Shimadzu GCMS-QP2010 Series User manual

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225-00612A
Gas Chromatograph Mass Spectrometer
GCMS-QP2010
Service Manual

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Introduction
This Service Manual is intended for service personnel authorized by Shimadzu Corporation.
It describes maintenance of the GCMS-QP2010 instrument.
Untrained personnel must not attempt maintenance work on the instrument. No
responsibility is accepted for work conducted by untrained personnel.
Safety Precautions
Before starting work, read and fully understand the Danger, Warning, Caution, and Notes
safety items in the yellow page at the beginning of the GCMS-QP2010 System User Guide
(225-00822).
The GCMS-QP2010 contains hot parts, such as the GC2010 heater unit, interface heater
unit, and ion-source heater unit, a high-voltage power supply for the detector unit, and
high-voltage circuits such as the vacuum-measurement circuit. Take sufficient care when
handling high-temperature and high-voltage units.
Disclaimers
(1) The copyright of this document belongs to Shimadzu Corporation, Ltd. The copying or
reproduction of part or all of this manual is prohibited without the permission of Shimadzu
Corporation.
(2) Some parts in this Service Manual may differ from the actual instrument. Due to
product modifications, we reserve the right to change this manual without notice.
(3) This Service Manual is considered complete at the time of production. Any errors or
omissions discovered may not be remedied immediately.
Copyright (C) 2001 SHIMADZU CORPORATION

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Contents
CONTENTS...................................................................................................................................3
1. INSTALLATION.........................................................................................................................5
1. Checking Installation Conditions ...................................................................................6
2. Unpacking, Assembly, Installation .................................................................................8
3. Environment Settings, Start-up.................................................................................... 11
4. Leak Check, Auto-tuning ............................................................................................. 13
5. Auto-tuning ..................................................................................................................15
6. Qualitative Analysis (SCAN Mode) .............................................................................. 16
7. Quantitative Analysis (SIM Mode) ............................................................................... 18
8. S/N Measurements...................................................................................................... 19
9. Batch Processing, Report Printing, QA/QC ................................................................. 20
10. Maintenance.............................................................................................................. 21
11. S/N Measurements CI MODE（OPTION）.......................................................... 22
12.S/N Measurements NCI MODE（OPTION）........................................................ 23
13.Mass patern check Measurements DI MODE（OPTION）.................................. 24
2. MAINTENANCE......................................................................................................................25
1. MS Navigator .............................................................................................................. 26
2. Instrument Configuration ............................................................................................. 28
3. Lens Unit ..................................................................................................................... 29
4. Interface Unit...............................................................................................................31
5. Valves.......................................................................................................................... 32
6. MS Filter Unit ..............................................................................................................33
7. Detector Unit ...............................................................................................................35
8. Turbo Molecular Pump ................................................................................................ 36
9. Main Power Unit.......................................................................................................... 37
10. GC Unit .....................................................................................................................38
11. Updating the Flash ROM ........................................................................................... 39
12. Backing Up and Restoring the E2PROM................................................................... 42
13. Adjusting the RF PS Assy.......................................................................................... 47
3. TROUBLESHOOTING............................................................................................................53
1. MS does not turn on.................................................................................................... 54
2. Abnormal Status LEDs ................................................................................................ 55
3. Cannot connect to MS................................................................................................. 56

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4. Cannot connect to GC................................................................................................. 57
5. No ready status after automatic start........................................................................... 58
6. Pirani gauge, IC value too high, IG does not light ....................................................... 62
7. Loud noise...................................................................................................................63
8. No peaks obtained (peaks extremely small)................................................................ 64
9. Ion-source temperature does not rise or rises too high ............................................... 67
10. Error displayed after filament turns on....................................................................... 69
4. DETAILS OF ELECTRICAL CIRCUITS .................................................................................70
1. Wiring diagram (Overall) ............................................................................................. 71
2. Wiring diagram (MAIN POWER ASSY) ....................................................................... 72
3.Wiring diagram (Details)............................................................................................... 73
4. MAIN POWER ASSY .................................................................................................. 74
5. DC POWER-A............................................................................................................. 77
6. PCB ASSY, MAIN CTRL-A .......................................................................................... 80
7. IS CTRL-A ASSY......................................................................................................... 86
8. HV PCB ASSY ............................................................................................................ 91
9. PCB ASSY, IG CTRL-A ............................................................................................... 95
10. PCB ASSY, CPU-A.................................................................................................... 99
11. RF PS ASSY ........................................................................................................... 102
12. PCB ASSY,DI CTRL-A ............................................................................................ 107
13. RELAY BOX-A......................................................................................................... 110
5. APPENDICES....................................................................................................................... 112
1. Precautions during maintenance work ...................................................................... 113
2. Adjustment in the high mass-number range .............................................................. 114
3. Detailed explanation of CI and NCI ........................................................................... 107
4.Shimadzu Gas Chromatograph Mass Spectrometer .................................................. 111
5.Installation Completion Checksheet ........................................................................... 114
6. How to change Turbopump ....................................................................................... 118

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1. Installation
Day 1
1. Checking Installation Conditions
2. Unpacking, Assembly, Installation
3. Environment Settings, Start-up
4. Leak Check, Auto-tuning
Day 2
5. Auto-tuning
6. Qualitative Analysis (SCAN Mode)
Day 3
7. Quantitative Analysis (SIM Mode)
8. S/N Measurements(EI mode)
Day 4
9. Batch Processing, Report Printing, QA/QC
10. Maintenance
Day 5
11. S/N Measurements(CI MODE) OPTION
Day 6
12. S/N Measurements(NCI MODE) OPTION
Day 7
13.DI check (OPTION)
The schedule above is a basic guide only. Follow it flexibly, according to the customer's
situation and the progress of the installation work. The schedule above is for a standard
installation; it does not include inspection with customer's samples or instruction on analysis.
(Inspection with customer's samples and instruction on analysis require extra days for
installation.)
This section describes the entire installation process. Refer to the Installation Manual
(225-00816) supplied for details about assembling the instrument during installation.

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Day 1
1. Checking Installation Conditions
Confirm the installation conditions, according to the Installation Completion
Checksheet (ZEAV-0416).
Check the power supply.
1)power requirements
Frequency requirements
MS power supply: 115V±5%, 1000VA
230v±5%,1000VA
GC power supply: 115V±5%, 1800VA
230V±5%,2600VA
230V±5%, 2600VA for high-power oven specification.
Not including GC options.
In addition,power for the pc,monitor,and printer must be provided.
*There may be instance in which the current capacity will increase as options are
attached.
2) Ground : 100Ω or less
3)Voltage Fluctuation Range
Specified power supply voltage range:±5%
Operating power supply voltage range:±10%
CAUTION: USE the PC,monitor,and printer that conform to the law and regulation in
respective
NOTE: Be sure sure that power is supplied from a apower sourse with a ground fault
breaker in
NOTE: Voltage fluctuations are established so that the instrument can operate at full
capacity within the range of ±10％,including any transient noise in the AC line.
Note,however,that the voltage fluctuation range that guarantees the performance
specifications should be used within ±５％.・The degree of frequency stability of
power source should be within ±0.5%.

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4) Power cable connection
The end of power cables for GC and MS constructed as shown below.
Power cables for GC
Black: Connected to the HOT side of AC line.
White: Connected to the NEUTRAL side of AC line.
GREEN: For grounding
Power cable for MS
115V Type
230V Type
Check the installation position.
□Can a space of at least 300mm at the rear and 400mm at the left of the instrument be
maintained?
□Is the desk strong enough to easily support about 110kg?
□Is the temperature in the range 18 to 28MC ?
□Humidity: 40% to 70%(with no condensation)
Check the gas.
□Is the He gas of at least 99.995% purity?
Check the exhaust system.
□Is an exhaust duct system available?
If not, attach an EMF3 (042-00124-31) oil-mist filter.
The checkbox marks (□) indicate check items in the Installation Completion Checksheet
(ZEAV-0416).
CAUTION: Be sure to ground the instruments to avoid shock hazards.
CAUTION: Do not place flammable materials near the air exhaust hole of the columm oven in the
Back of the GC.Failure to avoid them may be csuse a fire.

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Day 1
2. Unpacking, Assembly, Installation
Unpacking
The entire unit comes in six corrugated-fiberboard boxes: GC, MS, RP, PC, CRT, and printer.
The GC unit weighs 30kg and the MS unit weighs 45kg. Take care to avoid accidents when
unpacking these heavy boxes. After opening the boxes, check that all accessories have
been supplied correctly.
Assembly
Check that the desk is strong enough to easily support the GC, MS, and PC (totaling
approximately 110kg) and does not distort or become unstable.
Position the instrument with a space of at least 300mm at the rear and 400mm at the left of
the MS unit.
Connect the wiring and tubes as shown in the diagram below.
Check the following points before turning on the power.
AC line insulation checks (with a tester)
GC: Turn on the main switch and confirm that the resistance across the power line and earth
exceeds the limit of measurement.
MS: Confirm that the resistance of the I/F heater (connector eor hto earth) exceeds the
Carrier gas connector port
GC power cable Vinyl tube for vacuum
RS-232C cable (GC) IEEE1394 (PC)
MS power supply switch
(Circuit protector: 10A)
1:ON
0:OFF
~: AC voltage
Rotary pump power outlet
MS power inlet
GC/MS Rear View

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limit of measurement.
Turn on the main switch and confirm that the resistance across the power line and earth
exceeds the limit of measurement.
Other visual insulation checks
Open the front door of the analysis tube and check that the filament heater and
thermocouple are in the correct positions. Check that the wiring does not contact the
surrounding components.

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Check the following points about the carrier gas connections.
Carrier gas pressure
The operational gas supply pressure to the GC is in the range 300 to 980kPa. But some
supply pressures have a limiting effect on the pressures that can be set at the GC. The
normal supply pressure is 700 to 800kPa.
Carrier gas purity
Leaks from the pipes and organic matter can hinder high-accuracy measurements
(particularly for integrated piping).
Residual air in pipes and air in the analyzer also have an adverse influence on analysis.
Be sure to conduct the following checks when connecting the pipes:
cPurge the pipes. (Place a piece of paper over the end of pipes and check that no color is
visible.)
dSniff the gas to check it has no bad smell.
ePurge the GC connector for several minutes.
fSet the GC total flowrate to maximum and leave for 10 to 20 minutes.
Mounting the column
Mount the column, as described in section 3.2 Preparation for Analysis of the Operation
Guide.
Caution
Minute traces of interfering components appear easily in the analysis results due to the high
sensitivity of the instrument.
Never touch the septum or glass insert at the inlet with bare hands.
When mounting the column, wipe all parts with acetone before inserting them.
Installation
All required software is preinstalled in the PC set but, unless the latest software versions are
installed, the software must be upgraded to the latest version.
Refer to applicable Technical Information for details about how to obtain the latest software
and the method of installation.

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Day 1
3. Environment Settings, Start-up
Turn on the instrument power supplies in the following sequence:
cpretreatment unit
dGC
eMS
fprinter and monitor
gPC
When the power is turned on for the first time after connecting the MS and PC, the MS driver
is installed automatically. Install the driver in accordance with section 8.8.3 Installing the
MS driver of the System User Guide.
Outline Procedure (See the System User Guide for more details.)
Press [Next (N)].
Display the list of the known drivers of the device.
Select “Another Device”.
Press [Next (N)].
Press [Use Disk].
Insert the CD-ROM
Enter "E:¥Driver" and press [Enter].
Select “Shimadzu GCMS-QP2010”.
Press [Next (N)].
Press [Next (N)].
Environment settings
Set up the software environment, as described in section 3.3 System Configuration of the
Operation Guide.
Start-up
Start evacuation, as described in section 4.1 Starting and Stopping the Vacuum System of
the Operation Guide.
Hint

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Press [Manual] on the Start/Stop window to monitor the vacuum status and degree of
vacuum.
Go to Section 3 if problems occur!

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Day 1
4. Leak Check, Auto-tuning
Leak check
Check for air leaks with the instrument unheated, as described in section 4.2 Leak Check of
the Operation Guide.
□Is m/z28 within twice m/z18?
Set the temperature of the ion source, INJ, COL, and interface and repeat the check to
ensure stability.
□Is the temperature stable (Has the READY lamp gone out?)
□Is m/z28 within twice m/z18?
Auto-tuning
Check that auto-tuning can be conducted normally.
Conduct auto-tuning, as described in section 5.1 Auto-tuning of the Operation Guide.
□Is the detector voltage in the tuning report 1.8kV or less?
□0.10 maximum discrepancy between FWHM for m/z69, 219, and 502?
□Is m/z69, 131, 219, 264, 414, 502, and 614 mass-number displacement C0.10 max.?
Checks on the Peak Monitor window
□Does the peak intensity change when each lens voltage is changed?
□Does the m/z69, 219, and 502 peak amplitude drop below 0.50 when the RF offset is
increased?
The checkbox marks (□) indicate check items in the Installation Completion Checksheet
(ZEAV-0416).
Settings at the end of the initial day
Set a high GC total flowrate (100 to 200 mL/minute) to lower the residual air in the carrier
gas.

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Do not increase the ion source or interface temperature above the level required for
analysis.

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Day 2
5. Auto-tuning
Leak re-check
Conduct a leak check to confirm that the air has reduced since the initial day.
Confirm that m/z32 / m/z31 does not exceed 3 when SI(PFTBA) is inserted.
Check for external abnormalities
Look at the external appearance of the instrument and listen for noises to confirm no
abnormalities are present.
Operation Description
Auto-tuning is described in section 5.1 Auto-tuning of the Operation Guide.
Points to Explain to the Customer
Auto-tuning must be conducted before starting a series of analyses.
Do not conduct auto-tuning between measurement and quantitation.
Conduct auto-tuning while the temperature is stable.
If the instrument was stopped, wait at least two hours for the temperature to stabilize before
conducting auto-tuning.
Vacuum leak check in the tuning report.
Confirm that the detector voltage does not exceed 2kV.

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Day 2
6. Qualitative Analysis (SCAN Mode)
Describe the method of qualitative analysis using a standard sample, such as OFN
100pg/µL.
Operation Description
Explain the file types described in Section 2.9 Common Operations of the System User
Guide and how to use Data Explorer, and create a new project folder.
Explain the analysis method and data analysis method in accordance with section 6
Qualitative Analysis (SCAN Mode) of the Operation Guide.
Points to Explain to the Customer
How to use Explorer
How to use the Method Wizard and how to check the methods created
Carrier-gas pressure setting range (column flow to 15mL/minute)
Meaning of "solvent elution time"
Standard values of each parameter
How to save method files
How to register samples
How to run the data-processing program
How to expand TIC
How to eliminate background noise
How to display mass-chromatographs
How to search libraries
How to register spectral processing tables
Conduct an S/N check, if time is available.
See section 8. S/N Measurements for details about the measurement conditions.

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Conduct three measurements. Do not continue the measurements if the S/N is lower than
the criteria.
(After several dozen injections, waste from the septum can contaminate the insert, making
S/N hard to measure.)

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Day 3
7. Quantitative Analysis (SIM Mode)
Describe the method of quantitative analysis using a standard sample, such as OFN
100pg/µL.
Explain the analysis method and quantitation method in accordance with section 7.
Quantitative analysis (SIM Mode) of the Operation Guide.
Points to Explain to the Customer
Principle of SIM, explanation of channels and groups
How to create methods
Settings in Analyzer Monitor
Hot to register target components
Setting quantitation parameters
Creating the Compound Table (using Wizard)
Measuring unknown samples

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Day 3
8. S/N Measurements
Measure S/N.(EI MODE)
SAMPLE OFN 1pg/ul (isookutane solvent) 1ul
Measurement Conditions
INJ 250MC
SPLITLESS mode (sampling time 1.0 minute)
COL: 50MC (1min) - 40MC / min - 200MC (0min) - 15MC / min - 280MC
I/F: 250MC
IS: 200MC
He: during injection 250kPa, 1 minute
(HIGH-PRESSUREINJECTION mode)
during analysis 120Kpa
Total flow: 50mL/minute
MS: SCAN mode (mass range: m/z200 to 300)
interval 0.5s
detector voltage relative value: +0.4 (absolute value: 1.4 to 1.6kV)
measurement time: 3.0 to 10.0 minute (solvent elution time: 3 minutes)

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Day 4
9. Batch Processing, Report Printing, QA/QC
Describe continuous analysis using section 8. Batch Processing (Continuous Operation) of
the Operation Guide.
(Go through this description, even if the customer has no pretreatment unit or autosampler.)
Points to Explain to the Customer
How to create batch files (using Wizard)
Describe the method of printing reports using section 9.Report Printing of the Operation
Guide.
Points to Explain to the Customer
The differences between the two report formats (graph image and report)
Method of printing graph images
Method of generating reports
How to use templates
Explain the QA/QC functions using section 10. Quality Assurance and Quality Control
Functions of the Operation Guide.
Points to Explain to the Customer
Explain an outline of the QA/QC functions.