Thermo Scientific Dionex UltiMate 3000 Series, NCP-3200RS, NCS-3500RS Operating Instructions Manual
Thermo Scientific Dionex
UltiMate 3000 Series
Nano/Cap System NCS-3500RS
Nano/Cap Pump NCP-3200RS
Operating Instructions
(Original Operating Instructions)
Revision: 2.0
Date: January 2016
© 2016 Thermo Fisher Scientific Inc.
Doc No. 4820.4101
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
Table of Content
1 Introduction ................................................................................................................... 1
1.1 How to Use this Manual ............................................................................................ 1
1.2 Safety Information ..................................................................................................... 3
1.2.1 Symbols on the Module and in the Manual ...................................................... 3
1.2.2 Safety Precautions ............................................................................................ 5
1.2.3 Consignes de Sécurité ....................................................................................... 9
1.3 Intended Use ............................................................................................................ 14
1.4 Federal Communications Commission (FCC) Note ................................................ 15
2 Overview ...................................................................................................................... 17
2.1 Unit Description ....................................................................................................... 17
2.2 Module Configurations ............................................................................................ 19
2.2.1 Overview ........................................................................................................ 19
2.2.2 Combinations of UltiMate 3000 Pumps and Solvent Racks .......................... 20
2.3 Operating Principle .................................................................................................. 21
2.4 Front Panel Elements ............................................................................................... 22
2.5 Rear Panel ................................................................................................................ 24
2.5.1 Power Switch .................................................................................................. 25
2.5.2 Fuse Cartridge ................................................................................................ 25
2.5.3 USB Port ......................................................................................................... 25
2.5.4 Digital I/O ....................................................................................................... 25
2.5.5 Solvent Rack ................................................................................................... 25
2.6 Interior Components ................................................................................................ 26
2.7 Fluid Connections .................................................................................................... 27
2.8 Pump Module ........................................................................................................... 29
2.8.1 Rear Seal Wash System .................................................................................. 29
2.8.2 Flow Meter ..................................................................................................... 30
2.8.3 Leak Sensor .................................................................................................... 32
2.8.4 Purge Valve .................................................................................................... 32
2.8.5 Inline Filter (Loading Pump) .......................................................................... 33
2.9 Column Compartment .............................................................................................. 34
2.9.1 Gas and Humidity Sensors ............................................................................. 34
2.9.2 Column Switching Valves .............................................................................. 34
2.9.3 Column Identification System (Column ID) .................................................. 34
2.10 Operation from Chromeleon .................................................................................... 35
2.11 System Wellness, Predictive Performance, and Diagnostics ................................... 36
3 Installation ................................................................................................................... 37
3.1 Facility Requirements .............................................................................................. 37
3.2 Unpacking ................................................................................................................ 37
3.3 Positioning the Module in the UltiMate 3000 RSLCnano System .......................... 39
Operating Instructions Page i
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
3.4 Connecting the Module ............................................................................................ 41
3.4.1 General Information ........................................................................................ 41
3.4.2 Connecting the USB Cable ............................................................................. 41
3.4.3 Connecting the Power Cord ............................................................................ 42
3.4.4 Connecting a Solvent Rack ............................................................................. 42
3.4.5 Connecting Devices (Mass Spectrometers) to the Digital I/O-Port ................ 42
3.5 Setting Up the Module in Chromeleon .................................................................... 43
3.5.1 Loading the USB Driver for the Module ........................................................ 43
3.5.2 Installing the Module ...................................................................................... 45
3.5.3 Configuring the Module ................................................................................. 46
4 Preparation for Operation (Startup) ........................................................................ 55
4.1 Overview .................................................................................................................. 55
4.2 Capillaries and Capillary Routing ............................................................................ 57
4.2.1 Connecting and Handling Capillaries ............................................................. 57
4.2.2 Routing Capillaries ......................................................................................... 60
4.3 Solvent Reservoirs ................................................................................................... 62
4.3.1 General Notes ................................................................................................. 62
4.3.2 Connecting the Solvent Reservoirs ................................................................. 63
4.4 Connecting Drain Tubing......................................................................................... 65
4.5 Pump Module ........................................................................................................... 67
4.5.1 Setting Up the Rear Seal Wash System .......................................................... 67
4.5.2 Flow Meter Settings ........................................................................................ 69
4.5.3 Purging the Pumps .......................................................................................... 72
4.6 Column Compartment .............................................................................................. 78
4.6.1 Installing a Column Switching Valve ............................................................. 78
4.6.2 Installing a Separation Column ...................................................................... 80
4.6.3 Installing a Trap Column ................................................................................ 82
4.6.4 Connecting the Components to the Column Switching Valve ....................... 82
4.7 Equilibrating the System .......................................................................................... 83
5 Operation and Maintenance ...................................................................................... 85
5.1 Power-Up ................................................................................................................. 85
5.2 Status Screen ............................................................................................................ 86
5.2.1 Pump Module .................................................................................................. 86
5.2.2 Column Compartment .................................................................................... 87
5.3 Operation from Chromeleon .................................................................................... 88
5.3.1 Connecting to Chromeleon ............................................................................. 88
5.3.2 Direct Control ................................................................................................. 89
5.3.3 Automated Control ......................................................................................... 92
5.4 Function Keys and Menus on the Display ............................................................... 94
5.4.1 Showing the Function Keys ............................................................................ 94
5.4.2 Menu ............................................................................................................... 96
5.5 Information for Operating the Pump ...................................................................... 107
5.5.1 Choosing the Solvents .................................................................................. 108
5.5.2 Interdependency of Column Pressure and Maximum Flow Rate ................. 110
Page ii Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
5.5.3 Adding Solvents to the Flow Meter Configuration ...................................... 114
5.5.4 Setting the Flow Rate, Flow Acceleration, and Flow Deceleration ............. 119
5.5.5 Setting the Pressure Limits ........................................................................... 120
5.5.6 Recording the Pump Signals ........................................................................ 121
5.5.7 Rear Seal Wash System ................................................................................ 122
5.5.8 Purging the Pumps ........................................................................................ 124
5.5.9 Detecting Liquid Leaks in the Pump Module ............................................... 124
5.5.10 Adjusting the Screen Brightness or Contrast ................................................ 125
5.5.11 Operating the Degasser of a SRD-3x00 Solvent Rack ................................. 125
5.6 Information for Operating the Column Compartment ........................................... 127
5.6.1 Turning On Temperature Control ................................................................. 127
5.6.2 Activating Column Identification (Column ID) ........................................... 129
5.6.3 Adjusting the Sensitivity of the Gas and Humidity Sensors ........................ 130
5.6.4 Recording the Temperature Signal ............................................................... 131
5.6.5 Adjusting the Screen Brightness or Contrast ................................................ 131
5.7 Special Functions in Chromeleon .......................................................................... 132
5.7.1 Predictive Performance................................................................................. 132
5.7.2 Diagnostics ................................................................................................... 134
5.7.3 Ready Temp Delta and Equilibration Time .................................................. 136
5.7.4 Using the Digital Inputs and Outputs (Digital I/O) ...................................... 137
5.7.5 Operational Qualification and Performance Qualification ........................... 137
5.8 Recommendations for Optimally Running Systems (Best Practice) ..................... 138
5.9 Shutting Down the Module .................................................................................... 140
5.10 Maintenance, and Maintenance and Calibration Intervals ..................................... 142
5.10.1 General Information ..................................................................................... 142
5.10.2 Maintenance Intervals................................................................................... 143
5.10.3 Calibration Intervals ..................................................................................... 144
6 Troubleshooting ........................................................................................................ 145
6.1 Overview ................................................................................................................ 145
6.2 Pump Block Status Indicator (Loading Pump) ...................................................... 146
6.3 Messages on the Pump Display ............................................................................. 147
6.4 Chromeleon Diagnostics Messages ....................................................................... 160
6.5 Operating Problems ............................................................................................... 163
6.6 Flow Sensor / Pressure Transducer Diagnostics (NC Pump) ................................ 172
6.6.1 Performing a Zero Balance Test (ProFlow Flow Meter) .............................. 172
6.6.2 Calibrating the Pressure Transducers (Classic Flow Meter) ........................ 172
6.7 Checking the Compression Values (Loading Pump) ............................................. 174
7 Service ........................................................................................................................ 175
7.1 General Notes and Safety Precautions ................................................................... 175
7.2 Eliminating Leakage in the Pump Module ............................................................ 177
7.3 Removing Gas and Humidity from the Column Compartment ............................. 178
7.4 Rear Seal Wash System ......................................................................................... 179
7.4.1 Inspecting the Rear Seal Wash System for Leakage .................................... 179
7.4.2 Replacing the Peristaltic Tubing .................................................................. 180
Operating Instructions Page iii
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
7.4.3 Cleaning the Detector Electrodes ................................................................. 181
7.5 Replacing the Check Valve Cartridges .................................................................. 182
7.6 Pistons and Piston Seals ......................................................................................... 184
7.6.1 Visually Inspecting the Pump for Piston Seal Leakage ................................ 186
7.6.2 Pump Head and Pistons ................................................................................ 188
7.6.3 Replacing the Piston Seals ............................................................................ 194
7.7 Flow Meter ............................................................................................................. 202
7.7.1 Replacing the Flow Meter ............................................................................ 202
7.7.2 Replacing the Flow Selector in a Classic Flow Meter .................................. 204
7.7.3 Replacing the Filter Frit in a ProFlow Flow Meter ...................................... 205
7.8 Installing and Removing Solvent Shut Off Valves ................................................ 206
7.9 Inline Filter (Loading Pump) ................................................................................. 208
7.9.1 Checking the Filter Frit for Permeability ...................................................... 208
7.9.2 Replacing the Inline Filter ............................................................................ 208
7.9.3 Replacing the Filter Frit in the Loading Pump ............................................. 209
7.10 Replacing the Purge Screw (Loading Pump) ......................................................... 210
7.11 Testing the Loading Pump for Leakage ................................................................. 211
7.12 Column Switching Valve ....................................................................................... 213
7.12.1 Replacing the Column Switching Valve ....................................................... 213
7.12.2 Replacing the Valve Stator and Rotor Seal .................................................. 214
7.13 Replacing the Main Power Fuses ........................................................................... 216
7.14 Updating the Firmware .......................................................................................... 217
8 Module-Specific Information ................................................................................... 219
8.1 NC Pump ................................................................................................................ 220
8.1.1 Interior Components (Detailed View) .......................................................... 220
8.1.2 Flow Path ...................................................................................................... 221
8.1.3 Operating Principle ....................................................................................... 222
8.2 Loading Pump (Micro Pump) ................................................................................ 226
8.2.1 Interior Components (Detailed View) .......................................................... 226
8.2.2 Flow Path ...................................................................................................... 227
8.2.3 Operating Principle ....................................................................................... 228
8.3 Column Compartment ............................................................................................ 229
8.3.1 Interior Components ..................................................................................... 229
8.3.2 Operating Principle ....................................................................................... 230
9 ProFlow Flow Meter Upgrade ................................................................................. 231
9.1 Modifying the Module with a ProFlow Flow Meter .............................................. 231
9.2 Guidelines on Operating the ProFlow Flow Meter ................................................ 234
10 Technical Information .............................................................................................. 235
11 Accessories, Consumables, and Spare Parts ........................................................... 239
11.1 Standard Accessories ............................................................................................. 239
11.2 Optional Accessories.............................................................................................. 242
11.3 Consumables and Spare Parts ................................................................................ 243
Page iv Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
12 Reference Information ............................................................................................. 247
12.1 Chemical Resistance of PEEK ............................................................................... 247
12.2 Solvent Miscibility ................................................................................................. 250
12.3 Properties of Common Solvents ............................................................................ 251
12.4 Safety Information about Flammable Solvents ..................................................... 252
13 Appendix .................................................................................................................... 255
13.1 Digital I/O (Pin Assignment) ................................................................................. 255
13.2 Solvent Rack (Pin Assignment) ............................................................................. 256
14 Index ........................................................................................................................... 257
Operating Instructions Page v
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
Page vi Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
1 Introduction
1.1 How to Use this Manual
The layout of this manual is designed to provide quick reference to the sections of interest
to the reader when operating the Thermo Scientific™ Dionex™ NCS-3500RS or
NCP-3200RS. However, in order to obtain a full understanding of the module, Thermo
Fisher Scientific recommends that you review the manual thoroughly before beginning
operation.
The descriptions in this manual apply to the following modules in the UltiMate™ 3000
series:
• NCS-3500RS
• NCP-3200RS
The following conventions apply to the descriptions throughout this manual:
• The term "the device" or "the module" is used throughout the manual. If some detail
applies to only one model or version, the model (version) is identified by name.
• The NCS-3500RS combines a binary high-pressure gradient (HPG) pump (referred to as
NC pump) and a ternary low-pressure (LPG) micro pump (referred to as loading pump).
If a description refers to the NC pump and the loading pump, the term "the pump
module" or "the pump" is used. If some detail applies to only one pump, the pump is
identified by name.
• The NCP-3200RS is a binary high-pressure gradient pump (HPG) (referred to as NC
pump). This pump corresponds to the NC pump in the NCS-3500RS. Therefore, the
descriptions for the pump module and the NC pump apply also for the NCP-3200RS.
• If not otherwise stated, the descriptions for the Viper™ capillary connections apply also
to nanoViper™ and possible other Viper capillary connections.
• The device configuration may vary. Therefore, not all descriptions necessarily apply to
your particular module.
• The representation of a component in this manual may be slightly different from the real
component. However, this does not influence the descriptions.
• The descriptions in this manual refer to firmware version 1.40 and Chromeleon™ 6.80. If
you want to operate the module from Chromeleon 7, note the information on page 35.
This manual assumes that the module is used with a suitable Chromeleon software
version with a valid license.
Operating Instructions Page 1
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
Tip: If the module is part of an UltiMate 3000 RSLCnano system, see section 3.3
(→ page 39) for information about how to arrange the modules and set up the
system. For more information, refer to the "UltiMate 3000 RSCLnano Standard Applications" system manual. The manual is shipped with the
module.
This manual is provided "as is". Every effort has been made to supply complete and
accurate information and all technical specifications have been developed with the utmost
care. The information contained in this manual should not be construed as a commitment
by Thermo Fisher Scientific. Thermo Fisher Scientific assumes no responsibility for any
errors that may appear in this document that is believed to be complete and accurate at the
time of publication and, in no event, shall Thermo Fisher Scientific be liable for incidental
or consequential damages in connection with or arising from the use of this document. We
appreciate your help in eliminating any errors that may appear in this document.
The information contained in this document is subject to change without notice.
All rights reserved, including those for photomechanical reproduction and storage on
electronic media. No part of this publication may be copied or distributed, transmitted,
transcribed, stored in a retrieval system, or transmitted into any human or computer language,
in any form or by any means, electronic, mechanical, magnetic, manual, or otherwise, or
disclosed to third parties without the express written permission of Thermo Fisher Scientific
Inc.
Trademarks
MP35N is a registered trademark of SPS Technologies.
Nitronic is a registered trademark of AK Steel Corp.
PharMed is a registered trademark of Saint-Gobain Performance Plastics.
Microsoft, Windows, and Windows Vista are registered trademarks of Microsoft Corp.
All other trademarks are property of Thermo Fisher Scientific Inc. and its subsidiaries.
Page 2 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
1.2 Safety Information
The CE Mark label and cTUVus Mark safety label on the instrument indicate that the
instrument is compliant with the related standards.
1.2.1 Symbols on the Module and in the Manual
The table shows the symbols used on the module:
Symbol Description
Alternating current—Courant alternatif
Power supply is on (-)—Le module est mis sous tension (-) and Power supply is
off (O)—Le module est mis hors tension (O)
Surface becomes hot during operation—La surface devient chaude lors du
fonctionnement.
Component susceptible to electrostatic discharge—Le composant est susceptible
de la décharge électrostatique
Refer to the Operating Instructions to prevent risk of harm to the operator and to
protect the module against damage.
Référez-vous à ce manuel pour éviter tout risque de blessure à l'opérateur et/ou
protéger le module contre tout dommage.
Label according to the "Measures for Administration of the Pollution Control of
Electronic Information Products" (China RoHS) guideline
Étiquette "Measures for Administration of the Pollution Control of Electronic
Information Products" (China RoHS)
WEEE (Waste Electrical and Electronic Equipment) label—For more
information, see the WEEE Information section in the "Installation and
Qualification Documents for Chromatography Instruments" binder.
Étiquette DEEE (Déchets d'Equipements Electriques et Electroniques) — Pour
plus d'informations, référez-vous au chapitre WEEE Information dans le classeur
"Installation and Qualification Documents for Chromatography Instruments".
At various points throughout the manual, the following symbols indicate messages of
particular importance:
Tip: Indicates general information, as well as information intended to
optimize the performance of the instrument.
Important: Indicates that failure to take note of the accompanying information
could cause wrong results or may result in damage to the module.
Operating Instructions Page 3
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
Important: Indique que ne pas tenir compte de l'information jointe peut conduire
à de faux résultat ou endommager l'instrument.
Warning: Indicates that failure to take note of the accompanying information
may result in personal injury.
Avertissement: Indique que ne pas tenir compte de l'information jointe peut entraîner
des blessures corporelles.
Page 4 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
1.2.2 Safety Precautions
When working with analytical instrumentation, you must know the potential hazards of
using chemical solvents.
Tip: Before initial operation of the module, make yourself familiar with
the contents of this manual.
For the safety precautions in French, see section 1.2.3 (→ page 9).
Warning: All users of the device must observe the following safety precautions
and all additional safety precautions in this manual to avoid the
possibility of personal injury or damage to the device when
operating the device or carrying out any maintenance or service
procedures.
Observe any warning labels on the module and see the related
sections in these Operating Instructions.
• Protective equipment
When performing any work on or near the HPLC system, wear personal protective
equipment (protective clothing, safety gloves, safety glasses) as required by the hazard of
the mobile phase and sample. For information about the proper handling of a particular
substance and for advice on specific hazards, refer to the material safety data sheet for the
substance you are using. Observe the guidelines of Good Laboratory Practice (GLP).
An eyewash facility and a sink should be close to the device. If any substance splashes on
the eyes or skin, wash the affected area and seek medical attention.
• Hazardous substances
Many organic solvents, mobile phases, and samples are harmful to health. Be sure that
you know the toxic and infectious properties of all substances that you are using. You
may not know the toxic or infectious properties of many substances that you are using. If
you have any doubt about a substance, treat it as if it contains a potentially harmful
substance. For advice on the proper handling of a particular substance, refer to the Safety
Data Sheet (SDS) of the manufacturer. Observe the guidelines of Good Laboratory
Practice (GLP).
Dispose of waste substance in an environmentally safe manner that is consistent with all
local regulations. Do not allow flammable, toxic, and/or infectious substances to
accumulate. Follow a regulated, approved waste disposal program. Never dispose of
flammable, toxic, and/or infectious substances through the municipal sewage system.
• Hazardous gases
Install the HPLC system in a well-ventilated laboratory. If the mobile phase or sample
includes volatile or flammable solvents, do not allow them to enter the workspace. If the
mobile phase or sample includes volatile or flammable solvents, avoid open flames and
sparks.
Operating Instructions Page 5
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
• Electrostatic discharge
Discharge of electrostatic energy may lead to sparking and can constitute a fire hazard.
Keep in mind that liquid flowing through capillaries can generate static electricity. This
effect is particularly pronounced in insulating capillaries and with non-conductive
solvents (for example, pure acetonitrile).
Take appropriate measures to prevent the generation of static electricity near the HPLC
system. For example, make sure that the air humidity level in the laboratory is
sufficiently high and provide proper ventilation, wear anti-static clothing or shoes,
prevent accumulation of air bubbles in waste lines, and use grounded waste containers.
Use only non-conductive capillaries to direct solvents into the waste container. With
electrically conductive capillaries, make sure that they are properly grounded.
• Self-ignition of solvents
Do not use solvents for which the self-ignition temperature is below 150 °C. In case of
leakage, these solvents may self-ignite on a hot surface.
• Capillaries, capillary connections, open connections
♦ Capillaries, especially non-metallic capillaries may burst, slip out of their fittings or
may not be screwed in. This may result in substances spraying out of the open
connections.
♦ In an UltiMate 3000 system, some components are made of PEEK. This polymer
has superb chemical resistance to most organic solvents. However, it tends to swell
when in contact with trichlormethane (CHCl3), dimethyl sulfoxide (DMSO), or
tetrahydrofuran (THF). In addition, it is attacked by concentrated acids, such as,
sulfuric acid and nitric acid or a mixture of hexane, ethyl acetate, and methanol. In
both cases, capillaries may start leaking or they can burst. Swelling or attack by
concentrated acids is not a problem with brief flushing procedures.
♦ Do not use tubing that is stressed, bent, kinked, or damaged.
♦ Capillary connections can be contaminated by harmful substances or harmful
substances can escape from open connections.
♦ Some capillaries of the NCS-3500RS and some Viper system capillaries are made
of MP35N®, a nickel-cobalt based alloy. Individuals with sensitivity to
nickel/cobalt may show an allergic reaction from skin contact.
♦ Always wear safety glasses when handling fused silica tubing, for example, during
installation or when cutting capillaries to the length.
• Hot surfaces
To avoid burns, do not touch any metal or plastic parts inside the column chamber while
the temperature is higher than 50 °C. Wait for the column chamber to cool down, for
example, before changing a column or before performing any maintenance procedures.
• Disconnect the module from all power sources before removing any panels. When the
panels are removed, dangerous electrical connections will be exposed. The enclosure
must be opened only by Thermo Fisher Scientific service personnel.
Page 6 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
• Replace faulty communication cables.
• Replace faulty power cords. Never use a power cord other than the power cords provided
for the device.
• Always replace blown fuses with original spare part fuses authorized by Thermo Fisher
Scientific.
• Use only the original spare parts and accessories authorized for the device by Thermo
Fisher Scientific.
• Avoid looking directly into the pump light LED. Do not use light focusing instruments
for viewing the light beam. The high luminosity of the lamp can be harmful to the eyes.
• When operating the HPLC system, always set a lower pressure limit for the pump. This
prevents damage resulting from leakage or from running the pump dry.
• The module is primed with 2-propanol when being shipped from the factory. During
initial operation of the module, make sure that the solvents used are miscible with 2propanol. Otherwise, follow the appropriate intermediate steps.
• After operation, rinse out buffers and solutions that form peroxides.
• Before switching from buffer to organic solution, rinse the pump thoroughly with
deionized water.
• When switching to another solvent, ensure that the new solvent is miscible with the one
contained in the pump. If the solvents are not miscible, the pump can be damaged, for
example, by flocculation.
• Use only standard solvents (MS-grade) and buffers that are compatible with all parts in
the module that may be exposed to solvents.
• Do not use methanol from aluminum reservoirs. This may impair the performance of the
seals.
• Do not deliver in circles or recycle the eluent. This may impair the performance of the
seals.
• When lifting or moving the module, always lift by the bottom or sides of the module. Do
not lift the module by the front panel door. This may damage the door.
• A team effort is required to lift or move the NCS-3500RS. The NCS-3500RS is too
heavy and/or bulky for one person alone to lift or move safely.
• The open front panel door is not designed to carry weight. Do not place any heavy
objects on the open front panel door; this may damage the door.
• To avoid that pressure calibration of the loading pump is impaired, turn on the pump only
when the pump pressure is down. To ensure that the pressure is down, open the purge
valve of the loading pump before turning on the pump.
Operating Instructions Page 7
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
• Never run the pump dry. Damage to the pistons or the piston seals could result.
• Before you start operating the module, check the seal wash reservoir level and refill as
needed. After turning on the instrument, wait until the wash solution has passed all pump
heads.
• Always use fresh rear seal wash solution.
• To prolong the life cycle of the valves, avoid moving the valves dry.
• If the pump flow is interrupted for longer periods (> 1 hour), you have to turn off the
lamps in any detector connected to the module to prevent evaporation in the flow cell.
• Always use the frits recommended by Thermo Fisher Scientific. This is to prevent
particulate matters from entering the HPLC system. Using other frits may considerably
affect the system performance.
• If a leak occurs, stop the pump flow, turn off the module, and remedy the situation.
• Before interrupting operation for several days or more or when preparing the module for
transport, observe the precautions for shutting down the module (→ page 140).
• Do not use the module in ways other than those described in these Operating
Instructions.
• Keep the operating instructions near the device to be available for quick reference.
Tip: To have an optimally running system, observe the recommendations in
section 5.8 (→ page 138).
Page 8 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
1.2.3 Consignes de Sécurité
Si vous utilisez d'instrumentation analytique, vous devez connaître les risques d'utilisation
de produit chimiques.
Veuillez noter: Avant de commencer à utiliser l'instrument, assurez-vous que vous
vous êtes familiarisés avec le contenu de ce manuel.
Avertissement: Toutes les personnes utilisant l’instrument doivent observer les
consignes de sécurité suivantes et dans les autres chapitres de ce
manuel pour éviter une mise en danger de sa personne ou de
dommage à l’instrument pendant l’utilisation et des opérations de
maintenance ou service de l’instrument.
Observez les étiquettes d'avertissement sur l'instrument et référezvous aux sections correspondantes dans ce mode d'emploi.
• Equipment de protection
Pour tous les travaux sur le système HPLC ou à proximité, portez l'équipement de
protection personnel (vêtements de protection, gant de sécurité, lunettes de protection)
qui correspond aux risque découlant de la phase mobile et/ou de l'échantillon. Pour les
informations sur la manipulation correcte des composés et des recommandations pour les
situations de risque spécifiques, veuillez consulter la fiche de données de sécurité des
substances que vous utilisez. Veuillez respecter des directives des Bonnes Pratiques de
Laboratoire (BPL).
Une installation permettant de se laver les yeux ainsi qu'un lavabo doivent se trouver à
proximité du système. Si une substance, quelle qu'elle soit, entre en contact avec vos
yeux ou votre peau, rincez abondamment la zone affectée à l’eau, puis.
• Substances dangereuses
De nombreux solvants organiques, phases mobiles et échantillons sont nuisibles à la
santé. Informez-vous de propriétés toxicologiques et infectieuses de toutes les substances
que vous utilisez. Les propriétés toxicologiques et infectieuses de nombreuses substances
peuvent être mal connues. Au moindre doute concernant une substance, traitez-la comme
s'il contenait une substance potentiellement dangereuse. Pour des instructions comment
utiliser correctement des composés particuliers, veuillez consulter à la fiche de données
des sécurités du fabricant respectif. Veuillez respecter des directives des Bonnes
Pratiques de Laboratoire (BPL).
Débarrassez-vous de tous les déchets de substances de manière écologique,
conformément à la règlementation en vigueur au niveau local. Empêchez impérativement
l'accumulation de solvants inflammables, toxiques et/ou infectieux. Suivez un
programme d'élimination des déchets règlementé et approuvé. Ne jetez jamais de
solvants inflammables, toxiques et/ou infectieux dans le système municipal d'évacuation
des eaux usées.
Operating Instructions Page 9
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
• Gaz dangereux
Installez le système HPLC dans un laboratoire bien ventilé. Si la phase mobile ou
l’échantillon contient des solvants volatils ou inflammables, vous devez assurer qu'ils ne
pénètrent dans l'espace de travail. Si la phase mobile ou l’échantillon contient des
solvants volatils ou inflammables, évitez les flammes nues et les sources d’étincelles à
proximité.
• Décharge électrostatique
Décharge électrostatique peut provoquer la formation d'étincelles et peut présenter un
risque d’incendie. Veuillez noter que des solvants fluides dans les capillaires peuvent se
charger automatiquement. Cet effet se peut produire particulièrement forte dans les
capillaires isolants et avec des solvants non-conducteurs (par exemple, l'acetonitrile pur).
Prenez des mesures appropriées pour éviter les charges électrostatiques à proximité du
système HPLC. Par exemple, s'assurez qu'il y a une humidité de l'air suffisante et une
ventilation adéquate dans la laboratoire, portez des vêtements ou équipement de
protection antistatique, évitez l'accumulation de bulles d'air dans les lignes de déchets et
utilisez des réservoirs à déchets mis à la terre.
Utilisez uniquement des capillaires non-conducteurs pour diriger solvants au réservoir de
déchets. Capillaires électriquement conducteur devrait être mis à la terre.
• Inflammation spontanée des solvants
N’utilisez aucun solvants avec une température d‘auto-inflammabilité inférieure à
150° C. Si une fuite se produit, ces solvants peuvent s’auto-enflammer au contact d’une
surface chaude.
• Capillaires, connecteur capillaires, connexions ouvertes
♦ Des capillaires, en particulier les capillaires non-métalliques, pourraient fendre ou
glisser des connecteurs ou ne peuvent pas être vissés. Ceci peut en résulter aussi que
des substances pourraient jaillir des connexions ouvertes.
♦ Dans un système UltiMate 3000, certaines composantes sont en PEEK. Bien que ce
polymère présente une excellente résistance chimique à la plupart des solvants
organiques, il a tendance à gonfler lorsqu'il est en contact prolongé avec du
chloroforme (CHCl3), du diméthyle sulfoxyde (DMSO) ou du tétrahydrofurane
(THF). De plus, il est attaqué par des acides concentrés tels que l'acide sulfurique et
l'acide nitrique ou d'un composé du hexane, éthyle acétate et méthanol. Ceci peut
causer des capillaires de fuite ou risquer des capillaires d’éclater. Ces acides peuvent
cependant être utilisés dans le cadre de procédures de nettoyage, à condition que
l’exposition soit brève.
♦ N'utilisez pas de capillaires écrasés, pliés, abimés ou endommagés.
♦ Les connecteurs capillaires pour pourrait être contaminé par des substances
dangereuses ou des substances dangereuses pourrait sortir des connexions ouvertes.
Page 10 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
♦ Certains capillaires des NCS-3500RS, ainsi que des capillaires du système Viper, sont
faits d'alliage de nickel-cobalt MP35N. Contact avec la peau peut provoquer une
réaction chez les personnes qui sont sensibles au nickel/cobalt.
♦ Portez des lunettes de protection lorsque vous manipulez des capillaires en silice
fondue (pendant l'installation, découpe, etc.).
• Surface chaude
Pour éviter tout risque de brûlure, ne touchez à aucune partie en métal ou plastique à
l'intérieur du compartiment de colonne tant que la température est supérieure à 50 °C.
Attendez que le four refroidisse, par exemple, avant de changer une colonne ou avant de
procéder à tous opérations de maintenance.
• Quand les capots de protection de l’appareil sont démontés, vous êtes exposés à des
connexions électriques sous haute tension deviennent accessibles. Débranchez
l'instrument de toute source d'alimentation électrique avant de retirer les capots. Ne
démontez les capots de protection que si cela est explicitement demandé au cours de ces
instructions. Les capots de protection devraient être démontés uniquement par le
personnel de service de Thermo Fisher Scientific.
• Remplacez les câbles de communication défectueux.
• Remplacez les cordons d'alimentation électrique défectueux. Utilisez uniquement les
cordons d’alimentation électrique spécifique à l’instrument.
• Remplacez toujours les fusibles grillés par des fusibles de rechange autorisés par Thermo
Fisher Scientific.
• Utilisez seulement des pièces de rechange originales et des accessoires autorisés par
Thermo Fisher Scientific.
• Ne regardez jamais directement la DEL pour l'éclairage intérieur dans la pompe et ne
regardez pas du faisceau lumineux par des instruments qui focalisent le rayon lumineux.
L'intensité lumineuse de la lampe peut être nocive pour les yeux.
• Réglez toujours une limite de pression minimum pour la pompe HPLC. Ceci prévient les
dommages résultant de fuites ou du fonctionnement à sec de la pompe.
• La pompe et les vannes de colonne sont stockées sous 2-propanol. Au cours démarrage
de l'instrument, assurez-vous que les solvants utilisés soient miscibles avec le 2-propanol.
Sinon, suivez les étapes intermédiaires appropriées.
• Après utilisation, purgez le système des tampons et des susceptibles de former des
peroxydes.
• Lorsque vous passez d’une solution saline à un solvant organique, effectuez un rinçage
intermédiaire de la pompe à l'eau dé-ionisée.
Operating Instructions Page 11
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
• Lorsque vous passez à un autre solvant, assurez-vous que le nouveau solvant soit
miscible avec celui qui se trouve dans la pompe. Dans le cas contraire, la pompe peut être
endommagée; par exemple, par des floculations!
• Utilisez uniquement des solvants (qualité MS) et des solutions salines compatibles avec
les matériaux exposés phase mobiles.
• N'employez pas du méthanol stocké dans des réservoirs en aluminium. Ceci peut affecter
les performances des joints.
• Thermo Fisher Scientific déconseille de recycler les solvants. Ceci peut nuire aux
performances des joints.
• Lorsque vous soulevez ou déplacez le NCS, soulevez toujours par le bas ou les côtés,
avec le panneau avant fermé afin de ne pas endommager l'instrument .Le panneau avant
bascule vers le haut. Afin d'éviter d'endommager l'instrument lorsque que vous la
soulevez ou la déplacez, saisissez-la toujours par les côtés de l'unité.
• Le NCS-3500RS est lourd et encombrant. Par conséquent, vous ne devriez pas soulever
le NCS seul.
• Ne placez aucun objet lourd sur la porte ouverte du panneau avant. Ceci pourrait
endommager la porte.
• Afin d'éviter que le calibrage de pression de la pompe de chargement ne soit pas entravé,
mettez en marche la pompe seulement quand la pompe est sans pression. Toujours
ouvrez la vis de purge avant mettre la pompe en marche.
• Ne faites jamais fonctionner la pompe à sec. Il peut en résulter des dommages aux pistons
ou aux joints de piston.
• Avant de mettre en marche l'instrument, assurez-vous que le réservoir de rinçage du joint
arrière de la pompe est rempli. Attendez jusqu'à ce que le rinçage du joint arrière ait été
pompé par toutes les têtes de pompe.
• Utilisez toujours le liquide frais pour le rinçage du joint arrière.
• If faut éviter fonctionner les vannes de colonne à sec. Il peut en résulter des dommages
aux vannes.
• Si le débit de la pompe est interrompu pour des périodes prolongées (> 1 heure), éteignez
les lampes de tout détecteur raccordé à la pompe. Ceci empêchera l'évaporation dans la
cellule.
• Utilisez toujours les frittés recommandés par Thermo Fisher Scientific afin d'empêcher
les particules étrangères d'entrer dans le système HPLC. Utiliser d'autres frittés peut
affecter considérablement les performances du système.
Page 12 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
• Si une fuite survient, stoppez le débit de la pompe, arrêtez l'instrument, et résolvez le
problème immédiatement.
• Avant d'interrompre le fonctionnement pendant plusieurs jours ou plus, observez les
précautions figurant en page 140.
• N'utilisez pas l'instrument de manière autre que celles décrites dans ce manuel.
• Conservez ce manuel á proximité de l’instrument pour pouvoir le consulter facilement.
Veuillez noter: Veuillez noter aussi les recommandations pour la bonne pratique en
section 5.8 (→ page 138).
Operating Instructions Page 13
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
1.3 Intended Use
For Research Use Only. Not for use in diagnostic procedures.
The device is designed to be operated only be qualified and authorized personnel. All users
must know the hazards presented by the device and the used substances.
The NCS-3500RS and NCP-3200RS are designed for laboratory research use in ultra-high
performance liquid chromatography (UHPLC) applications. They are part of the
UltiMate 3000 RSLCnano system, but can be used also with other HPLC systems if
adequate control inputs and outputs are available. A PC with USB port is required.
The module is controlled by the Chromeleon Chromatography Management System. Being
part of the UltiMate 3000 system, the module can also be operated with other data systems,
such as Xcalibur™. In this case, installation of additional software is required in addition to
the data system software.
For more information, contact the Thermo Fisher Scientific sales organization for Dionex
HPLC Products.
Note that the module may be operated only with accessories and spare parts recommended
by Thermo Fisher Scientific (→ page 239) and within its technical specifications
(→ page 235).
If there is any question regarding appropriate usage, contact Thermo Fisher Scientific before
proceeding. Thermo Fisher Scientific cannot be held liable for any damage, material or
otherwise, resulting from inappropriate or improper use of the instrument.
Warning: If the device is used in a manner not specified by Thermo Fisher
Scientific, the protection provided by the device could be impaired.
Thermo Fisher Scientific assumes no responsibility and will not be
liable for operator injury and/or instrument damage. Whenever it is
likely that the protection is impaired, the instrument must be
disconnected from all power sources and be secured against any
intended operation.
Avertissement: Si l'instrument est utilisé de façon non spécifiée par Thermo Fisher
Scientific, la protection prévue par l'instrument pourrait être altérée.
Thermo Fisher Scientific n'assume aucune responsabilité et ne sera
pas responsable des blessures de l'operateur et/ou des dommages de
l'instrument. Si la protection de l'instrument n'est pas garanti à tout
moment, débranchez l'instrument de toutes les sources d'alimentation
électrique et assurez-vous que l'instrument n'est pas utilisé
involontairement.
Page 14 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
1.4 Federal Communications Commission (FCC) Note
This equipment has been tested and found to comply with the limits for a Class A digital
device, pursuant to part 15 of the U.S. FCC Rules. These limits are designed to provide
reasonable protection against harmful interference when the equipment is operated in a
commercial environment. This equipment generates, uses, and can radiate radio frequency
energy and, if not installed and used in accordance with the instruction manual, may cause
harmful interference to radio communications. Operation of this equipment in a residential
area is likely to cause harmful interference, in which case the user will be required to
correct the interference at his expense.
Operating Instructions Page 15
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
Page 16 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
2 Overview
2.1 Unit Description
The NCS-3500RS and NCP-3200RS are the "heart" of the UltiMate 3000 RSLCnano
System. They perform equally well as flexible and reliable modules for routine analysis
and sophisticated research tasks in nano LC and capillary LC, and can be used in numerous
laboratory environments.
• The NCS-3500RS combines a binary high-pressure gradient pump (NC pump), and a
ternary low-pressure micro pump as loading pump, and a column compartment in one
enclosure.
The NCP-3200RS is a binary high-pressure gradient pump (NC pump). This pump is
intended for use in application setups that do not require a loading pump and column
compartment. Thus, the NCP-3200RS is the ideal choice to support the NCS-3500RS as
a second pump, for example, in parallel LC applications.
• The module has been especially designed to work at higher working pressures (up to
80 MPa with Classic flow meter and up to 90 MPa with ProFlow™ flow meter) and thus,
is the appropriate choice for ultra-high performance LC (UHPLC) applications.
• Key features of the pump module
♦ The NC pump includes two highly precise constant pressure pumps that are
controlled by closed control loops and that enable continuous operation without the
need of refill cycles.
♦ The flow meter controls the partial flows of the two channels.
♦ The integrated control principle ensures that the NC pump delivers highly precise
gradients with the low flow rates required for nano, capillary and micro LC
applications. The flow rate is kept stable, independent of backpressure or
temperature changes.
♦ Eluent mixing is performed at the outlet of the flow meter, thus ensuring that the
gradient delay volume is as small as 25 nL.
♦ Continuous direct flow delivery ("splitless") of the NC pump reduces the solvent
consumption considerably compared to splitter-based systems.
♦ The NC pump and the loading pump are fitted with floating pistons, allowing
compensation for small mechanical tolerances within the specification and thus
enhancing the robustness of the pump.
♦ For the loading pump, the patented isokinetic pre-compression allows a precise and
almost pulse-free flow.
Operating Instructions Page 17
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
♦ As a standard, the pump module is equipped with an active rear seal wash system
(→ page 29).
♦ The technical specification meets the highest requirements for flow rate
reproducibility, zero pulsation, and operational reliability (→ page 235).
• Key features of the column compartment
♦ The column chamber can be equipped with one or two column switching valves.
♦ The column chamber provides room for all columns, trap columns, and capillaries
required for nano LC and capillary LC applications.
♦ The column chamber and all components inside the chamber can be warmed up to
temperatures of +7 °C above ambient to 75 °C.
♦ Thermoelectric elements heat the column chamber and all internal components to the
preferred temperature (settable in 0.1 °C increments). Using a heat exchanger, they
allow fast temperature changes and ensure independence from the ambient
temperature.
♦ The columns can be warmed up to max. 75 °C. At an ambient temperature of 25 °C,
an increase in temperature from 35 °C to 65 °C is typically realized in 12 minutes.
♦ Temperature control allows keeping the column temperature constant within the
specified range. The maximum deviation is ± 0.1 °C.
♦ An electronic column identification module allows GLP-compliant documentation
of the column type and all important column parameters (→ page 34).
• Various monitoring and diagnostic features are provided for optimum system
performance and reliability (→ page 36).
• The module is designed for easy access to the fluid components, allowing fast and
reliable maintenance while the module remains in the UltiMate 3000 system stack.
• For the secure and functional positioning of the solvent reservoirs on top of the module
and for high efficiency solvent degassing, the Solvent Racks of the UltiMate 3000 series
are available (→ page 20).
• The module can be fully controlled by the Chromeleon Chromatography Management
System, providing a high degree of system integration.
• All parts that may be exposed to solvents are made of materials that provide optimum
resistance to the most commonly used HPLC solvents and buffer solutions.
Page 18 Operating Instructions
2.2 Module Configurations
2.2.1 Overview
The module is available in the following configurations:
Application Description
Nano LC NCS-3500RS nanoLC/ProFlow
Nano/Cap system including NC-pump with ProFlow flow meter, loading pump, and
column compartment
Basic version without column switching valves
NCP-3200RS nanoLC/ProFlow
Nano/Cap pump with ProFlow flow meter, same as NCS-3500RS, however, without
loading pump and column compartment
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
Capillary LC NCS-3500RS capillaryLC
Nano/Cap system including NC-pump with Classic flow meter for capillary LC,
loading pump, and column compartment
Basic version without column switching valves
The NCP-3200RS nanoLC/ProFlow can be fitted with a Classic flow meter for
capillary LC applications (→ page 202).
Micro LC The NCS-3500RS nanoLC/ProFlow, NCS-3500RS capillaryLC and NCP-3200RS
nanoLC/ProFlow can be fitted with a Classic flow meter for micro LC applications
(→ page 202).
The column compartment can be fitted with one or two column switching valves. The
following valves are available and must be ordered separately.
Column Switching Valve Part No.
2-position, 6-port switching valve 6041.0004
2-position, 10-port switching valve 6041.0001
The column switching valves are suitable for pressures < 86 MPa (12500 psi). For
installation details, see page 78.
Operating Instructions Page 19
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
2.2.2 Combinations of UltiMate 3000 Pumps and Solvent Racks
The Solvent Racks of the UltiMate 3000 system series are an ideal complement to the
module, whether you need high efficiency degassing of the solvents or simply want to
safely organize your solvent reservoirs.
Solvent Rack Part No.
SRD-3200 Solvent Rack with analytical 2-channel vacuum degasser 5035.9250
SRD-3400 Solvent Rack with analytical 4-channel vacuum degasser 5035.9245
SRD-3600 Solvent Rack with analytical 6-channel vacuum degasser 5035.9230
SR-3000 Solvent Rack without degasser 5035.9200
In an UltiMate 3000 RSLCnano system, a SRD-3400 Solvent Rack with analytical 4channel vacuum degasser should be used together with the NCS-3500RS.
Tip: If the UltiMate 3000 system includes an UltiMate 3000 series autosampler, you
should degas also the wash solution on a continuous basis, by using the
vacuum degasser in the Solvent Rack. The procedure how to prepare and
install the liquid lines for the wash solution is similar to the steps for the
solvent supply lines (→ page 63). For information about online degassing of
the wash solution, see the Autosampler manual.
Page 20 Operating Instructions
UltiMate 3000 Series:
NCS-3500RS and NCP-3200RS
2.3 Operating Principle
For information about the operating principles of the individual components of the module,
see section 8.
For the … Find information about the ... On page …
NC pump Interior components (detailed view)
Liquid flow path
Operating principle
Loading pump Interior components (detailed view)
Liquid flow path
Operating principle
Column compartment Interior components (detailed view)
Operating principle
220
221
222
226
227
228
229
230
Operating Instructions Page 21
UltiMate 3000 Series:
3
3 4 4
1
2
NCS-3500RS and NCP-3200RS
2.4 Front Panel Elements
Fig. 1: Front panel view (here NCS-3500RS)
No. Element Function
1
2 Lever Moves the valve actuators or, if already installed, the column switching
3 Display Shows information about the pump (upper display) and about the column
Standby button Switches the module to Standby mode (the LED is lighted).
To cancel Standby mode and resume operation, press the Standby button
again (the LED is not lighted).
Notes:
To allow the module to change the mode, press and hold the Standby
button for at least one second.
If you switch a module to which a SRD-3x00 Solvent Rack is connected
to the Standby mode, the Solvent Rack, too, will be set to Standby mode.
valves toward the front (→ page 78).
compartment (lower display):
- Status screen (→ page 85)
- Functions and menus (→ pages 94 and 96)
In addition, the following information appears on the pump display:
- General information upon power-up of the module (→ page 85)
- Messages (→ page 147)
Page 22 Operating Instructions
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