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Clarus 600/650 D MS Hardware Guide

1. Remove the A screw securin q thermocouple 1 P N E640 0213 2 Loosen and LL Remove Nut Feed Connector 3 Remove all wires aa 10 contact pins Pull all wires down l through feed connector 5 Thread all new wires 1 up through feed connector and OT I connect wires on contact pins 6 Tighten Nat Pi 7 Secure the q i replacement To thermocouple i m with the screw o Figure 54 Replacing the thermocouple 140 Maintenance Removing the Outer Source from the lon Optics To remove the outer source from the ion optics follow this procedure use Outer Source Rebuild Kit Part No E640 0042 1 a Position the ion optics assembly as shown f Outer Source Assembly of lon Optics Assembly Remove tubes Remove screw
2. 3 Remove the two screws securing 4 Place the outer source assembly outer source to the ion optics on a clean work surface Screw 1 of 2 one each side Wo Figure 55 Removing the outer source from the ion optics assembly 141 Clarus 600 MS Hardware Guide Replacing Outer Source Heaters Items and Tools Required e Two Cartridge heaters Part No E640 0202 e Tweezers e Lint free powder free PVC gloves Part No N621 2495 Small flat blade screwdriver To replace the outer source heaters follow this procedure 1 Position the outer source base plate on a clean work area so that the clamp plate faces up 2 Using a flat blade screwdriver loosen the three screws that connect to the three pillars The four ceramic rods Part Number E640 1319 are very fragile Use CAUTION extreme care when removing the support plate and lens 3 Carefully lift the clamp plate Part Number E640 1322 straight up and put it aside Carefully lift and remove the contact support plate from the four ceramic rods Remove the pillar Unplug the outer source heaters from the quadrupole heater Using a flat blade screwdriver loosen the outer source heater setscrews OO O ee Slide the old heaters out of the outer source block and insert the new heaters Part Number E640 0202 9 Ti
3. Ground g y green yellow wire Purple wire To outer source cartridge heater this side Lens 2 Focus Plate Orange wire Lens 1 Focus Plate green wire gray wire Wiring Connections to the Contact Trap yellow wire Support Plate Repeller K View from Front white wire Contact Ring Part No N6470055 black wire red wire Filament Figure 61 Reconnecting the wires to the outer source 151 Clarus 600 MS Hardware Guide Reassembling the Clarus 600 560 D MS 152 To reassemble the mass spectrometer follow this procedure 1 2 Remove the aluminum foil covering the vacuum manifold Hold the ion optics assembly by its handles and align the guide pins with the holes in the vacuum manifold Gently lower the ion optics assembly until it is seated on the vacuum manifold Replace the four screws and tighten fingertight Remove the laboratory wipe from the PMT hole and reinstall the PMT assembly Observe the orientation of the PMT tube as shown in the detail Insert the end of the head amplifier ground wire through one of the screws for the PMT assembly Insert this screw into the hole in the 2 o clock position and insert the other screw in the other hole Tighten both screws fingertight Using a 4 mm hex wrench tighten both screws 1 4 turn past fingertight Plug the head amplifier board onto the pins on the PMT Maintenance Detail of Photomultiplier T
4. 86 Maintenance Vent the System 1 Once both the Inlet Line and Source temperatures have dropped below 100 C select Vent Vacuum System Off from the Options menu The Vent Pump dialog appears All pumps are turned off 2 Click OK 3 Observe the Vacuum Pressure Gauges status on the Tune window The gauge goes to ZERO after the turbopump reaches 50 speed and the vent valve is opened NOTE Mass Spectrometer venting may take several minutes depending on the helium flow and or vent gas flow into the manifold 4 The system is now vented to atmosphere or optional dry gas Turn off the GC Carrier Gas Turn off helium carrier gas flow to the MS if you do not have a purge flow of high purity nitrogen Do not allow the vented mass spectrometer to fill with helium for more than 5 hours Failure to do so can damage the photomultiplier detector and require a service call not covered by warrantee or contract CAUTION Set all temperatures to ambient Once the GC column oven source and transfer line are cool you may then turn off the GC carrier gas 87 Clarus 600 MS Hardware Guide Changing a Column To ensure that the mass spectrometer remains contamination free wear CAUTION powder free lint free gloves while performing this procedure Tools and Items Required e New column e Column wafer scribe Part No N930 1376 e Two high temperature septa e Two inch open end wrenches e Lint free
5. Clean prefilters Clean the particulates of the rods with a methanol dampened lab wipe Blow the particulates off the rods with helium or dry nitrogen Call a PerkinElmer service engineer Turn on the reference gas Visually check and refill Listen for click when activating deactivating the valve Clarus 600 MS Hardware Guide Inconsistent peak widths Poor tubing Ground loop from GC and Unify supplies MS on different power supplies Peaks shifted from their Poor calibration Perform mass calibration nominal mass position Tuned peaks are too narrow Over resolved tuning Tuned peaks are too wide Under resolved tuning Big peaks observed at m z Air leak developed Check column 18 28 32 connections Change carrier gas tank Fit oxygen scrubber Moisture from recent Bake out source source clean column overnight No ion beam but the filament Large air leak See procedure for leak status OK checking Detector voltage too low Increase PMT value Electronics failure Call a PerkinElmer service engineer Poor sensitivity Beam Column improperly Check and reinstall the instability peaks breaking up installed column if necessary 188 189 Total Ion Chromatogram too high No noise on mass chromatogram Probable Cause Piece of column broken off in the ion chamber Source filament is bent RF generator malfunction Analyzer drive electronics malfunction Dirty source
6. Contamination from poor handling technique Stationary phase of column de polymerizing bleeding Air leak Poor quality carrier gas Carrier gas filter is ineffective and needs replacing Detector multiplier voltage too low Remove the inner source check for and remove piece of column Check and replace filament if necessary Call a PerkinElmer service engineer Call a PerkinElmer service engineer Clean the source Set source and transfer line to 250 C and maintain this temperature overnight Change column Find the leak and fix it Replace the carrier gas tank Replace the carrier gas filter Increase the multiplier voltage Clarus 600 MS Hardware Guide GC and MS on separate power Connect GC and MS together supplies with the ground strap Data acquisition thresholds set too Raise the thresholds low Instrument won t calibrate Poor AutoTune Manual tune Retune after retuning and recalibrating Contaminated ion source Clean the ion source Set the source temperature to 250 C and maintain this temperature overnight Source too hot cool Set the correct source temperature Wrong calibration reference file Select the correct file selected Incorrect calibration calculation Set the calibration parameters to parameters the default values No calibration gas Refill the calibration gas vial Incorrect electron energy Reset to 70 eV 190 Chromatography Relat
7. Default SPL File Edit Samples Run Yiew Quantify Configure GC Tools Help alsm 5 gt man Waa taml alale all gle E 22 8 Gc FileName MS Method GC Method Vial Injector Sample 10 File Text I Conditions Quantify Method persun DEFAULT DEFAULT WEA O mm l Oyen Temp General Status GC Status MS Operate Pressures Filament Cpm Index Acqui Description Index Proc Instrument Not Present 68 Description Shutdown Enabled Clarus 600 GC MS User s Guide Tune Page The Tune Page allows you to tune the mass spectrometer control the gases set the GC interface temperature and monitor the instrument vacuum pressure Press for Operate ii 69 Clarus 600 MS Hardware Guide 70 Analytical Column The analytical column inside the Clarus GC oven provides the sample separation Make sure you select the proper column for your analysis PerkinElmer offers a wide range of columns in the Gas Chromatography Column Catalog The TurboMass Tutorial provides additional column selection tips There are several things to consider when choosing an analytical capillary column Know the types of samples you will be analyzing Are they volatile semi volatile pesticides solvents etc Select a stationary phase based on polarity of the sample A very general rule in column selection is that
8. Figure 35 Removing the ion chamber and aperture plates and cleaning the areas shown Cleaning NOTE You can do the following cleaning method of aluminum oxide paste or use the 6000 or 8000 grade micro mesh to polish the flat surfaces of the parts For either cleaning method the final step you must sonicate the parts in an ultrasonic bath of methanol for at least five minutes Dry off the parts using lint free tissue and or clean compressed Nitrogen gas to prevent solvents from drying on these parts and leaving a residue 115 Clarus 600 MS Hardware Guide 1 Mix together aluminum oxide and de ionized water and a few drops of methanol to make a watery paste 2 Dip a wooden stick cotton swab in the solution and scrub the darkened areas on the source Work quickly to prevent the mixture from drying on the surface Rinsing and Reassembling 1 Add 50 mL of acetone to a 100 mL beaker insert the source assembly ion aperture plate ion chamber plate and sonicate in an ultrasonic bath for ten minutes Do not allow the acetone and methanol to touch the O ring on the source CAUTION 2 Carefully drain the acetone 3 Add 50 mL of methanol to another 100 mL beaker insert the source assembly ion aperture plate ion chamber plate and sonicate in an ultrasonic bath for at least ten minutes 4 Carefully drain the methanol Source Assembly 50 mL sonocation solution in 100 mL Beaker Figure 36 Rinsing the aluminum oxide from t
9. Tighten the drain plug or replace Tighten sight glass screws or call a PerkinElmer service engineer Message Dialogs When operating the instrument message dialog boxes will sometimes appear The following table is the Icon Key followed by tables that show the Message Title icon dialog message and recommended action Icon Key Icon Meaning x Press this icon to close the message e dy Press this informational icon to get more details on the message 201 Clarus 600 MS Hardware Guide Message Title Diffusion pump failure System not at pressure y Caution Safe to vent 202 Message There is a problem with the diffusion pump Either the diffusion pump fan has failed or the pump has over heated Please look in the Hardware Guide for additional instruction The system has not reached the proper operating pressure The filament could be damaged by starting the system now Do you wish to continue The vacuum system is off and the system can now be vented The GC carrier gas should be turned off Press OK to close the message Check the cooling air flow and correct if possible Check the cooling air duct for obstructions and correct as necessary If the cooling air flow is fine and there are no obstructions contact your PerkinElmer service representatives Press Yes if you wish to continue Press No if you wish to stop See the Maintenance chapter in
10. lon Trap __ Repeller P N E640 1220 PI E640 1219 mm Spacer gt amp 2 OR E PIN E640 1222 2 mm Spacer P N E640 1222 je mm Spacer P N E640 1221 12 mm Spacer P N E640 1221 p Figure 31 Inserting the ion trap and repeller into the inner source 2 Invert the source and insert a crumpled laboratory wipe into the repeller and ion trap 3 Using tweezers install the remaining ceramic pieces spacers and nut first on the ion trap and then on the repeller 4 Tighten each nut with a 2 mm open end wrench 111 Clarus 600 MS Hardware Guide 5 Replace the filament assembly Nut P N E532 1018 her Was P N E533 1013 Trap Contact P N E640 1217 6 mm Ceramic Spacer I P N E640 1224 L Nut P N E532 1018 Washer PIN E533 1013 Repeller Contact P N E640 1216 S Locator SS P N E640 1218 B mm Ceramic Spacer P N E640 1224 and Clarus 560 D i i Post removed to show parts assembly path Laboratory Wipe crumpled and inserted into the ion chamber and trap areas Figure 32 Installing the ceramics contacts washers and nuts on the repeller and ion trap 112 Maintenance Ensure filament coil aligns with hole Rhenium pe Filament Assembly P N N6470012 Screw ka Washer Contacts Figure 33 Replacing the filament assembly CI Inner Source Maintenance The supplied CI inner source assembly can be u
11. resulting optical signal is detected by the photomultiplier PMT About the Clarus 600 560 D System Vacuum System The source ion optics analyzer and detector are fitted inside a cast aluminum chamber Vacuum is applied to the chamber using a rotary pump and a turbomolecular pump The vacuum is monitored through a wide range gauge The rotary pump sits on the floor and a turbomolecular high vacuum pump or an air cooled oil diffusion pump Clarus 600 D is mounted under the ion optics chamber Rotary Pump The Clarus 600 MS has a 3 m hr computer controlled mechanical pump The turbomolecular or diffusion pump is backed by this direct drive rotary pump The rotary vane pump rests on the lab floor and may be positioned beneath the instrument Care should be taken to avoid mechanically coupling vibrations from this pump to the mass spectrometer Operation and maintenance details about these pumps can be found in the manuals provided with the pump The rotary vane pump also called the forepump provides the first level of vacuum to approximately 2 x 10 Torr The pump has a switchable dual voltage 59 Clarus 600 MS Hardware Guide 60 Voltage Selection Switch Under Cover Handle TurboMass Connection Port Oil Filler Plug Gas Ballast Switch Mode Selection Switch Drain Plug Oil Level Indicator Figure 9 The rotary fore pump Connect the rotary pump exhaust to a line vented to
12. sonsesmsmiern n aa a T N E S 69 Analytical Column aiye A edie a eaS 70 Pre Qperational CheckliStassnyen sinne nnernnieny eeen inea 71 Maintenance sesseseeseeseecesoeseecesoeseccosoeseeeoeseecesoeseecoroeseesorseecesoeseecesseseee 73 OVELVICW aesa EE A aae AE eE RE A Ea EOE Ern Beton EESE ATES ESAT 75 Typical Overall Maintenance Schedule sneeeeeeeeeeeseeeeeeerssreerrsresresreesesns 77 Daily cesuitsiieeeteha sect birtacests stieseststigeietesoea bi dbacepsateawet stelaeat hale al a e REN 77 Weeklys miae i Ps nate a e a ms Seth ae ee Es eee 77 Monthly sietini i a EEEE acess age ENE EE ER a 78 Every Six Months jviasacii cic ich teaser aida 78 MN CALL Yy sites ERRE cv yelesess eadoesesesf etaae hiies ie sbiguul E daebinews vedere 78 Contents Leak Checking rccciissetetatiaceist caachetesagessptbacet bot iavehbbe crude slecateend cheated naire 79 Tuning Clarus 600 560 D MS seessseeeessereerisresresrrssesrisserrrssresresresresressesees 82 Preparing Clarus 600 560 D MS for Hardware Maintenance 0 85 Changing a Colmi insien osaa ree aa tira cated Aaa Eia aeS 88 Toolsand Items Required ts 02 2 2sicii ser dteeiie eeii a 88 Removing a COMM ss ssecrseiocssseapedeigytassctaeceastaiseeetse teas saad meeaaestat 88 Connecting the New Column to the Split Splitless Injector 91 Connecting a New Column to Clarus 600 MS sesers 94 Refilling the Reference Gas Vial oo eeeeceesesseeeseeeseecneecaecsseceaecns
13. trap for detailed installation and operating instructions 159 Clarus 600 MS Hardware Guide 160 WARNING Changing from El to CI Mode Changing modes consists of the following e Connecting the CI gas e Changing the source and instrument control mode e _ Leak checking e Setting up CI Connecting the CI Gas Hazardous gas vapors When using ammonia gas when running in the chemical ionization CI mode it is necessary to vent the mass spectrometer effluent from the forepump exhaust into a fume hood or outside the building Explosive Hazard If the hydrogen is turned on without a column attached to the injector and or detector fittings inside the oven the gas could diffuse into the oven creating the possibility of an explosion If the mass spectrometer is not under vacuum hydrogen can fill the vacuum chamber thereby creating an explosive hazard WARNING To avoid possible injury do not turn on the hydrogen unless a column is attached all joints have been leak tested and the mass spectrometer is under vacuum with the forepump exhaust properly vented to a fume hood NOTE Maintenance Recommended Gases Reagent gases used in chemical ionization CI are methane with a minimum purity of 99 999 isobutene with a minimum purity of 99 98 and ammonia with a minimum purity of 99 998 Carrier gas tubing should be ultra clean Methane and isobutene require a gas delivery pressure of 15 psi 104
14. 102 Maintenance Gas Tight Syringe Reference Gas Vial 50 uL max Figure 25 Filling the reference gas vial 6 Re insert the reference gas vial into the mass spectrometer Make sure the O ring is still present and the tapered end of the ferrule faces the mass spectrometer 7 Tighten the knurled nut with your fingers until fingertight 8 Return the bracket to the proper position and use a 5 32 inch Allen wrench to retighten the two Allen nuts to the bracket 9 Replace the top cover and pump the system down to the proper vacuum 10 From the Gas Menu select the Reference Gas Option from the drop down menu Leave the Reference Gas Valve open for 60 minutes with Operate off to pump to pump out the gas from the bulb before tuning the mass spectrometer NOTE On the Tune Page the Gas drop down the Pump Out Reference Gas choice no longer works If you try to have both the Reference Gas On and the Pump Out Reference Gas options selected you will get an error message To avoid an error message make sure to only check Reference Gas On 103 Clarus 600 MS Hardware Guide Inner Source Maintenance Inner source maintenance consists of cleaning those components that contact ions For example e FI source the ionization chamber repeller trap ion exit plate and ion entry area e CI source the ionization chamber ion entry area and ion exit plate Never clean the filament If the filament is open replace it by following CA
15. 4 Pull the inner transfer line tube back 25 mm 1 inch NBS Transfer Line eff Column 1 4 inch Nut Figure 46 Pulling back the transfer line 5 Loosen the two thumbscrews on the inner source grab it by its handle gently pull it out of the mass spectrometer and set it on a clean surface 130 Maintenance 6 Close the mass spectrometer access door Access Door Inner Source Black Thumbscrews Handle Figure 47 Removing the inner source Removing the Mass Spectrometer Cover Panels The mass spectrometer contains high voltage To prevent the risk of shock unplug the line cord from the AC outlet and wait at least one minute before opening or removing any instrument cover or panel WARNING 1 Turn off the Clarus GC and Clarus MS 2 Unplug the AC line cords from the AC outlets 3 Remove the four screws securing the rear panel remove the rear panel and lay it on the bench If necessary disconnect the fan wires 4 When reconnecting the fan wires make sure the fan blows the air into the mass spectrometer 131 Clarus 600 MS Hardware Guide 5 Remove the two screws on the left side of the top panel and remove the top panel Top Panel Screws 2 l l l l 1 l l 4 WT cass eee St a l l a ee D 1 l Left Side Panel CY ae PMT Access Pa
16. EI to the CI mode 1 Remove the EI inner source by following the procedure described in earlier in this chapter Removing the Inner Source 2 Install the CI source by following the procedure described in on page 105 Properly cover and protect the EI source and put it in a safe place 3 Select Cl from the lon Mode menu The CI window appears 162 Rotary Pump Power Power In Warning Labels Maintenance 4 Select Pump from the Options menu This starts the forepump and the turbomolecular pump 5 Inthe Vacuum Pressure Gauges area of the window observe the Pirani gauge time line and the Penning gauge time line Wait about 5 minutes until the vacuum gauge achieves about 2 5 x 10 Leak Checking Before running in the CI mode confirm that the column is properly installed and the system is leak free The best way to check this is by running CI without the reagent gas 163 Clarus 600 MS Hardware Guide To leak check the system 1 Display the Tune page 2 Select Cl from the lon Mode menu 164 Maintenance 3 Click Press for Operate and observe the air water masses FE TunePage c ci pro acqudblci ipr Fie nM Caltration Gis Options Help e a ma s ole tji 2 The CI source running in the CI mode without reagent gas to produce an EI emission similar to the EI mode but with reduced sensitivity You will leak check your system this way If mass 28
17. Inner Source as described on page 105 To ensure that the mass spectrometer remains contamination free CAUTION make sure you are wearing powder free lint free gloves Part No N621 2495 and that all tools have been cleaned with a methanol dampened laboratory wipe 3 Using a small flat blade screwdriver loosen the screw that secures the defective filament assembly to the source Use tweezers to remove the screw and washer 4 Pull out the defective filament assembly 121 Clarus 600 MS Hardware Guide Defective Filament Assembly Screw P N E531 4043 Washer P N E533 1031 Figure 41 Removing the defective filament assembly 5 Using a 0 8 mm hex wrench loosen the two screws that secure the contacts to the filament assembly leads Remove the two contacts 122 Maintenance 0 8 mm Hex Wrench Contacts Defective Filiment Assembly Figure 42 Removing contacts from the defective filament assembly 6 Position the new filament assembly with the filament side up 7 Insert the contacts on the new filament assembly leads so that they are flush with the white ceramic and positioned with the hex screw side facing up 8 Secure the contacts to the filament assembly by tightening the hex screws with a 0 8 mm hex wrench Tighten firmly but do not overtighten 123 Clarus 600 MS Hardware Guide 1 Insert Contacts a New Filament Assembly Sy P N E647 0012 Contacts 2 P N ad
18. Turn off the mass spectrometer 3 Unplug the AC line cords from the AC outlets 4 Remove the four screws securing the rear panel and remove the rear panel 5 Remove the two screws on the left side of the top panel and remove the top panel 6 Remove the head amplifier board cover 7 Remove the cable connector to the board 8 Pull off head amplifier board removing the screw with the ground wire on it 9 Install a new board making sure that you do not over tighten the screw with the ground wire NOTE Pins on the photomultiplier are key for proper alignment 10 Replace the photomultiplier head amplifier board cover cable connector replace the panels turn on the mass spectrometer and pump down the system to the proper vacuum 126 Maintenance 11 Go to the Head Amplifier electronic adjustment procedure Detail of Photomultiplier Tube Pin Connections Note keying position of va short pin when plugging b the Photomultiplier Tube into the Head Amplifier g i Head Amplifier Board a P N E640 9032 s a ge Cover a gt N b Ground Cable a nn Bi Lock Washer Figure 45 Replacing the head amplifier 127 Clarus 600 MS Hardware Guide 128 Mass Analyzer Maintenance The analyzer element of any high performance quadrupole mass spectrometer is of necess
19. Warnings and Safety Information materials unless you have received appropriate safety training and have read and understood all related Material Safety Data Sheets MSDS MSDSs give information on physical characteristics precautions first aid spill clean up and disposal procedures Familiarize yourself with the information and precautions contained in these documents before attempting to store use or dispose of the reagents Comply with all federal state and local laws related to chemical storage handling and disposal You must work under a suitable hood when handling and mixing certain chemicals The room in which you work must have proper ventilation and a waste collection system Always wear appropriate safety attire full length laboratory coat protective glasses gloves etc as indicated on Material Safety Data Sheets When using toxic samples the mechanical pump oil is toxic waste Some chemicals used with the mass spectrometer may be hazardous or may become hazardous after completion of an analysis The responsible person for example the Lab Manager must take the necessary precautions to ensure that operators and people in the surrounding workplace are not exposed to hazardous levels of toxic substances chemical or biological as defined in the applicable WARNING Material Safety Data Sheets MSDS or OSHA ACGIH or COSHH documents Venting for fumes and disposal of waste must be in accordance with all national state an
20. Your laboratory must have reliable fume ventilation system before you use this instrument WARNING Adequate ventilation must be provided particularly if a liquid nitrogen or carbon dioxide subambient accessory is in constant use The area underneath the bench around the forepump should be well ventilated An oil separation filter and charcoal trap should be installed at the outlet of the forepump exhaust to prevent contamination if fume hood venting is unavailable To ensure adequate cooling of the instrument electronics do not obstruct the gap at the base of the Clarus MS Clarus GC and if practical leave a minimum 6 inch clearance between each instrument in the system for example the ATD or HS 40XL This does not include the Clarus MS Clarus 600 GC as they are connected together Heated Zones Risk of burns Never touch a heated mass spectrometer transfer line or a GC injector cap with unprotected bare fingers WARNING Heated zones should be treated with caution for example the transfer line injector caps and detectors In addition the detector cover may get hot especially if flame ionization detectors are operated at high temperatures As a general rule allow heated zones to cool before attempting to work in the GC oven on the transfer line on an injector around the detector areas or inside the mass spectrometer manifold Cooling of the transfer line may require a wait of 1 2 to 1 hour 23 Clarus
21. and quantitation of compounds separated by the Clarus 600 560 D GC Even if the compounds coelute the mass spectrometer can still positively identify and quantitate each compound Clarus 600 MS is designed to run analyses that best identify your sample by using the electron impact EI or chemical ionization CI mode The Clarus 560 D MS runs analyses that identify your sample by using the electron impact EI mode The Clarus 600 560 D system is controlled by a PC using TurboMass Software The application runs in a Microsoft Windows XP SP2 operating environment The software user interface contains color graphics and provides full user interaction with either the keyboard or the mouse TurboMass completely controls the GC MS system from tuning and data acquisition scanning or selected ion recording mode through quantifying your results Complete operating instructions of all TurboMass controls are in the TurboMass Software Guide part number 0993 6767 supplied with the system A high performance research grade analytical quadrupole mass analyzer with a quadrupole prefilter assembly transmits only those ions having your selected mass to charge ratio The prefilter rod set improves sensitivity and protects the analytical quadrupole rods from contaminating ion deposits Ions emerging from the quadrupole mass analyzer are converted to photons and detected by the photomultiplier detector system The low noise photomultiplier typically operates wi
22. below the MAX mark repeat the above procedure by adding more oil until it reaches the MAX mark 158 Maintenance Inline Gas Purifiers The inline gas purifier lets you change the trap without introducing contaminants into your system This eliminates the need to flush the system The trap contains oxygen moisture and hydrogen adsorbents and is packed and purged under helium Color changes in the glass indicating trap will indicated when filter needs to be replaced The click on connector fitting has a spring loaded needle valve which seals when the trap is removed and only opens when the new trap is connected and locked into position When the click on connectors are installed into the gas line here is no need to loosen or tighten any fittings the new trap will just click in Replacement Traps Description Part No Indicating Glass Triple Gas specific He N09306107 Oxygen Moisture Hydrocarbons Indicating Glass Triple Gas specific He N09306114 Oxygen Moisture Hydrocarbons with 1 8 Brass Connector 2 Indicating Glass Triple Gas specific He N09306116 Oxygen Moisture Hydrocarbons with 1 8 Steel Connector 2 Click On Connectors Description Part No 1 8 Brass Connector 2 N09306119 1 8 Steel Connector 2 N09306120 Stain steel Connector for connecting two click on traps N09306121 Refer to the installation instructions that accompany your new in line gas purifier
23. column end using a wafer scribe part number N930 1376 pkg of 10 scribes Break off the tubing at the score mark so that the break is clean and square Examine the cut with a magnifying glass and compare it to the examples shown in Figure 14 a lt Good Cut T rs Bad Cuts E 23 N Figure 14 Good cut and bad cuts 92 Maintenance 4 Locate the capillary injector fitting inside the oven 4 8 inch Capillary gt gt gt Injector Fitting Figure 15 Location of the capillary injector in the oven 5 Position the septum on the column as shown in the following table Injector Type Column Insertion Dept measured from the back of the nut to the end of the column CAP 4 44 to 5 1 cm 1 to 2 inches PSS 3 8 to 4 44 cm 1 to 1 inches Flush with the septum end of the injector 6 Insert the column into the capillary injector fitting 7 Hand tighten the column nut 1 4 turn past fingertight Using two inch wrenches tighten the column nut only until the column cannot be pulled out of the fitting Do not overtighten column nuts Overtightening can cause damage to the ferrule and or column CAUTION 93 Clarus 600 MS Hardware Guide 94 Connecting a New Column to Clarus 600 MS 1 Uncoil 50 cm 20 inches from the new column Place the column on the column hanger in the oven 50 em Column
24. from as many as 82 vials and one priority vial using one or two autosampler programs if not under TurboMass control In the latter case a different GC method can be used by each program if desired PPC provides real time digital readouts to simplify setting carrier gas pressures and flows Figure 5 Clarus 600 Mass Spectrometer 52 About the Clarus 600 560 D System GC Interface Transfer Line The detector end of a capillary GC column in the Clarus 600 560 D GC oven is inserted through a temperature controlled transfer line and optimally positioned so that the column end is flush with the inner wall of the EI or CI ion source The transfer line is temperature controlled by Clarus MS and has a 350 C upper limit If the Clarus 600 GC detects improper operation for example no carrier gas and goes into an alarm condition it will turn off the temperature to the transfer line CAUTION Do not use metal capillary columns in the transfer line They may electrically short out the source Figure 6 The transfer line 53 Clarus 600 MS Hardware Guide 54 Reference Gas Inlet The reference gas inlet system consists of a glass bulb filled with heptacosa FC43 connected to tubing which directs it to the ion source You can switch the reference gas solenoid valve on and off and also purge the reference gas lines from the Tune screen Figure 7 and 8 shows the components or assemblies that comprise the Clarus 600 560 D MS with the
25. is larger than mass 18 you have a leak Determine the source of the leak and correct it For example leak check all fittings and connections Setting Up CI After verifying that no leaks exist you can proceed to set up the CI mode for an analysis 165 Clarus 600 MS Hardware Guide Setting the Parameter Values 1 Display the following CI window O e S Bia Span Gen Torr wo E wo x no ple Lire Temperate 3 a Sasco Parameters Echon Enmgy i x Sasco Enmen iss foo FS ss He Lewd no fo F Lew ae foo Sapca Tong C 148 io ti i Cr Fiset Cuneri pn MS Parameters LM Res fizs J HM Res C omens lon Energy hs j sO eee lon Energy Ramo 10 Ja E Maghe V _ i D 30 ib 30 o 30 z 180 20 30 m0 3030 no u C Ready Wacuxen OF Sady 2 Set the values as shown above The following table describes the CI parameters to check Cl Values and Comments Electron energy Emission Should be below 200 uA although 200 to 300 uA is acceptable Above 200 mA may cause hydrocarbon cracking patterns with methane and isobutane Emission measures the real emission current i e the source current from the source block there is no trap source current in CI The tuning of these lenses may be different from the optimum values set for EI since the source pressure is much higher in CI 200V to 600V Lens 1 and 2 Multiplier
26. like dissolves like Column polarity has the greatest effect on how the column separates the compounds of interest as the sample interacts with the stationary phase There are different degrees of polarity from non polar to very polar When compounds are separated primarily on their boiling points the phase is considered to be non polar Polar phases typically separate compounds based on the chemical interactions between the sample components and the stationary phase The inside diameter of the capillary column has an effect on the column s resolving power and its capacity or concentration range In general the larger the inside diameter of the column the larger the sample capacity However the larger the inside diameter the higher the flow necessary to achieve good performance The next parameter is the phase or film thickness Film thickness will primarily affect the retentive character and the capacity of the column Increasing the film thickness will cause an increase in the retention of the compounds being analyzed Thick film columns are primarily used for extremely volatile compounds The thicker phases will retain components longer allowing them to interact longer with the stationary phase thereby increasing the separation of closely eluting compounds The last variable to consider is column length The effect of column length on a separation becomes less important as column length increases Resolution is a function of the square root
27. manual vent switch Clarus 600 D and Clarus 560 D or the CI adjustment valve Clarus 600 C configuration see the following two pages About the Clarus 600 560 D System RF Generator Reference Gas Vial Head Amplifier Wide Range Gauge Access Door Inner Source Forepump Line Transfer Line On Off Switch Diffusion Pump Manual Vent Valve For Diffusion Pump Phosphor Plate Conversion Dynode Analytical Quads Pre Quads Outer Source Figure 7 Components of the Clarus 600 560 D MS and a detail of the ion optics path manual vent valve for diffusion pump configuration 55 Clarus 600 MS Hardware Guide RF Generator Reference Gas Vial Head Amplifier Wide Range Gauge Access Door Forepump Line Inner Source Transfer Line On Off Switch Cl Needle Valve Turbo Pump For Large Turbo Pump Phosphor Plate Conversion Dynode Analytical Quads Pre Quads Outer Source Figure 8 Components of the Clarus 600 MS and a detail of the ion optics path CI needle valve for large turbo pump configuration 56 About the Clarus 600 560 D System lon Optics Path Ion Source Mass Analyzer Detector The ion source consists of a removable EI or CI inner source and a fixed outer source for the Clarus 600 The Clarus 560 D uses an EI source only In the EI source molecules exit the column where they are bombarded by electrons from the filament an
28. mild detergent and water solution Do not use abrasive cleaners or solvents 21 Clarus 600 560 D MS Hardware Guide Compressed Gases Compressed Gases High pressure gas cylinders can be dangerous if mishandled or misused Always handle gas cylinders with caution and observe your local regulations for the safe handling of gas cylinders WARNING Avoid banging the valves and ensure that the correct valves and gauges are installed It is recommended that gas cylinders be stored and placed outside the laboratory and connected to the instrument through specially cleaned copper tubing Take care not to kink or stress the gas tubing For safety cylinders must be firmly clamped in an upright position Explosive hazard When using hydrogen methane or isobutane special care must be taken to avoid buildup of explosive gas mixtures either in the GC oven or the mass spectrometer vacuum manifold WARNING Ensure that all hydrogen line couplings are leak free and do not allow hydrogen to vent within the oven Ventilation Hazardous vapors When analyzing hazardous compounds such as pesticides or running in the chemical ionization CI mode it is necessary to vent the mass spectrometer effluent from the forepump exhaust into a fume hood or charcoal trap WARNING 22 Warnings and Safety Information Toxic Gases Fume Ventilation System Without adequate ventilation potentially toxic vapors can build up in the laboratory
29. of the column length An example of this relationship is that if you want to double the separation between two peaks without changing the stationary phase inside diameter film thickness or GC conditions it would take a four fold increase in the column length A 30 meter column is the most common length and is usually sufficient for analyzing most samples Typically users doing environmental EPA type analysis will use a 30 meter column for semi volatile compounds and 60 to 105 meter columns for volatile compounds About the Clarus 600 560 D System Pre Operational Checklist This checklist provides you with a list of items to check to make sure everything are in working order before you begin to use Clarus Are the gases connected to the GC Is the proper column connected Is the proper liner installed in the injector Are your samples prepared Is there a GC method Is the GC split vent open Is the proper mass spectrometer vacuum achieved Is the system leak free Is there a mass spectrometer method Are the autosampler wash vials filled with solvent Are you using the proper column flow or pressure Did you check the air water spectrum on the TurboMass Tune screen Is the injector hot and set to the proper temperature Is the transfer line hot and set to the proper temperature Is the source hot and set to the proper temperature 71 Clarus 600 MS Hardware Guide 72 Maintenance 4 Overview High elect
30. peak and must meet and remain within the following tolerances For GC with slow heating rate as standard 120 VAC 10 50 60 Hz 1 20 Amps 2400 VA maximum 230 VAC 10 50 60 Hz 1 10 Amps 2400 VA maximum For GC with optional oven heater for fast heating rate 220 VAC 5 50 60 Hz 1 15 Amps 3120 VA maximum 230 VAC 5 50 60 Hz 1 16 Amps 3120 VA maximum 240 VAC 5 50 60 Hz 1 13 or 16 Amps 3120 VA max Instruments and peripherals must not be connected to circuits with large inductive or large and frequent loads for example large motors discharge lamps photocopy systems radio transmitters etc 33 Clarus 600 560 D MS Hardware Guide 34 Power Outlets Clarus MS A minimum requirement of a power line separate from the GC at 15 amps or greater Clarus GC A minimum of one dedicated 120 VAC outlet at 20 A or one 230 VAC outlet at 10 A minimum is required for the Standard GC When the optional oven heater is ordered the outlets will be as indicated above Additional equipment such as computers and printers should be connected per their specifications Warnings and Safety Information Safety Requirements Gas Delivery Lines Gas Cylinders Hydrogen Ventilation Copper tubing that is free of grease oil and organic material must always be used with the Clarus 600 MS on all gas lines except ammonia reagent gas Ammonia reagent gas requires stainless steel Solve
31. powder free PVC gloves Part No N621 2495 e 1 16 inch graphite Vespel ferrules 0 8 mm i d Part No 0992 0107 0 25 mm i d Part No 0992 0104 or 0 325 mm i d Part No 0992 0105 Removing a Column 1 Prepare the mass spectrometer for hardware maintenance see Preparing Clarus 600 560 D MS for Hardware Maintenance on page 85 2 Using a 4 4 inch open end wrench loosen the 1 16 inch column nut attached to the injector fitting and slide the column tubing completely from the injector and column nut 88 Maintenance 3 Using a 4 inch open end wrench loosen the 1 16 inch column nut on the transfer line Slide the column tubing completely from the transfer line and column nut Remove the column from the GC oven Injector 1 16 inch Column Nut a E 3 e Oo o gt fo o a Transfer Line Septum A 1 16 inch Column Nut Figure 10 Removing a column 4 Open the Clarus 600 MS access door loosen and remove the two black thumbscrews hold the source by the handle and pull it out To prevent contamination only hold the source by its handle Never CAUTION touch the part of the source that comes in contact with ions with your bare fingers 89 Clarus 600 MS Hardware Guide 5 Place the source on a clean surface Preferably place the handle end on a flat surface so that the source stands in an upright pos
32. replacing 142 I Inline Gas Purifiers 159 Inner Source 104 maintenance 104 removing 105 Introduction to TurboMass 49 Ion optics assembly removing 129 135 Jon source 57 L Labels WEEE Instructions 30 Leak checking 79 CI 163 211 Clarus 600 MS Hardware Guide M Maintenance 75 cable removal 135 cleaning the prequads 138 EI inner source 106 inner source 104 leak checking 79 mass analyzer 128 outer source wire connections 151 outer source cleaning 146 outer source detail view 149 overview 75 PMT tube removal 133 preparing for 85 reassembling TurboMass 152 removing the cover panels 131 replacing an outer source themocouple 139 replacing the quadrupole heater 144 schedule 77 source heaters 142 tuning 82 vacuum system 154 oil 154 venting the system 87 Mass analyzer maintenance 128 O Operating conditions 27 Outer source cleaning 146 detail view 149 Overview Clarus 600 560D GC 51 ion source 57 maintenance 75 reference gas inlet 54 troubleshooting 177 P Photomultiplier Tube PMT removing 133 Pollution degree 27 212 Power requirements 33 Pre installation checklist 39 Pre operational checklist 71 R Reference Gas Inlet 54 Refilling the reference gas vial 100 Removing a column 88 Removing the photomultiplier tube 133 S Safety practices ammonia gas 24 compressed gases 22 electricity 20 environmental requirements 32 gene
33. the source current from the source block there is no separate measurement of source current in CI Lens 1 and 2 The tuning of these lenses may be different from the optimum values set for EI since the source pressure is much higher in CI Source temperature 150 C is standard Higher temperatures keep the source cleaner but may increase fragmentation For example down a little from EI to minimize fragmentation 120 C is the practical lower limit Ion Energy Approx 1 or 2 2 Optimize the amount of reagent gas flowing into the source by using two heptacosa ions m z 452 and 633 which usually produce relative intensities of 65 85 and 95 respectively Heptacosa can be used to calibrate the m z range for negative ion CI analyses 172 Maintenance 3 Maximize the peak intensities then slightly decrease the reagent gas by turning the knob clockwise 1 8 turn fie ton Mode Calbraton Gas Opeons Help Dlsjals mlas a fks 2 O Source Dagrostes Mas Spn Gan Tor Vacum System mi m fe Stats w m fi p IE pa e Oe w t p4 D ja fi ae GC tread ace jiet Line Temeeranae 299 00 Souco Paramete emnt w o AN Gouce Emmin mw w Z Lens 1 is po JF Lene 2 fax foo H Socet fies fam Flament Curent Bea MS Pametees IM Res Se F IM Res 125 a ep Ereegy a i kamman hz Mutiober V SOS 633 0 son a Nonam OK Operate Optimize the tu
34. the instrument with any cover or parts removed 5 Air Caution Intakes Do not restrict air intake or exhaust Air Exhaust AN Warning Wa rnin z Grounding circuit continuity is vital Warning voi er nn cie for safe operation of equipment REMOVE VENT LINE BLANKING CAP Never operate equipment with AT INSTALLATION NH REENA grounding conductor disconnected cH 5 230 VAC 5060HZ N WATER WATER MAX POWER 1000 VA G IN OUT EN 55011 Class A Group 1 d k 41 Caution ddp AD A 120 VAC 50 60Hz 1 230 VAC 50 60Hz MAX POWER 1000 VA EN 55011 Class A Group 1 Caution This unit contains protective circuitry Contact PerkinElmer qualified service personnel before performing any AC line tests Figure 2a Rear View of the Clarus 600 MS 16 Warnings and Safety Information GC Air Interface Vents PC Ethernet Connection PerkinElmer precisely Shelton CT 06484 USA Clarus 560 D Mass Spectrometer PartNo Nox 20x xxx x Serial No lt x xx xx C FCC Compliance Tea TT 5 This device complies with Part 15 of the FCC Rules a Operation is subject to the following two conditions X F c 1 this device may not cause harmful interference and inn 2 this device must accept any interference received j aa a c Processor including interference thatmay cause undesired o a Reset operation FCC Compliance bd Switch Warn
35. this Hardware Guide for the procedure to replace a filament Press OK to close the message Message Title Diffusion Pump failure Vacuum Leak Detected 203 Message There is a problem with the diffusion pump Either the diffusion pump fan has failed or the pump has over heated Please look in the Hardware Guide for additional instruction The backing pump could not reach the necessary vacuum level to start the diffusion pump There could be a problem with a vacuum leak the backing pump or the vacuum gauge The backing pump will be turned off Make sure that the vent valve is closed before restarting the backing pump Press OK to close the message Check the cooling air flow and correct if possible Check the cooling air duct for obstructions and correct as necessary If the cooling air flow is fine and there are no obstructions contact your PerkinElmer service representatives Press OK to close the message Check the system for any leaks and correct If the problem continues contact your PerkinElmer service representatives Clarus 600 MS Hardware Guide Message Icon Message Title Vacuum There is a problem with the vacuum Press OK to close the Gauge gauge message Failure Restart the system if you still have this failure message contact your PerkinElmer service representatives rune The vacuum system is off and the PoC ooo failure message Safe to Vent system can now b
36. typical vacuum level will stay constant until the count down timer reaches 10 minutes the vacuum drops quickly to 1 x 10 Torr and continue to 4 x 10 Torr before the countdown timer ends When the timer reaches 5 minutes the software will enable OPERATE If you attempt to use the system prior to achieving a safe operating vacuum 5 x 10 Torr a warning message will appear About the Clarus 600 560 D System CAUTION The software will not prohibit the use of the system prior to reaching the desired vacuum The software will monitor the vacuum gauge pressure to determine when the system has reached the proper operating vacuum 5 X 10 Torr Once OPERATE is enabled it remains enabled unless the Vent Vacuum System Off command is given Venting the Diffusion Pump Vacuum System 1 Cool the transfer line and source to under 100 C 2 Select Vent Vacuum System Off from the Options menu on the Tune page and confirm that you want to vent the system The system will start its automatic venting sequence The software monitors the temperature of the source and the inlet When the temperatures of both of the source and the inlet are less than 100 C the software turns off the diffusion pump heater and starts a 20 minute countdown timer During the cooling down period the countdown timer will display the time remaining in minutes and seconds When the count down timer reaches 0 the backing pump turns off Once the backing pump
37. 1218 2 Secure Contacts 0 8mm Hex Wrench Figure 43 Installing contacts on the new filament assembly 9 Position the new filament assembly so that it faces the source and the white ceramic rests on the tab 10 Ensure that the filament coil is aligned with the entrance hole on the inner source assembly 124 Maintenance 11 Using a small flat blade screwdriver secure the filament assembly in place with the screw and washer that you previously removed Ensure that the filament coil aligns with the entrance hole Filament Coil l l l l l l l New Filament l l Tab DNS Assembly I i si I I I s qpa Screw S I w7 I l l Washer l e l l l Contacts i l l Tab positioned between contacts Figure 44 Installing a new filament assembly on the source 12 Install the source assembly back into the mass spectrometer by following the procedure described in Reinstalling the Source on page 119 125 Clarus 600 MS Hardware Guide Replacing the Head Amplifier To replace the Photomultiplier head amplifier Part Number E649 9032 follow this procedure and refer to Figure 45 The mass spectrometer contains high voltage To prevent the risk of Shock unplug the line cord from the AC outlet and wait at least one minute before opening or removing any instrument cover or panel ig N WARNING 1 Vent the vacuum from the mass spectrometer 2
38. 3 Positioning the ion optics for maintenance Cleaning the Prequads When operating under normal circumstances you may not have to remove the prequads from the ion optics assembly To clean the prequads follow this procedure 1 Using a very fine abrasive paper 8000 grade gently clean the ion burns off of the prefilters 138 Maintenance 2 Wipe the prequads with a methanol dampened laboratory wipe 3 Blow dry with helium or dry nitrogen Replacing an Outer Source Thermocouple Items and Tools Required e Thermocouple Part No E640 0213 e Lint free powder free PVC gloves Part No N621 2495 e Small flat blade screwdriver e Small adjustable wrench To replace the thermocouple follow this procedure and refer to the following figure To ensure that the mass spectrometer remains contamination free wear CAUTION lint free powder free gloves while performing this procedure Using a small flat blade screwdriver remove the screw and the thermocouple Loosen and remove the nut Remove all wires from the contact pins Pull all the wires down through the feed connector ie Oo AN Thread the new wires up through the feed connector and connect all the wires on the contact pins Tighten the nuts 6 Secure the new thermocouple with the screw 139 Clarus 600 MS Hardware Guide
39. 600 560 D MS Hardware Guide Using Hydrogen Methane or Isobutane WARNING Explosive Hazard If the hydrogen is turned on without a column attached to the injector and or detector fittings inside the oven the gas could diffuse into the oven creating the possibility of an explosion If the mass spectrometer is not under vacuum hydrogen methane or isobutane can fill the vacuum chamber thereby creating an explosive hazard To avoid possible injury do not turn on the hydrogen unless a column is attached all joints have been leak tested and the mass spectrometer is under vacuum with the forepump exhaust properly vented to a fume hood Using Ammonia Gas WARNING Hazardous gas vapors When using ammonia gas while running in the chemical ionization CI mode it is necessary to vent the mass spectrometer effluent from the forepump exhaust into a fume hood or outside the building Hazardous Chemicals WARNING Hazardous chemicals Before using samples thoroughly familiarize yourself with all hazards and safe handling practices Observe the manufacturer s recommendations for use storage and disposal These recommendations are normally provided in the Material Safety Data Sheets MSDS supplied with the solvents chemicals and pump oils Be aware that the chemicals that you use in conjunction with the mass spectrometer may be hazardous Do not store handle or work with any chemicals or hazardous 24
40. 70 or GX 280 e Intel Pentium processor e 512 MB of Random Access Memory RAM e High Color 16 bit at 1024 x 768 SVGA e Hard disk with 2 0 GB free space e 8x speed CD ROM drive e 1 RS 232 port e 2RJ 45 10 100Base T ports e A keyboard and PS 2 style mouse Operating System Windows XP SP2 Clarus 600 560 D MS Hardware Guide 38 NOTE Software TurboMass Software Instrument Firmware Versions Internal dotLINK Printers e HP LaserJet 4200 Printer Series HP 4200 4210 and 4250 e HP DeskJet 5650 Color InkJet Printer Using any printers other than the ones recommended above may not correctly display the Communiqu reports Warnings and Safety Information Pre Installation Checklist MODEL DATE CUSTOMER SPO Requirements Needs Prior To Installation Customer Responsibility Lab Space Requirements Power Requirements Gas Requirements Environmental Requirements Safety Requirements Preparation of Samples Customer Responsibility Computer Configuration Customer Experience 39 Clarus 600 560 D MS Hardware Guide 40 Introduction 2 Introduction Preface The Clarus MS is a benchtop mass spectrometer designed with the user in mind The small profile of combination Gas Chromatograph and Mass Spectrometer GC MS allows it to fit on a standard six foot long laboratory bench Sophisticated software controls the GC MS from a Windows XP SP2 computer System Overview The system consists o
41. 8 turn 170 Maintenance 8 Tuning may be optimized on the m z 69 219 414 and 652 ions of the heptacosa reference gas TunePage c ci pro acqudb ci ipr File Ion Mode Calbration Gas Options Help o m lall ifa 2 Cls Source Diagnostics Vacuum System Status K2 4 4 fVacumOK wa ma p E ma ese 4 ne 4 9e 5 569 0 Fel 219 0 Fl 414 0 652 0 i 11 9 20 56 7 4 100 0 x2 13 5 16 GC Interface Inlet Line Temperature 139 200 Source Parameters ElectonEnegy 0 po J Source Emission o0 fo Hk Lens1 e7 foo M Lens2 sso 2000 J Source Temp C 130 20 Filament Current 357 MS Parameters LM Res 2s m HM Res 12e E _ lon Energy 25 e lonEnegy Ram hs H Multiplier V aso E oO 69 0 ea 219 0 4140 652 0 se o Ready Wacuum OK 9 Click Press for Standby to turn off Operate followed by the CI gas You are now ready to run your CI analysis 171 Clarus 600 MS Hardware Guide Adjust the Reagent Gas for CIl 1 Open the CI gas inlet by selecting Cl Gas from the Gas menu Wait at least 10 seconds before clicking Press for Operate Parameter Cl value and comments Electron Energy 30 to 70 eV This parameter should be optimized Emission 200 to 300 uA is acceptable Emission measures the real emission current i e
42. 95 Clarus 600 MS Hardware Guide Insert Column into Transfer Line Transfer Line mm or midw between ie hois H an aN top Wall O Hole Column End ee Figure 19 Positioning the column end in the source assembly 96 Maintenance Slide Septum Septum 1 4 inch Column Nut 1 16 inch Column Nut Figure 20 Marking the column position in the source 6 Pull the column back until the distance between the back of the nut and septum is about 10 cm CAUTION To prevent breaking the end off the column you need to pull the column back to reinstall the source in the mass spectrometer 97 Clarus 600 MS Hardware Guide 1 16 inch Column Nut Septum Column Slide the column back until the septum is 10 mm from nut Figure 21 Pulling the column back to reinstall the source 7 Position the inner source so it aligns with the guide pin gently insert the source into the mass spectrometer and secure it in place with the two black thumbscrews Tighten the black thumbscrews until they are fingertight Do not overtighten Access Door Inner Source Black Thumbscrews Handle Figure 22 Reinstalling the source 98 Maintenance 8 Carefully slide the column into the trans
43. Clarus 600 560 D MS Hardware Guide Release History Part Number Publication Date 09936768 March 2008 Any comments about the documentation for this product should be addressed to User Assistance PerkinElmer Inc 710 Bridgeport Avenue Shelton Connecticut 06484 4794 U S A Or emailed to info perkinelmer com Notices The information contained in this document is subject to change without notice Except as specifically set forth in its terms and conditions of sale PerkinElmer makes no warranty of any kind with regard to this document including but not limited to the implied warranties of merchantability and fitness for a particular purpose PerkinElmer shall not be liable for errors contained herein for incidental consequential damages in connection with furnishing performance or use of this material Copyright Information This document contains proprietary information that is protected by copyright All rights are reserved No part of this publication may be reproduced in any form whatsoever or translated into any language without the prior written permission of PerkinElmer Inc Copyright 2008 PerkinElmer Inc Produced in the US Trademarks Registered names trademarks etc used in this document even when not specifically marked as such are protected by law PerkinElmer is a registered trademark of PerkinElmer Inc Clarus 600 is a trademark of PerkinElmer Inc Swagelok is a registered trademark of th
44. Figure 16 Uncoiling 50 cm from the transfer line end 2 Slide the septum 1 16 inch column nut and 1 16 inch graphite Vespel ferrule over the end of the column Column 1 16 inch Column Graphite Vespel Ferrule Septum 1 16 inch Column Nut Figure 17 Inserting a septum column nut and ferrule on a column 3 Slide the septum column nut and ferrule along the column to the position shown below Score and break 1 0 cm off the end of the column Wipe the column with a methanol dampened lab tissue for example a Kimwipe Maintenance Use glove Slide the septum column nut a and ferrule to this position Column 2 a Cut end of column off here Wipe the column with a Kimwipe dampened with MeOH Figure 18 Preparing to install the column in the transfer line 4 Carefully insert the end of the column through the transfer line and into the mass spectrometer source until it is positioned midway between the hole and the wall on the right side of the source See Figure 19 5 Hold the column in this position as you slide the column nut and ferrule to the transfer line and tighten the nut fingertight Slide the septum until it is flush against the rear of the column nut See Figure 20 This marks the position of the column end in the source NOTE Finger tight means just tight enough to hold the column in place so that you are still able to move the column slightly if necessary to reposition it
45. Ion Energy Approx 1 Similar to EI 166 NOTE Maintenance Adjust the Reagent Gas for Cl When running in the CI mode with reagent gas off the resulting EI spectra have about 10x lower sensitivity than with the EI source If using methane reagent gas the reagent ions at m z 17 CHs and 29 C gt Hs should be of approximately equal intensity Maximize the m z 29 intensity With m z 29 maximized the ion at m z 16 should be about 1 of the m z 17 peak height Higher indicates a leak at the transfer line inner source connection Operate slightly to the low pressure side of the maximum to minimize gas load on the MS The vacuum gauge pressure will be 1 5x10 to 5x10 Torr If using ammonia reagent gas reagent ions at m z 18 NH and 35 NH3 2H should be present and the ions at m z 35 should be optimized If using isobutane reagent gas the reagent ions at m z 43 C3H7 and 57 C4Ho should be tuned in the approximate ratio of 1 2 The following example uses methane reagent gas The CI gas adjustment knob controls a delicate needle valve To avoid damaging the needle valve do not overtighten it Always use the CI gas button on the screen to turn off the CI gas 167 Clarus 600 MS Hardware Guide Access Door Inner Source Black Knurled Knobs Cl Needle Valve Figure 66 CI reagent gas needle valve adjustment knob 1 Carefully turn the delicate CI Gas adjustment knob fully clo
46. Lens az po Lene 2 Sopce Teme C Filament Curent Source Castert MS Poscmmetons IM Aes HM Res log Energy Jon Energy Ramg Mutigi v nao 190 1ai70 200 Acqwe nady Vanam OK 85 Clarus 600 MS Hardware Guide Cool the Transfer Line GC Column Oven and the Source The transfer line GC oven and source are HOT Touching them can cause serious burns To prevent personal injury wait until the oven and transfer line reach the lower setpoint temperature before touching WARNING them Only grab and hold the source by its handle 1 On the left side of the Tune page enter 20 in the Inlet Line Temperature to cool the GC Interface transfer line If the Clarus GC is off then the PPC control is off and no gas is CAUTION flowing through the system 2 Open the GC oven door to cool the column oven 3 On the Tune page set the source temperature by entering 20 in the Source Temp field 4 Allow the transfer line column oven and source to cool before touching them Remember the transfer line was heated and it may take at least 10 to 20 minutes to cool WARNING Avoid venting to air whenever possible This eliminates the introduction of oxygen and water vapor into the mass CAUTION spectrometer The Clarus MS should be vented with UHP nitrogen 99 9995 Helium should not be used To properly connect a source of dry nitrogen to the instrument order the manifold venting kit Part No N647 0045
47. N E640 1226 P N Esa 11953 1 2mm Ceramic Sparo at P N E640 309 2mm Ceramic Insulating Spacer P N E640 1222 Lens 1 Focus Plate P N E640 1307 Washer 5mm Ceramic pares P N E533 1013 I P N Esad 1e i i 2mm Ceramic pare di P N Esad 12a Lens 2 Focus Plate P N E640 1235 Nut P N E532 1018 Support Plate P N E640 1321 j l cb b 3 x 6 Screw 1 of 2 bottom PIN E531 4016 1 i 3 x 10 Screw 1 P N E531 4017 Earth Plat P N E640 1326 amp Figure 59 Exploded view of the outer source 149 Clarus 600 MS Hardware Guide 1 Place the assembled outer source on the ion optics assembly and secure it in place with the two screws 2 Reattach the tubing to the outer source 1 Place the assembled outer source on the ion optics assembly and secure it in place with the two screws Outer Source lon Optics Screws 2 one each side 2 a Reattach the tubes to the outer source assembly Reattach tubes Figure 60 Reinstalling the outer source 3 Using a flat blade screwdriver reconnect the thermocouple to the outer source 150 Maintenance 4 Reconnect the wires to the outer source as shown in the following illustration Outer Source Assembly of lon optics Assembly To outer source Contact Support Plate Quadrapole Cartridge Heater cartridge heater other side See Detail Thermocouple Wires
48. UTION the procedure in this chapter Items and Tools Required e Ultrasonic bath e Aluminum foil or lint free disposable cloth squares e Aluminum oxide powder e Wooden stick cotton swabs e 2mm open end wrench for EI source e Tweezers e Powder free lint free gloves Part No N621 2495 e Small flat blade screwdriver e Reagent Grade acetone e Reagent Grade methanol e De ionized Water e Clean 100 mL glass beaker e 6000 Grade Micro Mesh Part No N930 3420 e 8000 Grade Micro Mesh Part No N930 3421 e 600 grit aluminum oxide in DI Water with a few drops of methanol to make a paste 104 Maintenance Removing the Inner Source To remove the inner source follow this procedure Before performing source maintenance always prepare the mass CAUTION spectrometer by following the instructions in Preparing Clarus 600 560 D MS for Hardware Maintenance on page 85 1 Prepare the mass spectrometer for maintenance as described in Preparing Clarus 600 560 D MS for Hardware Maintenance on page 85 2 Open the GC oven door and locate the Clarus MS transfer line 3 Using a 9 16 inch wrench loosen the 14 inch nut on the transfer line 4 Pull the inner transfer line tube back 25 mm 1 inch aes Transfer Line Column 7 1 4 inch Nut Figure 26 Pulling back the transfer line 105 Clarus 600 MS Hardware Guide 5 Loosen t
49. alignment Section of a mass range Corruption of data file missing from a spectrum Scanning too fast Hard disk has too much fragmentation Hard disk full Molecular Ion too Source temperature too high weak 196 Locate the contamination and eliminate it Change your sample preparation or chromatography Reinstall the column Reacquire data Reduce the rate Defrag the hard drive Remove unnecessary files Reduce the source temperature Communications Related Will not boot MS Will not control GC Communication cable intermittent contact Crashes when starting an acquisition 197 PC computer to MS cable has a loose connection Transient in power supply has halted communications RS 232 communications cable loose connections Power failure transient surge to GC or autosampler GC electronic malfunction GC electronics malfunction Software corrupted Rotary pump malfunction Check and reset the cable Reboot the PC computer Check and restart the mass spectrometer Call a PerkinElmer service engineer Call a PerkinElmer service engineer Reload software Call a PerkinElmer service engineer Clarus 600 MS Hardware Guide 198 Forepump Related Forepump switched off Switch on the pump Blown fuse Call a PerkinElmer service engineer Electrical supply voltage Determine the correct voltages does not match that of the and co
50. and de ionized water and a few drops of methanol to make a watery paste 2 Dip a wooden stick cotton swab in the solution and clean the darkened areas on the source Work quickly to prevent the mixture from drying on the surface Place the cleaned components in de ionized water prior to rinsing to prevent drying Rinsing 1 Add 50 mL of acetone to a 100 mL beaker insert the source assembly repeller ion trap ion chamber plate and sonicate in an ultrasonic bath for ten minutes Do not allow the acetone and methanol to touch the O ring on the source CAUTION 2 Carefully drain the acetone 3 Add 50 mL of methanol to another 100 mL beaker insert the source assembly repeller ion trap ion chamber plate and sonicate in an ultrasonic bath for at least ten minutes 4 Carefully drain the methanol 109 Clarus 600 MS Hardware Guide Source Assembly 50 mL sonocation solution in 100 mL Beaker Figure 30 Rinsing the aluminum oxide from the source 5 Dry off the repeller ion trap source assembly and ion chamber plate using lint free tissue and or clean compressed Nitrogen gas to prevent solvents from drying on these parts and leaving a residue 6 Take the parts amd wrap them in a clean lint free cloth and bake them in the GC oven at about 80 C for about fifteen minutes Reassembling 1 Insert the ion trap and repeller through the spacer and insulator Then insert it into the source 110 Maintenance
51. ax Min Gas Ballast Switch Mode Selection Switch Drain Plug Oil Level Indicator Figure 63 Location of the forepump oil viewing window 2 Determine if the oil level is between the Max Oil Level and Min Oil Level marks next to the window e If the oil level is closer to the Min Oil Level mark add oil Use Edwards 45 oil Part No 0992 3492 1 liter e Jfitis near the scheduled six month service drain and refill the pump with clean oil e Ifthe oil is contaminated indicated by a darkened color try gas ballasting and if that does not help drain and refill the pump with clean oil 155 Clarus 600 MS Hardware Guide Adding Oil to the Forepump Reservoir Vent the mass spectrometer before opening the plug to add oil CAUTION 1 Unscrew and remove one of the filler plugs on the top of the pump 2 Locate the bottle of pump oil supplied with the pump and add oil until it reaches the MAX mark on the top of the sight glass Do not overfill 3 Replace the oil filler plug by tightening it until it is fingertight Do not overtighten the oil filler plug 4 After restarting the pump and allowing it to run for a few minutes recheck the oil level If the oil level is below the MAX mark repeat the above procedure by adding more oil until it reaches the MAX mark Decontaminating the Oil The pump oil should be clear If the oil is cloudy or discolored it is contaminated with residual sampl
52. cccccecsceceeceeesseceeneeceeeeeceeeeenaeceeaeeeeeeeees 197 Forepumip Related ipen enpa edie dei itie 198 Message Dialogs 3 s scccvtccpevarsecevsctdotvistateestestsbusctdaneventsdomestueseaateahieeweeacess 201 Replacement Parts os ste vwssitcivese en seen Dare eed a a a estes 207 EC C A E E A 209 Warnings and 1 Safety Information Warnings and Safety Information Conventions Used in this Manual Normal text is used to provide information and instructions Bold text refers to text that is displayed on the touch screen All eight digit numbers are PerkinElmer part numbers unless stated otherwise Notes warnings and cautions Three terms in the following standard formats are also used to highlight special circumstances and warnings NOTE A note indicates additional significant information that is provided with some procedures Terminology Throughout the manual the term mass spectrometer or MS specifically refers to the Clarus MS while for GC Clarus GC is implied Caution We use the term CAUTION to inform you about situations that could CAUTION result in serious damage to the instrument or other equipment Details about these circumstances are in a box like this one Clarus 600 560 D MS Hardware Guide 10 8 gt E QD QD lt gt WARNING Caution Achtung Bedeutet dap die genannte Anleitung genau befolgt werden muf um einen Gerdteschaden zu vermeiden Caution Bemerk Dette be
53. ckwise until you feel it stop 2 Select CI Gas On from the Gas menu A check mark appears next to the option NOTE Always turn on the CI gas before Operate to avoid a pressure surge hitting the filament 168 Maintenance 3 Click Press for Operate and monitor the Penning gauge as you adjust the CI gas Observe that mass 16 initially grows larger As pressure increases in the ion chamber of CI source the mass 29 peak will begin to grow Keep the pressure below 5 e 4 Torr 4 When using methane gas carefully turn the CI adjustment knob counterclockwise until m z 16 is low or non existent and m z 29 is maximized As you turn the knob reduce the multiplier voltage to keep the peaks on scale A typical multiplier value is 235 m z 17 and 29 will typically be 80 100 5 Continue to turn the knob counterclockwise Observe that the pressure increases and mass 41 will start to grow Stop when mass 29 is at 100 169 Clarus 600 MS Hardware Guide 6 Turn the knob to maximize the intensity of mass 29 Also verify that mass 16 is small lt 1 0 of the height of the peak at mass 17 Fie lon Mode Calbration Gat Options Help ojslula mlale fn 2 If mass 16 does not appear as a small peak STOP You probably have a gas leak at the transfer line inner source connection Locate and correct the leak 7 After you have maximized the peak slightly decrease the reagent gas by turning the knob clockwise 1
54. ctrical Ionization EI operation Pump fluid is heated in the base of the pump to produce a vapor which passes through the interior of the jet assembly and emerges from the jets as high velocity vapor streams These streams entrain eluting compounds and carrier gas condense on the cooled pump body wall and drain into the base of the pump for recirculation The entrained compounds are transferred to the forepump The diffusion pump system has a manual vent switch This manual vacuum venting is controlled by a push button toggle switch and a pump temperature sensing switch When you push the button in the vent is opened When the button is up not pushed in the vent is closed See the following illustration The mass spectrometer s vacuum system is controlled from the Tune page Be sure that this is done in accordance with the information provided in your Mass Spectrometry Hardware Guide The following procedures describe a Turbomolecular Pump system and a Diffusion Pump system 61 Clarus 600 MS Hardware Guide Diffusion Pump Operating States System Description System Diagram Vacuum System Off Backing pump turned on High vacuum pump is on Proper operating conditions reached Fault with high vacuum pump When vacuum system off has been initiated 62 Diffusion Pump Operating States Continued System Description System Diagram When system has cooled and diffusion pump is t
55. d check liquid level in the reference gas vial any time you need to remove the mass spectrometer cover and vent the instrument Using a tool such as a dental mirror will help you observe the liquid level in the Reference Gas Vial Items Required e Lint free powder free PVC or polypropylene gloves Part No N621 2495 e Pasteur Pipette or 50 uL syringe e Heptacosa FC43 Part No N621 2407 To refill the reference gas vial follow this procedure Make sure to vent the instrument and turn the power off WARNING 1 Ensure that the solenoid have been switched off 100 Maintenance 2 With the power off unplug the source connector for more room to work Use a 5 32 inch Allen wrench to remove the two allen nuts from the handle See following photo Source Connector 3 With the handle off remove the reference gas vial assembly and bracket out See the following figure 101 Clarus 600 MS Hardware Guide Figure 24 Removing the reference gas vial from the mass spectrometer The toxicity of the FC 43 calibrant is uncertain Take appropriate precautions to avoid getting the calibrant on your skin or in your eyes WARNING 4 Loosen the knurled fitting behind the gas vial by turn and pull out the vial A black O ring may remain in the fitting 5 Using a pipette or syringe add 25 to 50 uL but no more than 50 uL of Heptacosa FC43 See the following figure Fill the bulb Never add more than 50 uL
56. d ionized into positive and negative ions as well as neutral species The positive electron trap attracts the negative ions and electrons to the repeller that directs the positive ions out of the inner source through focusing lens to the mass analyzer Those remaining molecules and neutral fragments are pumped away by the vacuum Heaters in the outer source raise the source temperature high enough to prevent sample molecules from condensing in the source and minimize any contamination The mass analyzer element of this high performance quadrupole mass spectrometer is a finely machined assembly that has been precisely aligned using specialized equipment Under no circumstances should the main analyzer rod set assembly ever be dismantled The mass spectrometer is fitted with a quadrupole prefilter assembly that is designed to protect the main analyzer by intercepting the majority of any contamination As a consequence the main analyzer should never require cleaning On occasion it may be necessary to remove the prefilter rods for cleaning The need to clean these rods is usually indicated by poor peak shape or loss of resolution although other more likely causes such as source contamination should be eliminated first It is necessary to remove the inner and outer ion source assembly before the prefilter assembly can be removed The detector consists of a conversion dynode phosphor plate and photo multiplier tube The detector works by acc
57. d local health and safety regulations and laws 25 Clarus 600 560 D MS Hardware Guide 26 Definitions in Warnings for Hazardous Chemicals Responsible body Individual or group responsible for the use and maintenance of equipment and for ensuring that operators are adequately trained per EN IEC 61010 1 Operator Person operating equipment for its intended purpose per EN IEC 61010 1 OSHA Occupational Safety and Health Administration United States ACGIH American Conference of Governmental Industrial Hygienists COSHH Control of Substances Hazardous to Health United Kingdom Warnings and Safety Information Temperature Humidity and Environment Operating Conditions CAUTION CAUTION WARNING The Clarus MS is designed for indoor use only in a laboratory environment that is clean and is free of drafts direct sunlight and vibration Do not operate the mass spectrometer in a Cold Room or a refrigerated area Clarus MS operates under the following conditions Ambient temperature is 10 C to 35 C 50 F and 95 F witha variability of less than 4 C 7 F The Clarus MS will operate safely between 5 C and 40 C 41 F and 104 F If operating at ambient temperatures between 30 C and 35 C you will need the water cooling option for the turbopump Ambient relative humidity is 20 to 80 non condensing Operating altitude is in the range of 0 to 2000 m The mass s
58. de Cartridge Heater P N E640 0266 one ro Ory E Purple wire To outer source cartridge heater this side Quadrupole Cartridge Heater o ae Figure 57 Removing the quadrupole heater 145 Clarus 600 MS Hardware Guide 146 Cleaning the Outer Source Lens Items and Tools Required 600 grit aluminum oxide Tweezers Methanol Laboratory wipes Acetone Lint free powder free PVC gloves Part No N621 2495 Small flat blade screwdriver Wooden stick cotton swabs To clean the outer source follow this procedure 1 Position the outer source on a clean work area so that the side with the support plate is facing up Using a flat blade screwdriver loosen the three screws that connect to the three pillars Carefully lift the support plate straight up and put it aside Carefully remove the Lens 2 then Lens 1 focus plates Maintenance Cleaning 1 Mix together aluminum oxide and methanol to make a watery paste 2 Dip a wooden stick cotton swab in the solution and clean the darkened areas on the source Work quickly to prevent the mixture from drying on the surface 3 Remove the residual aluminum oxide by sonication in a beaker of methanol for ten minutes 4 Blow dry with helium or dry nitrogen 5 Reassemble the outer source 147 Clarus 600 MS Hardware Guide 3 x 10 Screw 1 P N E531 4017 3 x 6 Screw 1 of 2 P N E531 4016 OJ Sup
59. dequate Leaking injector septum Replace the septum sensitivity Leak from injector Tighten replace ferrules ferrules Foreign material in the Clean the injector injector ee Peak splitting Prevent double injections Dry the outside of the injector needle Injector and column are Install a silanized injector more active toward liner or silanize the current acid base compounds injector liner Check or replace the injector packing material such as quartz wool Cut off the first 30 cm of the column and rerun the test mix If the results do not improve replace the column 184 Solvent tailing Inadequate splitter flow Increase the splitter flow 185 Loss of high end compounds Peaks at masses 28 nitrogen and 32 AMU oxygen are ina ratio of lt 4 to 1 and the peak at mass 28 is larger than the peak at mass 18 Peaks at masses 14 and 16 are larger than the peak at mass 28 Column not properly installed in the injector Temperature setting too low on the injector column oven or transfer line Leaks in or around vacuum or column fittings Leaks or improper tuning Reinstall the column in the injector Increase the injector column oven or transfer line temperature to allow the less volatile compounds of the sample to reach the mass spectrometer Tighten the fittings and connection points to the high vacuum system Set the injector split flow to 50 1 Tighten the fittin
60. dout and allow time for the gauge to achieve 4 x 10 Torr 8 Observe the displayed masses Mass 4 helium should be much larger than mass 18 water which should be larger than mass 28 nitrogen which should be about 4 times larger than mass 32 oxygen 9 If the nitrogen and oxygen are larger it indicates an air leak which could damage the filament Immediately click Press for Standby to turn off the filament 10 Ifa leak exists locate and fix it Typical areas to check for leaks are around fittings and areas under vacuum 81 Clarus 600 MS Hardware Guide 82 Tuning Clarus 600 560 D MS After determining that no leaks exist and before acquiring data you may need to check the mass spectrometer tuning conditions and if necessary modify one or more of the tuning parameters Clarus MS can be tuned either manually or automatically from the Tune window The left side of the page holds the tuning parameters for a selected region of the mass spectrometer You can change the region by selecting an item from the Window menu or by pressing one of the buttons on the bottom left of the Tune page E TunePage c turbomass default protacqudb default ipr Ee lon Mode Cabration Gas Options tiep Co oo a n m fks i 2 Ele Sasca Diagnostics GC irtotsce Jret Line Temperature 26 5 Sasco Parameters O OOO Elecoun Energy a 4 Jno Emissor i 100 F Becelier fea tens a2 jio Lone2 fea foo LH Sogce Ter
61. e To replace the vacuum gauge contact your PerkinElmer service representatives Press OK to close the message Press OK to close the message Clarus 600 MS Hardware Guide Message Title Backing Pump is on Problem with Vacuum 206 The system is not in an operating state A diffusion pump failure a vacuum leak or a vacuum gauge failure could have occurred If the transfer line or the source temperatures are above 100C please wait until they have cooled before pressing OK Pressing the OK button will turn off the backing pump The backing pump could not reach the necessary vacuum level to start the diffusion pump There could be a problem with a vacuum leak the backing pump or the vacuum gauge The backing pump will be turned off Make sure that the vent valve is closed before restarting the backing pump If the transfer line or the source temperatures are above 100C please wait until they have cooled before pressing OK Pressing the OK button will turn off the backing pump Press OK to close the message 207 Replacement Parts Contact PerkinElmer for Columns Supplies Accessories and Replacement Parts Supplies accessories and replacement parts can be ordered directly from PerkinElmer s catalog service PerkinElmer offers a full selection of high quality chromatography data handling products and gas chromatography supplies and columns through the Gas Chromatography Supp
62. e Crawford Fitting Company Teflon and Vespel are registered trademarks of E I duPont de Nemours and Company Inc Microsoft is a registered trademark of the Microsoft Corporation Windows XP SP2 is a trademark of the Microsoft Corporation Contents Contents Warnings and Safety Information cccscccsssccssssccsssccsssscssssseees 7 Conventions Used in this Manual eee ceseeeseceseceseceeeceeeeeseeeeaeeeaeeeneeenaees 9 Customer Service ssiit ssccetssievertisstectec sduvesot ii EtA EEE ENEE AA Ea AOE 12 Electromagnetic Compatibility EMO sssssseeseessesrsrrssrrerssresresreeresreesesees 13 Regulatory Information i rasna 13 Electrical Symbols Used on ClarusMS 000 0 eeceeceeeeeeeeeneeceseceseeeseeees 14 Label Location and Content cceccceseceesseceececeeeeeeeeeeeaeceeaaeceeneeesas 15 Clarus MS Safety Practices ernen areste lenesi aie aino 18 Generic Warmin S nnrsnn cini annn a a a ieh 18 Moving th Claris MS ssscieeseteccteh etehicoscadstecsonvesnscottes a 19 Decontamination and Cleaning eeeeseeesseceseeeseecsseceseceseceaeenseeeseeeeeeeees 21 Decontamination esere ee Bes usds ca becatetesevedeavbaeyecedsevede ES 21 Cleaning the Instrument scccieetessiecsscecctaesstacebbatecctenes sadhesatcacet aas 21 Compressed Gases Amir rie o a tects Adee decease Ea 22 Ventilation a ie Oe een ree ee 22 Heated ZONE Sarees erore asia EEE a ened eventos 23 Using Hydrogen Methane or Isobutane cceeececeeeeeeseeceene
63. e and remove the cover plate 4 Using a2 mm open end wrench loosen and remove the nut and washer that ecure the repeller Then remove the repeller Dn 5 Using a 2 mm open end wrench loosen and remove the nut and washer that secure the ion trap Then remove the ion trap areas A 2mm Spacer P N E640 1222 Clean this area Trap z P N E640 1220 Screw 4 2 mmSpacer gt Q P N E640 1222 Q i 12 mm Spacer lt OQ P N E640 1221 z w Clean underside of lon Exit Plate Clean this P N E640 1213 area i i Repeller P N E640 1219 Clean these Co 4A 12 mm Spacer P N E640 1221 6 mm Ceramic Spacer P N E640 1224 a Trap Contact C 9 P N E640 1217 Washer BC 6 mm Ceramic Spacer P N E640 1224 gt lt Insulator Nut as P N E640 1218 Viton O Ring P N E571 1061 a Repeller Contact P N E640 1216 Washer Nut Figure 29 Removing the ion chamber cover plate and repeller 108 Maintenance Cleaning NOTE You can do the following cleaning method of aluminum oxide paste or use the 6000 or 8000 grade micro mesh to polish the flat surfaces of the parts For either cleaning method the final step you must sonicate the parts in an ultrasonic bath of methanol for at least five minutes Dry off the parts using lint free tissue and or clean compressed Nitrogen gas to prevent solvents from drying on these parts and leaving a residue 1 Mix together aluminum oxide
64. e objectives of this program are to preserve protect and improve the quality of the environment protect human health and utilize natural resources prudently and rationally Specific treatment of WEEE is indispensable in order to avoid the dispersion of pollutants into the recycled material or waste stream Such treatment is the most effective means of protecting the customer s environment Requirements for waste collection reuse recycling and recovery programs vary by regulatory authority at your location Contact your local responsible body e g your laboratory manager or authorized representative for information regarding applicable disposal regulations Contact PerkinElmer at the web site listed below for information specific to PerkinElmer products Web address http las perkinelmer com OneSource Environmental directives htm For Customer Care telephone numbers select Contact us on the web page Products from other manufacturers may also form a part of your PerkinElmer system These other producers are directly responsible for the collection and processing of their own waste products under the terms of the WEEE Directive Please contact these producers directly before discarding any of their products Consult the PerkinElmer web site above for producer names and web addresses Warnings and Safety Information Pre Installation Requirements Laboratory Space Requirements Clarus 600 MS 32 cm 13 in wide x 50 c
65. e vapors 1 Observe the oil in the oil sight glass 2 Turn the mode selector fully counterclockwise to select the High Throughput mode and set the gas ballast control to the low flow position I 3 Run the pump until the oil appears clear Replacing the Oil 1 Warm the oil by running the pump for at least 10 minutes and then switch off the vacuum system 2 Unplug the pump from the AC outlet and disconnect it from your vacuum system 3 Remove one of the oil filler plugs 156 5 6 E 5 A Clarus 600 MS Hardware Guide 4 Place the pump on a table Place a drain container under the drain plug Raise the end of the pump opposite the drain plug by putting a block under it If you were running toxic samples the oil is contaminated as toxic waste Handle and dispose of waste oil appropriately Y WARNING 5 Remove the drain plug and allow the oil to drain into the container If the pump oil was contaminated pour clean oil into the filler hole and allow it to drain until the oil appears clear 6 Replace the drain plug remove the block and reconnect the vacuum system 7 Add oil until it reaches the MAX mark on the top of the sight glass Do not overfill 8 Replace the oil filler plug by tightening it until it is fingertight Do not overtighten the oil filler plug 9 After restarting the pump and allowing it to run for a few minutes recheck the oil level If the oil level is
66. e vented The carrier gas should be turned off Check the cooling air flow and correct if possible There is a problem with the diffusion pump Either the diffusion pump fan has failed or the pump has over heated Check the cooling air duct for obstructions and correct as necessary If the cooling air flow is fine and there are no obstructions contact your PerkinElmer service representatives 204 Vacuum Leak Safe to Vent Vacuum Gauge Failure Safe to Vent Exit TurboMass Vacuum System pumping down Exit TurboMass Vacuum System pumping down 205 The vacuum system is off and the system can now be vented The carrier gas should be turned off A Vacuum Leak has been detected Please look in the Hardware Guide for additional instruction The vacuum system is off and the system can now be vented The carrier gas should be turned off There is a problem with the vacuum gauge Please look in the Hardware Guide for additional instruction The vacuum system is in the process of the pumping down the spectrometer Exiting TurboMass at this time may prevent a successful pump down The vacuum system is in the process of shutting down Exiting TurboMass at this time may prevent a successful completion of this task Press OK to close the message Check the system for any leaks and correct If the problem continues contact your PerkinElmer service representatives Press OK to close the messag
67. east 94 cm 36 in on either side of the instrument to accommodate etc additional equipment for example the computer 31 32 Warnings and Safety Information Environmental Requirements Pollution Degree Laboratory Environment This instrument will operate safely in environments that contain non conductive foreign matter up to Pollution Degree 2 as defined in EN IEC 61010 1 Install the GC MS in an indoor laboratory environment that is clean and free of drafts and direct sunlight The laboratory should be free of flammable explosive toxic caustic or corrosive vapors or gases and should be relatively free of dust The ambient laboratory temperature should be between 10 C and 30 C 50 F and 86 F for Clarus 600 C 600 T and 600 S systems unless the turbomolecular pump is water cooled and between 10 C and 35 C 50 F and 95 F for Clarus 600 D or for Clarus 600 C 600 T and 600 S systems with water cooling Clarus 600 GC MS User s Guide Power Requirements Clarus MS Clarus GC All electrical supplies must be smooth clean and free of line transients greater than 40 V peak to peak and must meet and remain within the following tolerances 120 VAC 10 50 60 Hz 1 1000 VA maximum 230 VAC 10 50 60 Hz 1 1000 VA maximum Add 100 VA for the computer and 108 VA for a printer All electrical supplies must be smooth clean and free of line transients greater than 40 V peak to
68. eceeneeeees 24 Using Ammonia Gas neis n n ear eE nieee 24 Hazardous Ch ericalss cena iei a e a EE eea eebe 24 Definitions in Warnings for Hazardous Chemicals ceeeeeeeeeeee 26 Temperature Humidity and Environment ccs cesceseceseceeeceseeeseeeeneeenee 27 Operating Conditions civ Seti e eeni er aes 27 Storage Conditions oe eener e a a i a rer esaeas 28 General Laboratory Safete renoneer e a e 29 WEEE Instructions for PerkinElmer Products 30 Pre Installation Requirements 00 0 0 ee eeeeeeeseeeseeeseecneeceseceaeceaeeseesseeeseeeees 31 Laboratory Space Requirements ccc ceeceeeceseceeeeeeeeeeseeesecsseceaeeeseeees 31 Environmental Requirement eee essecssecsseceeceeceeeeseceseeeseeeseeeeaee 32 Power REQUITEMENTS Sac nario e a enced E E 33 Safety REquireMments seiiet ieies aris eu iien te iiia eiaeia 35 Computer and System Software Requirements 0 0 cee eeeeeeeeeeeeeeee 37 PC R quirements oeie e i e e E ea aoe 37 Operating Systems ismsena nini inan eE aE a a 37 SOLCWANE eea a A n E a E e EE be dae seth EEO EEE EEEE 38 Instrument Firmware Versions ssssesssesssssssssssssssssessesseresssssessssessses 38 Clarus 600 560 D MS Hardware Guide Printers 22 destettacecbiteacetstaacbeitesigestgtdadehbol igcebbbe pavbesuecateebeucetastbleetattas sites 38 Pre Installation Checklist cei ceeceecsscesceseeeeeeeeseeeseecsaecaaeceeceseesseessneeeaes 39 Introduction ies sgn suis ssesa sxaa canpeasac
69. ed Inconsistent retention Injector septum leak Replace the septum time Carrier gas manifold leak Locate and fix the leak Rising Total Ion Column bleed Disconnect the column from Chromatogram baseline the mass spectrometer and condition the column Discreet high intensity Column bleed Disconnect the column from contaminant peaks the mass spectrometer and condition the column Injector septum bleed Replace the septum and or glass liner Tailing peaks sloping on Improperly installed column Check the column and reinstall if necessary Injector too cool Raise the injector temperature Interface temperature too cool Raise the interface temperature Inadequate carrier gas flow Set proper flow 191 Clarus 600 MS Hardware Guide 192 Probable Cause Solution i Dirty injector liner Clean or replace Chromatographic peaks Injector too cool Raise injector temperature too wide Sample overloading the Use a split injection or a smaller column sample Eo Incorrect GC oven program Enter a new oven program Discrimination of relative Poor resolution or improper Retune peak intensities tuning LOU Unstable filament Replace filament fo Air leaks at detector Check He Air ratio Peaks are flat topped Signal strength exceeds Reduce PMT voltage dynamic range of detector Prepare and filter a new sample SY Anteakeatinjector Locate and fix the air leak Slowly falling baseline Spl
70. eeeeeneeereeeeeeneees 152 Vacuum System Maintenance eee eeesscesseeeseeeeeeeeseeeaeeeaecaecnaecnaeenaeees 154 Maintanenace of the Turbomolecular and Diffusion Pump 154 Checking the Forepump Oil Level 0 eee ceseeeeeeeeeeeeeeeneeeneeenaees 154 Adding Oil to the Forepump Reservoir eeeceeeceeeceeeeeeeeeeeeeenees 156 Decontaminating the Qil riesite s 156 Replacing the Oihisc s2ehsissadesiccacee tes cavetsecdgusthabesedestacetin reraosan aiae 156 Inline Gas Puriniers acca cette ane d een a aiai 159 Changing from EI to CI Mode cee eeeeceeeseeeseeeseeeeeceecnaecsaeceseenseeeseeees 160 Connecting the ClGas kissies nei eeo iseend nVa a a eE aits 160 Clarus 600 560 D MS Hardware Guide Changing tO CL scecssi sscevutasscbeitcsacer seueadetbetsacedhlacste staceten C EEEak 162 Leak Checking serii ee o er a e ae a E a Loose oak 163 Setting UPCI a eo tee EA RE a EA A EE REA EEEE ss ota 165 Troubleshooting sssesssesssocesooesoocessecssecssocesocesooessoecssccesocesoosesosesssee 175 OV ELVIEW eieo ea Seve ciate eae Stat a VE EE ETETE ey Rita 177 Spare COMPONEMNUS i enion einernie ine Eaa EAE EE aTa 178 Logical Troubleshooting Steps eseseeeeeeeeseereseesesrsseesresresresressesreses 178 Troubleshooting Chart eresien eire asepe ri rie N oenar aE 180 Chromatography Related eseeeeeseeeseeeeeseserestesresresresrssresresresseserses 191 Spectral Related sessen uote inenen a a aade 195 Communications Related c
71. eeeseeees 100 Items Required isscs tsccsie nanpa E E ROR 100 Inner Source Maintenances iaeei enttarnt ea ri ites 104 Removing the Inner Source esseseeesseseeesesreerrsresserrisseeriesresresressesreses 105 EI Inner Source Maintenance 00 0 0 eeeseceseceseceseeeseeeeeeeeaeeeseeeaeeenaees 106 CI Inner Source Maintenance 0 0 esessecssecsseceseeeeeeseeeeseeeseeeaeeenaees 113 Reinstalling the Souisse eet ni e 119 Replacing a Filament reres kenas ae E AA aaia 121 Itemsand Tools Reguimredieircsecncope enari s 121 Replacing the Head Amplifier eseeeeseeeeeeeeeseseeeresresresresresrrsserrresessresresre 126 Mass Analyzer Maintenance seeeeeseeeseseesereresresresesresrrssesrresesrresresee 128 Items and Tools Required ee eeeesecsseceseceseceseeeeeeeeeeesaeeeseesnaeenaees 128 Cleaning Matertals cstutiiacatinniitv aii eae a ebar Eia 129 Removing the Ion Optics Assembly seseeeseeeeseereereeresresresressesrees 129 Replacing an Outer Source Thermocouple ceeceseeseeeseeeneeeneees 139 Removing the Outer Source from the Ion Optics s s s 141 Replacing Outer Source Heaters 0 eee essecesecsseceneceeeceseeeseeeaeeenaees 142 Replacing the Quadrupole Heatet ecceccecececeeneeceeeeeeteceeeeeeteeees 144 Cleaning the Outer Source Lens ee ceeceseceseceeeeeeeeeeneeeaeeeneeenaees 146 Reassembling the Ion Optics Assembly 0 0 0 eceeeeeeeeeeeeeeeeereeeseceaeees 149 Reassembling the Clarus 600 560 D MS eeeeee
72. elerating positive or negative sample ions onto a dynode surface that emits electrons The electrons are then accelerated to strike a phosphor which produces photons of light that are amplified by the photomultiplier and collected as the signal 57 Clarus 600 MS Hardware Guide 58 Photomultiplier Electronics The photomultiplier consists of a photosensitive surface and electron multiplier sealed in a glass tube The light strikes the front window electrons are emitted and accelerated onto the first dynode of the electron multiplier and avalanche down the chain of dynodes The multiplier is sealed in its own permanent vacuum chamber glass tube and cannot be contaminated However contamination on the front window will raise the noise level and lower the sensitivity The Clarus 600 560 D MS electronics consist of a port in the PC an embedded processor amp digital I O board analog board GC MS backplane board PMT electrometer board and high voltage and low voltage power supply boards The embedded processor controls all aspects of instrument and data acquisition Ions exiting from the quadrupole are accelerated into a cup shaped dynode where they strike the inner surface Electrons are emitted into an electric field which extracts them from the conversion dynode and passes them onto the phosphor The phosphor is held at a higher positive potential than the dynode Light is emitted when the electrons strike the phosphor The
73. f e Clarus GC e Clarus MS e Computer e TurboMass Software e Foreline Pump 43 Introduction Summary of this Guide Thoroughly read and understand the Safety and Regulatory Information chapter before using the mass spectrometer Chapter 1 Chapter 2 Chapter 3 Chapter 4 Chapter 5 Warnings and Safety Information Contains all of the safety information and topics to comply with EN IEC 61010 Introduction Provides an instrument overview and the references to related documentation About the Clarus 600 560 D System Describes each of the components in the system and includes a list of items to check before using the instrument Maintenance Contains preventive and routine maintenance procedures that typical users can perform Troubleshooting Provides helpful troubleshooting tips and a table to help you identify and solve typical problems Related Documentation The Clarus 600 560 D family of manuals includes the following e Clarus 600 560 D MS Tutorial part number 09936769 The tutorial provides a step by step guide to performing a number of tasks using the instruments and software 44 Warnings and Safety Information e Software User s Guide part number 09936767 A comprehensive manual describing the functionality of each part of the TurboMass software It describes the keys and fields on each screen e Clarus 600 560 D MS Hardware Manual part number 09936768 Contains
74. fer line until the septum is flush to the back of the column nut To make a leak free seal use a 4 inch wrench to tighten the column nut 1 4 turn past fingertight s gt Injector _ _S ji 1 16 inch Column Nut Septum flush to the back of the column nut Flats for the 5 32 inch 4 mm on the transfer line 1 16 inch Column Nut Figure 23 Repositioning the column in the source Checking for Leaks 1 Start the carrier gas flow and leak check the fittings for leaks To ensure maximum sensitivity if this is anew column condition the CAUTION column to its maximum accepted operating temperature even if the column manufacturer claims that it is preconditioned 2 Start the vacuum by selecting Pump from the Options menu on the Tune window Monitor the vacuum and search for leaks if necessary Refer to the vacuum leak checking procedure described in Leak Checking on page 79 3 Once you have verified that no leaks exist set the transfer line temperature to its original value and close the GC oven door to heat the column 99 Clarus 600 MS Hardware Guide Refilling the Reference Gas Vial It is time to refill the reference gas vial when you lose reference gas peaks intensity and you do not see a liquid in the reference gas vial or any time the mass spectrometer is vented and the liquid in the vial level appears low NOTE You shoul
75. ghten the setscrews 1 8 turn past fingertight Do not overtighten the setscrews 10 Connect the heater wires together and plug the quadrupole heater wire into the remaining connector 11 Reassemble the outer source 142 Maintenance Screw 1 of 3 P N E531 4016 Clamp Plate P N E640 1322 Contact Support Plate P N E640 1229 Pillar P N E640 1320 Heater Locking Screws Source Heaters P N E640 0265 Figure 56 Replacing heaters in the outer source 143 Clarus 600 MS Hardware Guide 144 Replacing the Quadrupole Heater The quadrupole heater is connected in series with the two outer source heaters Items and Tools Required Cartridge heater Part No E640 0202 Small flat blade screwdriver Lint free powder free PVC gloves Part No N621 2495 To replace the quadrupole heater follow this procedure 1 2 Unplug the quadrupole heater wire from the outer source heater wires Loosen the setscrew that secures the quadrupole heater to the standoff Slide the heater out discard it and slide the new heater into the standoff Secure the heater in place by tightening the setscrew 1 8 turn past fingertight Do not overtighten the setscrew Plug the quadrupole heater wire into the outer source heater wire connector Maintenance Outer Source Assembly of lon Opies Assembly Cartridge Heater Setscrew To outer source Quadrupole cartridge heater other si
76. gs and connection points to the high vacuum system Set the injector split flow to 50 1 Run AutoTune Clarus 600 MS Hardware Guide Poor sensitivity correct Column is improperly Reinstall the column and amount of sample is reaching positioned in the ion check the cut at the end the mass spectrometer source that fits in the source Improper tuning or a Check the tuning Increase dirty or defective ion the PMT voltage source Shut down the system remove the inner source clean or replace lenses in the outer source and install a new filament Loss of resolution especially Dirty prequadrupole rods Clean the prequadrupole at high mass rods Mass assignment drifts Large temperature Stabilize the lab fluctuations in the temperature or isolate the laboratory GC MS system from large temperature fluctuations Mass assignment incorrect fo Run mass calibration Skewed spectra Improper scan speed too Increase the scan speed slow for the narrow peaks produced by capillary columns Unusually high repeller Repeller dirty Clean repeller voltage 186 187 Unusually high emission Ion volume dirty setting Tuning peaks show Poor tuning precursors forward slope shoulders Dirty prefilter Dirty source Defective or damaged analyzer Particulates on analyzer rods No reference peak Reference gas off Empty reference vial Clean the inner source Clean the prefilters
77. has been turned off the software will display a message indicating that the system is now cool enough to vent The message also reminds you to turn off the carrier gas 3 Vent the mass spectrometer by pressing the push button behind the front door of the mass spectrometer It will lock in the pressed in position and turn red indicating the vent valve is open CAUTION If you try to vent a hot diffusion system oxidation of the pump oil may occur and cause oil to enter the analyzer tub which will damage the mass spectrometer 65 Clarus 600 MS Hardware Guide 66 Access Door Source Manual Vent Valve for the Diffusion Pump The depressed push button vent switch lights when venting is allowed Before pressing Pump Vacuum System On make sure the vent switch is closed the button is out and the light is off Never vent when e The diffusion pump is hot e During the 20 minute cool down period Always check that the front panel vent button is out and the lamp is off when starting to pump the system down NOTE NOTE About the Clarus 600 560 D System The vent valve will operate if the vent switch is pushed in on before the diffusion pump becomes hot This includes the first few minutes of Pump Vacuum System On Venting during this period may cause a vacuum fault to occur and risk back streaming the diffusion oil into the analyzer It is a good reminder to leave the instrument front door open wheneve
78. he source 116 Maintenance 5 Dry off source assembly and plates using lint free tissue and or clean compressed Nitrogen gas to prevent solvents from drying on these parts and leaving a residue 6 Take the parts amd wrap them in a clean lint free cloth and bake them in the GC oven at about 80 C for about fifteen minutes 7 Reassemble the ion aperture plate and ion chamber plate on the source 8 Replace the filament assembly Underside of the lon Exit XN Plate P N E640 1213 shown 7 Clean the underside of the Cl lon Exit Plate P N E640 1214 Clean these areas Figure 37 Reassembling the CI inner source 117 Clarus 600 MS Hardware Guide Ensure filament coil aligns with hole Rhenium ee Filament Assembly P N N6470012 Washer Contacts Figure 38 Replacing the filament assembly 118 Maintenance Reinstalling the Source 1 Position the source so it aligns with the guide pin gently insert the source into the mass spectrometer and secure it in place with the two black thumbscrews Tighten the black thumbscrews until they are fingertight Do not overtighten the thumbscrews Access Door Inner Source Black Thumbscrews Handle Figure 39 Reinstalling the source in the mass spectrometer 2 Insert the inner transfer line tube back in the outer transfer line 3 Tighten the inch transfer line nut fingertight To make a leak free seal use a 9 16 inch wrench t
79. he two thumbscrews on the inner source grab it by its handle pull it out of the mass spectrometer and set it on a clean surface 6 Close the mass spectrometer access door 7 Put ona pair of powder free lint free gloves Part No N621 2495 Access Door Inner Source Black Thumbscrews Handle Figure 27 Removing the inner source EI Inner Source Maintenance To gain access to the parts on the EI inner source that need cleaning follow this procedure NOTE For this procedure use the Inner Source Rebuild Kit Part No E640 0043 To ensure that the mass spectrometer remains contamination free wear CAUTION lint free powder free gloves Part No N621 2495 while performing this procedure 106 Maintenance Disassembling 1 Prepare a clean uncluttered work area and place a square of aluminum foil with the shiny side up Obtain some clean small containers for example small beakers to store the screws and small parts as you remove them 2 Using a small flat blade screwdriver loosen the screw that secures the old filament assembly to the source Use tweezers to remove the screw and washer Pull out the filament assembly Defective Filament Assembly crew P N E531 4043 Washer P N E533 1031 Figure 28 Removing the filament assembly 107 Clarus 600 MS Hardware Guide 3 Using a small flat blade screwdriver loosen and remove the four screws on the ion chamber cover plat
80. here This instrument is not designed for operation in an explosive atmosphere WARNING Generic Warnings Before installing or operating the MS read the following topics concerning hazards and potential hazards Ensure that anyone involved with installation and or operation of the MS is knowledgeable in both general safety practices for the laboratory and safety practices for this instrument Get advice from your safety engineer industrial hygienist environmental engineer or safety manager before you install or use this instrument This equipment requires no specified inspection or preventive maintenance to ensure the continuous functioning of its safety features 18 Warnings and Safety Information Moving the Clarus MS 4 WARNING WARNING WARNING Depending on the Clarus 600 MS GC pump option selected the instrument weight will range from 46 8 kg 102 Ib to 49 9 kg 110 Ib The Clarus 560 D MS is 48 kg 105 Ib in weight The mass spectrometer requires two people to safely lift it and should be lifted from the bottom Use the following lifting posture to avoid back injury With knees bent simultaneously lift the instrument out of the carton as you end up in a standing position Connect the mass spectrometer to an AC line power outlet that has a protective ground connection To ensure satisfactory and safe operation of the mass spectrometer it is essential that the protective ground conduct
81. ing Disconnect AC power cord from oulet ae before removing any cover or parts 4 Do not operate the instrument with any Caution cover or parts removed Caution Do not restrictair intake or exhaust Air Exhaust o p ROTARY PUMP POWER IN Air Intakes 120 VAC 50 60 Hz 230 VAC 50 60Hz MAX POWER 1000 VA EN 55011 Class A Group 1 Warning l AN REMOVE VENT LINE BLANKING CAP i e AT INSTALLATION 10 i Caution This unit contains protective circuitry Contact PerkinElmer qualified service personnel before performing any AC line tests Figure 2b Rear View of the Clarus 560 D MS On Off Switch Warning Grounding arcuit corifuauily is vial icr sale Cperadica ct equipar Never cperade aguipuarard wifi sounding Gonduslor dec rinectd 17 Clarus 600 560 D MS Hardware Guide Clarus MS Safety Practices NOTE This equipment requires no specified inspection or preventive maintenance to ensure the continuous functioning of its safety features The Mass Spectrometer should be used in accordance with the instructions provided in the user s manuals and tutorial supplied with the instrument If used otherwise the protection provided by the instrument may be impaired Do not attempt to make adjustments replacements or repairs to this instrument except as described in the accompanying user documentation Explosive Atmosp
82. it valve left closed during Open the split valve from a high initial value acquisition ite arin ewe es ee ioe Dirty injector Source temperature not Set the proper source optimized temperature Tune not set correctly Run AutoTune Poor filament alignment Realign or replace filament Incorrect column position in Reposition the column the source fo Detector voltage set too low Increase PMT voltage 193 Clarus 600 MS Hardware Guide 194 Defective syringe Old or damaged filament Examine and replace filament Ff oor tunings OOOO o oe OO O Poor calibration Recalibrate Active sites in column liner Replace column liner Intermittent source heater Call a PerkinElmer service failure engineer Poor S N on test standards See low sensitivity causes above Yi cist ae es ee a es Ss e es Column flow rate too high 195 Spectral Related PMT voltage set too high Spectrum distortion Scanning too fast or slow Incorrect Isotope ratios Poor calibration Incorrect tune ol Peak detection threshold set too low Air leak Missing Isotopes in Bad calibration spectrum Poor tuning Dirty source Peak detection thresholds set too high PMT voltage set too low Retune Clean source Use a higher sample concentration Lower the thresholds Raise the PMT voltage Clarus 600 MS Hardware Guide Contamination Co eluting components Incorrect column
83. ition Access Door Inner Source Black Thumbscrews Handle Figure 11 Removing the source 90 Maintenance Connecting the New Column to the Split Splitless Injector This procedure describes how to connect a column to a capillary injector For procedures to connect a column to a PSS or POC injector refer to Installing a Capillary Column in Chapter 6 of the Clarus GC User s Manual Part Number 0993 6780 This injector has a fragile 1 16 inch fitting To preserve the integrity of the fitting CAUTION e Carefully tighten the nut on the fitting e Do not cross thread or overtighten the nut on the fitting e Allow the injector to cool before connecting a nut 1 Unwind 20 cm 8 inches from one end of the column 20 cm Column Figure 12 Unwinding 20 cm from the injector end 91 Clarus 600 MS Hardware Guide 2 Insert a septum 1 16 inch column nut part number 09903392 and 1 16 inch graphite ferrule 0 8 mm i d Part Number 0992 0141 or 0 5 mm i d Part Number 0990 3700 over one end of the column as shown in Figure 13 1 16 inch 7757535 p7 i Graphite Vespel 9 i Ferrule l a ala Column I I I I 1 16 inch Column Nut i l l l I Septum l e L ol Column Figure 13 Inserting the nut and ferrule on the column NOTE Verify that the tapered end of the ferrule is facing towards the nut as shown above 3 Cut about 1 cm 3 8 inch from the
84. ity a finely machined assembly that has been precisely aligned using specialized equipment Under no circumstances should you ever disassemble the main mass analyzer assembly The mass spectrometer is fitted with prequads that act as a prefilter assembly designed to protect the analytical quads by intercepting the majority of any contamination As a consequence the analytical quads should never under normal working conditions require cleaning Occasionally it may be necessary to remove the prefilter rods for cleaning The need to clean these rods is usually indicated by poor peak shape or loss of resolution although other more likely causes such as source contamination should be eliminated first Items and Tools Required e 4mm hex wrench e 5mm hex wrench e Lint free powder free PVC gloves Part No N621 2495 e Wooden stick cotton swabs e Deionized Water e 6000 Grade Micro Mesh Part No N930 3420 e 8000 Grade Micro Mesh Part No N930 3421 e 600 grit aluminum oxide in DI Water with a few drops of methanol to make a paste e Small flat blade screwdriver e Long flat blade screwdriver e Aluminum foil e Acetone e Methanol Tweezers Maintenance Cleaning Materials When cleaning internal components it is important to maintain the quality of the surface finish Deep scratches or pits can cause loss of performance Where no specific cleaning procedure is provided you should use fine abrasive
85. ive Is the pump making a If so the rotor may be out of constant high pitched balance Contact your noise PerkinElmer service representative 181 Clarus 600 MS Hardware Guide Probable Cause Solution Turbo pump will not Pump malfunction Call a PerkinElmer service accelerate engineer Pump controller Call a PerkinElmer service malfunction engineer GC is not properly Set the proper GC configured configuration for your site Vacuum light continues to Large leak Locate vacuum leak and correct Foreline trap has Replace filter excessive moisture Rotary pump set to gas Switch the gas ballasting off ballast Rotary pump requires oil Change oil change High mass spectra appears Bad tune Run AutoTune as a large blotch or loss of high mass spectra Drastic change in mass peak Bad tune Run AutoTune shape for no apparent reason 182 183 Problem Probable Cause Solution No spectra or very little Bad tune Run AutoTune spectra at the low mass end No spectra not even noise at Loose electrometer cable Reset the cable a high PMT voltage Defective electrometer Call a PerkinElmer service board engineer Defective filament Replace the filament Wavering baseline by Defective outer source Replace the temperature several hundred counts temperature sensor or a sensor defective electrometer Call a PerkinElmer service engineer Clarus 600 MS Hardware Guide Poor or ina
86. k checking if necessary e Fnter information into a logbook Weekly e Check the tune and mass calibration Tune if necessary e Check the forepump oil level and color Replace if necessary e If equipped with a water chiller check the water level and temperature e If using CI at the end of the day gas ballast the forepump lightly for 20 minutes 77 Clarus 600 MS Hardware Guide Monthly Clean the fan filters on the rear of Clarus MS e Check the reference gas vial Refill if necessary Every Six Months e Replace the forepump oil e Check the inner source Clean if necessary e Check the analyzer prequadrupole Clean if necessary Yearly e Check lens 1 lens 2 and analyzer prequadrupole Clean if dirty e Check and clean the forepump inlet filter gas ballast control and the motor fan cover and enclosure 78 Maintenance Leak Checking Checking for leaks is actually checking the integrity of the vacuum system You observe masses 4 helium 18 water 28 nitrogen and 32 oxygen To leak check the system follow this procedure 1 Ensure that all connections are made to the mass spectrometer 2 Set the GC split flow to 50 mL min by pressing the PSSI injector icon on the Clarus GC touch screen On the next screen press the split flow setpoint and use the up and down arrow or keypad a Hl buttons to set the split flow to 50mL For example if the capillary injector is in position 1 and you selected
87. kPa to the bulkhead fitting on the back of the mass spectrometer A two stage stainless steel diaphragm high purity regulator is A single stage stainless steel diaphragm high purity rated for corrosive service is required for ammonia Clean tubing must be used It must be solvent washed and nitrogen dried The bulkhead connector at the rear of the instrument is a 1 8 inch Swagelok fitting To prepare Clarus 600 MS for CI Make sure to purge the CI line before you attach it to the rear of the mass spectrometer 1 Obtain the CI gas cylinder for your analysis 2 Connect the gas line to the Cl Gas connector on the rear of the mass spectrometer Ensure that the mass spectrometer is at the proper vacuum level 4 Turn on the CI gas and set the delivery pressure to 15 psi 104 kPa Leak check all connections 161 Clarus 600 MS Hardware Guide Warning REMOVE VENT LINE BLANKING CAP AT INSTALLATION ROTARY PUMP Hig N3 WATER WATER cIG S VENT IN OUT OM OD 15 psi 5 psi 50 psi 103 kPa 35kPa 345 kPa MAX MAX MAX O 120 VAC 50 60Hz O 230 VAC 50 60Hz MAX POWER 1000 VA EN 55011 Class A Group 1 Caution This unit contains protective circuitry Contact PerkinElmer qualified service personnel before performing any AC line tests Figure 65 CI Gas connection on the rear panel of the mass spectrometer Changing to CI To change from the
88. lies Catalog and the Gas Chromatography Column Catalog To place an order for supplies and many replacement parts request a free catalog or ask for information Telephone e US only Call toll free 1 888 PE CHROM 8 a m to 8 p m EST Your order will be shipped promptly usually within 24 hours e Worldwide Call your local PerkinElmer sales or service office or call PerkinElmer Shelton CT USA 1 203 925 4600 Internet http www perkinelmer com e mail chrom perkinelmer com Clarus 600 MS Hardware Guide 208 Index Index A Aluminum oxide 109 116 C Caution 9 86 Changing a column 88 Checklist pre installation 39 pre operational 71 Chemicals definitions of warnings 26 hazardous 24 CI leak checking 163 setting parameter values 166 setting up 165 CI Inner Source 113 disassembling 114 maintenance 113 rinsing and reassembling 116 Cleaning the Instrument 21 Column 70 leak checking 99 selection 70 Compressed gases safety practices 22 Computer requirements 37 D Diffusion Pump 61 pumping down 64 E EI Inner Source 106 cleaning 109 115 disassembling 107 reassembling 110 rinsing 109 Index EI Inner Source maintenance 106 EI to CI mode changing 160 Electricity safety practices 20 Environmental requirements 32 F Filament replacing 121 G Gases 36 H Hardware maintenance 85 Heated surfaces warnings 23 Heaters quad replacing 144 source
89. m Depending on the pump option 20 in high x 77 cm 30 in deep selected the weight will range from 46 8 kg 102 Ib to 49 9 kg 110 Ib Clarus 560 D MS 32 cm 13 in wide x 46 cm 48 kg 105 Ib 18 in high x 77 cm 30 in deep Forepump 30 5 cm 12 in wide x 44 cm 17 3 in high 25 9 kg 57 1b x 72 cm 28 4 in deep Clarus 600 GC 99 cm 39 in wide x 53 cm 49 kg 108 Ib 21 in high x 82 cm 32 in deep Autosampler Tower 13 cm 5 in wide x 36 cm 14 in high x 24 4 5 kg 10 Ib cm 9 5 in deep Physical Single unit for use on standard laboratory bench that can be interfaced to a computer Configuration and printer Bench Space The laboratory bench should be sturdy enough to support the full weight of the GC MS as well as additional equipment for example computer and or printer Expect the total weight of the GC MS and accessory equipment to weigh at least 159 kg 350 Ib Allow a minimum clearance of 15 cm 6 in on each side 22 9 cm 9 in at the rear and 137 2 cm 54 in at the top of the GC MS If this is not possible install the GC MS on a bench that has wheels The bench requires an area underneath for the forepump Do not position the Clarus 600 MS so that it is difficult to operate the AC power on off switch on the lower left side of the instrument in case of a malfunction of the instrument For the Clarus 650 D the AC power on off switch on the back of the instrument Peripherals Printers Allow at l
90. mation United States FCC This equipment has been tested and found to comply with the limits for a Class A digital device pursuant to part 15 of the 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 user will be required to correct the interference at his own expense NOTE Changes or modifications not expressly approved by PerkinElmer could cause the instrument to violate FCC U S Federal Communications Commission emission regulations and because of this violation could void the user s authority to operate this equipment Europe All information concerning EMC standards is in the Declaration of Conformity and these standards may change as the European Union adds new requirements The Clarus MS contains protective circuitry Contact PerkinElmer Service before performing any AC line tests CAUTION 13 Clarus 600 GC MS Hardware Guide Electrical Symbols Used on ClarusMS Alternating current Protective conductor terminal Ground Off position of the main power switch On position of the main power switch Warni
91. mpled laboratory wipe into the PMT hole in the vacuum chamber to prevent particulates from entering the vacuum chamber N N N Insert crumpled laboratory wipe gt 2 Head Amplifier Board L P N E640 9032 Cover i as Ground Cable x Nut 1 i Lock NOTE Washer The rear panel vent fan should NOT be removed from the instrument It is removed in this illustration only to clearly show how to access the PMT Access Panel ONLY remove the PMT Access Panel Figure 50 Removing the head amplifier board and the PMT 134 Maintenance Removing the lon Optics Assembly Make sure to vent the instrument and turn the power off and unplug the mass spectrometer from the AC power source WARNING 1 Disconnect the cables connected to the ion optics assembly and place them to the side so they will not interfere with the removal of the ion optics assembly See the following figure 2 Disconnect the Reference and CI gas lines from the top of the ion optics assembly See the following figure REAR VIEW lon Optics Assembly Phosphor Source Reference Gas Cl Gas amp RF Generator Location of Reference Z Cable Figure 51 Disconnecting cables and tubing from the ion optics assembly 135 Clarus 600 MS Hardware Guide 3 With the power off unplug the source connector for mo
92. nel bes 7 NOTE The rear panel vent fan should NOT be removed from the instrument It is removed in this illustration only to clearly show how to access the PMT Access Panel ONLY remove the PMT Access Panel Screws 4 ae Figure 48 Removing the mass spectrometer panels 132 Maintenance Removing the Photomultiplier Tube 1 Unplug the cable from the head amplifier board 2 Using a long flat blade screwdriver loosen the two captured screws securing the photomultiplier tube PMT amplifier cover and remove the cover PMT Amp Cover Lock Screw NOTE The rear panel vent fan should NOT be removed from the instrument It is removed in this illustration only to clearly show how to access the PMT Access Panel ONLY remove the PMT Access Panel Figure 49 Removing the PMT amplifier cover 3 Using a4 mm hex wrench remove the screw securing the PMT amplifier board grounding strap 4 Carefully remove the amplifier board from the PMT by pulling it straight back 133 Clarus 600 MS Hardware Guide 5 Using a4 mm hex wrench remove the screws securing the PMT flange to the vacuum chamber 6 Put ona pair of powder free lint free gloves 7 Carefully remove the PMT Cover it with a laboratory wipe and place it ina safe dark place 8 Insert a cru
93. ng Risk of electric shock Warning Hot surface Caution risk of danger Documentation must be consulted to determine the nature of the potential hazard and any actions which have to be taken PEeP O 14 Label Location and Content wol9e00000000000000000000000 ooooooooo0oo0o00000000000000 ooooooo0oo0oo0oo0o000000000000000000 Figure 1 Front View of Clarus 600 MS Warnings and Safety Information Thrus 600 Mass Spectrometer 2000000000000000000000000 oooooo0oo0o000000000000000000000 Front View of Clarus 560 D 15 Clarus 600 560 D MS Hardware Guide PerkinElmer precisely Shelton CT 06484 USA Clarus 600 C Mass Spectrometer Part No Nxxxxxxx P Ar PC DEOL UULITIN nterrace Ethernet Serial No gt lt gt lt 202 gt lt gt lt gt lt Connection n l IUSIN IIL FCC Compliance This device complies with Part 15 of the FCC Rules a Operation is subject to the following two conditions i E 1 this device may not cause harmful interference and Ha ERE 2 this device must accept any interference received T Processor including interference that may cause undesired aa Reset operation Switch Warning Disconnect AC power cord from oulet before removing any cover or parts Do not operate
94. ning parameters for maximum intensity 4 Save the Tune page parameters by selecting Save As from the File menu 5 Select Calibrate Instrument from the Tune page Calibration menu 6 Select heptaneg ref from the drop down menu CAUTION Make sure the Use Air Refs check box is not selected 173 Clarus 600 MS Hardware Guide 7 Click the Start button to display the following dialog box Automatic Calibration x d m d mo E7 8 Click Acquisition Parameters and enter the following values Calibration Acquisition Setup 9 Click OK to begin calibration You are now ready to run CI analysis 174 Troubleshooting 5 Clarus 600 MS Hardware Guide 176 Overview The following sources of problems can occur in gas chromatography and mass spectrometry The operator When the operator is new to chromatography mass spectrometry and or a new instrument problems can be introduced during the learning curve Once the operator becomes familiar with both the technique and the instrument this problem source diminishes greatly The sample Unlike clean standards real world samples such as environmental samples can introduce problems because they are difficult to handle have complicated matrices contain unknown constituents etc The column The column is most often the major factor contributing to poor analyses The more a column is used the greater the possibility of contamination l
95. nt washed copper tubing must be used to avoid contamination of the Gas Chromatograph Suitable solvents are acetone or dichloromethane do not use if negative chemical ionization is planned followed by methanol Clean helium or nitrogen should be used to blow any residual solvent from the tubing Cap all unused tubing Care must be taken not to kink or overstress the gas delivery lines Strain relief consisting of two one inch coils of tubing should be installed at every gas line connection All gas cylinders should be firmly clamped to a suitable surface Gas cylinders should be located outside of the laboratory whenever possible and should always be stored and operated in a vertical position Ensure that all hydrogen lines and connections are leak free When using a hydrogen tank install an in line hydrogen snubber part number 00090038 between the tank regulator and the delivery tubing Always provide adequate ventilation When analyzing hazardous compounds such as pesticides it may be necessary to arrange to vent the mass spectrometer effluent from the forepump into a fume hood To prevent contamination if a fume hood is unavailable an oil separation filter should be installed at the outlet of the forepump vented to a fume hood or an oil mist separator Alcatel 68316 with a charcoal trap Koby KA1 An acceptable alternative is to attach a 2 inch Tygon tube and vent to a hood Pump oil vapor is considered toxic and must be ven
96. o C e Fiarrart Current Source Cunrort MS Pmometoes LM Res HM Res log Energy lon Energy Rang Mutke 0v nao ano W70 O nao 200 so icare TreveloSancty E Ready Worcs OX Operate The panel in the top right of the Tune page displays the tune peak information and instrument pressure information The tune peak display is located on the right side of the screen and allows you to view up to four masses The corresponding check boxes located above the peaks allow you to control each peak display Any one of the tune peaks can be zoomed so that it occupies the entire tune peak area When a tune peak has been zoomed the Maintenance controls for the mass and span for that peak are displayed at the top of the display window This enables you to display the pressure information while having control over the peak display To display the Tune page 1 While displaying TurboMass sample list screen click Ea The Tune page is displayed Ele Sasco agnosis Varane System Stats i um OF GC Intetece Inlet Line Temperature 26 5 Sasco Paranoters Blecon Energy Soyce Temp IC Filaeent Curent Soe Casrert MS Poscrnetons LM Res HM Res log Energy lon Energy Rang Murgi V1 190 1mo 1337 0 2190 22100 20 0 Acque Press for Sandy E nady Vanam OK Operate 2 Turn on the filament and high voltages by clicking Press for Operate at the bottom right of the window The indicator box t
97. o tighten the 4 inch nut an additional 1 8 turn Tighten it enough to make a leak free seal but do not overtighten the nut 119 Clarus 600 MS Hardware Guide Replace W dea 1 4 inch Transfer Line Nut Figure 40 Reconnecting the transfer line Checking for Leaks 1 Start the carrier gas flowing and leak check the fittings for leaks 2 Start the vacuum by selecting Pump Vacuum System On from the Options menu on the Tune window Monitor the vacuum and search for leaks if necessary Refer to the leak checking procedure described in Leak Checking on page 79 3 Once you have verified that no leaks exist set the transfer line temperature to its original value and close the GC oven door to heat the column 120 Maintenance Replacing a Filament Make sure you are wearing powder free PVC gloves Part No N621 CAUTION 2495 and that you wipe each part with a methanol dampened Kimwipe Items and Tools Required e Filament assembly Part No E6400209 e Tweezers e 0 8 mm hex wrench e Methanol e Powder free lint free gloves Part No N621 2495 e Small flat blade screwdriver e Aluminum foil or lint free disposable cloth squares To replace a filament follow this procedure 1 Prepare a clean uncluttered work area and place a square of aluminum foil with the shiny side up 2 Remove the EI source by following the procedure Removing the
98. ons eves isin teumenceuadshupebusGuasanabgunoneetesabeotses 41 Prefacene inen strats e Ee E AEE y i noted hei alates a A E 43 Syst m OVELVICW ieme iee eee E E E E E EEEE EEE a 43 Summary of this Guide sseni rE r EE aaeei a 44 Related Documenta ti ts siessen si eias 44 About Part Numbers Listed in this Manual 0 eee eeeeceeeseceenteceeeeeeees 45 About the Clarus 600 560 D System ccsscccsssssssssccsssscesescesees 47 About the Clarus 600 560 D System cee ceececseeceesceceeeeeeeeeeeeaeceeaeeeeeeeee 49 Clarus 600 S60 D GO i secrete cles oE E AEE E E E a e e E 51 GC Interface Transfer Line 0 c ce eccecccceessececesssececsesneceeesseeecseseeeesseeeenes 53 Reference Gas Inlet iniu eine Rigel alee tetas teehee a ee 54 Ton Optics Path zisne i esiti ere eh stints easa aS 57 Vacum System nii raea iea ee eshte arate 59 Rotary PUD ee ee e EE A e E ET N A EON E AT E 59 Vacuum Pump Options ee eeeeeseeseecseecssecsseceseceseceeceseceseeeseeseneeeaes 61 Diffusion Pump Operating States 0 0 ee eeeeseesecseeceseceaeceeeeseeeeneeeaes 62 Diffusion Pump Operating States Continued 0 0 0 0 ee eeeeeeeeeeeeereeeeee 63 Turbomolecular PUMP srecan tees elise ated ie Si 64 Diffusion PUMP sys iesecstisvadeiens Asa eid ys e a E E aided 64 Vaccum Gau Seis cre a siccouradinecenn e e e a eea e ae ENa aea eneit 67 TurboMass Softwaree iiris uae eee nents e e e E ed 68 Top Level Screenin arrere eatin iin e E T 68 TUNE Pag
99. or the green yellow lead of the line power cord is connected to a true electrical ground Any interruption of the protective ground conductor inside or outside the mass spectrometer or disconnection of the protective ground terminal may impair the protection provided by the mass spectrometer Never operate the mass spectrometer with any covers or parts removed Do not make adjustments replacements or repairs to the mass spectrometer except as described in this manual Only a PerkinElmer Service Representative or similarly trained and authorized person should be permitted to service the mass spectrometer Ensure that the power cord is correctly wired and that the ground leads of all electrical units for example recorders integrators are connected together via the 19 Clarus 600 560 D MS Hardware Guide circuit ground to earth Use only three prong outlets with common earth ground connections e Servicing of electrical components within the mass spectrometer should be performed only by a PerkinElmer Service Representative or similarly trained and authorized person e Servicing of the incoming AC power line components in your laboratory should be performed only by a licensed electrician Electrical shock hazard To prevent electrical shock disconnect the power cord from the AC outlet before servicing iy N j f A A X WARNING Disconnect AC power cord from outlet before removing any cover or parts Do not o
100. or is required for ammonia rated for corrosive service Also the forepump must be vented to a fume hood or outside the building Methane and A high purity stainless steel diaphragm two stage regulator is required for Isobutane methane and isobutane with a final delivery pressure of 15 psi 103 kPa Clean tubing must be used It must be solvent washed and nitrogen dried The bulkhead connector at the rear of the instrument is a 1 8 in Swagelok fitting The use of commercial gas purifiers for reagent gas is recommended 37 NOTE Warnings and Safety Information Computer and System Software Requirements To ensure that your system performs at the expected high level your computer must be configured to the minimum capabilities indicated below These requirements may be updated as the requirements for TurboMass software and or Microsoft Windows XP SP2 are changed Consult the latest Product Description List for current requirements This guide does not cover the installation and configuration of your computer If you have purchased a complete system from PerkinElmer the computer will be configured by your Service Engineer during product installation PC Requirements The TurboMass software is installed at PerkinElmer prior to shipment and tested using the following minimum PC system specifications If you need to reinstall the software verify that the PC meets the following minimum requirements e Dell OptiPlex 745 GX620 GC2
101. oss of substrate etc Columns do not last forever and should be changed when results become suspect The gas flow system Gas leaks are a major concern in gas chromatography and can lead to many problems The vacuum system Vacuum leaks are a major concern in mass spectrometry and can lead to many problems Ion Optics Over time the ion optics can become contaminated This results in reduced sensitivity and difficult or impossible tuning The electronics The problem must be identified as either chromatographic or hardware Electronics used in the system can malfunction Data handling Today most chromatographers rely on sophisticated data handling systems to integrate their results Some problems can be related to the incorrect data handling parameter settings or hardware problems with the computer Clarus 600 MS Hardware Guide 178 Spare Components The following list contains items you should have on hand to help solve problems New syringes a syringe can break become plugged or begin leaking Always have spare syringes available Duplicate columns a column does not last forever always have a duplicate column on hand in the event that your separation begins to degrade Also capillary columns can be damaged if oxygen is introduced at high temperatures A duplicate column will allow you to determine if the column is the cause of the problem Septa this is the one area of the gas chromatograph that requires routine main
102. pairing or disturbing a particular part of the system ensure that this part has been correctly refitted and or adjusted and that any adjacent components have not been inadvertently disturbed Many of the procedures described in this chapter involve removing potentially toxic contamination deposits using flammable or caustic agents Anyone performing these operations should be aware of the inherent risks and should take the necessary precautions A WARNING Maintenance Typical Overall Maintenance Schedule Performing maintenance tasks on a routine basis can reduce the overall costs of operation If a fault occurs you can correct it with minimum difficulty Advanced maintenance should be performed by a skilled person capable of removing complicated mechanical assemblies For example an untrained individual should not attempt to remove the manifold but may be able to perform basic maintenance such as draining and filling the forepump Exterior surfaces may be cleaned with a soft cloth dampened with a mild detergent and water solution Do not use abrasive cleaners or solvents Factory trained service personnel can assist in any advanced training needs All tasks should be logged into a logbook to keep a record of any problems or trends Daily e Make sure all system components are in working order e Check and ensure that there are gas supplies to the GC and to the mass spectrometer e Check the air water spectrum Perform lea
103. pectrometer is not designed for operation in an explosive environment The laboratory should be free of flammable explosive toxic caustic or corrosive vapors or gases and should be relatively free of dust Pollution Degree Clarus MS will operate safely in environments that contain non conductive foreign matter up to Pollution Degree 2 in EN IEC 61010 1 27 Clarus 600 560 D MS Hardware Guide 28 Storage Conditions The mass spectrometer may be stored under the following conditions Ambient temperature is 20 C to 60 C 4 to 140 P Ambient relative humidity is 20 to 80 non condensing Altitude is in the range 0 to 12000 m The instrument is stored in an upright position Warnings and Safety Information General Laboratory Safety Your laboratory should have all equipment ordinarily required for the safety of individuals working with chemicals fire extinguishers first aid equipment safety shower and eye wash fountain spill cleanup equipment etc 29 Clarus 600 560 D MS Hardware Guide 30 WEEE Instructions for PerkinElmer Products E aaa r A label with a crossed out wheeled bin symbol and a rectangular bar indicates that the product is covered by the Waste Electrical and Electronic Equipment WEEE Directive and is not to be disposed of as unsorted municipal waste Any products marked with this symbol must be collected separately according to the regulatory guidelines in your area Th
104. perate the instrument with any covers or parts removed WARNING Under no circumstances should circuit boards be removed or inserted unless the instrument is disconnected from line power 20 Warnings and Safety Information Decontamination and Cleaning Before using any cleaning or decontamination methods except those specified by PerkinElmer users should check with PerkinElmer that the proposed method will not damage the equipment Decontamination Customers wishing to return instrumentation and or associated materials to PerkinElmer for repair maintenance warranty or trade in purposes are advised that all returned goods must be certified as clean and free from contamination The customer s responsible body is required to follow the Equipment Decontamination Procedure and complete the Certificate of Decontamination These documents are available on the PerkinElmer public website http las perkinelmer com OneSource decontamination htm If you do not have access to the internet and are located in the U S call toll free at 1 800 762 4000 or 1 203 925 4602 8 30 a m 7 p m EST and speak to Customer Support In Canada call toll free 800 561 4646 and speak to Customer Support If you are located outside of the United States or Canada please call your local PerkinElmer sales office for more information Cleaning the Instrument Exterior surfaces may be cleaned with a soft cloth dampened with a
105. port Plate P N E640 1321 2mm Ceramic Spacer 1 of 4 P N E640 1222 Lens 2 Focus Plate P N E640 1235 5mm Ceramic Spacer 1 of 4 P N E640 1325 reg S Lens 1 Focus Plate P N E640 1307 Clean these areas Ceramic Rod tof 4 Pillar 1 of 3 P N E640 1319 PIN E640 1320 Figure 58 Removing the lenses from the outer source for cleaning 148 Maintenance Reassembling the lon Optics Assembly The following drawing is an exploded view of the outer source showing all parts with their part numbers 3 x 6 Screw 1 of 3 top _ P N E531 4016 Clamp Plate P N E640 1322 Wavy Washer P N E534 5008 l I f oh Typical Contact Attachment 2mm Ceramic Spacer I 3 4 t e Stainless Steel Spring Contact T l Screw 1 of 7 P N aor 4044 Contact Terminal Paa ox P N E640 1328 Copper Spring Contact P N E640 1232 1 ol P N E640 1222 P N E640 1389 Copper Spring Contact Ceramic Rod P N E640 1230 1 of 4 Stainless Steel Spring Contact 1 of 3 P N E640 1390 APS Spring Contact P N E640 1231 P N 640 1319 Pillar 1 of 3 P N E640 1320 12mm Metal Spacer 1 of 4 Stainless Steel Spring P N E640 1324 Contact P N E640 1391 Contact Support Plate P N E640 1229 Outer lon Block without magnet P N E640 1233 4mm Ceramic Insulating Spacer P N E640 1317 Magnet P N E640 1227 Magnet Cap 7 7mm Metal arty P
106. r the push button switch is pushed in on When the diffusion pump is hot the vent switch is deactivated and will not light when pushed in on Since the vent switch may be left in the depressed position at any time you should be careful to avoid closing the instrument door and forgetting that the push button switch is pushed in When the diffusion pump cools the pushed in push button switch will light and automatically vent the system Vacuum Gauge The single wide range vacuum gauge monitors the system pressure from atmosphere down to 10 Torr using a combined Pirani Inverted Magnetron ionization sensor Normal operating pressure with 1 mL min helium for the 255 L sec turbomolecular pump is between 9x10 Torr and 2x10 Torr after pump down and ion source bake out The 75 L sec turbomolecular and the diffusion pumps will operate at somewhat higher pressures typically below 4x10 Torr 67 Clarus 600 MS Hardware Guide TurboMass Software TurboMass software is the user interface of the Clarus system The following screens show some examples of how you can control Clarus Interaction is via the mouse and keyboard using menu driven commands Printing file management and other routine procedures are performed using the appropriate Microsoft Windows modules Top Level Screen This screen contains the GC MS status sample list sequence queue and provides you with access to all other functions amp TurboMass DEFAULT
107. ral laboratory safety 29 generic warnings 18 heated zones 23 hydrogen methane isobutane 24 overview 18 pollution degree 27 requirements 35 space 31 storage 28 ventilation 23 Software 68 top level screen 68 Tune page 69 Source 119 reinstalling 119 Space requirements 31 Spare components 178 Storage 28 Supplies accessories replacement parts 45 system requirements 37 T Transfer line cooling 86 Traps click on connectors 159 replacement 159 Troubleshooting 177 chart 180 overview 177 spare components 178 Tune page 69 Tuning 82 TurboMass system requirements 37 TurboMass Software 68 Turbomolcular Pump venting 64 Turbomolecular Pump 61 Vv Vacuum Controls 61 Index Vacuum Gauge 67 Vacuum system 59 options 61 rotary pump 59 Vacuum System diffusion pump 61 64 turbomolcular pump venting 64 turbomolecular pump 61 Ventilation safety practices 23 Venting 87 W Warnings 10 18 hazardous chemicals 26 213
108. re room to work Use a 5 32 inch Allen wrench to remove the two allen nuts from the handle See following photo Allen Nuts 4 With the handle off remove the reference gas vial assembly and bracket out and move it out to the side of the instrument See the following photo 136 Maintenance 5 Remove the four hex head bolts loosely holding the ion optics assembly to the vacuum chamber See the following figure 6 Grabbing the ion optics assembly by the two handles carefully lift the ion optics assembly straight up and away See the following figure Hexagon Head Bolt 4 Handle Guide Pins Figure 52 Lifting the ion optics assembly from the vacuum manifold 137 Clarus 600 MS Hardware Guide 7 Place the ion optics assembly on a clean work surface with the RF box down and the mass analyzer facing up see Figure 3 8 Cover the open vacuum chamber with aluminum foil to prevent particulates from contaminating the chamber Outer Source Prequads Assembly of lon Optics Assembly jii o Analytical Quads Figure 5
109. rical voltage is present inside the mass spectrometer To prevent the risk of electrical shock or injury from high voltage unplug A the AC line cord from the AC outlet and wait at least one minute before n opening or removing an instrument panel WARNING Peme i Disconnect AC power cord from outlet before removing any cover or parts Do not operate the instrument with any covers or parts removed WARNING Do not attempt to make adjustments replacements or repairs to this instrument except as described in the accompanying user documentation NOTE This equipment requires no specified inspection or preventive maintenance to ensure the continuous functioning of its safety features Cleanliness and care are of critical importance whenever internal assemblies are removed from the instrument e Always prepare a clear clean work area e Make sure that any required tools or spare parts are close at hand e Obtain small containers to store screws washers spacers etc e Never touch any internal source parts with your bare fingers Clarus 600 MS Hardware Guide 76 e Use tweezers and pliers whenever possible e _ If nylon or cotton gloves are used prevent leaving fibers in sensitive areas NEVER use rubber gloves e Before reassembling and replacing dismantled components inspect O rings and other vacuum seals for damage If you in doubt replace the O rings and vacuum seals with new ones If a fault occurs soon after re
110. roblem happens again you will know exactly what corrective action to take 179 Clarus 600 MS Hardware Guide Troubleshooting Chart Mass Spectrometer will AC line cord not plugged into Plug the Mass not turn on no indication an AC outlet Spectrometer AC line cord of power to the into an AC outlet instrument Lg No AC power to the outlet Check the outlet Fuse blown Call a PerkinElmer service engineer Mass Spectrometer ison Forepump is not plugged into Plug the forepump line but the forepump is not the AC outlet on the rear of cord into the mass running the mass spectrometer spectrometer Forepump is not operating Make sure the forepump is correctly mass spectrometer switched on does not pump down Blown fuse in Mass Call a PerkinElmer service Spectrometer engineer 180 The ultimate pressure is Is the cooling inadequate Check the cooling air flow and poor correct if possible Check the cooling air duct for obstructions and correct as necessary If the cooling air flow is fine and there are no obstructions contact your PerkinElmer service representatives Is the backing pressure Check for a leak in the backing high pipeline and poor backing pump performance Correct as necessary The pump is very noisy or Is the noise irregular and If so a bearing may be there is excessive vibration getting progressively defective Contact your or both worse PerkinElmer service representat
111. rrect Check the voltage pump motor switch at the pump The outlet filter is Find and unblock blocked Pump has failed to reach Pressure measurement or A contaminated Pirani gauge vacuum gauge head gives an can indicate a pressure several incorrect indication of times higher that the actual pressure Replace if necessary Pump contains the wrong Drain and refill with the type of oil correct oil Edwards Ultragrade 19 Oil Consult your Edwards Pump instruction manual Mode selector and or gas Check and set to correct ballast control are position incorrectly set High oil level Drain to the high oil level mark Low oil level Check and fill to correct level 199 Vacuum fitting dirty or damaged Noisy Pump Motor fan cover damaged Worn motor bearings Oil saturated from CI analysis Oil contaminated with solid particles Solution Drain and refill with new oil Check and replace if necessary Call a PerkinElmer service engineer Call a PerkinElmer service engineer Determine cause and replace oil Drain and refill with clean oil Clarus 600 MS Hardware Guide 200 External oil leak Outer shaft seal worn or damaged Oil box gaskets deteriorated Oil leak from gas ballast control Oil leak from sight glass a Oil leak from drain plug Solution Call a PerkinElmer service engineer Call a PerkinElmer service engineer Call a PerkinElmer service engineer
112. s displayed NOTE The inlet and source temperatures should be less than 100 C only when venting the system E TunePage c turbomass default pro acqudb default ipr Fle IonMode Calbration Gas Options Help Doe tS mla s 9 ml ksin 2 El Source Diagnostics Mass Span Gain Torr Vacuum System Vi fe g i Statue M2 fis 4 3 p3 s is 3 cdc a 4 z lt 1 08 7 e0 z 0 x 2100 s020 E o0 oo 6 00 lt oo o GC Interface Inlet Line Temperature 0 20 Source Parameters BectonEney B fro F Trap Emission o hoo pies a Repeller fo fro i Lens 1 o so pO Lens2 0 foo g Source Temp C bD fo Flament Curent fg Source Curent T MS Parameters LM Res h eer HM Res h2s m lon Energy hs if lon Energy Ramo no Eie Multiplier V Jo PAABABABPS buna bans bertee 0 69 0 n 90 131 0 13 7 0 790 22100 5020 50 Vented aoe Maintenance 6 Click Press for Operate next to the red indicator box The indicator box color changes to green and the name of the button changes to Press for Standby Wet Lew Tepas ine a0 Soseo Paranee tection Energ 7 Select Pump from the Options menu This starts the forepump and the turbomolecular pump or diffusion pump depending on which pump you have installed Watch the vacuum gauge rea
113. s to remove dirt from metal components Recommended abrasives are e 6000 Grade Micro Mesh Part No N930 3420 e 8000 Grade Micro Mesh Part No N930 3421 e 600 grit aluminum oxide in DI Water with a few drops of methanol to make a paste After cleaning with abrasives it is necessary to wash all metal components in suitable solvents to remove all traces of grease oil and if micro mesh is used rubber The recommended procedure is to swill or sonicate the components in a clean beaker of methanol for at least ten minutes and subsequently to blot them dry with lint free tissue Recommended solvents are After the components are reassembled they should be blown with oil free nitrogen to remove dust particles Removing the lon Optics Assembly To remove the EI inner source follow this procedure Before performing source maintenance always prepare the mass CAUTION spectrometer by following the instructions in Preparing Clarus 600 560 D MS for Hardware Maintenance on page 85 1 Prepare the mass spectrometer for maintenance as described in Preparing Clarus 600 560 D MS for Hardware Maintenance on page 85 2 Open the GC oven door and locate the mass spectrometer transfer line 3 Using a 9 16 inch wrench loosen the 14 inch nut on the transfer line 129 Clarus 600 MS Hardware Guide Risk of burns Never touch a heated mass spectrometer transfer line or a GC injector cap with unprotected bare fingers WARNING
114. sed for both negative CI and positive CI The maintenance procedures for the CI source are very similar to those of the EI however the CI does not have a repeller or ion trap It does have a smaller exit aperture to ensure that the sample ions properly react with the CI gas To ensure that the mass spectrometer remains contamination free wear CAUTION lint free powder free gloves Part No N621 2495 while performing this procedure To gain access to the parts on the CI inner source that need cleaning follow this procedure 113 Clarus 600 MS Hardware Guide Disassembling 1 Prepare a clean uncluttered work area and place a square of aluminum foil with the shiny side up Obtain some small containers for example small beakers to store the screws and small parts as you remove them 2 Using a small flat blade screwdriver loosen the screw that secures the old filament assembly to the source Use tweezers to remove the screw and washer Pull out the filament assembly Defective Filament Assembly crew P N E531 4043 Washer P N E533 1031 Figure 34 Removing the filament assembly 3 Using a small flat blade screwdriver loosen and remove the four screws on the ion chamber cover plate and ion aperture plate then remove the plates 114 Maintenance Underside of the lon Exit Plate P N E640 1213 shown lt gt Clean the underside of the CI lon Exit Plate P N E640 1214 Clean these areas
115. split flow in the PPC configuration software the following screen is displayed A PSSI Oven AFID Events IV Heater Of ae ate Program 25 C temp init ry Carrier Gas _______ 0 0 psi E 0 00 mum 20 psi perm 0 0 cm sec press init Spit total fow 0 mLin a ratio fow Program Not Ready Mar 4 EE va r The total flow split vent septum purge column is displayed in the lower left of the screen The split vent flow setpoint is displayed in the setpoint box in the lower right bbb bbb 3 Start the TurboMass software by clicking on the Windows Start button at the bottom left of the screen and selects TurboMass under the Programs TurboMass TurboMass path or double click on the TurboMass icon if it is on your Windows desktop 79 Clarus 600 MS Hardware Guide 80 The initial TurboMass window is displayed E TurboMass DEFAULT Default SPL Fle Edit Samples Run View Quantify Configure GC Tools Help ect a gt fn walh tammaa e Gc FieName MS Method GC Method Vial iniecto Sample 10 alele akil gela 2 Fi Quantify Method m pe sii 1 Peau DEFAULT DEFAULT ES Index Acqui Description Do Shutdown Enabled 4 Display the Tune dialog by clicking Ea The Tune dialog is displayed 5 Make sure the Tune parameters are similar to the value
116. ted properly 35 Clarus 600 560 D MS Hardware Guide 36 Gas Requirements Carrier gases used with the mass spectrometer require a minimum purity of 99 999 Gas cylinders should be located outside of the laboratory whenever possible and should always be stored and operated in the vertical position For all gases delivered to the mass spectrometer always use copper tubing CAUTION that is free of grease oil and organic material If in doubt about the condition of your tubing clean it before use Gases GC MS Carrier Minimum purity of 99 999 for helium or hydrogen Carrier gas tubing Gases should be ultra clean A number 1A 200 ft gas cylinder should be used for all carrier gases with a high purity stainless steel diaphragm two stage regulator Filter through a moisture filter and or hydrocarbon trap and de oxo filter designed for MS Gas delivery pressure to the GC should be 70 100 psi 483 689 kPa Do not exceed 100 psi 689 kPa on the carrier gas inlet Helium Reagent Gases Minimum purity of 99 999 for methane minimum purity of 99 98 for isobutane minimum purity of 99 998 for ammonia Carrier gas tubing should be ultra clean The gas delivery pressure required is 15 psi 103 kPa to the bulkhead fitting 1 8 in Swagelok on the mass spectrometer Ammonia If ammonia is used for chemical ionization all fittings and tubing must be stainless steel to avoid corrosion A single stage regulat
117. tenance Always have spare septa available Leak detector the gas flow system can be a problem as fittings wear with age and can begin to leak You should have a thermal conductivity leak detector to help find and fix leaks Injector liners are made of glass or fused silica and can be easily broken when removed You should keep a supply of spare liners on hand Please remember that you cannot run satisfactory analyses without an injector liner Logical Troubleshooting Steps There are some simple steps that you should take when trying to locate a problem Use the following guide to troubleshoot your system 1 Note the symptoms define the problem Compare your runs with good analysis that is with the results normally obtained Systematically eliminate possible causes The first rule here is What did you change last Many times a problem arises when a change is made to the system such as changing a gas tank column septum or glass liner If the problem occurred after such a change then the change is the most likely cause of the problem Change the simplest thing first For example if you suspect a gas leak the easiest change to make is the GC septum instead of replumbing the internal pneumatics Change only one parameter at a time and check for its effect If you change three items at once and your problem goes away you may not know which of the three moves or combination of moves corrected the problem This way if the p
118. th a gain of 105 49 Clarus 600 MS Hardware Guide Figure 3 Clarus MS with Clarus GC The system consists of two major components Clarus MS and the Clarus GC Brief descriptions of each major component follow 50 About the Clarus 600 560 D System Clarus 600 560 D GC The Clarus 600 560 D Gas Chromatograph is a dual channel temperature programmable gas chromatograph GC It is available in many configurations such as with or without an autosampler programmable pneumatic control PPC and a variety of injector detector combinations to provide you with total GC flexibility The Clarus 600 560 D GC is microprocessor controlled where you enter the operating parameters and view the prompting text and monitor instrument functions on a large full color touch screen display Figure 4 Clarus 600 560 D GC The Programmed Pneumatic Control PPC Version of the Clarus 600 560 D GC is used where the carrier gas and detector gases are monitored and controlled by the microprocessor thereby producing a fully automated system that is capable of managing all pneumatic functions within the gas chromatograph 51 Clarus 600 MS Hardware Guide The Clarus 600 560 D GC can store up to five GC methods Methods can be generated copied deleted edited set up and printed These methods are normally developed and stored on the TurboMass data system The automatic liquid autosampler can run up to 15 injections per vial
119. the atmosphere outside the laboratory or use an appropriate exhaust line filter The AC line cord for the rotary vane pump must be plugged into the designated receptacle on the back of the Clarus 600 MS The pump is CAUTION controlled by the TurboMass software Connecting the vacuum hose to the exhaust connection of the rotary pump will severely contaminate the Clarus 600 MS About the Clarus 600 560 D System Vacuum Pump Options The Clarus 600 MS offers three different vacuum pump capacities The tubomolecular and diffusion pump options are designed to fit your applications performance and budgetary needs The Clarus 560 D only utilizes a diffusion pump Turbomolecular Pump Clarus 600 MS has two turbomolecular pump options in three configurations Turbomolecular pumps are high speed turbines which transport the sample and carrier gas molecules away from the mass spectrometer Clarus 600S The 75 L sec turbomolecular pump supports Electron Ionization operation EI and has optional water cooling Clarus 600 T All of the functions and options of the 600 S with a 255 L sec turbomolecular pump for higher column flow rates pump down time under three minutes and lower detection limits Clarus 600 C All of the functions and options of the 600 T with positive and negative Chemical Ionization CI operation Diffusion Pump Clarus 600 D and the 560 D MS has an air cooled oil diffusion pump This pump is only available for Ele
120. the required safety and regulatory information required for EN IEC 61010 It contains an overview of mass spectrometry and of each component in this system a pre operational checklist typical user maintenance and a troubleshooting guide e Service Manual not included Contains information for trained service engineers to completely service the Clarus About Part Numbers Listed in this Manual The part numbers listed in this manual are available from PerkinElmer s catalog service Supplies Accessories and Replacement Parts Supplies accessories and replacement parts can be ordered directly from PerkinElmer s catalog service PerkinElmer offers a full selection of high quality chromatography data handling products and gas chromatography supplies and columns through e essentials To place an order for supplies and many replacement parts request a free e essentials catalog or ask for information Telephone e US only Call toll free 1 800 762 4000 8 30 a m to 7 p m EST Your order will be shipped promptly usually within 24 hours e Worldwide Call your local PerkinElmer sales or service office or call PerkinElmer Shelton CT USA Internet http www perkinelmer com 45 Clarus 600 MS User s Guide 46 About the Clarus 600 560 D System About the Clarus 500 System About the Clarus 600 560 D System The Clarus 600 560 D mass spectrometer is a compact benchtop instrument that produces positive identification
121. tyder at den n vnte vejledning skal overholdes n je for at undg en beskadigelse af apparatet Caution Advertencia Utilizamos el t rmino CAUTION ADVERTENCIA para advertir sobre situaciones que pueden provocar aver as graves en este equipo o en otros En recuadros ste se proporciona informaci n sobre este tipo de circunstancias Caution Attention Nous utilisons le terme CAUTION ATTENTION pour signaler les situations susceptibles de provoquer de graves d t riorations de l instrument ou d autre mat riel Les d tails sur ces circonstances figurent dans un encadr semblable celui ci Caution Attenzione Con il termine CAUTION ATTENZIONE vengono segnalate situazioni che potrebbero arrecare gravi danni allo strumento o ad altra apparecchiatura Troverete informazioni su tali circostanze in un riquadro come questo Caution Opgelet Betekent dat de genoemde handleiding nauwkeurig moet worden opgevolgd om beschadiging van het instrument te voorkomen Caution Aten o Significa que a instru o referida tem de ser respeitada para evitar a danifica o do aparelho Warning We use the term WARNING to inform you about situations that could result in personal injury to yourself or other persons Details about these circumstances are in a box like this one 8 lt gt CED QD QL D Warnings and Safety Information Warning Warnung Bedeutet dap es bei Nichtbeachten der genannten Anweisung
122. ube Pin Connections Note keying position of short pin when plugging b the Photomultiplier Tube into the Head Amplifier Board Head Amplifier Board P N E640 9032 Cover a Ny KWON Ground Cable AN I Lock Washer Figure 62 Reinstalling the PMT 8 Reinstall the PMT head amplifier cover and secure it in place with the two captured screws 9 Replug all the cables and reconnect the tubing 10 Reinstall the top and rear panels 11 Reinstall the source 153 Clarus 600 MS Hardware Guide 154 Vacuum System Maintenance Vacuum system maintenance consists of the following e Checking the forepump to ensure the oil is at the proper level e Adding oil to the forepump reservoir e Replacing forepump oil e Replacing foreline trap pellets Complete pump instructions are in the instruction manual supplied with the pump Maintanenace of the Turbomolecular and Diffusion Pump You should never service the turbomolecular and diffusion pumps Call your PerkinElmer Service Representative for the maintenance and any problems you may have with these pumps Checking the Forepump Oil Level 1 Locate the oil level indicator window on the forepump Maintenance Voltage Selection Switch Under Cover Handle TurboMass Connection Port Oil Filler Plug 1 Exhaust Port M
123. urned off When backing pump is turned off When vacuum leak is detected When vacuum gauge failure is detected When vacuum gauge failure is detected on start up High vacuum pump is on Display count down timer When system has cooled and diffusion pump is turned off Display count down timer About the Clarus 600 560 D System 63 Clarus 600 MS Hardware Guide 64 Turbomolecular Pump Pumping Down a Turbomolecular Pump Vacuum System gt Select Pump Vacuum System On from the Options menu on the Tune page The menu name will change from Pump Vacuum System On to Vent Vacuum System Off and the system will begin its pump down sequence Once OPERATE is enabled it remains enabled unless the Vent Vacuum System Off command is given Venting the Vacuum System Turbomolecular Pump 1 Cool the source and inlet to below 100 C 2 Select Vent Vacuum System Off from the Options menu on the Tune page and confirm that you want to vent the system Diffusion Pump Pumping Down a Diffusion Pump Vacuum System gt Select Pump Vacuum System On from the Options menu on the Tune page The menu name will change from Pump Vacuum System On to Vent Vacuum System Off the roughing pump turns on and waits for the system to achieve a minimum vacuum level of 3 7 x 10 Torr Once that vacuum level has been achieved a relay turns on the diffusion pump heater and a countdown timer starts A
124. urns green to indicate that it is on 3 Select UltraTune Custom AutoTune from the Options menu then click Start You will hear a click when the reference gas solenoid valve opens and AutoTune begins Upon completion the message AutoTune completed successfully is displayed 4 Click OK 83 Clarus 600 MS Hardware Guide 5 Select Reference Gas On from the Gas menu to remove the check mark or click UE to set it in the up position 6 Save this new Tune of the instrument by selecting Save As from the File menu and entering a name for this tune in the File name field A way to keep track of the tunes is to use dates for the file names 7 Click Save Your mass spectrometer is now Tuned To ensure proper operation check the mass calibration 84 Maintenance Preparing Clarus 600 560 D MS for Hardware Maintenance To prepare Clarus MS for hardware maintenance there are several steps that are common and precursory to all maintenance procedures They are as follows Turn off the Operate Mode 1 Display the Tune window 2 Ifthe Press for Standby button is green indicating an operating instrument switch it off by clicking on it TunePage c urbormass default pro acqudb defaull ipr Be lon Mode Calbraton Gas Options Help ojelala fix ka Ele Sasco Okegroster GC Intetace jet Line Tongerse E 5 Scaace Paranetens Blecnun Energy Fa Juo Emssen m no f Bertier jaa fs f
125. zu einer Verletzung des Benutzers kommen kann Warning Advarsel Betyder at brugeren kan blive kvestet hvis anvisningen ikke overholdes Warning Peligro Utilizamos el t rmino WARNING PELIGRO para informarle sobre situaciones que pueden provocar da os personales a usted o a otras personas En los recuadros como ste se proporciona informacion sobre este tipo de circunstancias Warning Danger Nous utilisons la formule WARNING DANGER pour avertir des situations pouvant occasionner des dommages corporels l utilisateur ou d autres personnes Les d tails sur ces circonstances sont donn es dans un encadr semblable celui ci Warning Pericolo Con il termine WARNING PERICOLO vengono segnalate situazioni che potrebbero provocare incidenti alle persone Troverete informazioni su tali circostanze in un riquadro come questo Warning Waarschuwing Betekent dat wanneer de genoemde aanwijzing niet in acht wordt genomen dit kan leiden tot verwondingen van de gebruiker Warning Aviso Significa que a n o observ ncia da instru o referida poder causar um ferimento ao usu rio 11 Clarus 600 560 D MS Hardware Guide 12 Customer Service This instrument is manufactured by PerkinElmer Inc 710 Bridgeport Avenue Shelton Connecticut 06484 4794 U S A Tel 1 800 762 4000 Internet http www perkinelmer com Warnings and Safety Information Electromagnetic Compatibility EMC Regulatory Infor

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