler PCB problem Replace the PCB.
Sample heater/cooler or sample Replace the heater/cooler or
heater/cooler hardware problem hardware.
See Installing the Sample
Compartment Heater/Cooler
Assembly (715002495)
Missing carousel Missing carousel Ensure that there is a carousel in

the requested position.
A new carousel was requested, but
could not be located; the dog‐pin Carousel missing the magnet Ensure that the carousel has not
sensor was not activated to confirm lost its magnet.
that a carousel was detected. Dogpin sensor problem The dogpin sensor may be
See: malfunctioning. Replace the dogpin
• Carousel Initialization sensor if necessary.
• Carousel/Carrier Normal Opera‐
tion Fluidics driver board problem Replace the fluidics board.
Missing vial No vial in location 1. Add missing vial.

2. Press Resume.
A reported vial was undetected
during sequencing; in some cases, a Top or bottom sensor misaligned Adjust the sensors as needed.
vial in the carousel is skipped.
Carefully push the sensor into the
tube and through the curved
pathway. The sensor stops when
correctly positioned.
Figure 1 ‐ Vial sensor inside curved
pathway
Missing vial Top or bottom sensor is out of The top vial’s sensor optics are

alignment tilted out of position, causing the
(continued) sensor to recognize as present a
nonexistent consecutive vial.
For example: when there are 10
vials in a tray and you remove vials
8 and 9, vial 8 is recognized as
missing, but vial 9 is recognized as
present.
Perform this Random Vial Position
test.
See Performing the Random Vial
Position Test, page 75
Vial transparency Ensure that the vial caps are
Note: If a vial is actually present, present and are opaque enough for
the error indication could be the vial sensor to detect them.
due to the transparency of
1. Inspect the vial sensor for dust.
the vial cap.
2. Clean if necessary.
Ensure that the vial sensor emitter
and receiver are aligned properly.
Ensure that there is nothing
blocking the vial sensor.
Cable problem 1. Inspect the fiber optics cable
that connects the vial sensor to
the fluidics driver board.
2. Replace the cable if necessary.
Missing vial A user added vials to the carousel Correctly add vials while the

while the instrument was instrument is processing samples:
(continued) processing samples • Wait at least 30 seconds after an
injection is made (for example,
wait until the run time displayed
on the front panel, or within the
controlling software, is greater
than 30 seconds).
• Minimize the time that the sam‐
ple compartment door is open.
• Ensure that the door is closed
during the time injection com‐
mands (selecting vial, washing
the needle, drawing sample, and
so forth) are in the process of
being carried out.
Needle is busy A user interacting with the front Wait until all needle‐movement

panel inadvertently activates a operations are complete before
While a needle‐movement opera‐ needle‐movement component interacting with the front panel.
tion is in process, another process Note: Most needle movement
requests a needle‐movement com‐ operations take place at the
ponent (carrier drive, carousel start of injections.
drive, needle drive, etc.).
Carrier/carousel positioning See:
mechanism problem • Alliance 269x: Carousel Rotation
Adjustment Procedure
• Alliance 279x: Adjusting the XY
Mechanism in 2790/2795/2796
Separations Modules
Needle mechanism problem Replace the needle mechanism.
Needle malfunction Bent, dirty, or sticky needle 1. Verify that the needle is primed

and working.
This error message indicates resis‐ 2. Replace the needle if necessary.
tance to needle movement.
Seal pack problem Replace the seal pack.
See also: Needle malfunction See Seal Pack Information See:
bottom sensor (below) and the • Installing an Alliance injector seal
cause, Roll Pin is loose or falls out. pack
Kits
Needle malfunction Vial/needle misalignment 1. Ensure that the vial is aligned

with the needle.
(continued) 2. If the needle is misaligned, adjust
the position of the carrier and
carousel drives. (269x only)
See Carousel Rotation Adjustment
Procedure
Incorrectly installed needle Reinstall the needle.
Needlewash issue 1. Verify that the needlewash is
using appropriate solvents.
2. Verify that the needlewash is
primed.
to this error.
Needle malfunction (bottom (279x only) 1. Determine the source of the

sensor) Problem with sensor, cable, or problem using the procedure,
fluidics driver PCB Troubleshooting the XYZ and
An attempted needle move yielded needle bottom sensor errors
no confirmation from the bottom (279x only), page 85.
sensor. When performing the
procedure, test the combination:
Needle bottom sensor with
corresponding LED DS21 on the
fluidics driver board.
2. Use the information obtained
from that procedure to
determine subsequent
troubleshooting steps.
Needle bottom sensor is dirty Clean sensor with compressed air.
Problem with needle bottom 1. Power‐off and manually move
sensor the flag in between the sensors
to reinitialize.
2. Replace the sensor.
3. Replace the injector.
Needle malfunction (bottom Seal pack problem Replace the seal pack.

sensor) See Seal Pack Information See:
(continued) pack
Kits
Vial/needle misalignment 1. Ensure that the vial is aligned
with the needle.
2. If the needle is misaligned, adjust
carousel drives. (269x only)
Procedure
Needle motor problem 1. Confirm that the needle motor is
connected to the PCB and the
needle moves as intended.
2. If not, replace the motor.
Roll Pin is loose or falls out when: Replace the injector.
• the needle is in the vial position
• the needle is in a position within
the sensors
Roll pin
Motor
screw
shaft
Needle malfunction (top sensor) (279x only) 1. Determine the source of the

Problem with sensor, cable, or problem using the procedure,
fluidics driver PCB Troubleshooting the XYZ and
needle bottom sensor errors
(279x only), page 85.
When performing the
procedure, test the combination:
Needle top sensor with
2. Use the information obtained
from that procedure to
determine subsequent
troubleshooting steps.
Dirty needle top sensor Clean sensor with compressed air.
Problem with needle top sensor 1. Power‐off and manually move
the flag in between the sensors
to reinitialize.
2. Replace the sensor.
3. Replace the injector.
Seal pack problem Replace the seal pack.
See Seal Pack Information See:
pack
Kits
Vial/needle misalignment 1. Ensure that the vial is aligned
with the needle.
2. If the needle is misaligned, adjust
carousel drives.
Procedure
Needle motor problem 1. Confirm that the needle motor is
connected to the PCB.
2. Confirm that the needle motor is
moving the needle as intended.
3. Replace the needle motor if it is
not operating as required.
Restriction missing Missing restrictor Install a restrictor.
During seal pack calibration, the Air in the system 1. Ensure that there is sufficient

system detects no restriction. The solvent and pump is working.
current operation, however, 2. Ensure that the solvent lines are
requires a restrictor to generate properly connected and are not
extra pressure. allowing air into the system.
3. Ensure that the solvents are
properly degassed.
Fluidics leak 1. Inspect for fluid leakage and
repair.
2. Adjust the needle seal pack.
Sample heater/cooler running Insufficient power to the column 1. Power‐off the sample heater.

heater/cooler 2. Start the column heater/cooler
The sample heater is running, con‐ Note: The column heater (or CHC) or CHC diagnostic.
suming power required by the col‐ diagnostic requires that the
umn heater/cooler. column heater (or CHC) be
Note: This error occurs during running at full power. The
column heater/cooler sample heater/cooler shares
operations. a power supply with the
See related: Column heater column heater (or CHC).
running, page 53 Neither can run at full power
when both are in use.
Note: Power sharing may
adversely affect test results.
Sample syringe over pressure (X) Waste‐line blockage Clear the waste line of any

blockages.
(where X is the faulting pressure)
Syringe or waste valve problem 1. Inspect the syringe and valves.
Pressure over 350 psi was detected 2. Replace if necessary.
in the sample loop with the syringe See Performing the Valve Leak Test
valve open.
Syringe problem 1. Inspect the syringe.
Incorrect seal position Adjust the seal position.
See Adjusting the Seals
Valve V3 problem Replace the valve.
Sample temp not ambient Chamber is too warm or too cool 1. Cool or warm the compartment

by opening the sample heater/
The sample chamber is outside the cooler door until the chamber
18 °C to 28 °C temperature range, equilibrates to room
which is required to begin the temperature.
heater/cooler diagnostic. 2. Close the door before repeating
the diagnostic.
See Sample Heater/Cooler Testing,
page 74
Adjust the sample chamber set
point to 23 °C.
Thermistor connection problem 1. Verify connection to PCB.
with PCB 2. Replace if necessary.
Thermistor problem Inspect/Reconnect/Replace.
Sample temp over limit (X) Insufficient equilibration time Allow enough time between

sample temperature changes for
The sample temperature exceeds the temperature to adjust to set
the limit specified in the current point.
separation method (where X is the
faulting temperature). Ambient operating temperature Ensure that the ambient
limits exceeded temperature is within the
supported range.
Sample heater/cooler PCB problem 1. Test the PCB.
See Sample Heater/Cooler Testing,
page 74
Sample temp h/w fault 1 Cable connection problem Confirm proper cable connection

between the sample heater/cooler
Communications failure between and the CPU.
the instrument and the sample
heater/cooler. PCB problem Replace the sample heater/cooler
PCB.
board.
Sample temp h/w fault 2 Cable connection problem Confirm proper cable connection

between the sample heater/cooler
The sample heater/cooler electron‐ and the CPU.
ics signal a hardware watchdog
time‐out. PCB problem Replace the sample heater/cooler
PCB.
board.
See Alliance CPU PCB (715003814)
Sample temp h/w fault 3 External fan problem If an Alliance instrument or Sample

Heater/Cooler sub‐assembly
Sample heater/cooler electronics For additional information, see (WAT270804 or WAT270802) fail by
signal an over‐temperature condi‐ service note: exhibiting a “Sample Temp H/W
tion. Alliance: Sample Temp H/W Fault Fault #3 or #5 error”, both external
#3, and/or #5 error caused by fans should be replaced.
faulty external fans (link opens in Note: Replacement fans from
IBM Notes) Sanyo‐Denki (S‐D) are not
subject to this failure mode.
Sample heater/cooler thermistor 3. Inspect/Reconnect/Replace.
problem
Fan problem 1. Inspect the circulating fan and
the external fan.
PCB problem Replace the sample heater/cooler
PCB.
Sample temp h/w fault 4 Internal fan problem 1. Inspect the fan.

Sample heater/cooler electronics
have signaled that the internal fan PCB problem Replace the sample heater/cooler
has failed. PCB.
Sample heater/cooler engine Replace the heater/cooler.
problem See Installing the Sample
Information
Sample temp h/w fault 5 External fan problem If an Alliance instrument or Sample

Heater/Cooler sub‐assembly
Sample heater/cooler electronics For additional information, see (WAT270804 or WAT270802) fail by
signal external fan failure. service note: exhibiting a “Sample Temp h/w
Alliance: Sample Temp H/W Fault fault #3 or #5 error”, replace both
#3, and/or #5 error caused by external fans.
faulty external fans (link opens in Note: Replacement fans from
IBM Notes) Sanyo‐Denki (S‐D) are not
subject to this failure mode.
Sample heater/cooler PCB problem Replace the PCB.
problem See Installing the Sample
Information
Sample temp h/w fault 6 Sample heater/cooler thermistor Inspect/Reconnect/Replace.

problem
signal a thermistor‐high condition. Sample heater/cooler PCB problem Replace the PCB.
The value returned by the thermis‐ problem See Installing the Sample
tor is not recognized as valid. Compartment Heater/Cooler
Sample temp h/w fault 7 Sample heater/cooler thermistor Inspect/Reconnect/Replace.

problem
signal a thermistor‐low condition. Sample heater/cooler PCB problem Replace the PCB.
The value returned by the thermis‐ problem See Installing the Sample
tor is not recognized as valid. Compartment Heater/Cooler
Sample transducer range (X) System blockage 1. Clear the blockage.

2. Restart the instrument.
Cable connection issue 1. Inspect and reconnect the cable
Indicates an excessive offset in the that runs from the sample
sample loop pressure transducer. pressure transducer to the CPU
board.
(When the sample pressure trans‐ 2. Replace if necessary.
ducer is zeroed, the resulting volt‐
age offset is too high.) Sample pressure transducer out of Adjust the sample pressure
specification transducer voltage to 0.5 ± 0.2 V.
Transducer problem Replace the transducer.
Seal pack geometry fault (X) Seal pack problem 1. Adjust the sensor bracket to

See Seal Pack Information 5/16 inch.
(where X is a value from 1 to 4 2. Raise or lower the bracket as
necessary.
Seal pack geometry is based on the
3. Move flag between sensors and
needle moving up/down the bot‐
reboot 2695.
tom seal and sensing pressure to
find Top, Bottom, and Width of Note: This resolves the problem in
seal. most cases.
‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐
Air in the system 1. Ensure that the solvent lines are
Seal pack geometry fault (1) properly connected and are not
allowing air into the system.
The seal pack top edge, as calcu‐
lated by the Adjust Seals diagnostic, 2. Remove any air in the system.
is too high. Fluidics leak Inspect for fluid leakage and repair.
‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐
Seal pack geometry fault (2)
The seal pack bottom edge, as cal‐
culated by the Adjust Seals diagnos‐
tic, is too low.
‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐
The seal pack, as calculated by the
Adjust Seals diagnostic, is too wide.
‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐
The seal pack, as calculated by the
Adjust Seals diagnostic, is too nar‐
row.
Seal pack geometry fault (X) Leaky seal pack 1. Inspect seal packs.

2. Repair or replace.
(continued)
See:
• Rebuilding the Seal Pack
Kits
• Installing an Alliance Injector Seal
Pack
Damaged needle or incorrectly 1. Replace or rebuild the seal pack.
installed needle See:
• Rebuilding the Seal Pack
(This is a known issue with the flag/
stop on the injector and with the • Seal Pack Replacement/Rebuild
injector tester used in Kits
manufacturing, the needle may • Seal Pack Rebuild Kit w/Needle
have been stressed enough during • Installing an Alliance Injector Seal
manufacturing testing to cause it to Pack
bow or bend.) 2. Replace the needle.
(The internal seals are the same
as the original seal pack.)
Injector valve problem 1. Run the automated valve test.
2. Run compression test.
3. Repair or replace valves if
necessary.
See Rebuilding the Injector Valves
Seals not adjusted The Adjust Seals diagnostic must Run the Adjust Seals diagnostic,

be run before making injections Main > Diag > Adjust Seals.
The sample‐management system See Adjusting the Seals
requires optimization values for the
needle positioner. Problem with battery not retaining Replace battery.
memory
Problem with sample transducer 1. Inspect sample transducer.
2. Correct any issues discovered or
replace the transducer.
Syringe movement malfunction Syringe home sensor problem 1. Inspect and reconnect.

2. Ensure that it is free of dust.
During an attempted syringe move,
3. Replace.
the home sensor fails to activate
and provides no confirmation. Syringe drive problem Replace the syringe drive.
See Syringe Drive Assembly
See:
Alliance 269x: Fluidics Driver PCB
Vial internal error Problem with connections to the 1. Inspect the fiber optics

vial sensor connections.
The vial/carousel positioning 2. Reconnect.
system detects a fault.
3. Replace.
See:
to this error.
Vial sensor test failed Dusty vial sensor Use compressed air to clean the

fiber optics cables (vial sensor).
During instrument start‐up, the vial
sensor is tested by rotating the car‐ Misalignment of sensor emitter 1. Inspect the alignment of the vial
rier plate 180° and monitoring the and receiver sensor emitter and receiver.
state of the sensor. This message See Vial Present Sensor
displays when the sensor state dis‐ Maintenance
plays no change while the carrier 2. Adjust as necessary.
plate is rotating.
See:
• Vial Present Sensor
• Vial Present Sensor Adjustment
Blocked sensor Remove obstruction.
See Vial Present Sensor
Maintenance
Wrong carousel in position A carousel was placed in the wrong Ensure that all carousels are in the

location on the carrier plate correct locations on the carrier
The system detects a misplaced car‐ plate.
ousel.
Carousel ID magnet is missing, Replace the carousel.
Note: The five carousels (A, B, C, D,
incorrectly positioned, or of the See Replacing the Carousel/Carrier
E) are keyed so the system
wrong polarity Drive (715004110)
can ensure that they are
placed in the correct Carousel ID sensor problem 1. Inspect the sensor and the cable
positions in the carrier. that connects it to the PCB.
To eliminate restrictions in
carousel placement, go to
the Configuration window
and click Main > Config, and
clear Verify carousel
placement.
Degasser errors
This section lists the system errors and warnings specific to the degasser in alphabetical order. Locate the
relevant error or warning in the left column and follow the appropriate troubleshooting steps.
Note: See also PerformancePLUS Degasser Troubleshooting
Table 6: Degasser errors and warnings
Degasser ambient pressure Vacuum leak 1. Tighten fittings.

2. Replace loose or damaged
The degasser pressure fails to reach manifold tubing.
0.9 psi during the first 10 minutes
3. Ensure that all solvent lines are
of power‐up.
in solvent and primed.
4. Look for liquid in the degasser
vent line. (This indicates a
chamber problem.)
Replacement
Pressure sensor problem 1. Inspect the pressure sensor on
the degasser PCB.
Degasser PCB problem Replace the degasser PCB.
See Degasser PCB (700002511) See Degasser Assembly Component
(715003571) Replacement
Vent line blockage Primary symptom is a loud, high‐
pitched sound emitting from the
degasser vacuum pump.
1. Inspect the vent tube for any
kinks or blockages.
Degasser high leak rate Vacuum line or chamber leak Restart the degasser from the

Status page.
Degasser pressure is changing too
rapidly. 1. Inspect the degasser vacuum
lines and chambers.
Replacement
DEGASSER ERRORS
Degasser h/w fault (1) Disconnected control cable Ensure that the control cable

(between the degasser and Alliance between the degasser and Alliance
Communications failure between system) system is connected properly at
instrument and degasser. each end.
(Optional control cable connects to
CPU at J2 through J5.)
Problem with control cable Replace the control cable
(between the degasser and Alliance (WAT270908).
CPU)
Degasser PCB problem 1. Verify that the dip switches on
See Degasser PCB (715003571) the PCB are set correctly.
2. Replace the PCB if necessary.
Replacement
Degasser h/w fault (2) Disconnected control cable Ensure that the control cable

(between the degasser and Alliance between the degasser and Alliance
Electronics have signaled a hard‐ system) system is connected properly at
ware watchdog time‐out. each end.
Problem with control cable Replace the control cable
(between the degasser and Alliance (WAT270908).
system)
Degasser vacuum pump problem 1. Inspect the degasser vacuum
pump.
2. Replace.
Replacement
Degasser PCB problem 1. Verify that the dip switches on
See Degasser PCB (715003571) the PCB are set correctly.
Replacement
Degasser h/w fault (3) A vacuum leak or leaking chamber Troubleshoot the vacuum pump.

allows liquid into the vacuum pump See Troubleshooting the Vacuum
The electronics system signals an Pump, page 84
over‐current condition. This error
appears when the system fails to
pressurize to 0.9 psi within 10 min‐
utes of power‐up.
DEGASSER ERRORS
Degasser h/w fault (3) Vent line blockage Primary symptom is a loud, high‐

(continued) degasser vacuum pump.
kinks or blockages.
Degasser vacuum pump problem 1. Inspect the vent tube for any
kinks or blockages.
2. Inspect the vacuum pump.
Replacement
Degasser PCB problem Replace the PCB.
See Degasser PCB (715003571) See Degasser Assembly Component
Replacement
Degasser minimum pressure Vacuum leaks 1. Inspect the degasser vacuum

lines and chambers for leaks.
The degasser vacuum pump is 2. Replace lines and chambers
unable to generate the required (700001218) if necessary.
vacuum.
Vent line blockage Primary symptom is a loud, high‐
kinks or blockages.
Vacuum pump problem Replace the vacuum pump.
Replacement
Degasser pressure fault (X) Vacuum leaks 1. Inspect the degasser vacuum

lines and chambers for leaks.
(where X is the faulting pressure or 2. Replace lines and chambers
leak rate) (700001218) if necessary.
The degasser is unable to maintain
Replacement
the pressure required for reliable
performance. Vent line blockage Primary symptom is a loud, high‐
kinks or blockages.
DEGASSER ERRORS
Degasser pressure fault (X) Degasser vacuum pump problem 1. Inspect the vacuum pump.

2. Replace the vacuum pump
(continued) (700001352) if necessary.
Replacement
Vacuum chamber problem 1. Inspect the vacuum chamber.
2. Replace the vacuum chamber
(700001218) if necessary.
Replacement
Sparge internal error Firmware encountered an 1. Examine the trace log to

to this error.
Sparge assembly problem Replace the sparge assembly.
See Sparge Assembly
Plunger driver board problem Replace the Plunger PCB.
Information
DEGASSER ERRORS
Column device errors
This section lists the system errors and warnings specific to the column device in alphabetical order.
Table 7: Column device errors and warnings
Column heater door open The door is open for more than 60 Close the door.

seconds
Proper heating requires that the
column heater door remain closed. Door switch problem 1. Inspect and reseat the
connectors on the PCB.
• J1 = door sensor
• J10 = thermistor
2. Replace door switch or cable if
necessary.
Column heater not ambient Room temperature is outside of the 1. Power‐off the column heater.

specified operating range 2. Open the column heater door
The current diagnostic requires the until the unit equilibrates to
column heater to be within the room temperature.
range of 18 °C to 28 °C (approxi‐
3. Power‐on the column heater.
mately 23 °C).
Inadequate clearance around the Adjust the system setup to provide
instrument, hampering air flow adequate airflow.
Required clearances:
• Sides: 3 inches
• Rear: 6 inches
Cable problem 1. Inspect the cable that connects
the column heater thermistor to
the PCB.
Column heater PCB problem Replace the PCB.
Column heater running Insufficient power to the sample 1. Power‐off the column heater.

heater/cooler 2. Start the sample heater/cooler
The column heater (or CHC) is run‐ Note: The sample heater/cooler diagnostic.
ning, consuming power required by diagnostic requires that the 3. Verify that the power supply is
the sample heater/cooler. sample heater/cooler be operating normally (24V).
Note: This error occurs during running at full power. The
sample heater/cooler sample heater/cooler shares Note: Power sharing may
operations. a power supply with the adversely affect test results.
See related: Sample heater/cooler column heater (or CHC).
running, page 42 Neither can run at full power
when both are in use.
COLUMN DEVICE ERRORS
Table 7: Column device errors and warnings (continued)
Column temp h/w fault (1) Problem with interface cable 1. Ensure that the interface cable

connecting the column heater to connecting the column heater
Communications failure between the Alliance system and the Alliance system is
the Alliance system and the column connected and functioning
heater. properly.
Blown fuse on column heater PCB. Replace the fuse or the PCB.
Blown fuse on column heater Replace the fuse or the PCB.
connection board (attached
internally to column heater
connector)
Column temp h/w fault (2) Column heater PCB problem Replace the PCB.
Hardware watchdog time‐out for
the column heater.
Column temp h/w fault (3) Thermistor problem Inspect/Reconnect/Replace.
Over‐temperature. Thermal snap switch problem 1. Inspect the snap switch.

Column heater engine problem Replace the column heater engine.
Column temp h/w fault (4) Column heater fan problem Replace the fan (700005104).
Fan failure. Blown fuse on column heater PCB Replace the fuse.
Blown fuse on column heater Replace the fuse or the PCB.
connector)
Column temp h/w fault (5) Blown fuse on column heater PCB Replace the fuse.
Over‐current. Blown fuse on column heater Replace the fuse or the PCB.

connector)
Column heater engine problem Replace the column heater engine.
Column temp h/w fault (6) Thermistor problem Inspect/Reconnect/Replace.
Thermistor low–the value returned Column heater PCB problem Replace the PCB.

by the thermistor is unreasonably
low.
Column temp h/w fault (7) CHC unplugged or powered‐off Ensure that the unit is plugged in

and powered‐on.
Internal power failure.
CHC power supply problem 1. Inspect fuse on PCB.
Replace fuse or PCB if necessary.
2. Replace the CHC power supply.
Column temp h/w fault (8) Column heater temperature Inspect/Reconnect/Replace.

thermistor problem
Thermistor high–the value returned
by the thermistor is unreasonably Column heater PCB problem Replace the PCB.
high.
Column temp over limit (X°) Insufficient equilibration time Allow enough equilibration time

between column temperature
(where X is the faulting tempera‐ changes for the temperature to
ture) reach the new set point.
Ambient operating temperature Determine the room temperature
limit exceeded and adjust if necessary.
See related: Column heater not
ambient, page 53
Cable problem or disconnection 1. Inspect the cable that runs from
the column heater PCB.
Thermistor problem 3. Inspect/Reconnect/Replace.
PCB problem 1. Inspect the PCB.
Column heater hardware problem 1. Inspect the column heater
hardware.
2. Replace engine.
Error changing column position No column‐switching valve is 1. Confirm that the column

installed, or the instrument cannot switching valve is installed.
The column switcher indicates an detect it 2. Install valve if necessary.
error in moving to the requested
position. Damaged cable 1. Inspect the cable that connects
the column switching valve to
2. If the valve is installed, verify
correct setting in back of column
heater.
See Column device heater dial/
potentiometer settings, page 75
Incorrect setting Ensure that the dial/potentiometer
setting on the column heater is
correct for the installed switching
valve.
See Column device heater dial/
potentiometer settings, page 75
Column heater configuration Power cycle the column heater to
misread force the system to reread the
column heater configuration.
Separation method issue Modify the separation method to
eliminate the column position
change.
Valve initialized incorrectly 1. Power‐down Alliance.
2. Wait one minute and power‐on.
3. After Alliance initialization, use
the front panel to reposition the
switching valve.
If the valve position remains
unchanged, reboot again using
the one‐minute wait time.
4. If you are unsuccessful after
three attempts, additional
troubleshooting is required.
Contact GSS.
Valve PCB problem Replace the PCB.
Column heater PCB problem 1. Inspect the PCB.
Low column temp (X°) Insufficient equilibration time Allow enough equilibration time

between column temperature
where X is the faulting temperature changes for the temperature to
reach the new set point.
The column temperature is below
the minimum specified in the cur‐ Frequent door openings Ensure that the column heater door
rent separation method. is closed long enough to prevent a
drop in temperature.
Problem with door gasket Repair or replace.
Column heater set point too close Ensure that the temperature set
to ambient point is a minimum of 5 °C above
ambient.
Ambient operating temperature 1. Determine the room
limit exceeded temperature.
2. Adjust if necessary.
See related: Column heater not
ambient, page 53
Damaged cable 1. Inspect the cable that runs from
Column heater temperature Inspect/Reconnect/Replace.
thermistor problem
Low column temp (X°) Column heater hardware or column Replace the hardware or column

heater problem heater.
Detector control errors
This section lists the system errors and warnings specific to the control of the detector in alphabetical
order. Locate the relevant error or warning in the left column and follow the appropriate troubleshooting
steps.
For troubleshooting information pertinent to each detector, see:
• ACQUITY QDa Detector: troubleshooting information
• 2414 RI Detector: troubleshooting information
• 2424 ELS Detector: troubleshooting information
• 2998 PDA Detector: troubleshooting information
• 2489 UV/Vis Detector: troubleshooting information
• 2475 FLR Detector: troubleshooting information
Table 8: Detector control errors and warnings
410 detector fault Communications error 1. Ensure that the detector is

powered‐on.
Occurs while the instrument is con‐ 2. Rescan the IEEE bus from the
trolling a 410 detector over IEEE. detector window.
Incorrect detector address 1. Ensure that the IEEE address of
the detector is correct.
2. Rescan the IEEE bus from the
detector window.
Problem with IEEE cable between 1. Inspect the IEEE cable between
Alliance system and detector the Alliance system and the
detector.
Note: Power‐off before removing
or attaching the IEEE cable.
2. Reconnect.
detector window.
410 detector CPU board problem 1. Replace the 410 detector CPU
board.
detector’s window.
Alliance CPU PCB problem 1. Replace the Alliance CPU PCB
board.
DETECTOR CONTROL ERRORS
Table 8: Detector control errors and warnings
486 detector fault Communications error 1. Ensure that the detector is

powered‐on.
(Also known as: "Absorbance detec‐ 2. Rescan the IEEE bus from the
tor fault) detector window.
The detector, under IEEE bus
control, is taken off‐line. Incorrect detector address 1. Ensure that the IEEE address of
detector window.
detector.
2. Reconnect the cable.
detector window.
486 detector CPU problem Replace the 486 detector CPU
board.
Alliance CPU PCB problem 1. Replace the Alliance CPU PCB
board.
DETECTOR CONTROL ERRORS
Dissolution errors
This section lists the system errors and warnings specific to Dissolution in alphabetical order. Locate the
relevant error or warning in the left column and follow the appropriate troubleshooting steps.
Table 9: Dissolution errors and warnings
Bath speed tolerance The connected bath reported a Bath mechanical system requires

paddle speed out of tolerance error service. Considerations:
• RPM test
• Loose or worn belt
• Bent paddle
• Excessive vibration
Note: Only Hanson Research is
authorized to perform major
service on the bath
mechanism.
Bath temp tolerance The connected bath reported a 1. Verify proper bath circulation.

temperature out of tolerance error 2. Verify that the heater plate is
positioned over the heater.
3. Inspect water level.
4. Verify that the heater is heating.
Allow for a greater tolerance in the
bath temperature by changing the
limits.
Dissolution An error occurred during the 1. Verify the cable connection

synchronized operation of the between 2695 comm port B and
This is a generic message. separations module and transfer WTM comm port 1.
module 2. Replace cable.
3. Verify that the WTM rear panel
LED is green.
4. Replace WTM CPU PCB.
Dissolution (bad state) Firmware encountered an 1. Verify the cable connection

unexpected condition between 2695 comm port B and
This is a generic message. WTM comm port 1.
2. Replace cable.
3. Inspect power supply.
4. Verify that the WTM rear panel
LED is green.
1. Replace WTM CPU PCB.
DISSOLUTION ERRORS
Dissolution (carousel) Carousel carrier drive problem 1. Verify that the compartment

floor is clean and free of debris,
Indicates that the required vials and that there are no physical
could not be located under the dis‐ obstructions of the carousel.
solution dispenser when needed. 2. Verify that carousel is in correct
location.
Vial sensor problem 1. Clean sensor.
2. Verify sensor alignment.
3. Replace vial sensor.
4. Confirm carousel carrier
movement.
5. Verify that there are no
obstructions.
Wrong carousel Verify proper carousel and sensor
identification of that carousel.
Z axis problem Verify z axis operation/depth.
Dissolution (comm error) Power supply problem 1. Verify that the power supply is

(not supplying 24 volts) providing 24 volts.
Indicates that communications was 2. Replace power supply if
temporarily lost with the Waters necessary.
Transfer Module or bath.
Problem with cable from 2695 port 1. Verify cable connectivity and
B to WTM Comm1 functionality.
Problem with cable from WTM 1. Verify cable connectivity and
Comm2 to Bath Comm1 functionality.
WTM/Bath CPU problem 1. Verify that the rear panel LED is
green.
• If green, CPU is good.
• If red, replace CPU.
Dissolution (couldn’t continue) Dissolution method problem Create a new method.
Indicates that the Waters Transfer WTM initialization problem/lost 1. Reboot WTM.

Module failed to perform the post‐ communication Note: Backflush is default setting.
sample backflush or media replace‐ Media Replace is a SW
ment. selection.
DISSOLUTION ERRORS
Dissolution (couldn’t dispense) Incorrect needle height Adjust needle height.
Indicates the Waters Transfer Mod‐ Tubing disconnected or kinked 1. Inspect the tubing connections

ule failed to dispense the sample and verify that there are no
when requested to do so. kinks.
2. Replace tubes if necessary.
Dispenser assembly problem 1. Verify dispenser operation.
Fluidic driver PCB problem Firmware should be >3.0.
(See service note) (link opens in
IBM Notes)
Firmware problem Verify that the fluidic driver PCB is
the correct revision.
See service note (rev 0 or 6) (link
opens in IBM Notes)
Dissolution (dispenser move) Power supply problem 1. Verify that the power supply is

(not supplying 24 volts) providing 24 volts.
Indicates that the dissolution dis‐ 2. Replace power supply if
penser needles failed to move up or necessary.
down.
Needle problem 1. Verify that the needles are
functioning properly.
Dispenser assemble jam 1. Verify dispenser operation.
Fluidics driver board problem Firmware should be >3.0.
(See service note) (link opens in
To help determine the source of IBM Notes)
the problem, use the procedure:
Troubleshooting the XYZ and Verify that the fluidic driver PCB is
needle bottom sensor errors (279x the correct revision.
only), page 85. See service note (rev 0 or 6) (link
When performing the procedure, opens in IBM Notes)
test the combination: Replace the fluidics board.
• Dissolution top sensor with corre‐ See:
sponding LED DS19 on the fluidics Alliance 269x: Fluidics Driver PCB
driver board. Alliance 279x: Fluidics Driver PCB
• Dissolution bottom sensor with
Use the information obtained from
that procedure to determine the
cause and corrective action.
DISSOLUTION ERRORS
Dissolution (TM sensor) Transfer Module movement 1. Verify the up/down movement

restricted from diagnostics.
Indicates that the Waters Transfer 2. Verify that the sensor flag is
Module has not reached sensor functioning properly.
position.
3. Lubricate guide rails.
4. Replace rear panel PCB.
Dissolution (TM syringe) Loose syringe Tighten syringe.
Indicates that the Waters Transfer Worn plunger Replace syringe.

Module syringe transport is Syringe misaligned 1. Lubricate WTM guide rails.
jammed.
2. Perform a prime or rinse
function.
WTM guide post alignment 1. Remove all syringes.
problem 2. Verify up/down movement.
3. Lubricate guide post.
4. If problem remains unresolved,
contact GSS.
Dissolution (vial scan) Missing vial Ensure that the vials are inserted.
Indicates that an automatic pre‐ Inconsistent vial height 1. Verify that all vials are the same

transfer scan has determined that height.
one or more required vials is miss‐ 2. Verify that all vial caps are black
ing. or blue.
Scan sensor optics problem 1. Verify that fiber optic cable is in
correct position.
2. Verify that fiber optic cable is
working properly.
Fluidics driver board problem Replace the fluidics board. See:
Missed a dissolution sample An unexpected timing conflict 1. Verify dissolution method

prevents the transfer module from parameters.
collecting a scheduled sample 2. Test functions:
• Purge
• Prime syringes
3. Test the dispense function from
diagnostics.
DISSOLUTION ERRORS
Alliance HPLC 2795 and 2796 errors
This section lists the system errors and warnings specific to Alliance HPLC 2795 and 2796 in alphabetical
order. Locate the relevant error or warning in the left column and follow the appropriate troubleshooting
steps.
Table 10: Alliance HPLC 2795 and 2796 errors and warnings
410/2410 detector fault Communications error 1. Ensure that the detector is

powered‐on.
The instrument is controlling a 410/ 2. Rescan the IEEE bus from the
2410 detector over IEEE, but a com‐ detector window.
munications error has occurred and
the detector has been taken offline. Incorrect detector address 1. Ensure that the IEEE address of
detector window.
detector.
2. Reconnect or replace the cable if
necessary.
detector window.
410/2410 detector CPU board Replace the detector CPU board
problem and then rescan the IEEE bus from
the detector’s window.
board.
Can't understand requested well Incorrect configuration Do one of the following:

• Select a different well for the
The well specified for the current injection.
injection does not exist. • Ensure that the plate type in use
contains the required well loca‐
tion.
• Ensure that the plate type in use
matches the plate configuration.
ALLIANCE HPLC 2795 AND 2796 ERRORS
Table 10: Alliance HPLC 2795 and 2796 errors and warnings (continued)
Carrier is busy A user is interacting with the front‐ Wait until vial‐selection operations

panel and is inadvertently trying to are complete before interacting
A vial selection operation was in use one of the vial selection with the front‐panel.
progress when another process components Note: Most vial‐selection
tried to use one of the necessary operations take place at the
components (carrier drive, carousel start of injections.
drive, needle drive, etc.).
Carrier lockpin movement failed Problem with cable connecting the 1. Verify that the cable is connected

lockpin sensor to the CPU board properly.
The carrier lockpin moved up, but 2. Replace cable if necessary.
the home sensor did not activate.
Misalignment or problem with flag 1. Realign flag.
mounted on lockpin lead screw 2. Replace if necessary.
Lead screw not moving Use diagnostics to test movement.
Problem with sensor Replace the sensor.
See:
• Lockpin Motor and Sensor
• Lockpin Drive Sensor
Problem with lockpin motor Replace the motor.
See:
• Lockpin Motor and Sensor
• Lockpin Drive Motor
Carrier malfunction Dusty carrier drive position sensor Clean sensor.
The carrier failed to move to the Dusty encoder wheel Clean wheel.

requested carousel position. Misaligned carrier drive position Align sensor.
sensor
Debris/obstacles on compartment Remove any obstacles and clean
floor affecting carrier the compartment floor.
Carrier drive assembly problem Replace the carrier motor or drive
See also: assembly.
• Carrier Assembly
• Carrier Drive
Default separation method created The system finds no default No action required.

separation method The system creates a default
method.
Note: This message is added to the
error log whenever the
default separation method is
recreated. This occurs on the
first start‐up after the flash
memory is cleared.
Eluent Monitor Disabled Firmware encountered an 1. Examine the trace log to

unexpected condition when trying determine instrument activity at
This is a generic message. to control the eluent monitor the time of failure.
Note: This error applies only to 2. Contact GSS and be prepared to
Alliance 2796 systems. describe the conditions leading
to this error.
Eluent Monitor Error Firmware encountered an 1. Examine the trace log to

unexpected condition when trying determine instrument activity at
This is a generic message. to control the eluent monitor the time of failure.
Note: iThis error applies only to 2. Contact GSS and be prepared to
Alliance 2796 systems. describe the conditions leading
to this error.
Injection parameters incorrect Error in either plate location or Select a well compatible with the

well‐identification format plate configuration or change the
The system is unable to find the plate configuration.
specified well.
Inject Valve movement failure Inject valve problem Replace the inject valve.

See:
The inject valve was moved, but the • 2796 Inject Valve
reading from the position sensor • 2790/2795 Inject Valve Rebuild
did not match the requested posi‐ Kit
tion.
Must degas solvents for SysPrep Degasser powered‐off Power‐on degasser.
A degasser must be installed and Degasser lost connectivity to 1. Inspect connectivity.

powered‐on to run the System Prep system 2. Replace cables if necessary.
function.
No degasser installed 1. Install degasser.
2. Rerun System Prep.
Degasser PCB problem 1. Replace degasser PCB.
No‐Flow Shutdown Invoked The No‐Flow Shutdown routine No action required.

runs because the pump flow rate This is normal/expected behavior.
The No‐Flow Shutdown feature has remains at 0‐ml/min for the time
turned off the pump or degasser. specified on the Auto Shutdown
page
Overpressure: check inline filter Pin plug restrictor was not removed Ensure that the pin plug restrictor is

removed.
A large amount of pressure was
detected while moving the pump Clogged in‐line filter Clean or replace the filter.
plungers to their home positions. See:
Filter
Blocked waste line Clear any blockage of the waste
line.
pH/Cond. Monitor Disabled A serious error disabled the pH/ 1. Examine the trace log to

conductivity monitor determine instrument activity at
to this error.
pH/Cond. Monitor Error The pH/conductivity monitor 1. Examine the trace log to

experienced an unexpected error determine instrument activity at
to this error.
Plate parameters are incorrect Incorrect parameters Do one of the following:

• Change the plate dimensions to
The user‐configured plate dimen‐ fit within the field of movement
sions extend beyond the range of of the X/Y mechanism.
the X/Y mechanism movement • Select a different plate type.
field.
Plate height error Mismatch of measured plate height Review the plate‐height parameter

and selected plate type in the specified plate configuration
The plate height detected does not Note: Occurs when the separation and do one of the following:
match the current plate configura‐ method enables the Check • Ensure that the correct plate type
tion. plate height option. is in use.
• Change the plate configuration to
match the physical plate in use.
Needle bottom sensor problem 1. If dusty, clean sensor.
2. Verify that the cable is connected
properly between sensor and
PCB.
3. If malfunctioning, replace.
Needle deck height mis‐calibrated Run the Replace Needle diagnostic
to recalculate the deck height.
Plate X axis parameters incorrect Specified plate dimensions exceed • Change the plate dimensions to

the range of X movement fit within X/Y mechanism's field
The user‐configured plate dimen‐ of movement.
sions extend beyond the range of • Select a different plate type.
the X/Y mechanism movement
field.
Plate Y axis parameters incorrect Specified plate dimensions exceed • Change the plate dimensions to

the range of Y movement fit within X/Y mechanism's field
The user‐configured plate dimen‐ of movement.
sions extend beyond the range of • Select a different plate type.
the X/Y mechanism movement
field.
RS‐232 Valve Comm Error Incorrect RS‐232 valve address Correct the address.
An error occurred while trying to Problem with cable 1. Inspect the cable and reconnect.

communicate with an external (441000459) 2. Replace if necessary.
RS‐232 valve.
RS‐232 valve electronics problem Replace the valve.
board.
RS‐232 Valve Error Firmware encountered an 1. Examine the trace log to

An unknown error occurred while the time of failure.
trying to control the RS‐232 valve. 2. Contact GSS and be prepared to
to this error.
Problem with cable 1. Inspect the cable and reconnect.
(441000459) 2. Replace if necessary.
board.
RS‐232 Valve Missing Incorrect RS‐232 valve address Correct the address.
The RS‐232 valve could not be Problem with cable 1. Inspect the cable and reconnect.

detected. (441000459) 2. Replace if necessary.
board.
Sample too large for configuration Incorrect configuration Change the injection volume or

syringe and sample loop size to be
The total injection volume exceeds compatible.
the limit allowed for the currently Note: For full loop injections, the
configured syringe size and sample recommended holding loop
loop size. size is also a consideration.
SysPrep requires a degasser No degasser installed 1. Install degasser.

2. Rerun SysPrep.
The SysPrep function requires an
operating vacuum degasser. Degasser lost connectivity to 1. Inspect connectivity.
system 2. Replace cables if necessary.
Degasser PCB problem Replace degasser PCB.
Top and bottom needle sensors Dirty sensors Clean the sensors.

active
Cable disconnection or problem 1. Inspect connectivity of cables
Both the top and bottom needle and reconnect if required.
sensors are active, which should 2. If cable is damaged or
not be physically possible. malfunctioning, replace.
Incorrect needle installation Reinstall the needle.
See:
• 2790/2795 Needle
• 2796 Needle
• Rebuild/Replace 2795 Needle
Assembly
To help determine the source of the problem, use the procedure,
Troubleshooting the XYZ and needle bottom sensor errors (279x only),
page 85.
When performing the procedure, test the combination:
• Needle bottom sensor with corresponding LED DS13 on the fluidics
driver board.
• Needle top sensor with corresponding LED DS16 on the fluidics driver
board.
Use the information obtained from that procedure to determine the cause
and corrective action below.
Sensor problem Replace the respective sensor.
Well depth error Bad or deformed plate 1. Try another plate.
The measured well depth does not Mismatch of well depth and plate 1. Review the well‐depth

match the plate type selected. type parameter in the specified plate
configuration.
Note: This error occurs when the
separation method enables 2. Ensure that the specified well
the Seek well bottom depth matches the plate
option. configuration.
Note: Consider adding a
well‐depth offset to the
separation method.
Needle bottom sensor problem 1. If dusty, clean sensor.
2. Verify that the cable is connected
properly between sensor and
PCB.
3. If malfunctioning, replace.
X axis malfunction To help determine the source of the problem, use the procedure,
An x axis movement failed to reach page 85.
the requested position. When performing the procedure, test the combination:
• X axis home sensor with corresponding LED DS14 on the fluidics driver
board.
See:
• Alliance 279x: Fluidics Driver PCB
• Adjusting the XY Mechanism in 2790/2795/2796 Separations Modules
Dusty x axis rails Clean the x axis rails.
Dusty x axis home sensor Clean the x axis home sensor.
X axis home sensor problem 1. Adjust x axis sensor.
2. Replace the x axis home sensor if
necessary.
See X‐Axis Home Sensor
and reconnect if required.
2. If cable is damaged or
malfunctioning, replace.
The x axis belt may be slipping or Tighten or replace the belt.
broken See X Traverse Belt
Misaligned x axis rails 1. Verify that the belt and pulley
are not to tight or loose. Adjust if
necessary.
2. Align the x axis rails.
Problem with x axis motor Replace the x axis motor.
See X‐Axis Motor
Y axis malfunction To help determine the source of the problem, use the procedure,
A y axis movement failed to reach page 85.
the requested position. When performing the procedure, test the combination:
• Y axis home sensor with corresponding LED DS15 on the fluidics driver
board.
Use the information obtained from that procedure to determine the cause
and corrective action below.
See:
• Alliance 279x: Fluidics Driver PCB
• Adjusting the XY Mechanism in 2790/2795/2796 Separations Modules
Dusty y axis rails Clean the y axis rails.
Dusty y axis home sensor Clean the y axis home sensor.
Y axis home sensor problem Replace the y axis home sensor.
See:
• Y‐Axis Home Sensor
• YZ and Needle Bottom Breakaway
PCB Assembly
and reconnect if required.
2. If cable is damaged or
malfunctioning, replace.
The y axis belt may be slipping or Tighten or replace the y axis belt.
broken See Y Traverse Belt
Misaligned y axis rails Verify that the pulley and belt are
not too tight or loose and adjust if
necessary.
Problem with y axis motor Replace the y axis motor.
See Y‐Axis Drive Motor
Reference information
This section describes common tests and procedures that are referenced within this guide.
PSI vs. Flow Envelope . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 73
Sample Heater/Cooler Testing . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 74
Troubleshooting Transducer Problems . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 74
Column device heater dial/potentiometer settings . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 75
Performing the Random Vial Position Test . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 75
Needle Piercing Alignment Procedure . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 76
Carousel and dogpin parts diagram (2695 only) . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 78
Z axis ram height gauge (700001022) settings . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 79
2690 Fluidics Diagram . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 80
2690 Tubing Connections . . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 81
2690 Interconnect Diagram . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 82
Server Busy Error: Troubleshooting . . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 83
Troubleshooting the Vacuum Pump. . . . . . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . . . . 84
Troubleshooting the XYZ and needle bottom sensor errors (279x only). . . . . . .. . . . . . . . . . . . . . . . . . . . . 85
PSI vs. Flow Envelope

Sample Heater/Cooler Testing
When testing the Sample Heater/Cooler with a calibrated thermocouple: place the thermocouple in the
compartment over the center of the carousel.
Notes:
—Be aware that temperature degradation occurs at ambient temperatures above 29 °C.
—The heater/cooler can only attain internal temperatures of 4 °C or 25 °C below
ambient. For example, if the ambient temperature is 30 °C the compartment
temperature can only attain a temperature of 5 °C or a 25 °C differential.
Troubleshooting Transducer Problems
A transducer failure can occur during initialization. If the software cannot electronically zero the
transducer, an "Out of range" error is displayed.
Note: During initialization, the transducer voltage must be within a specific range. The range to pass
power‐up initialization is 0.5V +/‐0.2V (0.3V ‐ 0.7V). If the voltage is outside of this range, an
"Out of range" error occurs. You can view the voltage in Service diagnostics, Service Utilities in
a pane containing the voltage offsets. An ideal transducer has a reading of 0.5V.
You can swap cable connections at the CPU board location to troubleshoot, isolate and verify when a
specific transducer has failed. If the problem follows the transducer, attempt to adjust or replace the
transducer. You should also inspect the cables and connections.
If back pressure is present on the transducers, you could see the same error. Verify that all pressure has
been released from the fluid components while troubleshooting this failure.
Re‐initializing
Transducers are auto‐zeroed during re‐initialization.
Transducer Adjustments
You can manually make transducer adjustments by pre‐zeroing the transducer to bring it into an
acceptable range for the electronic zero during power‐up. Remove the black rubber stopper on the
transducer to access the adjustment potentiometer. You can perform the adjustment by either trial/error,
or by carefully checking the voltage on a microchip.
Note: Ideal transducer reading is 0.5V. ±0.2V.
Trial‐and‐error method
Record the Out of range number displayed, power‐off the instrument, make a slight adjustment to the
transducer, then power‐on the instrument. Continue this adjustment procedure until the Out of range
number is decreased to eliminate the error.
Monitoring voltage method
Power‐on the instrument and connect the positive lead of the voltmeter to the following chips on the CPU
PCB to monitor the transducer offset voltage and connect the negative lead to chassis ground. If possible,
adjust the potentiometer to approximately 0.5V.
Table 11:
Transducer Chip and Pin #
System: U49 Pin 7
Primary: U49 Pin 1
Sample: U51 Pin 7
Note: Content for this topic sourced from service note.
Column device heater dial/potentiometer settings
Ensure that the dial/potentiometer setting on the column device heater is correct for the installed
switching valve. The switch is located on the back of the column module.
Switch position and valve type:
• 0: No valve
• 1: Three‐Column Select Valve Upgrade Kit (205000162)
• 7: 2‐Position Regeneration Valve Upgrade Kit (205000163)
• F: 6‐Column Select Valve Upgrade Kit (205000164)
Performing the Random Vial Position Test
This procedure is applicable to Alliance 269x.
1. Install vials with caps in positions 59, 60, 62, 63, 83, 84, 86, and 87. Install no vials in positions 61
and 85.
2. Run the method.
3. Ensure that the sample set stops at vial 85 and the alarm “VialMissingError” displays.
4. Install a vial in carousel position 85 and resume injections.
5. Ensure that the sample set stops at vial 61 (the alarm “VialMissingError” displays).
6. Install a vial in position 61 and resume injections.
• If injections continue as specified in the method, the test passes and no adjustment is
needed.
• If the test fails, the vial’s sensor optics are out of position and require adjustment.
Needle Piercing Alignment Procedure
The content that follows was originally publish as a service note. See service note: Needle Piercing
Alignment.
Scope Technical Discussion
If the injector is piercing off center and the injector motor loses steps due to striking the vial cap or the
side of the vial the error Injector malfunction "bottom sensor error" (bse) will be displayed. In this case,
the BSE is not related to an issue with the injector, but due to a misalignment of the carrier portion of the
carousel‐carrier drive. The Alliance methods below should be used to diagnose the carrier misalignment
problem globally with all the carousels. The carousel carrier drive may be adjusted if any of the piercings
are grossly out of alignment.
Product Affected
2695, 2695D
Tools required:
Adjustment requires a T‐10 Torx® driver.
Alignment Procedure
Determine current needle piercing locations
1. Use the piercing template on all the carousels or some other covering, such as parafilm, to see
the needle holes.
Note: If you use masking tape, be sure to thoroughly wipe the needle with a lintless wiper (for
example, KimWipe), moistened with methanol, after completion of the test.
2. Open the service note Needle Piercing Alignment, and download the Alliance methods below to a
diskette, and import them into the 2695.
• OPTOTEST.MTH
• TESTCCD.MTH
3. Verify that the needle wash system has the appropriate solvent and is primed.
4. Go into Menu > Status and set up the Optotest as your Separation Method (0 ml/min flow).
5. Run the Testccd Sample Method (runs 20 injections of 0 ul that have a runtime of .01 min).
6. Inspect all the needle holes for alignment and determine if the carousel needs to be adjusted
clockwise (CW) or counter‐clockwise (CCW).
Align the needle piercing locations
7. Loosen the sensor lockdown screw located to the left of the carousel rotation motor.
8. Rotate the spring‐tensioned sensor adjustment screw located on the right‐hand side of the
carousel rotation motor.
• To rotate the carousel position CW, turn the sensor screw CCW.
• To rotate the carousel position CCW, turn the sensor screw CW.
9. After each adjustment, tighten the lockdown screw and run test injections in several locations on
multiple carousels to ensure that the adjustment is optimized for all carousels.
Carousel and dogpin parts diagram (2695 only)

Z axis ram height gauge (700001022) settings
See the following service notes for more information regarding the use of the ram height gauge:
• Carousel Carrier Drive Sensor Adjustments
• 2695 Zram Height and Carrier Plate Adjustment
• Z Axis Malfunction vs Carousel Malfunction
2690 Fluidics Diagram

2690 Tubing Connections

2690 Interconnect Diagram

Server Busy Error: Troubleshooting
Empower Error Message: Server busy
Possible Cause:
Interactions between Empower and the Quickset window cause a freeze.
Affected systems:
• Single systems
• Multiple systems configured on the acquisition machine.
Affected configuration:
A 2695 with both a 2489 and 2996 detector configured.
How the system is affected:
1. The 2695 pressure console freezes at the last recorded pump pressure.
2. Task Manager indicates that the instrument server is using approximately 25% of one of the CPUs.
3. Approximately two minutes after the abort/inject, Server Busy displays on the Quickset window.
4. A single error message is recorded in the Message Center => "2489XXXX instrument currently in
use" (where XXXX is the instrument serial number).
Corrective Action:
No action required.
This issue was resolved in Empower 2 Feature Release 5 and in all subsequent releases.
If using any version of Empower 2 prior to FR5, avoid using the abort button during acquisition.
Troubleshooting the Vacuum Pump
1. Inspect and resolve the following:
• Inspect the vent line for liquid.
• Inspect manifold tubing for kinks, holes, and a tight fit.
• Pull off and reseat ALL vacuum connections to eliminate the flashing effect from the manifold
molding process.
2. If pump fails to power‐on, inspect:
• Power cable connection.
• Vacuum pump motor connection.
• Voltage at PCB connection.
• Vacuum pump to see if it stalled.
3. If error still occurs, troubleshoot the pathway by bypassing/removing the chambers and only use
vacuum pump and PCB.
• Pinch off tubing to chambers to troubleshoot individual chamber. Confirm that the pressure
reaches 0.9 psi.
• You might have to change the tubing configuration.
Connect the vacuum pump directly to the PCB Transducer (use the port closest to the edge
with the solder leads).
Confirm that the pressure reaches 0.9 psi.
• Check LEDs. See Degasser PCB (715003571).
4. Replace components as necessary.
See Degasser Assembly Component Replacement
Troubleshooting the XYZ and needle bottom sensor errors (279x only)
You can use the LEDs on the fluidics driver board to determine if an error is caused by the sensor, cable, or
fluidics driver board. See also: Fluidics Driver PCB LEDs and Sample Handling Sensors.
This procedure is useful when troubleshooting the following errors:
• Top and bottom needle sensors active, page 70
• X axis malfunction, page 71
• Y axis malfunction, page 72
These instructions are written generically. Adapt for the specific sensor/LED combination in question.
Note: DS13, 14, 15, and 16 are visible through a cutout on the back side of the PCB.
To identify the malfunctioning component:
Place the flag into the sensor.
• If the corresponding LED turns ON, the sensor, cable and fluidics driver board are functioning
correctly.
If the corresponding LED remains OFF, troubleshoot the sensor, cable, PCB chain.

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C COMPANY CONFIDENTIAL - PROPRIETARY INFORMATION - FOR INTERNAL USE ONLY 1 OF 85

Alliance HPLC System Troubleshooting Guide

• Alliance HPLC System • Degasser • Detector control

All errors/warnings index

System level errors

Error or warning Possible cause Corrective action

A failure occurred in attempting to Firmware problem Update the firmware.

Auto Shutdown Invoked The Auto Shutdown feature has No action required. This is normal/

Controller Internal Error Firmware encountered an 1. Examine the trace log to

Diskette removed while logging Floppy disk removed during a data Reinsert the floppy disk.

Error or warning Possible cause Corrective action

Door is Closed Door is closed when it should be 1. Open the door.

Door is Open Door is open when it should be 1. Close the door.

Error 109 An internal system error has 1. Examine the trace log to

Error 110 An internal system error has 1. Examine the trace log to

Error writing log to disk Missing disk Ensure that there is a floppy disk in

Error or warning Possible cause Corrective action

Error writing log to disk Dust in disk drive Clean the inside of the drive using

Fan failed Cooling fan problem Replace the fan.

General electronics fault A general electronics problem 1. Examine the trace log to

General instrument error Firmware encountered an 1. Examine the trace log to

General instrument fault Firmware encountered an 1. Examine the trace log to

HWERROR1 A hardware problem has occurred 1. Examine the trace log to

Initialization fault An internal system error has 1. Examine the trace log to

Error or warning Possible cause Corrective action

Instrument Failure Error Optional component problem Replace the optional component if

Internal error A problem in the valves, needle, or 1. Examine the trace log to

Options not recognized Failure of an optional component 1. Power‐off system and disconnect

Error or warning Possible cause Corrective action

Options not recognized CPU connector problem 1. Inspect the CPU connector and

Parameter range error The data system sent a corrupt Recreate the data system

Power down System power is off No action required.

Power up System power is on No action required.

Error or warning Possible cause Corrective action

Procedure interrupted A diagnostic with a countdown No action required.

Server busy Interactions between Empower No action required.

StopFlow Firmware encountered an 1. Examine the trace log to

Error or warning Possible cause Corrective action

Stop Flow input was received Accidental activation If the activation is unintentional,

Stop Flow key was pressed A user pressed the front‐panel Stop No action required.

Stop Flow request from remote By pressing the data system’s No action required.

SYSERROR1 An internal system error has 1. Examine the trace log to

Error or warning Possible cause Corrective action

System over pressure Excessive column or system Reduce the amount of system

System under pressure Fluidics leak Inspect for fluid leakage and repair.

System pressure falls below the Lack of solvent Ensure that there is sufficient

Error or warning Possible cause Corrective action

User‐programmed alert The user specifies conditions under No action required.

Solvent manager errors

Error or warning Possible cause Corrective action

Accumulator over pressure Excessive column or system Inspect the following components

Bubble found on compression A gas bubble momentarily Ensure that the solvent lines are

Error or warning Possible cause Corrective action

Bubble found on compression Degasser vacuum chamber 1. Verify that the degasser pressure

Bubble found on intake A bubble in the solvent Ensure that the solvent lines are

Error or warning Possible cause Corrective action

Bubble found on intake Failed degasser vacuum chamber 1. Inspect the degasser vent lines

Cannot reach minimum pressure Solvent line connection issue Ensure that the solvent lines are

Error or warning Possible cause Corrective action

Cannot reach minimum pressure Solvent gas 1. Ensure that the solvents are

Exceeded maximum plunger stroke Solvent line connection issue Ensure that the solvent lines are

Flow too high for stroke volume User attempts to change either Confirm the compatibility of flow