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Finnigan LCQ DECA - Charles E. Schmidt College of Science

1. MS Detector O ring 0 239 in ID 1 16 in thick Viton eene 00107 04000 O ring 0 614 in ID 1 16 in thick Viton eese 00107 05700 O ring 0 625 in ID 0 029 in thick Viton essere 00107 09015 Retainer heater APC D aa eene e enne nnn nn nennen nnn 70005 20222 Screw pan head Phillips 4 40 x 1 8 in stainless steel 00405 44050 Screw socket 4 40 x 3 16 in stainless steel silver plated 00419 44005 Tube a xiliary gas ARC iicet DA RR E Re 70005 20199 Tubes sheatli gas JAPGL ee ee QR ORE peu Nie 70005 20200 d KLEER 70005 20194 Tubing fused silica 0 150 mm ID x 0 363 mm OD 2 ft 0 6 m I 00106 10498 Vaporizer casing APCE 70005 20217 Vaporizer flange APCI sssseesseeeeeeeeeeeeeeen eene eene enne nnne 70005 20239 Washer flat 4 0 312 in OD x 0 03 in thick stainless steel 00470 00410 VAPOLIZeL kt Ed 97000 62037 Heater colb APQLT acer ini won nk Weise eben 70005 20216 Insulator heater APT ii re ht etre bavanbanboeaeaeveeesnavegeasees 70005 20195 Screw socket 4 40 x 3 16 in stainless steel silver plated 00419 44005 Tube vaporizet TTT 70005 20194 Washer flat 4 0 312 in OD x 0 03 in thick stainless steel 00470 00410 Assembly Corona Discharge ccssssssssssssssssssssssssccsssssssssssccsscsssssssssscc
2. pound liquid chromatograph liquid chromatograph mass spectrometer light emitting diode meter milli 10 3 mega 10 molecular ion protonated molecular ion micro 10 9 minute milliliter millimeter MS power where n 1 MS power where n 2 MS power where n 1 through 10 mass to charge ratio nano 109 National Center for Biotechnology Information USA neutral loss gain scan mode TSQ only ohm pico 10 12 pascal parent scan mode TSQ only printed circuit board proportional integral differential part number peak to peak voltage parts per million pounds per square inch gauge random access memory radio frequency root mean square read only memory Finnigan LCQpeca Hardware Manual ix Head This First Abbreviations L cQ RS232 S SCSI SIM solids probe SRM SSQ TIC TCP IP Torr TSQ u URL V V ac V dc VGA w WWW MS in this manual 10 in this manual Finnigan LCQpEcA Hardware Manual industry standard for serial communications second small computer system interface selected ion monitoring direct insertion probe selected reaction monitoring single stage quadrupole total ion current transmission control protocol Internet protocol torr triple stage quadrupole atomic mass unit uniform resource locator volt volts alternating current volts direct current Video Graphics Array width World Wide Web Note Exponents a
3. a Place the cover against the left side of the MS detector such that the studs on the cover insert into the guide slots in the MS detector chassis Finnigan LCQpECA Hardware Manual 5 55 Service Maintenance Replacing PCBs and Assemblies L cQ b Slide the side cover forward about 1 25 cm 0 5 in until the studs on the cover lock in the guide slots c Tighten by hand the fastener that secures the side cover to the chassis of the MS detector 15 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 16 Place the electronics service switch in the Operating Position 17 Run the LCQpeca diagnostics to verify that the system is operational Replacing the Low Pass Filter PCB To replace the Low Pass Filter PCB proceed as follows See Figure 5 17 for the location of the Low Pass Filter PCB 1 5 56 Finnigan LCQpEcA Hardware Manual Place the electronics service switch in the Service Position or shut down and vent the LCQpeca system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter CAUTION Make sure that the LCQpeEca electronic service switch is in the Service Position or shut down or shut down the system and disconnect the power cord before you proceed Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector
4. 3 15 A 5 x 20 mm 250 V time lag 4 each 00006 10510 Hose PVC reinforced 1 0 in ID 1 25 in OD 00301 24141 Manual HPLC troubleshooting 1 each 00920 05914 Needle corona discharge eeesseeeeeeeeeeeeeeeeeee eee 70005 98033 Needle ESI D point 26 gauge 2 in long 51 mm 1 each 00950 00990 Nut flangeless 1 16 in electrospray 1 pack 00102 10146 Nut 1 16 in stainless steel Valco sseeeeeeeeee nnn 00110 16008 O ring 299 in ID x 103 in thick Kales 00107 10059 Pump oil rotary vane vacuum pump JL 00301 15101 Sample loop 20 uL stainless steel Valco 00301 30000 Seal ESI needle 5000 series E A A A TT 00950 00952 Sleeve heated capillary me et t tege 70005 20224 Sptay cap scene nde cte pte E A hd ae a 97000 20347 Syringe 10 uL Rheodyne 1 each 00301 19008 Syringe 250 uL Gastight removable needle 2 escht 00301 19015 Syringe 500 uL Gastight removable needle 1 each 00301 19016 Tube copper 1 8 in OD x 0 030 in wall refrigerant 16 5 ft 5 m I 00301 22701 6 14 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA Replaceable Parts Wie Tube hypodermic 26 gauge x 10 in 254 mm 304S Recommended Spares stainless steel 1 each 00106 20005 Tube Teflon 0 030 in ID x 1 16 in OD 1 5 ft 0 5 m Lo eens 00301 22915 Tubing 0 25 in OD x 0 062 in wall thickne
5. 3 2 power supplies 36 V 28 V dc switching power supply replacing 5 36 5 V 15 V 24 V dc switching power supply replacing 5 36 8 kV power supply replacing 5 36 conversion dynode power supply replacing 5 46 electron multiplier power supply replacing 5 46 on off status table 3 11 3 12 probe assembly ESI disassembling 4 10 maintenance 4 9 reinstalling 4 19 probes See APCI probe or ESI probe pumps turbomolecular pump maintenance 5 59 Q quadrupole leads location figure 5 8 Finnigan LCQpeca Hardware Manual V Index L cQ quadrupoles description 1 9 quartz insulator APCI probe location figure 4 20 R reagents disposal CAUTION 4 4 5 4 rear cover reinstalling 5 57 removing 5 56 recommended spares replaceable parts 6 15 replaceable parts accessory kit 6 14 APCI probe assembly 6 3 API probe guide 6 4 API stack 6 5 cables 6 11 chemicals kit 6 13 covers 6 13 divert inject valve 6 7 6 16 electrical assemblies 6 9 ESI probe assembly 6 2 hardware data system 6 13 ion detection system 6 6 mass analyzer 6 6 mechanical assemblies 6 9 MS detector 6 2 optional tools 6 16 PCBs 6 10 recommended spares 6 15 RF control detection assemblies 6 11 rotary vane pump 6 8 syringe pump 6 7 top cover plate of vacuum manifold 6 7 turbomolecular pump 6 8 vacuum assemblies 6 8 replacement procedures 36 V 28 V dc switching power supply 5 36 5 V 1
6. ANALYZER POST vn 97000 20338 RING ELECTRODE 96000 20016 sm MI THUMB SCREW 97000 20235 ENTRANCE ENDCAP 97044 20000 INTEROCTAPOLE LENS 97044 20004 ENTRANCE LENS 97044 20003 QUADRUPOLE MOUNT 97000 20164 ANALYZER MOUNT 97044 20005 OCTAPOLE 97000 60016 QUADRUPOLE 97044 60060 Figure 5 2 Mass analyzer and ion optics exploded view 5 8 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Service Maintenance Cleaning the lon Optics and Mass Analyzer ThermoC2uest Note Wear clean lint free nylon or cotton gloves when you handle the ion optics and mass analyzer components 1 Prepare a clean work area by covering the area with lint free paper Place each part on the paper as you remove it 2 Disconnect the four electrical leads to the quadrupole Hold the quadrupole mount with one hand loosen and remove the two thumb screws that hold the quadrupole mount to the baffle on the top cover plate of the vacuum manifold 4 Remove the quadrupole and quadrupole mount Disconnect the electrical lead to the interoctapole lens Remove the interoctapole lens 6 Disconnect the electrical leads to the octapole and to the entrance lens entrance endcap electrode exit endcap electrode and the exit lens of the mass analyzer 7 Disconnect the damping gas line from the nipple on the exit endcap electrode by pulling the line free from the nipple See Figure 5 2 8 H
7. Divert Inject Valve Accessories eene emen nnne hnner nennen een nnn eene 6 16 Optional T60ls i Se ee Uere tne eR ERE ER E EE egre 6 16 Erebi A 1 iv Finnigan LCQpEcA Hardware Manual ThermoC2uest ThermoC2uest Read This First Welcome to the ThermoQuest Finnigan LCQ MpEcA LC MS system This Finnigan LCQpeca Hardware Manual contains a description of the modes of operation and principle hardware components of your LCQDECA system In addition this manual provides step by step instructions for cleaning and maintaining your LCQpeca MS detector The Finnigan LCQpEca Hardware Manual includes the following chapters Chapter 1 Functional Description describes the principal components of the LCQpeca MS detector Chapter 2 Changing ESI or APCI Probe Assemblies contains procedures for changing ESI and APCI probes Chapter 3 System Shutdown Startup and Reset provides procedures for shutting down and starting up the LCQDECA system Chapter 4 User Maintenance outlines the maintenance procedures that you should perform on a regular basis to maintain optimum MS detector performance Chapter 5 Service Maintenance outlines maintenance procedures for the ion optics and electron multiplier and procedures for testing the major electronic circuits within the instrument and for replacing failed PCBs and assemblies Chapter 6 Replaceable Parts lists the replaceable parts for the MS detector an
8. You can remove and disassemble many of the components by hand The tools equipment and chemicals listed in Table 5 2 are needed for the maintenance of the ion optics mass analyzer and ion detection system Table 5 2 Tools equipment and chemicals Wrench 5 16 in hex socket Allen Wrench 9 16 in socket Wrench 7 16 in open end Wrench 9 16 in open end Wrench 5 16 in open end Wrench 1 2 in open end Wrench 3 8 in open end Screwdrivers set ball point Allen also referred to as 00025 03025 ball drivers Screwdriver slot head large Screwdriver slot head small Screwdriver Phillips small Fused silica cutting tool Hypodermic tube 00106 20000 Spray bottle Beaker 450 mL Gloves nylon 00301 09700 Kimwipes or other lint free industrial tissue Applicators swabs cotton tipped 00301 02000 Detergent Clean dry compressed nitrogen gas Distilled water Methanol HPLC grade or better ThermoC2uest Finnigan LCQpEcA Hardware Manual 5 3 Service Maintenance Frequency of Cleaning 5 4 L cQ 5 2 Frequency of Cleaning CAUTION As with all chemicals solvents and reagents should be stored and handled according to standard safety procedures and should be disposed of according to local and federal regulations The frequency of cleaning the components of the MS detector depen
9. and chemicals listed in Table 4 2 are needed for the maintenance of the API source Table 4 2 Tools equipment and chemicals Description Part Number Wrench 5 16 in hex socket Allen Wrench 9 16 in socket Wrench 7 16 in open end Wrench 9 16 in open end Wrench 5 16 in open end Wrench 1 2 in open end Wrench 3 8 in open end Screwdrivers set ball point Allen also referred to as 00025 03025 ball drivers Screwdriver slot head large Screwdriver slot head small Screwdriver Phillips small Fused silica cutting tool Hypodermic tube 00106 20000 Spray bottle Beaker 450 mL Gloves nylon 00301 09700 Kimwipes or other lint free industrial tissue Applicators swabs cotton tipped 00301 02000 Detergent Clean dry compressed nitrogen gas Distilled water Methanol HPLC grade or better ThermoC2uest Finnigan LCQpEcA Hardware Manual 4 3 User Maintenance Frequency of Cleaning L cQ 4 2 Frequency of Cleaning CAUTION As with all chemicals solvents and reagents should be stored and handled according to standard safety procedures and should be disposed of according to local and federal regulations The frequency of cleaning the components of the MS detector depends on the types and amounts of samples and solvents that are introduced into the instrument In general for a
10. detector are turned off Choose Control Off from the Tune Plus window to place the MS detector in the Off condition Place the electronics service switch in the Service Position The electronics service switch allows you to perform maintenance procedures involving non vacuum system components of the MS detector Place the main power circuit breaker switch in the Off O position Placing the main power circuit breaker switch in the Off O position removes all power to the MS detector including the vacuum system The on off status of MS detector components voltages and gas flows is summarized in Table 3 1 Finnigan LCQpEcA Hardware Manual ThermoC2uest Q DECA System Shutdown Startup and Reset LC Turning Off Selected MS Detector Components Table 3 1 On Off status of MS detector components voltages and gas flows Electronics Service Main Power Circuit Switch in Service Breaker Switch in Position Off O Position Electron multiplier Off Off Conversion dynode Off Off Off Off Mass analyzer RF waveform Off Off Off Off voltages Mass analyzer dc offset On Off Off Off voltage Multipole RF voltage of ot Oft Oft Multipole dc offset voltage On Off Off Off Interoctapole lens On Off Off Off Tube lens On Off Off Off Heated capillary heater On On Off Off Heated capillary dc offse
11. protective cover to the MS detector chassis ii Pull the cover up and out of the guide slots on the MS detector chassis 5 32 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA Service Maintenance LC Q Replacing a Fuse Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing C Locate and replace the defective fuse on the System Control PCB with a fuse of the same type voltage and current rating Refer to Table 5 5 FUSES Figure 5 12 System Control PCB showing the location of the fuses d Reinstall the protective cover over the System Control PCB as follows i Insert the protective cover into the guide slots on the MS detector chassis and push the cover down until it is seated ii With a Phillips screwdriver tighten the five screws that hold the protective cover to the MS detector chassis e Reinstall the right side cover of the MS detector as follows i Place the cover against the right side of the MS detector such that the studs on the cover insert into the guide slots on the System Control PCB protective cover ii Slide the side cover forward about 1 25 cm 0 5 in until the studs on the cover lock in the guide slots ThermoC2uest Finnigan LCQpECA Hardware Manual 5 33 Service Maintenance Replacing a Fuse L cQ iii Tighten by hand the fastener that secures the side
12. 1 3 flow rates ESI 1 3 on off status table 3 11 3 12 auxiliary gas tube APCI location figure 4 20 B battery backup replacing 5 46 C cables replaceable parts 6 11 cathode electron multiplier description 1 11 replacing 5 22 Cautions fuse replacement 5 32 inserting probes in connector sockets 5 35 spacer rings handling 5 10 CAUTIONS allow heated components to cool 3 5 Analyzer Auxiliary PCB replacing fuses 5 30 APCI vaporizer high temperature 4 6 4 8 API source opening with MS detector on 4 6 4 7 Finnigan LCQbpEcA Hardware Manual Index L cQ avoid electrical shock if fused silica transfer line breaks 4 14 chemical disposal 4 4 5 4 fuse replacement 5 30 PCB replacement 5 35 RF Voltage Amplifier PCB replacing fuses 5 30 System Control PCB replacing fuses 5 30 chemicals disposal of CAUTION 4 4 5 4 chemicals kit replaceable parts 6 13 cleaning procedures APCI probe components 4 20 4 23 APCI probe flushing 4 5 API probe 4 5 API stack components 4 31 conversion dynode 5 15 electron multiplier 5 15 ESI probe flushing 4 5 fan filter 4 35 frequency 4 4 5 4 heated capillary 4 6 ion detection system 5 15 ion optics 5 5 mass analyzer 5 5 sample transfer line 4 5 sample tube 4 5 spray shield 4 6 vacuum manifold 5 15 Communication LED MS detector reset 3 8 MS detector startup 3 6 Control DSP PCB location figure 5
13. 1 Main Power circuit breaker switch is on Electronics service switch is in Service Position Mechanical pumps are on Check for sound of both mechanical pumps Failure Corrections After a repair go back to the top of the flowchart and look for additional symptoms Check Main Power circuit breaker switch and AC power outlets Pump cooling fan is on Check for sound of fans Check fan cables and 24 V power supply audible vacuum leaks 2 Check for cooling air through the rear dust filter and I O panel side vent 3 Turbomolecular pump is on Open front panel doors and listen for Check turbomolecular pump pump controller the spin up sound of the module and associated cables turbomolecular pump 4 Pump down occurs with no Check for vacuum leak sounds Locate the leak source Vent Delay PCB LED remove top cover is on vent delay is 30 to 40 s Check the Vent Delay PCB LED and 24 V power supply electronic service switch To extend the life of the ion gauge plug the heated capillary with a septum and allow the system to pump down for 5 min or longer before turning on the Thermo 2uest Finnigan LCQpEcA Hardware Manual A 3 DECA Troubleshooting e Table A 2 Initialization and download diagnostics Time User Input or Action Normal Conditions Normal Indications Failure Corrections min s After a repair go back to the top of the flowchart and look for additional symptoms To
14. 2 non emergency procedure 3 4 T tables MS detector maintenance procedures 4 1 5 1 tools equipment and chemicals 4 3 5 3 temperatures APCI vaporizer 1 5 tools MS detector maintenance 4 3 5 3 optional tools 6 16 top cover of MS detector ThermoC2uest reinstalling 5 16 removing 5 6 top cover plate of vacuum manifold reinstalling 5 15 removing 5 6 replaceable parts 6 7 tower figure 5 37 location figure 5 37 PCBs replacing 5 36 tube gate See tube lens tube lens description 1 7 on off status table 3 11 3 12 voltages 1 7 tube lens and skimmer mount description 1 7 tuning octapole RF voltage 5 16 ring electrode RF voltage 5 16 sheath gas flow rate 1 3 tube lens offset voltage 1 7 turbomolecular pump location figure 5 60 maintenance 5 59 oil reservoir changing 5 61 on off status table 3 11 3 12 reinstalling 5 61 removing 5 59 replaceable parts 6 8 replacing note 5 59 turbomolecular Pump Controller servicing CAUTION 5 35 Turbomolecular Pump Controller replacing 5 36 turbomolecular pump fan servicing CAUTION 5 35 turbomolecular pump rails location figure 5 60 V vacuum assemblies replaceable parts 6 8 vacuum hose clamp location figure 5 60 vacuum manifold cleaning 5 15 top cover plate reinstalling 5 15 top cover plate removing 5 6 vacuum pumps turbomolecular pump replacing note 5 59 vacuum system on off status table 3 11 3 12 replace
15. 22806 over the sample tube Slide the 0 027 in ID PEEK ferrule P N 00101 18119 narrow end first over the PEEK safety sleeve and to the 10 32 x 1 4 28 Kel F fitting adapter Slide the red Fingertight fitting P N 00101 18195 onto the PEEK safety sleeve and into the ESI probe sample inlet Tighten the fitting slightly but not completely Ensure that the 2 0 in ID Teflon O ring P N 00107 18010 which seals the ESI probe to the ESI flange is seated properly in the groove on the ESI flange Pass the sample tube and PEEK safety sleeve through the ESI flange and install the ESI probe into the ESI flange Pull the ESI probe back against the ESI flange Tighten the probe retainer bolt that holds the ESI probe to the ESI flange Push the PEEK safety sleeve over the sample tube until it stops against the Teflon needle seal inside the ESI probe Finnigan LCQpEcA Hardware Manual 4 15 User Maintenance API Source Maintenance L cQ Pull the sample tube from the spray needle end until the sample tube is flush with the precut square end of the PEEK safety sleeve Slide a brown Fingertight fitting P N 00101 18081 and brown ferrule P N 00101 18119 wide end first over the PEEK safety sleeve Connect the PEEK safety sleeve and ferrule to the stainless steel grounded fitting by tightening the brown Fingertight fitting Ensure that the Fingertight fitting is securely tightened around the PEEK safety sle
16. 42 replacing 5 41 convectron gauge location figure 5 60 on off status table 3 11 3 12 conversion dynode cleaning 5 15 description 1 11 on off status table 3 11 3 12 voltages 1 11 conversion dynode power supply replacing 5 46 corona discharge needle description 1 5 discharge current 1 5 voltage on off status table 3 11 3 12 covers left side reinstalling 5 55 left side removing 5 55 rear reinstalling 5 57 rear removing 5 56 replaceable parts 6 13 right side reinstalling 5 33 5 53 right side removing 5 32 5 51 top reinstalling 5 16 top removing 5 6 CPU PCB location figure 5 42 replacing 5 41 II Finnigan LCQpeca Hardware Manual cross sectional views APCI probe 4 20 D daily maintenance API probe flushing 4 5 heated capillary flushing 4 6 rotary vane pump oil purging 4 34 sample tube flushing 4 5 spray shield flushing 4 6 transfer line flushing 4 5 damping gas on off status table 3 11 3 12 damping gas line location figure 5 8 data system hardware replaceable parts 6 13 detector system See ion detection system Diagnostic dialog box figure 5 17 diagnostics running 5 27 tested in Tune Plus 5 29 Diagnostics dialog box 5 28 divert inject valve replaceable parts 6 7 6 16 dynode See conversion dynode E electrodes entrance endcap electrode 1 10 exit endcap electrode 1 10 ring electrode 1 10 electron
17. 5 description 1 9 disassembling 5 9 interoctapole lens description 1 9 octapoles description 1 9 on off status table 3 11 3 12 quadrupoles description 1 9 reassembling 5 11 reinstalling 5 12 removing 5 7 ion trap See Mass analyzer See Mass analyzer K kit accessory replaceable parts 6 14 chemicals replaceable parts 6 13 L LCQDECA operational guidelines table 1 4 1 5 LEDs Power LED MS detector startup 3 6 System LED MS detector reset 3 8 System LED MS detector startup 3 7 left side cover reinstalling 5 55 removing 5 55 left side of MS detector figure 5 54 Low Pass Filter PCB location figure 5 57 replacing 5 56 M Main Power circuit breaker MS detector components on off status 3 11 3 12 maintenance APCI probe 4 20 APCI probe components cleaning 4 23 APCI sample tube installing 4 24 API probe flushing 4 5 API source overview 4 5 API stack 4 27 API stack cleaning 4 31 fan filter cleaning 4 35 heated capillary bore clearing 4 7 heated capillary cleaning 4 6 ion optics cleaning 5 5 keys to success note 4 2 5 2 manifold ESI 4 11 mass analyzer cleaning 5 5 overview 4 1 probe assembly ESI 4 9 procedures table 4 1 5 1 rotary vane pump oil purging 4 34 sample transfer line flushing 4 5 sample tube ESI 4 9 sample tube flushing 4 5 spray shield cleaning 4 6 supplies 4 3 5 3 tools 4 3 5 3 turbomol
18. 50 methanol water solution from the LC through the ESI I probe Refer to the topic Flushing the Sample Transfer Line Sample Tube and API Probe on page 4 5 Note Wear clean gloves when you handle ESI probe components The following procedures are discussed in this topic e Removing the ESI probe assembly e Disassembling the ESI probe assembly e Removing the ESI spray nozzle ESI spray needle and needle seal e Cleaning the ESI manifold e Cleaning the ESI spray nozzle e Reassembling the ESI probe assembly e Reinstalling the ESI probe e Reinstalling the ESI probe assembly Removing the ESI Probe Assembly Remove the ESI probe assembly from the LCQbzca as described in the topic Removing the ESI Probe Assembly in the chapter Changing ESI or APCI Probe Assemblies Finnigan LCQpEcA Hardware Manual 4 9 User Maintenance API Source Maintenance L cQ Disassembling the ESI Probe Assembly The ESI probe is disassembled as described in the following topics e Disassembling an ESI probe assembly fitted with a fused silica sample tube e Disassembling an ESI probe assembly fitted with a stainless steel needle Disassembling an ESI Probe Assembly Fitted with a Fused Silica Sample Tube To disassemble an ESI probe assembly fitted with a fused silica sample tube proceed as follows 1 Disconnect the PEEK safety sleeve and fused silica sample tube from the ESI probe sample inlet as follows a Unscrew the
19. 8 in long seen GREEN ee Ferrule 0 016 in ID PEEK HP Ferrule Fingertight 2 Upchurch AAA Fitting 10 32 male nut PEEK sse Fitting ARC anges uere ove tetra oa avena Fitting ferrule 1 8 in Tefzel Fitting Fingertight 2 Upchurch A Fitting flangeless stainless steel 1 8 in blue Delrin Fitting flangeless stainless steel 1 8 in green Delrin Heater co ECHT sek oe ese ed ev evenness Insulator heater APC cnet ae eee eee Oe PI ta WH ata wa ee ee e bri Tee EN e HEEN O ring 0 185 in ID 0 056 in thick Von ThermoC2uest Finnigan LCQpeca Hardware Manual durus 00101 18198 ONE 00101 18182 00101 18075 m 97044 20031 BE 70005 20300 he 00950 00990 Vagus 70005 20299 inthe 00107 02550 evn ee 00107 05710 Leet 00107 10058 iius 00201 11716 Arten 97044 60100 pue 00015 17600 70005 20280 sicci 00407 44006 SE 00405 44020 mS 70005 20303 roe 70005 20297 eere eta 00107 18010 Bua 00950 00952 MOSES 00201 11529 SE 70005 20228 EE 00201 11596 seeds 00106 10504 ot 00106 10499 97044 60140 d 00107 02562 pum 00107 10058 Kette 00107 15300 SE 00201 11450 eie 70005 60075 ist estes 00101 18120 hon 00101 18196 Bum 70005 20220 d et 70005 20250 va Geh 00101 18199 Ge 00101 18195 Lana 00101 18200 terere 00101 18198 Ed 70005 20216 eres 70005 20195 Sege 70005 20201 SEN 70005 20196 NE 00107 02585 Replaceable Parts L cQ
20. A message on the Reader Survey card asks the user to please fill out and return the card after he or she has had an opportunity to use the manual The Reader Survey card has two functions First it allows the user to tell ThermoQuest LC and LC MS Division what he or she likes and does not like about the manual Second when the user returns the card he or she is placed on the ThermoQuest LC and LC MS Division mailing list Thus the user will receive ThermoQuest s newsletter Analytical News and will be notified of events of interest such as user meetings A message on the Change of Location card asks the user to please fill out and return the card only if he or she moves the instrument to another site within the user s company or if he or she sells the instrument The purpose of the Change of Location card is to allow ThermoQuest LC and LC MS Division to track the whereabouts of the instrument Occasionally we need to notify owners of our products about safety or other issues Finnigan LCQpEcA Hardware Manual ThermoC2uest Thermo 2uest Chapter 1 Functional Description The following topics are discussed in this chapter API source Ion optics Mass analyzer Ion detection system Finnigan LCQpEcA Hardware Manual 1 1 Functional Description API Source L cQ 1 2 1 4 API Source The atmospheric pressure ionization API source forms gas phase sample ions from sample molecules that are contained in solution Th
21. Complete Shutdown LC 3 4 Starting Up the System after a Complete Shutdown To start up the LCQpeca system after it has been shut down completely you need to do the following e Start up the MS detector e Set up conditions for operation Starting Up the MS Detector Use the following procedure to start up the MS detector Note The LC autosampler and data system must be running before you start up the MS detector The MS detector will not operate until software is received from the data system 1 Turn on the flows of helium and nitrogen at the tanks if they are off 2 Make sure that the main power circuit breaker switch is in the Off O position and the electronics service switch is in the Service Position 3 Place the main power circuit breaker switch in the On I position When you place the main power circuit breaker switch in the On I position the rotary vane pump and the turbomolecular pump are started All LEDs on the MS detector front panel are off 4 Place the electronics service switch in the Operating Position When you place the electronics service switch in the Operating Position the following occurs e The Power LED on the MS detector front panel is illuminated green to indicate that power is provided to the MS detector electronics The electron multiplier conversion dynode 8 kV power to the API source main RF voltage and octapole RF voltage remain off e The embedded computer r
22. Do not replace the I fuse in the Power Module unless you are qualified to do so To replace a fuse on the System Control PCB RF Voltage Amplifier PCB or Analyzer Auxiliary PCB proceed as follows 1 Place the electronics service switch in the Service Position or shut down and vent the LCQpeca system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter CAUTION Make sure that the LCQpeca electronic service switch is in the Service Position or shut down the system and disconnect the power cord before you proceed 2 Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 e To replace a fuse on the System Control PCB go to step 3 e To replace a fuse on the RF Voltage Amplifier PCB go to step 4 e To replace a fuse on the Analyzer Auxiliary PCB go to step 5 3 To replace a fuse on the System Control PCB proceed as follows See Figure 5 11 for the location of the System Control PCB and its fuses a Remove the right side cover of the MS detector as follows i Loosen the fastener that secures the right side cover to the chassis of the MS detector i Slide the side cover back about 1 25 cm 0 5 in and then pull it out and away from the MS detector b Remove the System Control PCB protective cover as follows i With a Phillips screwdriver loosen the five screws that hold the
23. Kit Introduce the extractor tool from the back end of the ESI probe and push out the needle seal Cleaning the ESI Manifold During high flow rate operation e g 0 05 to 1 0 mL min if the nitrogen sheath and auxiliary gases are not used the power supply for the ESI voltage may not be able to reach the level you set it to This problem is a result of the formation of current leakage paths on the ESI probe The two zones where leakage paths can occur are the following e Between the ESI spray nozzle and the grounded ESI flange e In the high voltage connector within the ESI probe Finnigan LCQpEcA Hardware Manual 4 11 User Maintenance API Source Maintenance L cQ In the first case disassembly of the probe is not necessary To remove this leakage path simply dry the wet PEEK surface of the ESI probe with a Kimwipe If this does not resolve the leakage problem then a leak in the high voltage connector within the probe is the likely cause of the problem In this case you need to disassemble and dry the ESI manifold To clean and dry the ESI manifold proceed as follows See Figure 4 1 1 10 11 If you have not already done so disassemble the ESI probe assembly following the procedure described in the topic Disassembling the ESI Probe Assembly earlier in this chapter If you have not already done so use a 5 16 in wrench to remove the ESI spray nozzle from the ESI manifold Remove the compression spring
24. Leave the autosampler power on Leave the data system power on Finnigan LCQpEcA Hardware Manual 3 3 System Shutdown Startup and Reset Q DECA Shutting Down the System Completely LC 3 3 Shutting Down the System Completely The LCQDECA system does not need to be shut down completely if you are not going to use it for a short period of time such as overnight or over a weekend See the topic Placing the System in Standby Condition above Shut down the system completely only if it is to be unused for an extended period or if it must be shut down for a maintenance or service procedure Use the following procedure to shut down the LCQDECA system completely 1 Turn off the flow of sample solution from the LC or other sample introduction device Note For instructions on how to operate the LC from the front panel refer to the manual that came with the LC 2 From the Tune Plus window choose Control Off to put the MS detector in Off condition When you choose Control Off the LCQpEca turns off all high voltage and the sheath and auxiliary gas 3 Place the electronics service switch located on the power panel see Figure 3 1 on page 3 2 in the Service Position Power to the non vacuum system electronics is turned off when you place the electronics service switch in the Service Position 4 Place the main power circuit breaker switch located on the power panel see Figure 3 1 in the Off O position Wh
25. See Figure 5 18 Disconnect the vacuum hose from the turbomolecular pump Remove the centering ring from the vacuum hose Disconnect the power cable from the turbomolecular pump With a 3 16 in ball driver or Allen wrench carefully loosen the two Allen screws that hold the rails and turbomolecular pump to the vacuum manifold Finnigan LCQpECA Hardware Manual 5 59 Service Maintenance Qui Replacing the Oil Reservoir in the Turbomolecular Pump LC 7 Pullthe turbomolecular pump out on the rails If necessary disconnect one or more of the vacuum hoses at the foreline union by loosening the clamping rings and then pulling the hoses free from the foreline union 8 Remove the turbomolecular pump CONVECTRON GAUGE TURBOMOLECULAR PUMP RAILS TURBOMOLECULAR PUMP VACUUM HOSE CLAMP TRIPLE FORELINES UNION POWER CABLE Figure 5 18 Turbomolecular pump 5 60 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Service Maintenance Replacing the Oil Reservoir in the Turbomolecular Pump ThermoC2uest Changing the Turbomolecular Pump Oil Reservoir To change the turbomolecular pump oil reservoir proceed as follows CAUTION Toxic residues from samples are likely to be concentrated in the pump oil Spent pump oil must be disposed of in accordance with local and federal regulations 1 Turn the turbomolecular pump upside down on a work bench 2 Using a large screwdriver unscrew the lockin
26. an electrical shock if you touch the fused silica capillary tube You could also receive an electrical shock ifthe fused silica capillary tube breaks during ESI operation with or without the I metal needle installed Therefore for your safety and in compliance with international safety standards you must cover the fused silica capillary I tube with the PEEK safety sleeve P N 00301 22806 and associated PEEK ferrules P N 00101 18119 provided in the Safety Sleeve Kit P N 70005 62015 before you operate the instrument Installation instructions P N 70005 97009 are included in the kit Operation of the l instrument without the safety sleeve impairs the safety protection provided l by the instrument and thus could lead to serious injury Reassembling an ESI Probe Assembly Fitted with a PEEK Safety Sleeve and Fused Silica Sample Tube To reassemble an ESI probe that is to reinstall the sample tube ESI spray nozzle ESI spray needle and needle seal proceed as follows 1 Inspect the Teflon needle seal P N 00950 00952 If the needle seal is deformed replace it 2 Inspect the 26 gauge spray needle P N 00950 00990 If the spray needle is damaged replace it 3 Place the compression spring into the ESI manifold Finnigan LCQpeca Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ThermoC2uest 4 Ensure that the 0 676 in ID O ring P N 00107 05710 for the sheath gas on the
27. as the 8 pin feedthrough when the analyzer mount is installed on the top cover plate Make sure that the exit lens lead pin does not contact the nut on the end of the mass analyzer post Reinstalling the lon Optics and Mass Analyzer Use the following procedure to reinstall the ion optics and mass analyzer onto the top cover plate of the vacuum manifold Note Wear clean lint free nylon or cotton gloves when you handle components of the ion optics and mass analyzer 1 Insert the cylindrical end of the analyzer mount with the mass analyzer and octapole attached into the opening in the baffle on the top cover plate of the vacuum manifold Ensure that the open side of the analyzer mount is away from the top cover plate 2 Secure the analyzer mount to the baffle with the two thumb screws Squeeze the entrance lens sleeve and insert it into the recess in the entrance endcap electrode See Figure 5 2 for the proper orientation of the exit lens sleeve 4 Insert the entrance lens into the entrance lens sleeve such that the lead pin on the entrance lens points in the same direction as the 8 pin feedthrough when the analyzer mount is installed on the top cover plate 5 12 Finnigan LCQpEca Hardware Manual Thermo 2uest L cQ Service Maintenance ThermoC2uest 10 11 12 13 14 15 16 17 Cleaning the lon Optics and Mass Analyzer Insert the octapole through the cylindrical end of the analyzer
28. capillary 0 16 A time lag 5 x 20 mm 250 V 00006 01700 Control PCB multipoles and mass analyzer DC offsets System F5 lon gauge filament 3 15 A time lag 5 x 20 mm 250 V 00006 10510 Control PCB System F6 Heated capillary 2 5 A Type F 5x 20 mm 250 V 00006 11202 Control PCB heater System F7 Conversion dynode 0 25 A time lag 5 x 20 mm 250V 00006 11204 Control PCB power supply System F8 RF detector power 0 4 A time lag 5 x 20 mm 250 V 00006 05080 Control PCB supply System F9 RF detector power 0 4 A time lag 5 x 20 mm 250 V 00006 05080 Control PCB supply System F10 APCI vaporizer 2 5 A time lag 5 x 20 mm 250 V 00006 09510 Control PCB F11 heater RF Voltage F1 36 V 1 0 A quick act 5 x 20 mm 250V 00006 07610 Amplifier PCB HF Voltage F2 28 V 0 5 A quick act 5 x 20 mm 250V 00006 07608 Amplifier PCB Analyzer F1 28 V 1 6 A quick act 5 x 20 mm 250V 00006 08610 Auxiliary PCB Analyzer F2 36 V 1 6 A quick act 5 x 20 mm 250V 00006 08610 Auxiliary PCB Power F1 Voltage select switch 3 5 A time lag 5 x 20 mm 250 V 00006 10510 Module ThermoC2uest Finnigan LCQpEcA Hardware Manual 5 31 Service Maintenance ek Replacing a Fuse LC Caution Use only the fuses specified in Table 5 5 Never replace a fuse with a fuse of a different type voltage or current rating Note To replace the fuse in the Power Module you need to remove the tower System Control PCB and embedded computer
29. coil On On Off Off Fans tower On On Off Off Fan embedded computer On On Off Off Convectron gauge On On Off Off lon gauge On On Off Off Syringe pump On On Off Off The syringe pump goes from On to Off only when the system goes from scan mode to Standby condition Finnigan LCQpEcA Hardware Manual ThermoC2uest Chapter 4 User Maintenance LCQpbzca performance depends on the maintenance of all parts of the instrument It is your responsibility to maintain your system properly by performing the system maintenance procedures on a regular basis This chapter describes routine API source maintenance procedures that must be performed to ensure optimum performance of the instrument Routine and infrequent maintenance procedures are listed in Table 4 1 Table 4 1 User maintenance procedures MS Detector Procedure Frequency Procedure Location Component API source Flush clean sample Daily Page 4 5 transfer line sample tube and API probe API source Flush clean heated Daily or more often Page 4 6 capillary API source Flush clean spray Daily or more often Page 4 6 shield Rotary vane pumps Purge decontaminate Daily Page 4 34 oil API source Clear heated capillary If heated capillary bore Page 4 7 is obstructed API source Replace heated capillary If heated capillary bore Page 4 30 is corroded or if heater fails API source Clean API stack spray As needed Page 4 31 shi
30. cover to the chassis of the MS detector Go to step 6 4 To replace a fuse on the RF Voltage Amplifier PCB proceed as follows See Figure 5 15 on page 5 44 for the location of the RF Voltage Amplifier PCB a With a Phillips screwdriver loosen the eight screws that hold the metal cover to the RF Voltage Amplifier PCB Remove the cover b Locate and replace the defective fuse on the RF Voltage Amplifier PCB with a fuse of the same type voltage and current rating Refer to Table 5 5 c Place the metal cover over the RF Voltage Amplifier PCB With a Phillips screwdriver tighten the eight screws that secure the cover Go to step 6 5 To replace a fuse on the Analyzer Auxiliary PCB proceed as follows See Figure 5 15 on page 5 44 for the location of the Analyzer Auxiliary PCB a Disconnect the seven cables that connect to the top of the Analyzer Auxiliary PCB Three coaxial cables come from the Analyzer PCB one coaxial cable comes from the Waveform DDS PCB in the embedded computer one coaxial cable comes from the Waveform Amplifier PCB one 7 lead cable comes from the System Control PCB and one 4 lead cable comes from the 36 V power supply With a Phillips screwdriver loosen the six screws that hold the metal cover to the Analyzer Auxiliary PCB Remove the protective cover to expose the Analyzer Auxiliary PCB Locate and replace the defective fuse on the Analyzer Auxiliary PCB with a fuse of the same type voltag
31. formerly named octapole mount 97000 20164 Octapole 2 0 in long welded AAA 97000 60016 Quadrupole 2 0 1n long 2 duda etel ete teen ete Haee e EAR 97044 60060 Thumb screw AE EE 97000 20235 Kit Feedthrough 4 Pin cere ecce e eee eee eee n eene eee ette tensa esee ette eee ea asse eee 97000 62004 Feedthrough 4 pin mode 97000 98016 O ring 0 737 in ID 3 32 in thick Viton eee 00107 10056 Screw pan head Phillips 6 32 x 1 2 in stainless steel 00415 63208 Spacer 4 pin feedthrough sseeeeeeeeeeeeneeee nn eene nere 97000 20226 ThermoC2uest Finnigan LCQpEcA Hardware Manual 6 5 Replaceable Parts MS Detector Kit Feedthrough 8 Pin nee eerte hene aye ee eva e Yu Yee aveo Y eee yeu n inea Ege 97000 62008 Eeedthrougli e EE 96000 20115 O ring 0 737 in ID 3 32 in thick Viton eese 00107 10056 Screw pan head Phillips 6 32 x 1 2 in stainless steel 00415 63208 Shield TOPE Banoe noar Tum 97000 10083 Spacer 8 pin feedthrough eseeeesesseesesreesssrresssrrerssrrerssrrerssrreesssreesssrrerssreessse 97000 20225 Mass Analyzer See tino o eoe eode eol o Coe ome rea 96000 20016 Electrode endcap entranceiesit EA AE EEEREN TEA EEEE TEATR EEEE 97044 20000 EE 97000 20205 Mount analy Zenner enn eh nah ete rete rte eter ether e where 97044 20005 Nipple damping gas ertet eere ere eere Pere aT 96000 20117 eege 97000 20339 POSU itt t te
32. forms 8 Position the new Low Pass Filter PCB in the place that was occupied by the old PCB With a Phillips screwdriver reinstall the screws that hold the Low Pass Filter PCB to the fan low pass filter vent control assembly 9 Position the metal cover over the Low Pass Filter PCB With a Phillips screwdriver reinstall the 8 screws that hold the metal cover of the Low Pass Filter PCB to the fan low pass filter vent control assembly 10 Reconnect the two coaxial cables to the BNC connectors that are located on the rear of the Low Pass Filter PCB 11 Reinstall the rear cover of the MS detector as follows a Place the cover against the rear of the MS detector such that the screws in the MS detector chassis insert into the guide slots on the rear cover Finnigan LCQpECA Hardware Manual 5 57 Service Maintenance Q DECA Replacing PCBs and Assemblies LC b Slide the rear cover down about 1 2 cm 0 5 in until the screws lock in the guide slots on the cover c With a Phillips screwdriver tighten the ten screws that secure the rear cover to the chassis of the MS detector 12 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 13 Place the electronics service switch in the Operating Position 14 Run the LCQpeca diagnostics to verify that the system is operational 5 58 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Ser
33. from the ESI manifold from where it was seated behind the spray nozzle and place it on a clean surface e g a clean Kimwipe or other lint free towel Using a Phillips screwdriver remove the 4 40 x 3 4 in stainless steel screw used to make the high voltage connection to the compression spring Ensure that the O ring around the screw is also removed Place both of these parts on a clean surface Using a 1 2 in wrench remove the high voltage connector from the manifold Be sure to keep track of the compression spring that makes the electrical connection between the HV connector and the 4 40 screw If the spring does not fall out of the assembly gently use the Teflon seal extractor tool P N 70005 20304 provided in the Accessories Kit or another appropriate tool to get the spring out Place these parts on a clean surface Rinse the ESI manifold with distilled water and then with HPLC grade methanol Use a Kimwipe to remove excess methanol from the ESI manifold Dry the ESI manifold with nitrogen gas Inspect all of the O rings and replace any that are damaged Replace the Phillips screw and O ring that you removed in step 4 in the ESI manifold Place the compression spring that you removed in step 5 into the high voltage passageway in the ESI manifold Replace and tighten the high voltage connector along with the compression spring onto the ESI manifold 4 12 Finnigan LCQpEcA Hardware Manual ThermoC2uest ek Us
34. heated capillary abuts with the tube lens and skimmer mount The API source will not operate properly unless the exit I end of the heated capillary is at the proper distance from the skimmer Inspect the API stack Ensure that the 3 85 in ID O ring P N 00107 14100 is in good condition and is properly seated on the spray shield Ensure that all components fit together tightly See Figure 4 7 Reinstalling the API Stack To reinstall the API stack proceed as follows 1 Align the API stack with the opening in the front of the vacuum manifold Turn the API stack until the guide pin on the spray shield is aligned with the guide pin hole in the vacuum manifold Carefully insert the API stack into the opening in the vacuum manifold until it seats in the vacuum manifold Reconnect the API stack cable to the connector on the spray shield Turn the tab on the end of the cable clockwise away from you to secure the cable Reconnect the waste line to the spray shield Starting Up the System Start up the system as described in the topic Starting Up the System After a Complete Shutdown in the System Shutdown Startup and Reset chapter Finnigan LCQpEcA Hardware Manual 4 33 User Maintenance DECA Purging the Oil in the Rotary Vane Pumps LC Q 4 34 4 4 Purging the Oil in the Rotary Vane Pumps You need to purge ballast the oil in the rotary vane pumps on a daily basis to remove water and other dissolved chemic
35. in ID 0 103 in thick Von Screw socket cap 2 56 x 1 8 in vented stainless steel Ring high voltage erret eene oe Re oet oe Shield electron multiplier eese Support electron multiplier eene Support plate electron multiplier eene Tube high voltage oe eee ette be aaa Assembly Electron Multiplier ecce ee eee eere eee eee ee eee etta nae e ene Cathode electron multiplier eene Screw pan head Phillips 2 56 x 1 4 in vented stainless steel Washer wave 0 731 in OD x 0 588 in ID eene Top Cover Plate of Vacuum Manifold Assembly Top Cover 11 eee e eee eee ee enn eee o eee e eate etos sese sete ee eee tas sese ee Connector Swagelok lee KE BEER Fitting Swagelok ferrule 1 8 in tee set Fitting Swagelok nut knurled 1 8 in brass sesssss Nipple damping ges Pin guide large top cover Pin guide top COVED c ens eer ee Ee Pints PCB GON EE Plate top mamnfokd nennen Kit Handle Top Cover 8 in c eeeee esee reete eene eene e teen eene ttnae ue Handle 8 in top cover inro e i t t i e E E E Divert Inject Valve Interconnect Assembly Divert Inject Valve e eeee eee eee eere Divert inject valve 24 V dc Screw flat Phillips 8 32 x 3 8 in me Screw pan
36. keyboard depth dalton digital to analog converter daughter scan mode TSQ only direct current direct digital synthesizer direct exposure probe data system digital signal processor electron ionization Finnigan LCQpeca Hardware Manual vii Head This First Abbreviations L cQ Enter ESD ESI eV f F asta FOB ft FTP GC GC MS GND GPIB GUI HPLC HV Hz ICIS ICL IEC IEEE in IO k kg LAN Enter key on the terminal keyboard electrostatic discharge electrospray ionization electron volt femto 10 15 degrees Fahrenheit file extension of a SEQUEST search database file Free on Board foot file transfer protocol gram giga 109 gas chromatograph gas chromatograph mass spectrometer electrical ground general purpose interface bus graphical user interface height hour high performance liquid chromatograph high voltage hertz cycles per second Interactive Chemical Information System Instrument Control Language International Electrotechnical Commission Institute of Electrical and Electronics Engineers inch input output kilo 103 1000 kilo 210 1024 kilogram length liter local area network viii Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Head This First Abbreviations ThermoC2uest Ib LC LC MS LED M MH min MS MS MS MS NCBI NEU Pa PAR PCB PID P N P P ppm psig RAM RF RMS ROM
37. lens and skimmer mount contains spring loaded machine screws that hold the tube lens and skimmer in place The heated capillary abuts with the tube lens and skimmer mount thus ensuring that the exit end of the heated capillary is at the proper distance from the opening in the skimmer Finnigan LCQpEcA Hardware Manual 1 7 Functional Description ek API Source Le VACUUM MANIFOLD TOP COVER PLATE API STACK ION OPTICS MASS ANALYZER ELECTRON MULTIPLIER Figure 1 3 MS detector cross sectional view 1 8 Finnigan LCQpEcA Hardware Manual Thermo wert L cQ Functional Description lon Optics Thermo 2uest 1 2 lon Optics Ions enter the ion optics after passing through the skimmer The ion optics transmit ions from the API source to the mass analyzer The ion optics consist of one quadrupole one octapole and an interoctapole lens See Figure 1 3 The quadrupole is a quadrilateral array of square rods that acts as an ion transmission device An RF voltage 2 45 MHz 400 V peak to peak and dc offset voltage typically 10 to 10 V that are applied to the rods give rise to an electric field that guides the ions along the axis of the quadrupole During ion transmission the offset voltage is negative for positive ions and positive for negative ions The octapole is an octagonal array of cylindrical rods that acts as an ion transmission device An RF voltage 2 45 MHz 400 V peak to peak and dc offset voltage typ
38. mount until it seats in the entrance endcap electrode of the mass analyzer Turn the octapole until the lead pins are on the same side as the 4 pin feedthrough when the analyzer mount is mounted on the top cover plate Insert the interoctapole lens lead pin first through the opening in the baffle Turn the interoctapole lens until the lead pin is on the same side as the 8 pin feedthrough Ensure that the second octapole is held securely between the endcap electrode and the interoctapole lens Also ensure that the lead pins on the octapole are on the same side as the 4 pin feedthrough Insert the quadrupole into the quadrupole mount Attach the quadrupole and quadrupole mount to the baffle on the top cover plate with the two thumb screws Ensure that the interoctapole lens is held securely between the two multipoles Inspect the ion optics Ensure that all the parts are aligned properly and that they all fit together snugly Reconnect the electrical lead from pin 8 of the 8 pin feedthrough to the entrance lens See Figure 5 3 Reconnect the four electrical leads from pins 1 through 4 of the 4 pin feedthrough to the quadrupole Reconnect the electrical lead from pin 2 of the 8 pin feedthrough to the interoctapole lens Reconnect the two electrical leads from pins 1 and 3 of the 4 pin feedthrough to the octapole It does not matter which lead is connected to a particular lead pin of the octapole Reconnect the electrical lead fr
39. multiplier See also ion detection system anode description 1 11 checking 5 22 cleaning 5 15 description 1 11 on off status table 3 11 3 12 replacing 5 22 voltage setting 5 26 voltages 1 11 electron multiplier power supply replacing 5 46 electronic assemblies 36 V 28 V dc switching power supply replacing 5 36 5 V 15 V 24 V dc switching power supply replacing 5 36 8 kV power supply replacing 5 36 Acquisition DSP PCB location figure 5 42 Acquisition DSP PCB replacing 5 41 Analyzer Auxiliary PCB replacing 5 46 Analyzer PCB replacing 5 46 Control DSP PCB location figure 5 42 Control DSP PCB replacing 5 41 CPU PCB location figure 5 42 CPU PCB replacing 5 41 Ethernet PCB location figure 5 42 Ethernet PCB replacing 5 41 ThermoC2uest L cQ Index Low Pass Filter PCB location figure 5 57 Low Pass Filter PCB replacing 5 56 replaceable parts 6 9 RF Voltage Amplifier PCB replacing 5 46 RF Voltage Control PCB location figure 5 54 RF Voltage Control PCB replacing 5 54 System Control PCB replacing 5 51 Turbomolecular Pump Controller replacing 5 36 Vent Delay PCB replacing 5 43 Waveform Amplifier PCB replacing 5 46 Waveform DDS PCB location figure 5 42 Waveform DDS PCB replacing 5 41 electronics service switch MS detector components on off status 3 11 3 12 embedded computer figure 5 42 location figure 5 42 PCBs replacing 5 41 repositioning
40. off status table 3 11 3 12 replaceable parts 6 8 servicing CAUTION 5 35 S safety interlock switch description 1 2 sample transfer line flushing 4 5 sample tube APCI installing 4 24 APCI length 4 26 APCI removing 4 24 APCI replacement note 4 26 APCI replacing 4 20 flushing 4 5 sample tube ESI maintenance 4 9 sample tube repositioning note 4 16 sheath gas description 1 3 flow rates APCI 1 3 ThermoC2uest L cQ Index flow rates ESI 1 3 on off status table 3 11 3 12 sheath gas tube APCI location figure 4 20 sheath liquid description 1 3 shutdown complete shutdown 3 4 emergency procedure 3 2 MS detector 3 4 skimmer description 1 7 solvents cleaning 4 31 disposal CAUTION 4 4 5 4 MS detector maintenance 4 3 5 3 spacer rings mass analyzer description 1 10 handling caution 5 10 spray shield cleaning 4 32 description 1 6 flushing 4 6 standby condition MS detector components on off status 3 11 3 12 placing system in 3 3 startup MS detector 3 6 operating conditions setting 3 7 supplies MS detector maintenance 4 3 5 3 switching power supplies replacing 5 36 syringe pump replaceable parts 6 7 system replaceable parts 6 1 startup 3 6 System Control PCB figure 5 33 fuses replacing 5 32 fuses replacing CAUTION 5 30 replacing 5 51 System LED MS detector reset 3 8 MS detector startup 3 7 system shutdown emergency procedure 3
41. on page 5 6 Remove the rear cover of the MS detector as follows a With a Phillips screwdriver loosen the 10 screws that secure the rear cover to the chassis of the MS detector b Slide the rear cover up about 1 25 cm 0 5 in and then lift it out and away from the MS detector Disconnect the two coaxial cables from the BNC connectors that are located on the rear of the Low Pass Filter PCB Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing Thermo 2uest L cQ Service Maintenance VENT DELAY PCB WITH BATTERY BACKUP FAN LOW PASS FILTER VENT CONTROL ASSEMBLY LOW PASS FILTER PCB Thermo 2uest Replacing PCBs and Assemblies Figure 5 17 Rear view of the MS detector showing the Vent Delay PCB and Low Pass Filter PCB 5 With a Phillips screwdriver remove the 8 screws that hold the metal cover of the Low Pass Filter PCB to the fan low pass filter vent control assembly Remove the metal cover 6 With a Phillips screwdriver remove the screws that hold the Low Pass Filter PCB to the fan low pass filter vent control assembly Remove the Low Pass Filter PCB 7 Unpack the new PCB P N 97000 61380 Retain the packing materials so that you can pack and ship the defective PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed
42. procedure 5 38 emergency shutdown procedure 3 2 entrance endcap electrode description 1 10 entrance endcap electrode lead location figure 5 8 ESI manifold cleaning 4 11 needle reinstalling 4 14 4 17 removing 4 11 needle seal reinstalling 4 14 4 17 removing 4 11 needle stainless steel installing 4 17 nozzle reinstalling 4 14 4 17 removing 4 11 note 4 11 probe assembly disassembing 4 10 maintenance 4 9 reassembling 4 14 4 17 reinstalling 4 19 ESI needle voltage on off status table 3 11 3 12 voltages 1 3 ESI probe auxiliary gas plumbing 1 3 description 1 2 flushing 4 5 manifold 1 3 needle 1 2 nozzle 1 2 sample tube 1 2 sheath gas plumbing 1 3 ESI probe assembly changing 2 1 description 1 2 ESI flange 1 2 installing 2 2 Thermo 2uest removing 2 3 replaceable parts 6 2 ESI probe assembly figure 1 3 ESI source on off status table 3 11 3 12 opening with MS detector on CAUTION 4 6 4 7 ESI MS operational guidelines table 1 4 Ethernet PCB location figure 5 42 replacing 5 41 exit endcap electrode description 1 10 exit endcap electrode lead location figure 5 8 exit lens description 1 10 exit lens lead location figure 5 8 F fan filter cleaning 4 35 fans filter cleaning 4 35 on off status table 3 11 3 12 figures APCI probe cross sectional view 4 20 mass analyzer and ion optics 5 8 turbomolecular pump 5 60 foreline union loca
43. pump power cable Finnigan LCQpEcA Hardware Manual 5 61 Service Maintenance Q DECA Replacing the Oil Reservoir in the Turbomolecular Pump LC 7 If necessary reconnect the vacuum hoses to the foreline union Tighten the clamping rings to secure the vacuum hoses to the foreline union 8 Reinstall the top cover of the MS detector by following the procedure in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 9 Close the left and right front doors of MS detector 10 Reconnect any tubing between the syringe pump and the API source that you disconnected earlier Restart the system as described in the topic Starting Up the System After a Complete Shutdown in the System Shutdown Startup and Reset chapter 5 62 Finnigan LCQpECA Hardware Manual ThermoC2uest Thermo 2uest Chapter 6 Replaceable Parts This chapter contains part numbers for replaceable and consumable parts for the MS detector data system and kits To ensure proper results in servicing the LCQDECA system order only the parts listed or their equivalent For information on how to order parts refer to the topic Ordering Replaceable Parts in the Finnigan LCQpEca Preinstallation Requirements Guide Finnigan LCQpEcA Hardware Manual 6 1 Replaceable Parts L cQ MS Detector MS Detector Replaceable parts are available to support the following e ESI probe assembly e APCI probe assembly e API probe guide e APIs
44. seal proceed as follows 1 Inspect the Teflon needle seal P N 00950 00952 If the needle seal is deformed replace it 2 Inspect the 26 gauge spray needle P N 00950 00990 If the spray needle is damaged replace it Place the compression spring into the ESI manifold 4 Ensure that the 0 676 in ID O ring P N 00107 05710 for the sheath gas on the spray nozzle is in good condition In addition ensure that the O ring is placed into the pre cut groove on the spray nozzle The reassembled spray nozzle will be used in step 6h Finnigan LCQpEcA Hardware Manual 4 17 User Maintenance DECA API Source Maintenance LC Q 5 Reassemble the spray needle and needle seal as follows a Insert the entrance end of the spray needle into the needle seal b Seatthe spray needle and needle seal in the ESI manifold 6 Install the stainless steel needle as follows Note Ensure that the ferrules used with the stainless steel needle are P N 00101 18116 These Kel F ferrules are 0 012 in ID and are intended l to be used only with the stainless steel needle The Kel F ferrules l P N 00101 18114 that are supplied with your Accessory Kit are 0 008 in I ID and should not be used with the stainless steel needle a Insert a clear Kel F ferrule P N 00101 18206 wide end first into L a brown PEEK adapter union P N 00101 18206 b Insert a stainless steel needle P N 00950 00954 through the ferrule and PEEK adapter
45. silica capillary tube and the PEEK safety sleeve Reinstalling the ESI Probe To reinstall the ESI probe in the ESI flange proceed as follows 1 Ensure that the 2 0 in ID spring loaded Teflon O ring P N 00107 18010 which seals the ESI probe to the ESI flange is seated properly in the groove on the ESI flange Pass the sample tube and PEEK safety sleeve through the ESI flange and install the ESI probe into the ESI flange Pull the ESI probe back against the ESI flange Tighten the probe retainer thumbscrew that holds the ESI probe to the ESI flange Finnigan LCQpEcA Hardware Manual 4 19 User Maintenance API Source Maintenance APCI MANIFOLD AAA L cQ LE T_T SY SY SO SA PT UNE WEE A VEA VEA VEND EE VN VEND e WY p n 4 Slide a brown Fingertight fitting and a brown ferrule P N 00101 18119 wide end first over the free end of the PEEK safety sleeve 5 Connect the PEEK safety sleeve and ferrule to the stainless steel grounded fitting by tightening the brown Fingertight fitting Ensure that the Fingertight fitting is securely tightened around the PEEK safety sleeve otherwise the sample stream might enter between the sample tube and the PEEK safety sleeve Reinstalling the ESI Probe Assembly Reinstall the ESI probe assembly on the LCQDECA as described in the topic Installing the ESI Probe Assembly in the Changing ESI or APCI Probe Assemblies chapter or place the ESI probe assembly in
46. spray nozzle is in good condition In addition ensure that the O ring is placed into the pre cut groove on the spray nozzle 5 Reinstall the spray nozzle spray needle and needle seal as follows Insert the entrance end of the spray needle into the needle seal Seat the spray needle and needle seal in the ESI manifold Thread the spray nozzle over the needle and into the ESI manifold Slightly wet the spray nozzle threads with HPLC grade methanol for lubrication With a 5 16 in wrench gently tighten the spray nozzle until it is a little more than finger tight Do not overtighten the spray nozzle 6 Install the new sample tube and PEEK safety sleeve as follows a Use a fused silica cutting tool to cut a 30 cm 12 in piece of 0 1 mm ID x 0 19 mm OD fused silica tubing sample tube P N 00106 10499 Ensure that you cut squarely the ends of the fused silica tubing Insert the sample tube through the exit end of the spray needle and into the ESI probe Push the sample tube through the ESI probe until approximately 3 5 cm 1 1 2 in is left protruding from the exit end of the spray needle The remaining length of sample tube should exit the ESI probe sample inlet labeled Sample Slide the clear 10 32 x 1 4 28 Kel F fitting adapter P N 00101 18080 over the sample tube and tighten the fitting onto the ESI probe sample inlet Slide the precut 25 4 cm 10 in 0 009 in ID x 0 240 in OD PEEK safety sleeve P N 00301
47. stack e Start up the system ThermoC2uest Finnigan LCQpEcA Hardware Manual 4 27 User Maintenance API Source Maintenance L cQ Note You should flush the spray shield and the bore of the heated capillary at the end of each working day with a 50 50 methanol water solution Refer to the topic Cleaning the Spray Shield and the Heated Capillary on page 4 6 Shutting Down the System Shut down and vent the system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter Removing the API Stack To remove the API stack proceed as follows See Figure 4 7 1 4 28 Loosen the two flange retainer bolts that secure the API flange to the spray shield Pull back the API probe assembly from the spray shield Disconnect the waste line from the spray shield Disconnect the API stack electrical cable from the spray shield by turning the tab on the end of the cable counterclockwise toward you and then pulling the cable free Grasp the spray shield with both hands and carefully pull it and the API stack free from the vacuum manifold Place the API stack on a clean surface with the spray shield down Allow the API stack to cool to ambient temperature before you disassemble the API stack Note If you are unable to dislodge the spray shield from the vacuum manifold reattach the API flange to the spray shield and then pull the l flange away from the vacuum manifol
48. that hold the System Control PCB to the MS detector chassis Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing 7 Slide the System Control PCB toward the front of the MS detector by 1 2 em 0 5 in so that it clears the data system cable connector 8 Carefully lift the System Control PCB out and away from the MS detector Disconnect the high speed serial cable and 8 kV power supply cables if you have not already done so 9 Unpack the new System Control PCB P N 97044 61010 Retain the packing materials so that you can pack and ship the defective PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms 10 Position the new System Control PCB in the space occupied by the old PCB 11 With a Phillips screwdriver tighten the three screws and the eight fasteners that hold the System Control PCB to the MS detector chassis 5 52 Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ Service Maintenance Replacing PCBs and Assemblies ThermoC2uest 12 Reconnect all cables to the System Control PCB The following cables are connected to the System Control PCB Ion gauge Convectron gauge P9 Front panel P2 Analyzer J3 Spray shield J6 RF and waveform amplifiers P12 Analyzer Aux P5 Electron multiplier conversion dynode power
49. the Vent Delay PCB and Backup Battery lon Gauge and Vent Valve The Vent Delay PCB ion gauge and vent valve can be accessed from the top of the MS detector See Figure 5 15 ThermoC2uest CAUTION The LCQbeca system must be shut down and the power cord unplugged before you service the vent valve Vent Delay PCB Convectron I gauge or ion gauge Finnigan LCQpEcA Hardware Manual 5 43 Service Maintenance Q DECA Replacing PCBs and Assemblies LC CONVERSION DYNODE AND ELECTRON MULTIPLIER VENT DELAY PCB AND ION GAUGE RF VOLTAGE COMBO POWER SUPPLY BATTERY BACKUP AMPLIFIER PCB ANALYZER PCB CONVECTRON GAUGE VENT VALVE ANALYZER WAVEFORM AUXILIARY PCB AMPLIFIER PCB Figure 5 15 PCBs and assemblies that are accessable from the top of the MS detector To replace the Vent Delay PCB vent valve or ion gauge proceed as follows 1 Shut down and vent the LCQpeca system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter CAUTION Make sure that the LCQpEca power cord is unplugged before you proceed 2 Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 e To replace the Vent Delay PCB and backup battery go to step 3 e To replace the vent valve go to step 4 e To replace the ion gauge go to step 5 5 44 Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ Service M
50. the air deflector is reinstalled e Tighten the 9 16 in lock nut 5 20 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA Service Maintenance Le Q Cleaning the lon Optics and Mass Analyzer f Reinstall the air deflector and close the left front door of the MS detector Make sure that the frequency cursor is still within the frequency window If necessary repeat the above steps g Select the Stop button to stop the ring electrode RF voltage frequency tune program TUNING STUD Figure 5 8 Ring electrode RF voltage tuning stud with air deflector removed Thermof 2Quest Finnigan LCQpEcA Hardware Manual 5 21 Service Maintenance Qui Replacing the Electron Multiplier LC 5 4 Replacing the Electron Multiplier The electron multiplier of the ion detection system includes an anode and a cathode See Figure 5 9 The anode and cathode have finite lifetimes The anode loses sensitivity over time due to contamination of its surface The lifetime of the cathode is decreased by heat electron flow which produces internal heat air which causes oxidation and arcing and water which causes arcing The following symptoms suggest that the electron multiplier may need replacing e Excessive noise in the mass spectrum e Inability of the multiplier gain calibration procedure to achieve a gain of 3 x 10 electrons per ion with an electron multiplier voltage less than or equal to 2 5 kV You can read the curre
51. the ring electrode The inner surfaces of electrodes are hyperbolic Together they form a cavity in which the mass analysis occurs See Figure 1 3 The entrance endcap electrode is the electrode that is closest to the ion optics and the exit endcap electrode is the electrode that is closest to the ion detection system Both endcap electrodes have a small hole in their centers to permit the passage of ions into and out of the mass analyzer cavity The ring electrode is located between the endcap electrodes Ions produced in the API source enter the mass analyzer cavity through the entrance endcap electrode Ions can be ejected through either endcap electrode during mass analysis Ions that are ejected through the exit endcap electrode are focused by the conversion dynode accelerating potential through the exit lens at ground potential towards the ion detection system Helium damping gas enters the mass analyzer cavity through a nipple on the exit endcap electrode The entrance endcap electrode exit endcap electrode and ring electrode are separated by two quartz spacer rings The spacer rings position the electrodes at the proper distance apart and also serve as electrical insulators Two nonconducting analyzer posts pass through both endcap electrodes and screw into the analyzer mount also nonconducting A spring washer and analyzer nut on the end of each post apply a force to the exit endcap electrode that holds the electrodes and spacers i
52. union AE i c Slide a second clear Kel F ferrule wide end first over the stainless steel needle and into the free end of the PEEK adapter union ao d Use your finger to carefully push the stainless steel needle forward until it is flush with the tapered end of the Kel F ferrule e Attach a black LC union P N 00101 18202 to the end of the ee p i PEEK adapter union then tighten the LC union f Screw a clear 10 32 x 1 4 28 Kel F fitting adapter into the ESI probe sample inlet g Carefully insert the stainless steel needle assembly through the ESI sample inlet and screw the brown PEEK adapter union into the 10 32 x 1 4 28 Kel F fitting adapter h Hold the spray nozzle and carefully feed the stainless steel needle through the spray needle Take care not to bend the stainless steel needle Slide the spray nozzle forward and screw it into the ESI manifold With a 5 16 in wrench gently tighten the spray nozzle until it is a little more than finger tight Do not overtighten the spray nozzle The stainless steel needle will protrude 1 to 2 mm from the spray needle 4 18 Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ThermoC2uest CAUTION AVOID ELECTRICAL SHOCK When you are operating your instrument in the ESI mode you could receive an electrical shock unless you install the safety insulator discussed below When you are using the optional Metal Needle K
53. 1 Investigate the following signal path and Scroll to TURBO PUMP SE Ne GE potential repair locations Turbo pump turbo Temperature C 30 C to 45 C controller serial cable Embedded CPU serial port 6 Select Status Check for normal voltage 0 to 1 0 V Investigate each readback failure check View in Tune Plus associated fuses cables and modules See Table 4 Diagnostics details for signal Scroll to ANALOG IN paths and potential repair locations Skip this step if Analog In bus terminal I O Panel is not used ThermoC2uest Finnigan LCQpEcA Hardware Manual A 7 DECA Troubleshooting ee Table A 3 Data system diagnostics continued 7 Select Status View in Tune Plus Divert Inject LEDs toggle Divert Inject LED matches DIGITAL Investigate the following signal path and between Load and Inject INPUTS STATUS reading potential repair locations Diveret Inject PCB valve cable I O PCB Scroll to DIGITAL INPUTS STATUS Press the Divert Inject Valve switch front panel 8 Remove septum from Syringe pump is on Syringe LED front panel is green Investigate each readback failure check heated capillary associated fuses cables and modules Check for normal range Feel syringe pump pulsate Load syringe pump values Investigate the following signal paths and ial irl ions Flow Rate L min potential repair locations Infused Volume pL Syringe Pump cables I O PCB Syringe Diameter mm Sy
54. 1 gt means depress and hold the Shift key and then press the F1 key Finnigan LCQpeca Hardware Manual Xi Read This First Typographical Conventions xii L cQ Notes Cautions and CAUTIONS Notes Cautions and CAUTIONS are displayed in boxes such as the one below Note Boxes such as this are used to display Notes Cautions and CAUTIONS A Note contains information that can affect the quality of your data In addition notes often contain information that you may need if you are having trouble A Caution contains information necessary to protect your instrument from damage A CAUTION describes hazards to human beings Each CAUTION is accompanied by a CAUTION symbol Each hardware manual has a blue CAUTION sheet that lists the CAUTION symbols and their meanings Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA Read This First LC Q Typographical Conventions Topic Headings The following headings are used to show the organization of topics within a Chapter 1 Chapter Name 1 2 Second Level Topics Third Level Topics Fourth Level Topics Fifth Level Topics ThermoC2uest Finnigan LCQpEcA Hardware Manual xiii Read This First Reply Cards L cQ xiv Reply Cards LCQDECA manuals contain one or two reply cards All LCQpEcA manuals contain a Reader Survey card and some contain a Change of Location card These cards are located at the front of each manual
55. 1 on page 3 2 for the location of the Reset button When you press the Reset button the following occurs e Aninterupt on the CPU PCB of the embedded computer causes the embedded computer to reboot All LEDs on the front panel of the MS detector are off except the Power LED e After several seconds the Communication LED is illuminated yellow to indicate that the data system and the MS detector are starting to establish a communication link e After several more seconds the Communication LED is illuminated green to indicate that the data system and the MS detector have established a communication link Software for the operation of the MS detector is then transferred from the data system to the MS detector e After 3 min the software transfer is complete The System LED is illuminated either green to indicate that the instrument is functional and the high voltages are on or yellow to indicate that the instrument is functional and it is in Standby condition Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ System Shutdown Startup and Reset Resetting the Tune and Calibration Parameters to their Default Values Thermo 2uest 3 6 Resetting the Tune and Calibration Parameters to their Default Values You can reset the LCQpeca tune and calibration parameters to their default values at any time This feature may be useful if you have manually set some parameters that have resulted in less than optimum performance To re
56. 5 V 24 V dc switching power supply 5 36 8 kV power supply 5 36 Acquisition DSP PCB 5 41 Analyzer Auxiliary PCB 5 46 Analyzer PCB 5 46 anode electron multiplier 5 22 battery backup 5 46 cathode electron multiplier 5 22 Control DSP PCB 5 41 conversion dynode power supply 5 46 CPU PCB 5 41 electron multiplier 5 22 electron multiplier power supply 5 46 embedded computer PCBs 5 41 Ethernet PCB 5 41 fuses 5 30 heated capillary 4 27 ion gauge 5 43 oil reservoir turbomolecular pump 5 61 VI Finnigan LCQpEcA Hardware Manual RF Voltage Amplifier PCB 5 46 RF Voltage Control PCB 5 54 switching power supplies 5 36 System Control PCB 5 51 turbomolecular pump note 5 59 Turbomolecular Pump Controller 5 36 Vent Delay PCB 5 43 vent valve 5 43 Waveform Amplifier PCB 5 46 Waveform DDS PCB 5 41 Replacement procedures sample tube APCI 4 20 Reset button 3 8 RF control detection assemblies replaceable parts 6 11 RF Voltage Amplifier PCB fuses replacing 5 32 fuses replacing CAUTION 5 30 replacing 5 46 RF Voltage Control PCB location figure 5 54 replacing 5 54 RF voltages octapoles 1 9 octapoles tuning 5 16 quadrupoles 1 9 ring electrode tuning 5 16 tuning stud location figure 5 21 right side cover reinstalling 5 33 5 53 removing 5 32 5 51 ring electrode description 1 10 ring electrode RF voltage manual adjustment 5 20 tuning 5 16 rotary vane pump oil purging 4 34 on
57. 61 20320 Screw flat Phillips 4 40 x 3 8 in stainless steel 00407 44006 Screw pan head Phillips 6 32 x 1 2 in stainless steel 00415 63208 Shunt insulated mini wrap eee nennen enne 00004 89551 Switching power supply 24 V 1 1 A seeseenn een 00012 52104 Assembly Switching Power Supply cete e ecce eese eene eene esee enne sete tne eset 97000 60151 Power supply 36 V 11 A 28 V 4 2 A 00012 24223 Power supply 5 V 15 V 24V 200 Wi 00012 24221 Module Electron Multiplier Conversion Dynode Power Supply 97000 98042 Printed Circuit Boards PCBs PCB Analyzer Top Cover essen eee n nter 97033 61051 LN EE EE UE e 1 iiit e epe Pe pet ebelet Lebe bie edet ce total 97000 61340 Fuse 1 60 A 5 x 20 mm 250 V quick acting F1 HI 00006 08610 PCB DC Ring Filter eene ASSEN ier Pa aie E P he RP AE 96000 61130 PCB Divert Inject Val Verniso nn en eren enne nennen nnne seen 97000 61390 PCBs Embedded Computer PCB Acquisition DSP 97000 61260 PCB Control DSP eee terere te eene beh e deae dein ed e EE ede ee 97000 61270 PCB E d DEEE nar Aa ase 97044 60250 PCB Ethernet SM 97000 60165 PCB Waveform DDS ubt htptietpeethetietietie thee e eana 97000 61430 PCB Front P nelz nni nene ibn istis 97000 61400 PCB VO Panel a e 97000 61421 PCBs Eeer Eltere Ee Eer Ee 97000 61380 PCB RF Voltage Amplifier eo tte ee eoo eoe o a
58. 97000 20243 O ring 3 6 in ID 0 21 in thick Viton 00107 14050 Screw pan head Phillips 6 32 x 3 8 in stainless steel 00415 63206 Kit TON GAULE ee 97000 62010 IER DEE 97000 20282 Ion gauge mini 0 75 in OD pbe nennen 00105 01525 O ring 0 737 in ID 3 32 in thick Viton eee 00107 10056 Sleeve 0 75 in ID O ring COmMpression eene 97000 20211 Sleeve threaded O ring seal seeseeeeeeeeeeeeeeneeee nemen 97000 20212 Mechanical Assemblies Cover top octapole RF voltage co 97000 60162 Fan low pass filter vent control nennen 97000 60156 ams Eege 97000 60153 Electrical Assemblies Assembly Turbomolecular Pump Controller AA 97000 60150 Power supply 8 kV 100 uA without bracket ESI AC 770005 98037 Transformer 240 VA Torod SNE EEEE AEE 97000 98001 Assembly Power MOodulle ssssssscsscsssssssssssssccscssssssssssccccscsssssssssscsssesssssssenees 97044 60050 Circuit breaker 15 A double pole high m msb 00019 00522 Circuit breaker 2 pole 10 A 230 V ac unmarked rocker 00019 00508 Connector panel power inlet IEC 320 C20 esee 00004 89660 Filter line 20 A screw Iermunal eene 00007 18349 ThermoC2uest Finnigan LCQpEcA Hardware Manual Replaceable Parts Qu MS Detector LE Fuse 3 15 A 5 x 20 mm 250 V time lag sssssssseeeeeeereenne 00006 10510 Nut hex KEP 10 32 stainless steel 004
59. B Disconnect the cable that comes from the RF Voltage Amplifier PCB Disconnect the cable that comes from the System Control PCB With a Phillips screwdriver remove the screws that hold the RF Voltage Control PCB housing to the vacuum manifold Remove the RF Voltage Control PCB and its housing as a unit Reinstall the cover plate on the housing Unpack the new RF Voltage Control PCB and housing P N 96000 61100 Retain the packing materials so that you can pack and ship the defective PCB and housing to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms Position the new RF Voltage Control PCB and its housing against the vacuum manifold where the old assembly was located With a Phillips screwdriver reinstall the 21 screws that hold the RF Voltage Control PCB housing to the vacuum manifold With a Phillips screwdriver remove the nine screws that hold the front cover of the RF Voltage Control PCB housing to the RF Voltage Control PCB housing Remove the front cover to expose the RF Voltage Control PCB Reconnect the cable that comes from the System Control PCB 12 13 Reconnect the cable that comes from the RF Voltage Amplifier PCB Position the front cover over the RF Voltage Control PCB With a Phillips screwdriver reinstall the screws that hold the front cover to the RF Voltage Control PCB housing Reinstall the left side cover of the MS detector as follows
60. CB 2 22 LCQDECa in standby Check ribbon cable from System Control PCB to mode and ion gauge is on System LED front LED panel is yellow Data system computer screen displays Instrument in Standby front LED panel check cable from Control DSP PCB to System Control PCB ThermoC2uest A 5 Finnigan LCQpEcA Hardware Manual L cQ Table A 3 Data system diagnostics Troubleshooting Step User Input or Action Normal Conditions 1 Select scan mode Instrument is in scan in Tune Plus mode Select Graph View A Select Status Vie Normal Indications All front LED panel LEDs are green except Syringe LED which is off and Scan LED which is blue Scan LED front LED panel blinks to Total Microscans spin box value in Define Scan dialog box Control DSP PCB LED blinks Acquisition DSP PCB LED blinks Waveform DDS PCB LED blinks High Voltage Power Supply ON EM LED visible with left front panel open blinks to Total Microscans spin box value One High Voltage Power Supply NEG POS DYNODE LED visible with left front panel open is on In negative ion mode the POS DYNODE LED is on in positive ion mode the NEG DYNODE LED is on Failure Corrections After a repair go back to the top of the flowchart and look for additional symptoms Investigate each LED failure check associated cables modules and PCBs 2 Choose Diagnostics Diagnostic test performed Diagnostics
61. Cover PCB cable Sys Ctrl PCB both 01 ION OPTICS Octapole 2 Offset V Octapole 2 Top Cover PCB cable Sys Ctrl PCB both 07 ION OPTICS Oct Lens Voltage V Octapole Lens Top Cover PCB cable Sys Ctrl PCB both 04 ION OPTICS Trap DC Offset Sys Ctrl PCB cable Top Cover PCB static 03 ION OPTICS Analyzer Temp C AD592 on Top PCB cable Sys Ctrl PCB both 10 MAIN RF Main RF DAC steps RF Amp PCB cable Sys Ctrl PCB static 13 MAIN RF Main RF Detected V RF det PCB cable RF Amp PCB static 33 MAIN RF RF Detected Temp C AD592 on Det PCB cable Sys Ctrl PCB static 12 MAIN RF Main RF Modulation V RF det PCB cable RF Amp PCB static 08 MAIN RF Main RF Amp Vpp RF Amp PCB cable Sys Ctrl PCB static 34 MAIN RF RF Generator Temp C AD592 on Gen PCB cable Sys Ctrl PCB static 46 ION DETECT Dynode Voltage V EM Dyn PS cable EM supply cable Sys Ctrl PCB both 41 ION DETECT Multiplier Voltage V Electron Mult cable EM supply cable Sys Ctrl PCB static 18 SUPPLIES 5V Supply Voltage V PS2 supply Harness Sys Ctrl PCB static 16 SUPPLIES 15V Supply Voltage V PS2 supply Harness Sys Ctrl PCB static 15 SUPPLIES 15V Supply Voltage V PS2 supply Harness Sys Ctrl PCB static 36 SUPPLIES 24V Supply Voltage V PS2 supply Harness Sys Ctrl PCB static 32 SUPPLIES 28V Supply Voltage V PS1 Harness RF PCB cable Sys Ctrl PCB static 48 SUPPLIES 28V Supply Voltage V PS1 Harness RF PCB cable Sys Ctrl PCB static 26 SUPPLIES 35V Su
62. EE EE 97000 98032 Cover manifold front interconnect cccc ec ceeecccceeeeeccceeeeeccceeececeueeececeueceeeuenses 97000 40003 Cover RE Voltage Amplifier PCB rettet 97000 10028 Cover Waveform Amplifier PCB nere Reed 97000 10029 Cover zero box RF voltage detector eene 97000 20262 Data System Hardware Kit Data System Hardware ee eee eee ee eee eee ee eese eese ena sese esee te ee eaa sooo ee 97000 62038 Cable thinwire Ebene 00012 50969 Connector T Connector thinwire Ebene 00012 50967 Terminator thinwire Ebene 00950 00918 Chemicals Kit KIC e 97000 62042 Caffeine 1 mg mL in methanol cc eeeeeessneeeeceeeeeeeeenneeeceeeeeeeeeeneeeeeees 00301 12310 Reserpine e ep sut eie ee ee pee e peo t e pl epe bte nee 00301 12901 Met Arg Phe Ala MRFA solids A 00301 07702 Sample Met Arg Phe Ala MRFA solids 10 mg each 40061 60002 ThermoC2uest Finnigan LCQpEcA Hardware Manual 6 13 Replaceable Parts Accessory Kit L cQ Accessory Kit Accessory E 97044 62070 Air duct 1 0 in ID flex blue 15 ft 4 5 m ssssseeeeeeeeen 00301 08301 Cable shielded 2 twisted pair 22 gauge 24 ft Om 00302 01800 Cable serial DBOM DBOE eee meme nennen hnnn eese ese enin 00012 51089 Chemicals kit oan anadennaaedadsmeaemea adqnsdmadednmemadeecpes 97000 62042 Ferrule HPLC 1 16 in st
63. Ext LCQpeca Serial Date purchased Please fold this sheet closed stamp it and drop it in the mail G Thermo 2uest Regulatory Compliance ThermoQuest Corporation performs complete testing and evaluation of its products to ensure full compliance with applicable domestic and international regulations When your system is delivered to you it meets all pertinent electromagnetic compatibility EMC and safety standards as follows EMC Certification EN 55011 1991 EN 50082 1 1992 EN 61000 4 2 1995 EN 61000 4 3 1996 ENV 50204 1995 EN 61000 4 4 1995 EN 61000 4 5 1995 FCC Class A EMC issues have been evaluated by EMC TECHNOLOGY SERVICES A Subsidiary of UNDERWRITERS LABORATORY INC UL Safety Compliance Low Voltage Directive EN 61010 1 1993 A2 Please be aware that any changes that you make to your system may void compliance with one or more of these EMC and or safety standards Changes to your system include replacing a part Thus to ensure continued compliance with EMC and safety standards replacement parts should be ordered from ThermoQuest or one of its authorized representatives FCC Compliance Statement Note This equipment has been tested and found to comply with the limits for a Class A digital device pursuant to part 15 of the FCC rules These limits are designed to provide reasonable protection against harmful interference when the equipment is operated in a commercia
64. Figure 5 16 for the location of the RF Voltage Control PCB 1 Place the electronics service switch in the Service Position or shut down and vent the LCQpeca system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter RF VOLTAGE CONTROL PCB Figure 5 16 Left side of the MS detector showing the RF Voltage Control PCB CAUTION Make sure that the LCQpsca electronic service switch is in the Service Position or shut down or shut down the system and disconnect the power cord before you proceed 2 Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 5 54 Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ Service Maintenance ThermoC2uest 10 11 14 Replacing PCBs and Assemblies Remove the left side cover of the MS detector as follows a Loosen the fastener that secures the left side cover to the chassis of the MS detector b Slide the side cover back about 1 25 cm 0 5 in and then pull it out and away from the MS detector Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing With a Phillips screwdriver remove the nine screws that secure the front cover of the RF Voltage Control PCB Remove the front cover to expose the RF Voltage Control PC
65. G Thermo2uest Finnigan LCQ DECA Hardware Manual 97044 97002 Written by Fred D Ayres and Robert W Heather Edited by Franklin P Mason LCQ Vpeca iS a trademark of ThermoQuest Corporation Convectron is a trademark of Granville Phillips Company GastightG is a registered trademark of Hamilton Company KEL F G is a registered trademark of 3M Corporation SwagelokG is a registered trademark of Crawford Fitting Company Delrin amp Kalrez Teflon Tefzel Vespa and Viton are registered trademarks of E I du Pont de Nemours amp Co Tygon is a registered trademark of Norton Industrial Plastics Technical information contained in this publication is for reference purposes only and is subject to change without notice Every effort has been made to supply complete and accurate information however ThermoQuest Corporation assumes no responsibility and will not be liable for any errors omissions damage or loss that might result from any use of this manual or the information contained therein even if this information is properly followed and problems still arise This publication is not part of the Agreement of Sale between ThermoQuest Corporation and the purchaser of an LC MS system In the event of any conflict between the provisions of this document and those contained in ThermoQuest Corporation s Terms and Conditions the provisions of the Terms and Conditions shall govern Reference to System Configurations and Speci
66. I 3 23 Capillary Voltage V 132 to 132 Thermo 2uest Finnigan LCQpECA Hardware Manual 5 29 Service Maintenance ek Replacing a Fuse LC 5 6 Replacing a Fuse Fuses protect the various circuits by opening the circuits whenever overcurrent occurs On the MS detector most of the fuses are located on the System Control PCB Several fuses however are located on the RF Voltage Amplifier PCB Analyzer Auxiliary PCB and Power Module The function and current rating of the various fuses are listed in Table 5 5 Check fuses when power is lost to a fused subsystem CAUTION Always place the electronics service switch in the Service Position or shut down the system and disconnect the power cord before I you replace fuses on the System Control PCB RF Voltage Amplifier PCB or Analyzer Auxiliary PCB 5 30 Finnigan LCQpEcA Hardware Manual ThermoC2uest Service Maintenance Replacing a Fuse L cQ Table 5 5 MS detector fuses Location Fuse Circuit Description P N System F1 Multipoles and tube 0 25 A time lag 5 x 20 mm 250V 00006 01700 Control PCB lens power supplies ion gauge grid System F2 Multipoles and tube 0 25 A time lag 5 x 20 mm 250V 00006 01700 Control PCB lens power supplies System F3 Heated capillary 0 16 A time lag 5 x 20 mm 250 V 00006 01700 Control PCB multipoles and mass analyzer DC offsets System F4 Heated
67. Install the new PCB in the place occupied by the old PCB f With a Phillips screwdriver reinstall the screws that secure the RF Voltage Amplifier to the top of the tower g Reinstall the metal cover to the top of the RF Voltage Amplifier PCB h Reconnect all cables to the RF Voltage Amplifier PCB that you disconnected in step 7a Go to step 8 5 50 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ ThermoC2uest Service Maintenance Replacing PCBs and Assemblies 10 11 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 Place the electronics service switch in the Operating Position Run the LCQpeca diagnostics to verify that the system is operational If you replaced the Analyzer PCB Analyzer Auxiliary PCB or RF Voltage Amplifier PCB tune the ring electrode and quadrupole octapole RF voltages as described in the topic Tuning the Ring Electrode and Quadrupole Octapole RF Voltages on page 5 16 Replacing the System Control PCB To replace the System Control PCB proceed as follows See Figure 5 12 on page 5 33 for the location of the System Control PCB 1 Place the electronics service switch in the Service Position or shut down and vent the LCQpeca system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter CAUTION Make sure that the LCQpeca electronic service
68. L S essen 00108 02642 Screw socket 5 16 in x 18 x 5 0 in long stainless steel 00419 63010 Washer flat 5 16 in ID stainless steel 00471 50010 Rotary Vane Pumps Pump mechanical 640 L Edwards 30 2 each 00108 02655 Inside 97044 60130 Adapter hose 25 mm 2 each eee teret ertet e eode nene ene 00108 09005 Clamp hose adjustable 0 81 in to 1 5 in stainless steel 4 each 00108 09001 Hose reinforced vacuum d tiep EIER ELI LEM IEEE EAS HELGA dE 00301 24141 Union et dee 97000 20283 Vacuum hardware clamp KRIOIIN 00102 10020 Vacuum System Assemblies Assembly Vent V AlVe vecececvssivessacetensseietensaceteesssdybountaee tenses Von v en vota CU Ree oou ER o Ugo 97000 60128 Filter sintered nylon 5 nS 2 e tenttiutatiutstiutetu 00201 06050 Fitting Swagelok male adapter 1 8 in MPT x l 4 in esses 00101 01740 Fitting Swagelok O seal 1 4 in tube 7 16 in x 20 sss 00101 13510 O ring 0 424 in ID 0 103 in thick Von 00107 05550 Ribbon dope 1 4 in n n E E eene nennen eene nennen enn 00301 16501 Valve 2 way solenoid 6 V dc 1 32 in stainless steel normally open 00110 10708 Assembly Foreline Interconnect eee e ee ee eee ee eee ee en nenne eee etae eta ase e eee 97033 60200 Clamp hose adjustable 0 81 in to 1 5 in
69. LAR PUMP CONTROLLER POWER MODULE 8 kV POWER SUPPLY Figure 5 13 Tower embedded computer removed Thermo wert Finnigan LCQpECA Hardware Manual 5 97 Service Maintenance Q DECA Replacing PCBs and Assemblies LC To replace a component that is in the tower proceed as follows 1 Shut down and vent the system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter CAUTION Make sure that the LCQpeca power cord is unplugged before you proceed 2 Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 3 Reposition the embedded computer to expose the tower as follows a Disconnect the cables that connect to the top of the embedded computer b Loosen the six fasteners that secure the embedded computer to the vacuum manifold base plate and chassis c Liftup the embedded computer a sufficient distance to access the two cables that connect to the bottom of the embedded computer Disconnect the two cables that connect to the bottom of the embedded computer d Lift the embedded computer and reposition it such that the two hooks in the back of the embedded computer box insert into the two slots in the MS detector chassis See Figure 5 14 on page 5 42 for the location of the slots e To replace the switching power supply assembly which includes the 5 V 15 V 24 V dc and 36 V 28
70. PCI flange See Figure 4 6 Move the ground wire away from the vaporizer casing Reinstall the corona discharge needle by inserting it into the socket in the corona discharge needle assembly 4 26 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA User Maintenance Le Q API Source Maintenance APCI APCI VAPORIZER pe A HEATER RETAINER CORONA DISCHARGE NEEDLE Figure 4 6 Correct position of the APCI retainer cap to corona discharge needle Reinstalling the APCI Probe Assembly To reinstall the APCI probe assembly onto the LCQpeca follow the procedure described in the topic Installing the APCI Probe Assembly in the Changing ESI or APCI Probe Assemblies chapter or place the APCI probe assembly in its storage container Maintaining the API Stack The API stack includes the spray shield heated capillary tube lens and skimmer The heated capillary has a finite lifetime You need to replace the heated capillary if the heated capillary bore becomes corroded or if the heater fails You also need to clean the spray shield heated capillary tube lens skimmer and other components of the API stack on a periodic basis To replace the heated capillary or to clean the spray shield heated capillary tube lens and skimmer do the following e Shut down and vent the system e Remove the API stack e Disassemble the API stack e Clean the API stack components e Reassemble the API stack e Reinstall the API
71. S PCB embedded computer Waveform Amplifier PCB RF Voltage Amplifier PCB Analyzer Auxiliary PCB 97000 63041 Cable System Control PCB Control DSP PCB embedded computer 97000 63042 Cable Turbomolecular Pump Controller Serial I O PCB embedded computer aie a kea airaa takkaa karieri Lih ins 97000 63043 Cable Power Module Turbomolecular Pump Controller 97000 63045 Cable switching power supply embedded computer fan RF Voltage Control PCB fan interconnect to tower fans 97000 63046 Cable RF Voltage Control PCB RF Voltage Amplifier PCB 97000 63047 Cable RS232 RJ11 10 pin Header 97044 63020 Cable System Control PCB RF Voltage Amplifier PCB Waveform DPS BER Gehlen 97000 63048 Cable System Control PCB Analyzer Auxiliary PCB ribbon 97000 63049 Cable System Control PCB spray shield external interconnect 97000 63050 Cable Sheath Aux gas valve I O Panel DCH 97000 63051 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Replaceable Parts Data System Hardware amp Chemicals Kit Covers Cover Analyzer PC B small sieis eee bebe EE 97000 98033 Cover Analyzer Auxiliary DCH 97000 10088 Covers balun bel sc cctsscactisasegisasacaadasssaladasacacabadsuacababagadabacanadobagadadobagseababagseasans 96000 98013 COVED DOX It riers title ello loi lita
72. Selected MS Detector Components uei eeete enter retener et teer e REESEN RES E Sepe En 3 10 User VIaInfenatce enee 4 1 2 MGS and Supplies graye arcc mmo Mc C Me M M mu M 4 3 4 2 Frequency EE 4 4 4 3 API Source Maintenance iscritte tre e He ERR REN EUER RR REEE ERE ER MUERE Hb HERE AE 4 5 Flushing the Sample Transfer Line Sample Tube and API Probe 4 5 Cleaning the Spray Shield and the Heated Capillary eese 4 6 Clearing the Bore of the Heated Capillary eene 4 7 Maintaining the ESI Probe ttt tete pestes 4 9 Maintaming the AFC robert kee eene AS 4 20 Maintaining the API Stack esses nennen nennen nnne nnne 4 27 Starting Up the System eaaeo a abee ta eie na e eaei a i ei a e e e aA 4 33 4 4 Purging the Oil in the Rotary Vane Pumps see 4 34 As Cleanine th Fan E 4 35 Service Maintenance eegene EENEG 5 1 D T SEOO SIESODDISS EE EE EE ett 5 3 5 2 Erequeney ob6 EE 5 4 5 3 Cleaning the Ton Optics and Mass Analyzer uer ee eren eer oett torpet hers 5 5 Shutting Down the System onte e aa ease 5 5 Removing the Top Cover of the MS Detector eene 5 6 Removing the Top Cover Plate of the Vacuum Manifold A 5 6 Removing the Ion Optics and Mass Analyzer seen eee 5 7 Disassembling the Ion Optics and Mass Analvzer sse 5 9 Cleaning the Ion Optics and Mass Analyzer Parts 5 10 Reassembling the Ion Optics and Mass Analyzer sse 5 11 Reinstalling th
73. User Maintenance API Source Maintenance ThermoC2uest 2 Loosen the probe retainer bolt that holds the ESI probe in the ESI flange and remove the ESI probe by pulling the ESI probe toward the interior spray chamber side of the ESI flange If you want to clean the interior surface of the ESI probe go to the next topic Removing the ESI Spray Nozzle ESI spray Needle and Needle Seal If you want to replace the stainless steel needle go to step 7 of the topic Reassembling the ESI Probe Assembly Fitted with a Stainless Steel Needle Removing the ESI Spray Nozzle ESI Spray Needle and Needle Seal You need to replace the ESI spray needle if it is damaged You need to replace the Teflon needle seal if the sheath liquid is leaking at the needle seal spray needle interface To remove the ESI spray nozzle ESI spray needle and needle seal proceed as follows See Figure 4 1 1 Usea 5 16 in wrench to loosen and remove the spray nozzle from the ESI manifold Remove the O ring for cleaning Note To ease removal of the spray nozzle from the ESI manifold lubricate the threads of the spray nozzle by spraying approximately 0 5 mL l HPLC grade methanol into the auxiliary gas holes on the spray nozzle Do ll not apply unnecessary force to remove the spray nozzle 2 Remove the spray needle and needle seal from the ESI manifold To remove the needle seal use the Teflon seal extractor tool P N 70005 20304 provided in the Accessories
74. V dc switching power supplies go to step 4 e To replace the Turbomolecular Pump Controller go to step 5 To replace the 8 kV power supply go to step 6 4 To replace the switching power supply assembly which includes the 5 V 15 V 24 V dc and 36 V 28 V dc switching power supplies proceed as follows a Disconnect the cable to the RF Voltage Amplifier PCB from the connector on the RF Voltage Amplifier PCB See Figure 5 15 on page 5 44 for the location of the RF Voltage Amplifier PCB Analyzer Auxiliary PCB and Waveform Amplifier PCB b Disconnect the two cables to the Analyzer Auxiliary PCB from the two connectors on the Analyzer Auxiliary PCB c Disconnect the cable to the Waveform Amplifier PCB from the connector on the Waveform Amplifier PCB d Disconnect the cable that is connected to the fan cable 5 38 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Service Maintenance Replacing PCBs and Assemblies ThermoC2uest e Disconnect the two cables to the Power Module from the two upper connectors on the Power Module f Disconnect the cable that is connected to the reset button cable g Loosen by hand or with a Phillips screwdriver the fastener that holds the switching power supply assembly to the tower h Remove the switching power supply assembly from the tower i Unpack the new switching power supply assembly P N 97000 60151 Retain the packing materials so that you can pac
75. You need to change the API probe assembly ESI or APCI of the API source when you switch between ESI and APCI ionization modes The ESI probe assembly consists of the ESI flange and probe The APCI probe assembly consists of the APCI flange probe and corona discharge needle Note You do not need to shut down or vent the system to change the API probe assembly The following topics are discussed in this chapter e Installing the ESI probe assembly e Removing the ESI probe assembly e Installing the APCI probe assembly e Removing the APCI probe assembly Finnigan LCQpEcA Hardware Manual 2 1 Changing ESI or APCI Probe Assemblies L cQ Installing the ESI Probe Assembly 2 1 Installing the ESI Probe Assembly To install the ESI probe assembly remove the APCI probe assembly using the procedure described in the topic Removing the APCI Probe Assembly then proceed as follows l 2 10 Remove the ESI probe assembly from its storage container If your ESI probe assembly is not already connected with a PEEK safety sleeve and fused silica sample tube you need to follow the procedure for installing a sample tube and PEEK safety sleeve that is outlined in the topic Connecting the PEEK Safety Sleeve and Fused Silica Sample Tube to the ESI Probe in the Finnigan LCQpeca Getting Connected manual Note Ensure that the ESI probe is secured to the ESI flange Slide the ESI probe assembly onto the probe slide adapter Secu
76. able parts 6 8 valve accessories replaceable parts 6 16 vaporizer APCI probe description 1 5 location figure 4 20 temperature 1 5 Finnigan LCQpeca Hardware Manual VII Index L cQ vaporizer casing location figure 4 20 vaporizer flange location figure 4 20 vaporizer tube location figure 4 20 Vent Delay PCB replacing 5 43 servicing CAUTION 5 35 vent valve location figure 5 44 open closed status table 3 11 3 12 replacing 5 43 servicing CAUTION 5 35 voltages conversion dynode 1 11 corona discharge needle 1 5 electron multiplier 5 26 electron multiplier cathode 1 11 ESI needle 1 3 heated capillary 1 7 interoctapole lens 1 9 octapoles 1 9 on off status table 3 11 3 12 quadrupoles 1 9 tube lens 1 7 W Waveform Amplifier PCB replacing 5 46 Waveform DDS PCB location figure 5 42 replacing 5 41 VIII Finnigan LCQpEca Hardware Manual ThermoC2uest
77. acing the RF Voltage Control PCB Replacing the Low Pass Filter PCB CAUTION With the electronics service switch in the Service Position power is still supplied to the rotary vane pump Turbomolecular Pump Controller turbomolecular pump turbomolecular pump fan 24 V keep alive power supply vent valve and Vent Delay PCB Thus before these components can be serviced the main power circuit breaker switch must be placed in the Off O position and the power cord must be unplugged from the power outlet Caution Never insert a test probe for example an oscilloscope probe into the sockets of female cable connectors on PCBs This can damage the sockets Finnigan LCQpECA Hardware Manual 5 35 Service Maintenance Q DECA Replacing PCBs and Assemblies LC Replacing PCBs and Assemblies in the Tower The following PCBs and assemblies are installed in the tower See Figure 5 13 e 45 V 15 V 24 V dc and 36 V 28 V dc switching power supplies e Turbomolecular Pump Controller e 8 kV power supply e Power Module Note To service the Power Module you need to remove the tower System Control PCB and embedded computer Do not service the Power Module I unless you are qualified to do so 5 96 Finnigan LCQpEcA Hardware Manual ThermoC2uest Qua Service Maintenance LC Replacing PCBs and Assemblies 36 V 28 V DC SWITCHING POWER SUPPLY 5 V 15 V 24 V DC SWITCHING POWER SUPPLY TURBOMOLECU
78. ainless steel Valco 4 each 00101 18122 Ferrule Fingertight 2 Upchurch 3 each 00101 18196 Ferrule Tefzel 1 16 in electrospray 2 each 00102 10148 Ferrule 0 008 in ID KEL F HPLC 4 each e 00101 18114 Ferrule 0 016 in ID PEEK HPLC 4 each 00101 18120 Fitting ferrule 1 8 in Tefzel 2 each 00101 18199 Fitting ferrule Swagelok back 1 4 in 2 each 00101 04000 Fitting ferrule Swagelok front 1 4 in 2 each 00101 10000 Fitting ferrule Swagelok front 1 8 in 2 each 00101 08500 Fitting ferrule Swagelok back 1 8 in 2 each 00101 02500 Fitting Fingertight 2 Upchurch 2 each 00101 18195 Fitting HPLC union 0 010 in orifice PEEK 2 each 00101 18202 Fitting HPLC tee 0 020 in orifice PEEK 1 each 00101 18204 Fitting Swagelok nut 1 4 in brass each 00101 12500 Fitting Swagelok nut 1 8 in brass 2 each 00101 15500 Fitting tee 1 in barbed 1 each innr res reret eee eene einen nnne nena 00102 10120 Fuse 0 16 A 5 x 20 mm 250 V time lag 8 each 00006 01700 Fuse 0 25 A 5 x 20 mm 250 V time lag 2 each 00006 11204 Fuse 0 40 A 5 x 20 mm 250 V time lag 4 each 00006 05080 Fuse 0 50 A 5 x 20 mm 250 V quick acting 2 each 00006 07608 Fuse 1 00 A 5 x 20 mm 250 V quick acting 2 each 00006 07610 Fuse 2 50 A 5 x 20 mm 250 V time lag 2 each 00006 09510 Fuse 2 50 A 5 x 20 mm 250 V T F 2 each 00006 11202 Fuse
79. aintenance Replacing PCBs and Assemblies ThermoC2uest 3 To replace the Vent Delay PCB proceed as follows h i Disconnect at J1 the cable to the vent valve Disconnect at J2 the cable to the Power Module With a Phillips screwdriver loosen the four screws that secure the Vent Delay PCB to the MS detector chassis Remove the Vent Delay PCB Unpack the new Vent Delay PCB P N 97000 61370 Retain the packing materials so that you can pack and ship the defective PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms Replace the battery P N 00301 05720 if necessary To replace the battery on the Vent Delay PCB proceed as follows See Figure 5 15 on page 5 44 for the location of the battery Remove the battery from the Vent Delay PCB Reinstall a new battery P N 00301 05720 in the place occupied by the old battery Position the new Vent Delay PCB in the space that was occupied by the old PCB With a Phillips screwdriver tighten the four screws that secure the Vent Delay PCB Reconnect at J1 the cable that goes to the vent valve Reconnect at J2 the cable that comes from the Power Module Go to step 6 a b e To replace the vent valve proceed as follows Disconnect the cable that comes from the Vent Delay PCB With a 7 16 in open end wrench loosen the fitting to the vent valve solenoid Remove the vent valve Replace the ol
80. aintenance LE Q CAUTION Before you proceed make sure that the LCQpzca has sensed that the 10n source flange has been opened and has deactivated the high voltage power supplies In the Tune Plus window choose View Status I View then check the following readings 1 ESI SOURCE Spray Voltage kV is at or near 0 0 V I 2 VACUUM OK reads FALSE I 3 POWER SUPPLIES I 150V Supply Voltage V is at or near 0 0 V I 150V Supply Voltage V is at or near 0 0 V I 205V Supply Voltage V is at or near 0 0 V l 205V Supply Voltage V is at or near 0 0 V CAUTION AVOID BURNS At operating temperatures the APCI vaporizer and heated capillary can severely burn you The APCI vaporizer typically operates at 400 to 600 C and the heated capillary typically operates at 100 to 350 C Allow the heated vaporizer and heated capillary to cool to room temperature for approximately 20 min before you touch or remove either component 5 Clear the bore of the heated capillary by inserting and withdrawing the 28 gauge 10 in hypodermic tube P N 00106 20005 included in your accessory kit 6 Filla spray bottle with a 50 50 solution of HPLC grade methanol distilled water From a distance of 10 cm from the entrance end of the heated capillary spray a small amount of the solution down the bore of the heated capillary 7 Repeat steps 5 and 6 several times if necessary Note If you have unblocked the heated capillary the Con
81. alling 4 14 4 17 removing 4 11 O octapole leads location figure 5 8 octapoles dc offset voltage 1 9 description 1 9 on off status table 3 11 3 12 RF voltage 1 9 RF voltage tuning 5 16 Off condition MS detector components on off status 3 11 3 12 O rings Thermo 2uest 0 185 in location figure 4 20 0 614 in location figure 4 20 0 625 in location figure 4 20 APCI probe location figure 4 20 P PCBs Acquisition DSP PCB location figure 5 42 Acquisition DSP PCB replacing 5 41 Analyzer Auxiliary PCB replacing 5 46 Analyzer PCB replacing 5 46 Control DSP PCB location figure 5 42 Control DSP PCB replacing 5 41 CPU PCB location figure 5 42 CPU PCB replacing 5 41 Ethernet PCB location figure 5 42 Ethernet PCB replacing 5 41 Low Pass Filter PCB location figure 5 57 Low Pass Filter PCB replacing 5 56 replaceable parts 6 10 replacing CAUTION 5 35 RF Voltage Amplifier PCB replacing 5 46 RF Voltage Control PCB location figure 5 54 RF Voltage Control PCB replacing 5 54 System Control PCB replacing 5 51 Vent Delay PCB replacing 5 43 Waveform Amplifier PCB replacing 5 46 Waveform DDS PCB location figure 5 42 Waveform DDS PCB replacing 5 41 PCBs accessable from top of MS detector figure 5 44 Power LED MS detector reset 3 8 MS detector startup 3 6 Power Module fuses replacing note 5 32 replacing note 5 36 power panel figure
82. als from the pump oil Water and other chemicals in the rotary vane pumps can cause corrosion and decrease the lifetime of the pumps A good time to purge the oil is at the end of the working day after you flush the API probe spray shield and heated capillary To purge the oil in the rotary vane pumps proceed as follows l 2 3 Turn off the flow of sample solution from the LC to the MS detector Place the MS detector in Standby condition Withdraw the API flange from the spray shield and place a septum over the entrance to the heated capillary Open the ballast valve on the rotary vane pumps by turning it to position Refer to the manual that came with the pump for the location of the ballast valve Allow the pump to run for 2 hours with the gas ballast valve open After 2 hours close the gas ballast valve by turning it to position O Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ User Maintenance Cleaning the Fan Filter Thermo 2uest 4 5 Cleaning the Fan Filter You need to clean the fan filter located on the rear of the MS detector every four months To clean the fan filter proceed as follows 1 e es E E Remove the fan filter by reaching behind the MS detector and pulling the fan filter out to the right Wash the fan filter in a solution of soap and water Rinse the fan filter with tap water Squeeze the water from the fan filter and allow it to air dry When the fan filter is com
83. be Assembly then proceed as follows 1 10 11 Remove the APCI probe assembly and corona discharge needle from the storage container Insert the corona discharge needle into its socket in the corona discharge needle assembly If your APCI probe assembly does not already contain a sample tube fused silica capillary you need to follow the procedure for installing a sample tube that is outlined in the topic Maintaining the APCI Probe in the User Maintenance chapter of this manual Ensure that the probe retainer bolt is tight and the APCI probe is secured to the APCI flange Caution Inspect the APCI probe Make sure that the green ground wire is not touching the vaporizer casing Reposition the ground wire if necessary Slide the APCI probe assembly onto the probe slide adapter Secure the APCI probe assembly to the probe slide adapter with the knurled fastener Push the APCI probe assembly against the spray shield Secure the APCI flange to the spray shield with the two flange retainer bolts Connect the sample transfer line and fitting to the inlet labeled LC on the APCI probe Connect the auxiliary gas line and green fitting to the inlet labeled A on the APCI probe Connect the sheath gas line and blue fitting to the inlet labeled S on the APCI probe Connect the high voltage cable to the connector on the APCI probe assembly Turn the locking ring on the cable clockwise to secure the cable Connect the va
84. bly external interlock 97000 63005 Cable API front panel APCI heater 97000 63006 Cable System Control PCB API front panel APCI heater 97000 63007 Cable API front panel 8 kV API probe connector HV sses 97000 63008 Cable 8 kV power supply API front Dance 97000 63009 Cable Serial I O PCB Divert Valve Select PCB ribbon 97000 63011 Cable System Control PCB I O Panel PCB rbbon 97000 63013 Cable System Control PCB RF Voltage Control PCB ribbon 97000 63015 Cable System Control PCB Conversion Dynode Power Supply PCB 15 kV Electron Multiplier Power Supply PCB sess 97000 63016 Cable Electron Multiplier Power Supply PCB electron multiplier HV connector top cover plate coax wo eeeeeesseeeeceeeeeeeeeeeneeeeeeeeeeeeeeaaees 97000 63017 Cable Analyzer PCB Acquisition DSP PCB embedded computer 97000 63018 Thermo 2uest Finnigan LCQpEcA Hardware Manual 6 11 Replaceable Parts L cQ MS Detector Cable System Control PCB Analyzer Auxiliary PCB eee 97044 63030 Cable Analyzer Auxiliary PCB Analyzer PCB RF Voltage Amplifier PCB 4 cables ertet rette e heres 97000 63022 Cable Vent Delay PCB vent valve eene 97000 63023 Cable power supply 36 V 11 A 28 V 4 2 A RF Voltage Amplifier PCB Waveform Amplifier PCB Anal
85. buffers or salt solutions during LC MS operation might require that you use an acidic aqueous cleaning solution If you need to use a solvent other than methanol after cleaning the ion source components flush the component with water and then flush it with methanol as a final wash In all cases ensure that all solvent has evaporated from the component s before reassembly Cleaning the Tube Lens Clean the inner bore of the tube lens with HPLC grade methanol and a cotton tipped applicator swab Cleaning the Skimmer Look at the tip of the cone on the skimmer for a region that shows discoloration due to contamination The off axis pattern that you see is a result of the sample solvent that exits from the off axis heated capillary Use methanol and a cotton tipped applicator or Kimwipe to clean the entrance and exit sides of the skimmer Cleaning the Heated Capillary To clean the heated capillary proceed as follows 1 Use methanol and a Kimwipe to clean the entrance end exit end and exterior of the heated capillary Clear the bore of the heated capillary by inserting and withdrawing the 28 gauge 10 in hypodermic tube P N 00106 20000 included in your accessory kit Finnigan LCQpeca Hardware Manual 4 31 User Maintenance DECA API Source Maintenance LC Q 3 Flush the bore of the heated capillary with methanol 4 Dry the bore of the heated capillary with nitrogen gas Cleaning the Spray Sh
86. cleaning less often than the API source The frequency of cleaning depends on the type and quantity of the compounds that you analyze Cleaning the ion optics and mass analyzer involves the following steps e Shutting down the system e Removing the top cover of the MS detector e Removing the top cover plate of the vacuum manifold e Removing the ion optics and mass analyzer e Disassembling the ion optics and mass analyzer e Cleaning the ion optics and mass analyzer parts e Reassembling the ion optics and mass analyzer e Reinstalling the ion optics and mass analyzer e Cleaning the ion detection system e Reinstalling the top cover plate of the vacuum manifold e Reinstalling the top cover of the MS detector e Starting up the system e Tuning the ring electrode and quadrupole octapole RF voltages Shutting Down the System Shut down and vent the system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter Finnigan LCQpECA Hardware Manual 5 5 Service Maintenance Q DECA Cleaning the lon Optics and Mass Analyzer LC Removing the Top Cover of the MS Detector Remove the top cover of the MS detector as follows 1 Disconnect any tubing between the syringe pump and the API source 2 Open the left and right front doors of the MS detector by loosening the 1 4 in Allen screw on the right front door with an Allen wrench 3 Open the two fasteners that hold the top cov
87. clear 10 32 x 1 4 28 Kel F fitting adapter from the ESI probe sample inlet The PEEK safety sleeve and red Fingertight fitting remain attached b Remove the PEEK safety sleeve Fingertight fitting and Kel F fitting adapter from the ESI probe by carefully pulling them out and away from the ESI probe The fused silica sample tube is visible as the PEEK safety sleeve is pulled out 2 Loosen the probe retainer thumbscrew that holds the ESI probe in the ESI flange Remove the ESI probe by pulling the ESI probe toward the interior spray chamber side of the ESI flange If you want to clean the interior surface of the ESI probe go to the topic Removing the ESI Spray Nozzle ESI Spray Needle and Needle Seal If you only want to replace the ESI sample tube go to the topic Reassembling the ESI Probe Assembly Disassembling an ESI Probe Assembly Fitted with a Stainless Steel Needle To disassemble an ESI probe assembly fitted with a stainless steel needle proceed as follows 1 Remove the stainless steel needle from the ESI probe as follows a Unscrew the clear 10 32 x 1 4 28 Kel F fitting adapter from the ESI probe sample inlet The stainless steel needle brown PEEK adapter union black LC union and Metal Needle Safety Insulator remain attached b Remove the Kel F fitting adapter and the stainless steel needle by pulling them out and away from the ESI probe Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ
88. cribed in the topic Starting Up the System After a Complete Shutdown in the System Shutdown Startup and Reset chapter 14 Set the electron multiplier voltage to 800 V as follows a b c d f From the Tune Plus window choose Diagnostics Diagnostics Select the Graphs tab In the Set Device Value option box select Multiplier V In the text box to the right of the Set Device Value option box enter 800 Select the Set button to set the electron multiplier voltage to 800 V Select the OK button to return to Tune Plus 15 Calibrate the electron multiplier voltage as follows a Allow the system to pump down for at least one hour before you turn on the high voltages Set up for the infusion of the tuning solution into the MS From the Tune Plus window choose Control Calibrate The Calibrate dialog box appears Select the Semi Automatic tab Select the Electron Multiplier Gain option Select the Start button to start the multiplier gain procedure 16 After the Electron Multiplier Gain program is finished set up for ESI or APCI operation Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Service Maintenance Diagnostics ThermoC2uest 5 5 Diagnostics Many of the MS detector components can be tested by the LCQDECA diagnostics You should replace LCQDECA components when indicated by the LCQpEca diagnostics The LCQDECcA diagnostics is used to test the major electronic circuit
89. d Finnigan LCQpeca Hardware Manual ThermoC2uest L cQ MS Detector Maintenance API Source Maintenance SKIMMER 97000 20201 TUBE LENS AND API STACK ASSEMBLY SKIMMER MOUNT 97044 60150 97000 20199 ei D T Gs Bag e NM E d SR n CAPILLARY MOUNT dU Wi T J Bu 97000 20202 puo T BE LENS T 97000 20200 e 0 299 IN ID O RING T ur fy 00107 10059 a 3 85 IN ID O RING 00107 14100 Ps HEATED CAPILLARY of EE 70005 98041 px NN a ei CAPILLARY MOUNT BUSHING t M 97000 20281 b A 1 W NN ch API CAPILLARY SLEEVE hk a S NY 70005 20224 be em GC SPRAY SHIELD 97044 60120 API CONNECTOR RETAINER 97000 20320 0 364 IN ID O RING i 00107 05500 HOSE ADAPTER 97000 20269 Figure 4 7 API stack exploded view Thermo 2uest Finnigan LCQDEcA Hardware Manual 4 29 User Maintenance API Source Maintenance 4 30 L cQ Disassembling the API Stack Wait for the API stack to cool to ambient temperature before you disassemble it See Figure 4 7 for the location of the various API stack components To disassemble the API stack proceed as follows Note Wear clean lint free nylon or cotton gloves when you handle the API stack components Disconnect the skimmer electrical lead from the lead pin on the skimmer Disconnect the tube lens electrical lead from the lead pin on the tube lens Pull the tube lens and skimmer moun
90. d data system Appendix A Troubleshooting provides tables for troubleshooting and diagnosing the LCQDECa Finnigan LCQpeca Hardware Manual V Read This First DECA Changes to the Manual and Online Help LC Q Changes to the Manual and Online Help To suggest changes to this manual or the online Help please send your comments to Editor Technical Publications ThermoQuest LC and LC MS Division 355 River Oaks Parkway San Jose CA 95134 1991 U S A You are encouraged to report errors or omissions in the text or index Thank you vi Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ Head This First Abbreviations ThermoC2uest Abbreviations The following abbreviations are used in this and other LCQpEcA manuals and in the online Help A ac baud rate 2C cfm CD CD ROM CI CIP cm cn CPU CRM Ctrl Da DAC DAU dc DDS DEP DS DSP EI ampere alternating current analog to digital converter acquisition processor atmospheric pressure chemical ionization atmospheric pressure ionization American Standard Code for Information Interchange bit byte 8 b data transmission speed in events per second degrees Celsius cubic feet per minute compact disc compact disc read only memory chemical ionization Carriage and Insurance Paid To centimeter cubic centimeter central processing unit of a computer consecutive reaction monitoring control key on the terminal
91. d vent valve with a new one P N 97000 60128 With a 7 16 in open end wrench tighten the fitting to the vent valve solenoid Reconnect the cable that comes from the Vent Delay PCB Go to step 6 5 To replace the ion gauge proceed as follows a d Disconnect the cable from the top of the ion gauge by pulling it free from the ion gauge Unscrew the ion gauge by hand from the vacuum manifold Replace the old ion gauge with a new one P N 00105 01525 Screw it into the vacuum manifold Reattach the cable to the top of the ion gauge Go to step 6 Finnigan LCQpECA Hardware Manual 5 45 Service Maintenance DECA Replacing PCBs and Assemblies LC Q 5 46 6 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 7 Restart the system as described in the topic Starting Up the System After a Complete Shutdown in the System Shutdown Startup and Reset chapter Replacing the Electron Multiplier and Conversion Dynode Power Supplies Analyzer PCB Analyzer Auxiliary PCB Waveform Amplifier PCB RF Voltage Amplifier PCB The electron multiplier power supply conversion dynode power supply Analyzer PCB Analyzer Auxiliary PCB Waveform Amplifier PCB RF Voltage Amplifier PCB and battery battery backup are accessible from the top of the MS detector See Figure 5 15 on page 5 44 To replace the electron multiplier power supply conve
92. de of the cover plate Place the cover plate upside down supported on its handles on a flat surface 8 Cover the opening in the top of the vacuum manifold with a large lint free tissue 5 6 Finnigan LCQpeca Hardware Manual ThermoC2uest L cQ Service Maintenance Cleaning the lon Optics and Mass Analyzer ELECTROMETER CABLE ELECTRON MULTIPLIER HIGH VOLTAGE CABLE ENDCAP ELECTRODE CABLES DAMPING GAS LINE OCTAPOLES CABLE LENSES CABLE Thermo 2uest Figure 5 1 Electrical connections and damping gas line connection to the top cover plate of the vacuum manifold Removing the lon Optics and Mass Analyzer The ion optics and mass analyzer are mounted on a baffle on the underside of the top cover plate of the vacuum manifold Use the following procedure to remove the ion optics and mass analyzer from the top cover plate See Figure 5 2 for the location of the ion optics and mass analyzer components Finnigan LCQpECA Hardware Manual 5 7 Service Maintenance Q DECA Cleaning the lon Optics and Mass Analyzer LC TOP COVER PLATE P a amp VACUUM MANIFOLD gt CN A MASS ANALYZER AND ANALYZER MOUNT EXIT LENS 97000 20205 ANALYZER NUT 97000 20339 3 WS 49 l Ch 7 SPRING WASHER 00474 11618 EXIT LENS SLEEVE 97044 20002 P A QUARTZ SPACER 97000 20302 ENTRANCE LENS SLEEVE 97044 20002 HELIUM NIPPLE 96000 20117 E
93. de onto the quartz spacer ring so that the spacer ring is held securely between the electrodes The orientation of the ring electrode is unimportant e Reinstall the second quartz spacer ring into the groove in the ring electrode Finnigan LCQpEcA Hardware Manual 5 11 Service Maintenance Q DECA Cleaning the lon Optics and Mass Analyzer LC f Reinstall the exit endcap electrode the one with the damping gas nipple on the analyzer posts such that the quartz spacer ring is held in place between the ring electrode and the exit endcap electrode Make sure that the electrode is oriented such that the convex surface faces the spacer ring Also the damping gas nipple should point toward the top cover plate when the analyzer mount is installed on the top cover plate g Inspect the mass analyzer assembly Ensure that all the parts are aligned properly and that they all fit together snugly h Reinstall the spring washers on the analyzer posts such that the convex side of the washer is toward the exit endcap electrode i Reinstall the analyzer nuts onto the analyzer posts and tighten the nuts by hand until they are finger tight Do not overtighten the nuts j Squeeze the exit lens sleeve and insert it into the recess in the exit endcap electrode See Figure 5 2 for the proper orientation of the exit lens sleeve k Insert the exit lens into the exit lens sleeve such that the lead pin on the exit lens points in the same direction
94. dialog box reports all Select to the appropriate diagnostics tab and Diagnostics in Tune 5 min results as Pass repeat the diagnostic test PI i cn See Table 5 2 for See Table 4 Diagnostics details for signal Select All tab diagnostics tested paths and potential repair locations Check M Everything Select Start 3 Choose Diagnostics Diagnostic test performed Diagnostics dialog box reports all Investigate each readback failure check Diagnostics in Tune 30 s results as Pass associated fuses cables amp modules Plus See Table 4 Diagnostics details for signal Select RF 2 tab paths and potential repair locations Select Start Thermo 2uest Finnigan LCQpEcA Hardware Manual A 6 DECA Troubleshooting ee Table A 3 Data system diagnostics continued 4 Insert contact closure test Diagnostics test performed Diagnostics dialog box reports all Check I O panel and cables plug into Peripheral 10 s results as Pass Check DIO circuit on System Control PCB Control terminal See next column for test plug wiring 8 wiring for contact 1 Choose Diagnostics closure test plug RK Diagnostics in Tune Plus Select Graphs tab Select Contact closure test in Test Type list box Select Start Skip this step if Peripheral Control terminal I O Panel is not used 5 Select Status Check for normal range Investigate each readback failure check View in Tune Plus values associated cables and modules
95. ds on the types and amounts of samples and solvents that are introduced into the instrument In general for a given sample and ionization technique the closer an MS detector component is to the source of the ions the more rapidly it becomes dirty e The ion optics and the mass analyzer become dirty at a rate significantly slower than the API source Refer to the topic Cleaning the Ion Optics and Mass Analyzer on page 5 5 e Clean the electron multiplier and conversion dynode whenever you remove the top plate of the vacuum manifold by blowing them with a clean dry gas Refer to the topic Cleaning the Ion Detection System on page 5 15 When the performance of your system decreases significantly because of contamination clean the components of the MS detector in the following order e Clean the API probe spray shield and heated capillary e Clean the tube lens and skimmer e Clean the ion optics and mass analyzer Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ ThermoC2uest Service Maintenance Cleaning the lon Optics and Mass Analyzer 5 3 Cleaning the lon Optics and Mass Analyzer An accumulation of chemicals on the surfaces of the ion optics and mass analyzer forms an insulating layer that can modify the electrical fields that control ion transmission and mass analysis Therefore clean ion optics and mass analyzer are essential for the proper operation of the instrument The ion optics and mass analyzer require
96. e and current rating Refer to Table 5 5 Reinstall the protective cover on the Analyzer Auxiliary PCB With a Phillips screwdriver tighten the six screws that hold the metal cover to the Analyzer Auxiliary PCB Reconnect the seven cables that connect to the top of the Analyzer Auxiliary PCB Three coaxial cables come from the Analyzer PCB one coaxial cable comes from the Waveform DDS PCB in the embedded computer one coaxial cable comes from the Waveform Amplifier PCB one 7 lead cable comes from the System Control PCB and one 4 lead cable comes from the 36 V power supply 6 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 7 Place the electronics service switch in the Operating Position 8 Run the LCQpeca diagnostics to verify that the system is operational 5 34 Finnigan LCQpEca Hardware Manual Thermo 2uest L cQ Service Maintenance Replacing PCBs and Assemblies 5 7 Replacing PCBs and Assemblies The following procedures are discussed in this topic ThermoC2uest Replacing PCBs and assemblies in the tower Replacing PCBs in the embedded computer Replacing the Vent Delay PCB and backup battery ion gauge and vent valve Replacing the electron multiplier and Conversion Dynode Power Supplies Analyzer PCB Analyzer Auxiliary PCB Waveform Amplifier PCB RF Voltage Amplifier PCB Replacing the System Control PCB Repl
97. e 5 3 Diagnostic tests in Tune Plus All Eee If you check M Diagnostics will SEL Everything un RI Detection and API Everything Status check all device static values refer to Table 5 4 Status RF test five RF devices refer to Table 5 4 8 m Lenses test four LENSES devices refer to Table 5 4 T lon Detection lon Detection test three ION DETECTION devices refer to API source Table 5 4 API source test three API source devices refer to Table 5 4 Table 5 4 Diagnostic items tested in Tune Plus Item Tested in Scanning Device Number in Graph View What to Test Group Box Status n a Refer to Table A 1 in the Appendix for static details RF 1 03 readback number 06 Aux amplitude V 0 to 83 2 RF 2 10 Main RF DAC 16 bit 0 to 65535 RF 3 11 readback number 50 Vernier det RF amp V 0 to 65535 RF 4 11 readback number 51 Vernier RF DAC 16 bit 0 to 65535 RF 5 25 readback number 52 Octapole RF DAC V 0 to 1000 Lenses 1 30 Octapole 1 offset V 132 to 132 Lenses 2 01 Octapole 2 offset V 132 to 132 Lenses 3 07 Octapole lens V 136 to 136 Lenses 4 25 Octapole det RF amp V 0 to 1000 lon Detection 1 04 Trap Offset V 132 to 132 lon Detection 2 17 Tube gate V 200 to 198 lon Detection 3 05 readback number 41 Multiplier V 0 to 2200 API 1 20 Auxiliary gas flow arb 0 to 60 API 2 19 Sheath gas flow arb 20 to 100 AP
98. e API source also serves as the sample interface between the LC and the MS detector You can operate the API source in either the electrospray ionization ESI or atmospheric pressure chemical ionization APCI mode The API source consists of two assemblies e API probe assembly ESI or APCI e API stack API Probe Assembly The API probe assembly is the portion of the API source that is external to the vacuum manifold You can change the ionization mode of the MS detector and switch the probe assemblies without breaking the vacuum Two API probe assemblies are available with the LCQDECa e ESI probe assembly e APCI probe assembly ESI Probe Assembly The ESI probe assembly consists of the ESI flange and the ESI probe See Figure 1 1 The ESI flange holds the ESI probe in position next to the entrance of the heated capillary which is part of the API stack The ESI flange also seals the atmospheric pressure region of the API source In addition when it is in the operating position against the spray shield the ESI flange compresses the high voltage safety interlock switch The ESI flange mounts on rails that allow movement of the flange toward and away from the vacuum manifold for easy servicing Two flange retainer bolts hold the flange in place against the spray shield of the API stack A grounded fitting holder secures a stainless steel grounded fitting that connects the sample transfer line to the PEEK safety sleeve and fused silica samp
99. e Ion Optics and Mass Analvzer eee 5 12 Cleaning the Ion Detection System eee eeecesesseceeesneeeesessaeeecessaeeeseesaeeseessaeeeeess 5 15 Reinstalling the Top Cover Plate of the Vacuum Manifold neeeeneeeeeerreeee 5 15 ii Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA Contents We Reinstalling the Top Cover of the MS Detector oe eeescceeesseeeceesseeeeesseeeseenaeees 5 16 Starine Up E 5 16 Tuning the Ring Electrode and Quadrupole Octapole RF Voltages 5 16 5 4 R placi e the Electron Multiplier x arcana arin Rae Ane eo IU 5 22 e D M 5 27 SO dee 5 30 by Seplacmg PCBs dnd Assenmblies o TERR RR RENE HERE REN REC U ECTE 5 35 Replacing PCBs and Assemblies in the Tower 5 36 Replacing PCBs in the Embedded Computer 5 41 Replacing the Vent Delay PCB and Backup Battery Ion Gauge and Vent Valve 5 43 Replacing the Electron Multiplier and Conversion Dynode Power Supplies Analyzer PCB Analyzer Auxiliary PCB Waveform Amplifier PCB RF Voltage Amplifier PCBs PU RORIS RIO RR P eite DU e NR es fans 5 46 Replacing the System Control DCH 5 51 Replacing the RF Voltage Control PCB A 5 54 Replacing the Eow Pass EtlterPCB 2 1 2 robe oor ur enee vot boe iue Dons 5 56 5 8 Replacing the Oil Reservoir in the Turbomolecular Pump 5 59 Removing the Turbomolecular PUMP eene rennen 5 59 Changing the Turbomolecular Pump Oil Reservoir 5 61 Reinstalling the Turb
100. e KENE Manifold ESL API2 5 eere ide rere te eeee tea pene ve eben eee PPP NE PEE ERE ENTER Needle ESI D point 26 gauge 2 in long eee Nozzle BSb API2 34a uode Rr Er a EEE O ring 0 114 in ID 1 16 in thick WILT or m att ee ere ree Eee O ring 0 676 in ID 0 070 in thick Von O ring 3 737 in ID 0 103 in thick Von Plunger ball 1 4 in x 20 0 53 in long Abt Probes EST eile estote tte ires EE Resistor FXD CC 4 W 10 KQ ab RETAINS seals nete rete E LAMA VA e E Screw flat Phillips 4 40 x 3 4 in stainless steel Screw pan head Phillips 4 40 x 3 8 in stainless steel Screw thumb ESI probe retainer bot Screw thumb flange retainer bolt 2 each Seal Bal 2 0 in ID light load API2 eese Seal standard needle 5000 series Teflon Spring compression 0 088 in OD 0 62 in long stainless steel e PLUMS UE Spring spiral wave 1 14 in ID x 0 4 in length stainless steel Tubing fused silica 0 1 mm ID x 0 4 mm OD deactivated 1 m Tubing fused silica 0 1 mm ID x 0 190 mm OD 6 ft 1 8 m L APCI Probe Assembly Assembly ARC Probe eese ssrte eese an too eta Tee Yoon ER ou Oa Te ea Yen ER Ta Tee uon O ring 0 145 in ID 1 16 in thick Nuton O ring 3 737 in ID 0 103 in thick Von O ring 0 801 in ID 0 070 in thick Von Plunger spring 6 32 x 3
101. e emission of more electrons Thus a cascade of electrons is created that finally results in a measurable current at the end of the cathode where the electrons are collected by the anode The current collected by the anode is proportional to the number of secondary particles striking the cathode Typically the electron multiplier is set to a gain of about 3 x 105 i e for each ion or electron that enters 3 x 105 electrons exit The current that leaves the electron multiplier via the anode is converted to a voltage by the electrometer circuit and is recorded by the data system Finnigan LCQpEcA Hardware Manual 1 11 Functional Description lon Detection System L cQ The ion detection system of the LCQDECA increases signal and decreases noise The high voltage applied to the conversion dynode results in a high conversion efficiency and increased signal That is for each ion striking the conversion dynode many secondary particles are produced The increase in conversion efficiency is more pronounced for more massive ions than for less massive ions Because of the off axis orientation of the ion detection system relative to the mass analyzer neutral molecules from the mass analyzer tend not to strike the conversion dynode or electron multiplier As a result the noise from neutral molecules is reduced Finnigan LCQpEcA Hardware Manual ThermoC2uest Thermo 2uest Chapter 2 Changing ESI or APCI Probe Assemblies
102. eboots After several seconds the Communication LED on the front panel is illuminated yellow to indicate that the data system and the MS detector have started to establish a communication link After several more seconds the Communication LED is illuminated green to indicate that the data system and the MS detector have established a communication link Software for the operation of the MS detector is then transferred from the data system to the MS detector 3 6 Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ System Shutdown Startup and Reset Starting Up the System after a Complete Shutdown e After 3 min the System LED is illuminated yellow to indicate that the software transfer from the data system to the MS detector is complete and that the instrument is in Standby condition Note The Vacuum LED on the front panel of the MS detector is illuminated green only if the pressure in the vacuum manifold is below the l maximum allowable pressure 5 x 10 4 Torr in the analyzer region and 2 Torr in the capillary skimmer region and the safety interlock switch on I the API source is depressed that is the API flange is secured to the spray shield Setting Up Conditions for Operation Set up your LCQpeca for operation as follows 1 Thermo 2uest Before you begin data acquisition with your LCQDECA system you need to allow the system to pump down for at least 1 hour Operation of the system with e
103. ecular pump changing oil reservoir 5 61 turbomolecular pump replacing note 5 59 mass analyzer cleaning 5 5 description 1 10 disassembling 5 9 electrodes 1 10 entrance endcap electrode 1 10 exit endcap electrode 1 10 exit lens 1 10 on off status table 3 11 3 12 reassembling 5 11 reinstalling 5 12 removing 5 7 replaceable parts 6 6 ring electrode 1 10 spacer rings handling caution 5 11 mass spectrometer See MS detector IV Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Index mechanical assemblies replaceable parts 6 9 MS detector diagnostics 5 27 emergency shutdown 3 2 figure 1 8 frequency of cleaning 4 4 5 4 fuses table 5 31 fuses replacing 5 30 ion detection system 1 11 ion optics 1 9 maintenance overview 4 1 maintenance procedures table 4 1 5 1 mass analyzer 1 10 off condition 3 11 3 12 on off status of components 3 11 3 12 replaceable parts 6 2 shutdown 3 4 standby condition 3 3 3 11 3 12 startup 3 6 top cover reinstalling 5 16 top cover removing 5 6 N needle seal ESI reinstalling 4 14 4 17 removing 4 11 needle ESI removing 4 11 needle stainless steel ferrules note 4 18 Notes ESI removing nozzle 4 11 needle stainless steel ferrules 4 18 repositioning the sample tube 4 16 nozzel ESI removing note 4 11 nozzle APCI location figure 4 20 APCI reinstalling 4 23 APCI removing 4 23 nozzle ESI reinst
104. ed Capillary Sheath Gas Auxiliary Gas Column Size Position Temperature 1 to 4 Infusion or LC at flow Capillary 2 Typical setting Required Not required rates of 10 uL min 150 to 275 C i i Typical setting Typical setting 20 to 40 units 0 units LC at flow rates from 1 mm ID 2 Typical setting Required Not required but 50 to 100 uL min 350 C might help Typical setting depending on 80 units conditions LC at flow rates from 2 to 3mm ID 3 Typical setting Required Not required but 200 to 500 uL min 350 C f EA usually helps to Typical setting reduce solvent 80 units background ions Typical setting 20 units LC at flow rates from 4 6 mm ID 3 4 Typical setting Required Required oe prone position e Typical setting Typical setting to 1 mL min probe 80 to 100 unit 20 unit position 4 o units units Note In negative ion mode waveform 2 might be required depending on solvents and modifiers used In positive ion mode with flow rates of gt 400 uL min waveform 2 might be required To change the Injection Waveform use the Tune Plus window Injection Control dialog box 1 4 APCI Probe Assembly The APCI probe and flange assembly is a single molding including the corona discharge needle assembly See Figure 1 2 The APCI flange holds the APCI probe and the corona discharge needle assembly in position next to the entrance of the heated capillary As with the ESI flange the APCI flange seals the atmo
105. eld heated capillary tube lens and skimmer API source Replace sample tube If sample tube is Pages 4 10 ESI and broken or obstructed 4 24 APCI Cooling fans Clean fan filter Every 4 months Page 4 35 Rotary vane pumps Add oil If oil level is low Manufacturer s documentation Rotary vane pumps Change oil Every 3 months or if oil Manufacturer s is cloudy or discolored documentation Frequency depends on analytical conditions Thermo 2uest Finnigan LCQpeca Hardware Manual User Maintenance L cQ For instructions on maintaining LCs or autosamplers refer to the manual that comes with the LC or autosampler The topics included in this chapter are as follows 4 2 Tools and supplies Frequency of cleaning API source maintenance Purging the oil in the rotary vane pumps Cleaning the fan filter Note The keys to success with the procedures in this chapter are Proceed methodically Always wear clean lint free gloves when handling the components of the API source l Always place the components on a clean lint free surface Never overtighten a screw or use excessive force Finnigan LCQpeca Hardware Manual ThermoC2uest DECA User Maintenance LC Q Tools and Supplies 4 1 Tools and Supplies The LCQDECA requires very few tools for you to perform routine maintenance procedures You can remove and disassemble many of the components by hand The tools equipment
106. en you place the main power circuit breaker switch in the Off O position the following occurs e All power to the MS detector including the turbomolecular pump and the rotary vane pumps is turned off All LEDs on the front panel of the MS detector are off e The battery backup on the Vent Delay PCB provides power to the vent valve for 30 s After 30 s a circuit on the Vent Delay PCB times out and power to the vent valve solenoid is shut off When power to the vent valve solenoid is shut off the vent valve opens and the vacuum manifold is vented to atmosphere through a filter You can hear a hissing sound as the air passes through the air filter e After about 2 min the vacuum manifold is at atmospheric pressure 3 4 Finnigan LCQpECA Hardware Manual ThermoC2uest Q DECA System Shutdown Startup and Reset LC Shutting Down the System Completely CAUTION Allow heated components to cool before you service them Note If you are planning to perform routine or preventive system maintenance on the MS detector only you do not need to turn off the LC I autosampler and data system In this case the shutdown procedure is I completed However if you do not plan to operate your system for an I extended period of time we recommend that you turn off the LC I autosampler and data system ThermoC2uest Finnigan LCQpECA Hardware Manual 3 5 System Shutdown Startup and Reset Q DECA Starting Up the System after a
107. er Maintenance LC API Source Maintenance ESI MANIFOLD 70005 20299 STAINLESS STEEL SCREW 00405 44020 10 32 X 1 4 28 LC ADAPTER 00101 18080 NEEDLE SEAL 00950 00952 0 114 IN O RING 00107 02550 0 676 IN ID O RING 00107 05710 ESI SPRAY NOZZLE 70005 20300 COMPRESSION SPRING 00201 11529 ESI SPRAY NEEDLE 00950 00990 Figure 4 1 ESI probe exploded view ThermoC2uest Finnigan LCQpEcA Hardware Manual 4 13 User Maintenance API Source Maintenance L cQ Cleaning the ESI Spray Nozzle If necessary clean the bore of the ESI spray nozzle with an appropriate solvent The solvent used will depend on the solubility of the chemical deposits Then rinse the spray nozzle with HPLC grade methanol and dry the spray nozzle with nitrogen gas Reassembling the ESI Probe Assembly The ESI probe may be reinstalled with either a fused silica sample tube or a stainless steel needle as described in the following topics e Reassembling the ESI probe assembly fitted with a PEEK safety sleeve and fused silica sample tube e Reassembling the ESI probe assembly fitted with a stainless steel needle CAUTION AVOID ELECTRICAL SHOCK When you are operating your instrument in the ESI mode there are two situations in which you could receive an electrical shock unless you install the safety kit discussed l below When you are using the optional Metal Needle Kit P N 70005 62013 you might receive
108. er to the MS detector chassis The fasteners are located in the upper right and left corners of the chassis 4 With one hand under the center of the top cover lift the top cover up and away from the MS detector Removing the Top Cover Plate of the Vacuum Manifold You need to remove the top cover plate of the vacuum manifold to access the ion optics mass analyzer and ion detection system The top cover plate is held in place by gravity and by the air pressure differential between the vacuum manifold and atmospheric pressure Six cables and one gas line are connected to the top cover plate To remove the top cover plate proceed as follows See Figure 5 1 1 Disconnect at ANAL AUX 1 IN the octapoles cable that comes from the Analyzer Auxiliary PCB 2 Disconnect at ANALYZER the lenses cable that comes from the System Control PCB 3 Disconnect at ANAL AUX 2 IN and ANAL AUX 3 IN the two endcap electrode cables that come from the Analyzer Auxiliary PCB 4 Disconnect at ACQU DSP the electrometer cable If necessary use a small screw driver to loosen the screws that secure the cable 5 Disconnect at MULT the electron multiplier high voltage cable that comes from the electron multiplier power supply 6 Usea 7 16 in open end wrench to disconnect the helium damping gas line from the fitting 7 Carefully lift the top cover plate straight up by its two handles Take care not to damage the components on the undersi
109. ermoC2uest Appendix A Troubleshooting Appendix A provides a flowchart and tables that can be used to troubleshoot the LCQDECA ThermoC2uest Finnigan LCQpEcA Hardware Manual A 1 Troubleshooting L cQ Malfunctioning LCQpEcA Instrument 1 Turn the main power circuit breaker switch to the on position See Table 1 Pump and service Are the following true diagnostics for corrective actions Both mechanical pumps are on Turbomolecular pump is on Turbomolecular pump fan is on Y wait 5 min for pumpdown Place the electronics service switch in the Operating Position Are the following true Front panel Power LED is green Front panel divert inject valve Load LED is on Front panel Communication LED goes from yellow to green See Table 2 Initialization and download diagnostics for corrective actions Wait 3 min for the system to download Are the following true See Table2 Initialization and Front panel System LED is on download diagnostics for corrective Front panel Vacuum LED is green actions Xcalibur data system is in standby Run diagnostics See the See Table 3 Data system Diagnostics and PCB Replacement diagnostics for corrective actions chapter Specified diagnostics all pass Diagnose scan performance Figure A 1 LCQDECA Power up diagnostic flowchart A 2 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Table A 1 Pump and service diagnostics Troubleshooting
110. ermoC2uest Remove the part from the methanol bath then rinse it thoroughly with fresh methanol Dry the part with a rapid stream of nitrogen gas Inspect each part for contamination and dust If necessary repeat the cleaning procedure Reassembling the lon Optics and Mass Analyzer Use the following procedure to reassemble the ion optics and mass analyzer See Figure 5 2 Note Wear clean lint free nylon or cotton gloves when you handle components of the mass analyzer Reassemble the mass analyzer as follows a Reinstall the analyzer posts by screwing them by hand into the analyzer mount Both ends are the same b Reinstall the entrance endcap electrode onto the analyzer posts The entrance endcap electrode is the one without the damping gas nipple Ensure that the electrode is oriented such that the convex surface faces away from the analyzer mount Also the opening in which the pin on the end of the electrical lead inserts should be close to the top cover plate when the analyzer mount is installed on the top cover plate Caution Handle the quartz spacer rings carefully Do not scrape the spacer rings against any metal surfaces Metal deposits on the surfaces of l the spacer rings might cause the RF voltage to arc across the spacer rings to the endcaps Do not overtighten the mass analyzer nuts c Place a quartz spacer ring into the groove in the entrance endcap electrode d Reinstall the ring electro
111. eve otherwise the sample stream might enter between the sample tube and the PEEK safety sleeve Ensure the sample tube is held tightly in the grounded fitting by gently pulling the sample tube from the exit end of the spray needle Use a fused silica cutting tool to cut the sample tube at the spray needle so that only 2 5 cm 1 in remains protruding from the exit end of spray needle See Figure 4 2 From the ESI sample inlet pull the PEEK safety sleeve backwards so that the exit end of the sample tube is recessed just inside the spray needle by approximately 1 mm Tighten the red Fingertight fitting securely to hold the PEEK safety sleeve and sample tube in place Note The sample tube might move forward when you tighten the sample inlet fitting Ensure that the sample tube is retracted into the spray needle approximately 1 mm If necessary loosen the fitting and reposition the sample tube Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ESI PROBE FUSED SILICA EXIT END OF CAPILLARY ESI SPRAY NEEDLE SAMPLE TUBE INSERT SAMPLE TUBE FROM THIS DIRECTION 1mm SAMPLE TUBE Figure 4 2 Installing the ESI fused silica sample tube ThermoC2uest Reassembling the ESI Probe Assembly Fitted with a Stainless Steel Needle To reassemble the ESI probe that is to install the stainless steel needle ESI spray nozzle ESI spray needle and needle
112. extend the life of the ion gauge plug the heated capillary with a septum and allow the system to pump down for 5 min or longer before turning on the electronic service switch 0 00 Place electronics service 5 V dc power supply Power LED front LED panel stays Check 5 V dc power supply and associated switch in Operating powers embedded green cables check AC power from electronics service Position or press Reset computer switch to 5V dc power supply button One divert inject LED is on Check Divert Inject Valve LED PCB I O Panel PCB and associated cables System Control PCB RESET LED Check power cables to System Control PCB remove right side cover is on 0 10 Embedded computer Same as above See above checks DRAM then the CPU PCB BIOS starts 0 21 CPU PCB runs PSOS Boot Same as above See above Loader from Flash drive 0 23 PSOS Boot Loader locates Communication LED front LED panel Check ribbon cable from System Control PCB to Ethernet card at IRQ10 is yellow front LED panel then calls host data system Ethernet PCB T R LED Ethernet Replace Ethernet PCB if T R LED does not blink bracket on embedded computer open front door blinks See Figure 5 4 0 25 Host data system Communication LED Front LED If Communication LED is yellow then check the acknowledges PSOS Boot panel changes to green following data system computer hard drive for Loader and downloads X86 corruption and correct Ethernet address application files thi
113. f our documentation by completing and returning this survey Circle one number for each of the statements below Strongly Strongly Agree Agree Neutral Disagree Disagree The manual is well organized 1 2 3 4 5 The manual is clearly written 1 2 3 4 5 The manual contains all the information need 1 2 3 4 5 The instructions are easy to follow 1 2 3 4 5 The instructions are complete 1 2 3 4 5 The technical information is easy to understand 1 2 3 4 5 The figures are helpful 1 2 3 4 5 If you would like to make additional comments please do Attach additional sheets if necessary Customer Registration Card Register now and receive all the privileges associated with being a ThermoQuest product user including customer support application reports technical reports and the ThermoQuest publication Analytical News MY ORGANIZATION IS Check one only MY PRIMARY APPLICATION IS Check one only C Commercial for profit lab C Analytical QO Government lab QO Biomedical Hospital Clinic Q Clinical Toxicology Q Industrial Lab C Energy C Research Institute C Environmental University College C Food Agriculture C Veterinary QO Forensic Toxicology C Other C Pharmaceutical C Research Education JOB FUNCTION Check one only C Other Q Administration C Lab Management QO Operator C Other Name Title i Thank You Address PR City State Postal Code CD n Thermo 2uest Telephone
114. fications supersede all previous information and are subject to change without notice Printing History Revision A printed in April 1999 Revision B printed in August 1999 G Thermo 2uest The products of the ThermoQuest LC and LC MS Division are produced under ISO 9001 accredited quality management systems Australia ThermoQuest e P O Box 239 Rydalmeree Unit 20 Metro Centre e 38 46 South Street e Rydalmere N S W 2116 e 61 02 9898 9000 Austria ThermoQuest GmbH e Wehlistrasse 27b e A 1200 Wein e 43 01 333 50 34 0 Belgium ThermoQuest BVBA e Groenenbrogerlaan 84 e B 2610 Wilrijk Antwerpen e 32 03 825 06 70 Canada ThermoQuest Canada 5716 Coopers Avenue Unit 1 e Mississauga Ontario e L4Z2E8 e 1 905 712 2258 France ThermoQuest France SA e Parc Hightec Sud e 12 avenue des Tropiques Z A de Courtaboeuf BP141 e F 91944 Les Ulis C dex e 33 01 69 18 88 10 Germany ThermoQuest Analytische Systeme GmbH e Boschring 12 D 63329 Egelsbach e 49 06103 408 0 Italy ThermoQuest Italia S p A e Strada Rivoltana e 20090 Rodano Milano 39 02 95 059 1 Japan ThermoQuest K K e Nishi Shinjuku Toyokuni Building 3rd Floor e 2 5 8 Hatsudai Shibuya ku e Tokyo 151 0061 e 81 03 3372 3001 Japan ThermoQuest K K Esaka Grand Building e 2 3 1 Esaka cho Suita City e Osaka 564 0063 e 81 06 6387 6681 Netherlands ThermoQuest BV e Druivenstraat 33 NL 4816 KB Breda e 31 076 587 8722 P R China ThermoQuest C
115. g cap on the bottom of the turbomolecular pump Remove the locking cap and O ring 3 Using a pair of tweezers remove the oil reservoir from the pump Dispose of the oil reservoir properly 4 Place a new oil reservoir P N 00950 01116 in the cavity in the bottom of the pump 5 Check the condition of the Viton O ring If it has any nicks or breaks replace it with a new one 6 Reinstall the O ring and locking cap Tighten the locking cap securely with a large screwdriver Reinstalling the Turbomolecular Pump To reinstall the turbomolecular pump proceed as follows See Figure 5 18 1 Check the condition of the Viton O rings around the two openings on the bottom of the vacuum manifold Use a small flashlight to illuminate the O rings If they have any nicks or breaks replace them with new ones P N 00107 11100 2 Place the turbomolecular pump on the turbomolecular pump rails Slide the turbomolecular pump into position under the openings in the vacuum manifold 4 With a 3 16 in ball driver or Allen wrench carefully tighten the two Allen screws that hold the rails and turbomolecular pump to the vacuum manifold Do not overtighten the screws 5 Place the centering ring in the end of the vacuum hose Reconnect the vacuum hose with the centering ring in place to the turbomolecular pump Tighten the red hose clamp Edwards KF20 that secures the vacuum hose to the turbomolecular pump 6 Reconnect the turbomolecular
116. g from the vaporizer manifold b Unscrew and remove the APCI nozzle from the vaporizer manifold c Unscrew and remove the auxiliary gas tube from the vaporizer manifold d Unscrew and remove the sheath gas tube from the vaporizer manifold 2 Remove and check the condition of the 0 185 in ID O ring P N 00107 02585 on the APCI nozzle and the 0 614 in ID O ring P N 00107 05700 and 0 625 in ID O ring P N 00107 09015 on the auxiliary gas tube Replace the O rings if necessary 3 Clean the APCI components with a 50 50 solution of methanol distilled water and a lint free swab Dry the components with nitrogen gas and place them on a lint free tissue 4 Reinstall the 0 614 in and 0 625 in O rings on the auxiliary gas tube and the 0 185 in O ring on the APCI nozzle 5 Reinstall the sheath gas tube P N 70005 20200 by gently screwing it by hand into the vaporizer manifold 6 Reinstall the auxiliary gas tube P N 70005 20199 by gently screwing it by hand into the vaporizer manifold 7 Reinstall the APCI nozzle P N 70005 20196 by gently screwing it by hand into the vaporizer manifold 8 Reinstall the vaporizer casing P N 70005 20217 by gently screwing it by hand into the vaporizer manifold If you do not want to replace the APCI sample tube go to the topic Reassembling the APCI Probe Assembly If you want to replace the APCI sample tube go on to the next topic Removing the APCI Sample Tube ThermoC2ue
117. geegekegeegekegekege ege gek ege ege 999 ege 97000 62017 Switch leaf roller SPDT OS A cece cece cece cece cece eee eeeeeeeeeeeeeeeeeeeeeeeees 00019 27060 API Stack Assembly M uliinid qM 97044 60150 Bushing heated capillary mount 97000 20281 Fitting 3 8 in hose 1 1 2 in x 13 UNC male sese 97000 20269 H ated capill ty 5 2 1 etate RE PUE UELLE BELLE ebat 70005 98041 Mount heated capilli oesie 5 ia tette ette 97000 20202 Mount tube lens and ekmmer sees nennen 97000 20199 O ring 0 299 in ID 0 103 in thick Kales 00107 10059 O ring 0 364 in ID 0 0625 in thick Non 00107 05500 O ring 0 739 in ID 0 070 in thick Non 00107 10100 O ring 3 850 in ID 0 210 in thick Non 00107 14100 Plunger ball 6 40 0 310 long 1Ib 00201 11719 Retainer API connector eeeeeseeeeeeeeeeeeeeeee eene e eene nn eene nn nne e nnne nena 97000 20320 Screw pan head Phillips 4 40 x 1 4 in stainless steel 00415 44004 Screw socket 4 40 x 3 8 in long stainless steel 00419 44006 Skies cepere ret e Dur pe a INE OMEN EE 97000 20201 Sleeve heated capillary eeseeeeseeeeeeeeeeee enne eene 70005 20224 Spray TT E 97044 60120 d Re 97000 20200 Vacuum cap heated capillary eee eeeesseeecessneeeeeeeneeeceessseeeeesseeeeeesaaeees 70005 20221 lon Optics Lens interoctapole essa uu 97044 20004 Mount analyze i a ERE ERE EU ORE ERE RE EN 97044 20005 Mount quadrupole
118. given sample and ionization technique the closer an MS detector component is to the source of the ions the more rapidly it becomes dirty e The sample tube API probe heated capillary bore and spray shield of the API source should be cleaned at the end of each operating day to remove any residual salts from buffered mobile phases or other contamination that might have accumulated during normal operation Refer to the topics Flushing the Sample Transfer Line Sample Tube and API Probe and Cleaning the Spray Shield and the Heated Capillary on pages 4 5 and 4 6 e The tube lens and skimmer of the API source become dirty at a slower rate than the API probe spray shield and heated capillary Refer to the topic Maintaining the API Stack on pages 4 27 When the performance of your system decreases significantly because of contamination clean the components of the MS detector in the following order e Clean the API probe spray shield and heated capillary e Clean the tub lens and skimmer e Clean the ion optics and mass analyzer see Chapter 5 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ThermoC2uest 4 3 API Source Maintenance The API source requires a minimum of maintenance Periodically you need to clean the components of the API source to remove salts or other contaminants The frequency of cleaning the API source depends on the types and amounts of samples and solven
119. hand holding the APCI flange loosen the knurled fastener that secures the APCI flange to the probe slide adapter Remove the APCI probe assembly from the probe slide adapter by sliding it off the probe slide adapter Place the APCI probe assembly on a lint free tissue Remove the corona discharge needle from the APCI probe assembly by pulling it free from the corona discharge needle assembly Store the corona discharge needle by inserting it into one of the foam walls of the APCI probe assembly storage container Store the APCI probe assembly in its foam storage container Make sure that the APCI probe assembly is at ambient temperature before you place it in its storage container Finnigan LCQpeca Hardware Manual 2 5 Chapter 3 System Shutdown Startup and Reset Many maintenance procedures for the LCQDECA system require that the MS detector be shut down completely In addition the LCQpeca can be placed in Standby condition if the system is not to be used for 12 hours or more The following topics are discussed in this chapter Thermo 2uest Shutting down the system in an emergency Placing the system in Standby condition Shutting down the system completely Starting up the system after a complete shutdown Reseting the MS detector Reseting the tune and calibration parameters to their default values Turning off selected MS detector components Finnigan LCQpECA Hardware Manual 3 1 System Shutdown Star
120. head Phillips 6 32 x 3 8 in stainless steel Spacer 0 125 in long 6 ID 1 4 in OD stainless steel Syringe Pump Interconnect Kit Syringe Pump ccssssccccccsssssssssssscccssssssssssssssssssees Screw pan head Phillips 6 32 x 3 8 in stainless steel Syringe pump ii bebe tite lesse tele tette esee been le Le debe te fe lela ThermoC2uest Finnigan LCQpeca Hardware Manual Deis 00107 09500 SULLA UN 00452 20000 Ad 96000 20074 taata 96000 20071 ee 96000 20070 unc Ps 96000 20072 eae 96000 20078 Miis hes 96000 60036 EN 00022 02400 soberheid 00452 25605 MR anae 00471 50080 add 97044 60030 M 96000 30005 eserotetss 00101 09250 00101 12902 sek 96000 20117 dcus 97000 20267 une 97000 20222 MORE 97000 20223 uhr 97000 20133 En 97000 62003 etes 97000 20220 bores eser 97000 60159 Mom 00110 09998 Om 00407 83205 00415 63206 SE 00007 68301 Dunes 97000 62075 uer 00415 63206 TRAE 97000 98021 Replaceable Parts Qui MS Detector Le Turbomolecular Pump Bushing step rubber 0 87 in OD 0 31 in H 00201 20050 O ring 0 299 in ID 3 32 in thick Viton ssssseeseeeeeeeeereeeennn 00107 05950 O ring 4 100 in ID 3 16 in thick Von 00107 11100 Pump oil turbomolecular reservoir felt TPH 240 00950 01116 Rail turbomolecular pump mount kt 97033 62200 Pump turbomolecular TMH 260 130 200
121. hield the vacuum manifold from the electric field produced by the conversion dynode The electron multiplier is mounted on the top cover plate of the vacuum manifold next to the mass analyzer The electron multiplier includes a cathode and an anode The cathode of the electron multiplier is a lead oxide funnel like resistor A potential of up to 2 5 kV is applied to the cathode by a high voltage ring The exit end of the cathode at the anode is near ground potential The cathode is held in place by the high voltage ring two support plates the electron multiplier support and the electron multiplier shield A spring washer applies a force to the cathode to hold it in contact with the electron multiplier shield The electron multiplier support is attached to the top cover plate of the vacuum manifold by two screws The anode of the electron multiplier is a small cup located at the exit end of the cathode The anode collects the electrons produced by the cathode The anode screws into the anode feedthrough in the top cover plate Secondary particles from the conversion dynode strike the inner walls of the electron multiplier cathode with sufficient energy to eject electrons The ejected electrons are accelerated farther into the cathode drawn by the increasingly positive potential gradient Due to the funnel shape of the cathode the ejected electrons do not travel far before they again strike the inner surface of the cathode thereby causing th
122. high voltage cable from the connector labeled HV on the ESI probe To disconnect the cable turn the locking ring on the cable counterclockwise until you can pull the cable free Disconnect the sample transfer line from the grounded fitting on the ESI flange The sample transfer line is the line that comes from the LC divert injector valve or syringe pump It is not the fused silica capillary that enters the ESI probe Disconnect the sheath gas line and fitting from the inlet labeled Sheath Gas on the ESI probe Disconnect the auxiliary gas line and fitting from the inlet labeled Aux Gas on the ESI probe If the sheath liquid line is attached to the ESI probe disconnect the sheath liquid line and fitting from the inlet labeled Sheath Liquid on the ESI probe Loosen the two flange retainer bolts that secure the ESI probe assembly to the spray shield Pull back the ESI probe assembly from the spray shield With one hand holding the ESI flange loosen the knurled fastener that secures the ESI flange to the probe slide adapter Slide the ESI probe assembly off the probe slide adapter Store the ESI probe assembly in its foam storage container Finnigan LCQpEcA Hardware Manual 2 3 Changing ESI or APCI Probe Assemblies L cQ Installing the APCI Probe Assembly 2 3 Installing the APCI Probe Assembly To install the APCI probe assembly remove the ESI probe assembly using the procedure in the topic Removing the ESI Pro
123. hina e Room 912 916 Ping an Mansion e No 23 Jin Rong Street e Xi Cheng District e Beijing 100032 e 86 010 6621 0839 Spain ThermoQuest SA e Acer 30 32 Edificio Sertram Planta 2 Modulo 3 ES 08038 Barcelona e 34 093 223 0918 Spain ThermoQuest SA e Avenida de Valdelaparra 27 e Edificio Alcor Planta 2a e ES 28108 Alcobendas Madrid e 34 091 657 4930 Sweden ThermoQuest AB e Pyramidbacken 3 S 141 75 Kungens Kurva Stockholm e 46 08 680 01 01 United Kingdom ThermoQuest Ltd e Paradise e Hemel Hempstead e Herts HP2 4TG e 44 01442 233 555 U S A ThermoQuest LC and LC MS Division e 355 River Oaks Parkway e San Jose CA 95134 1991 1 408 965 6000 Notes The country code is enclosed in square brackets The city code or area code is enclosed in parenthesis For countries other than the U S A when you are dialing from within the specified country dial the 0 of the city code For countries other than Italy when you are dialing from outside the country do not dial the 0 of the city code Published by Technical Publications ThermoQuest LC and LC MS Division San Jose California Copyright 1999 ThermoQuest Corporation a public subsidiary of Thermo Instrument Systems Inc a member of the Thermo Electron family of companies All rights reserved Printed in the United States of America READER SURVEY Finnigan LCQDEcA Hardware Manual Revision B P N 97044 97002 Please help us improve the quality o
124. hing the sides If the sample tube hits the sides ofthe sheath gas tube it can break Remove the APCI probe from the APCI flange as follows a Hold onto the APCI flange with one hand and unscrew and remove the APCI manifold from the APCI probe The sample tube remains with the APCI manifold b Loosen the probe retainer bolt that holds the APCI probe in the APCI flange c Remove the APCI probe from the interior of the APCI flange by gently pushing the probe from the outside of the flange Do not disconnect the heater wires Remove the heater coil and quartz insulator as follows a With an Allen wrench remove the socket head screw that secures the heater retainer to the vaporizer casing b Remove the heater coil and quartz insulator from the vaporizer With a Phillips screwdriver disconnect the green electrical ground wire from the vaporizer flange If you want to clean the APCI probe components go on to the next topic Cleaning the APCI Probe Components If you want to replace the APCI sample tube only go to the topic Removing the APCI Sample Tube Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA User Maintenance Le Q API Source Maintenance Cleaning the APCI Probe Components To clean the APCI probe components proceed as follows 1 Complete the disassembly of the APCI probe as follows See Figure 4 3 on page 4 20 for the location of the components a Unscrew and remove the vaporizer casin
125. hole and heats the capillary to temperatures up to 350 C Typical temperatures of the heated capillary are 250 for infusion to 350 C for flow rates above 50 uL min for ESI and 150 C for APCI For submicroliter flow rates it might be necessary to reduce heated capillary temperatures to 200 C Refer to Table 1 1 and Table 1 2 for specific guidelines for capillary temperatures in LC ESI MS and LC APCI MS operation 1 6 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Thermo 2uest Functional Description API Source The heated capillary passes through a hole in the center of the spray shield Ions are drawn into the heated capillary in the atmospheric pressure region and are transported to the capillary skimmer region of the vacuum manifold by a decreasing pressure gradient Typically a potential of 0 to 10 V positive for positive ions and negative for negative ions assists in transporting ions from the heated capillary to the skimmer Ions exiting the heated capillary enter the tube lens The tube lens also called the tube gate has a potential applied to it to focus the ions towards the opening of the skimmer During ion collection an additional potential of between 0 and 40 V positive for positive ions and negative for negative ions called the tube lens offset voltage can be applied to the tube lens to accelerate the ions into the background gas that is present in the capillary skimmer region Collisions wi
126. ically 10 to 10 V that are applied to the rods give rise to an electric field that guides the ions along the axis of the octapole During ion transmission the offset voltage is negative for positive ions and positive for negative ions The quadrupole octapole RF voltage is turned off during mass analysis The quadrupole and octapole are separated by the interoctapole lens The interoctapole lens assists in the focusing and gating of ions The interoctapole lens also serves as a baffle between the quadrupole region and the analyzer region of the vacuum manifold The LCQpEca tune procedure optimizes the potentials that are applied to the quadrupole octapole and interoctapole lens to maximize the ion current to the mass analyzer During ion transmission a potential of typically between 20 and 20 V is applied to the interoctapole lens The potential is negative for positive ions and positive for negative ions During mass analysis the potential is 130 V for positive ions and 130 V for negative ions Finnigan LCQpeca Hardware Manual 1 9 Functional Description Mass Analyzer L cQ 1 3 Mass Analyzer The mass analyzer is the site of mass analysis that is ion storage ion isolation collision induced dissociation and ion ejection The mass analyzer is mounted on the analyzer mount opposite the octapole The mass analyzer includes three stainless steel electrodes the entrance endcap electrode the exit endcap electrode and
127. iei rettet EE tet ERR ADM a E aink a ii onei eeioda 00201 12110 Switchcap manifold cover mptercopnnert 97000 40009 Switchcap right door mterconnect eee 97000 40010 Tubing Teflon 18 gauge 0 016 in wall thickness eee 00007 94330 Valve assembly sheath aux gas dual manifold eese 00110 20014 Washer flat 356 stainless Steel eter er eee eet er eee eee er eve doa we 00472 00600 Washer interlock 5 16 in ID stainless steel 00479 04400 Divert Inject Valve Accessories Ferrule HPLC 1 16 in stainless steel Nalco 00101 18122 Syringe adapter 1 16 in fill port liner ferrule Valco eee 00110 16002 Syringe adapter 1 16 in fill port Valeo 00110 16000 Valve replacement nut 1 16 in HPLC stainless steel esses 00110 16008 Valve replacement rotor seal Valco nnne 00110 16006 Valve replacement stator Valco eee FU FEES 00110 16004 5 uL sample loop stainless steel Valkco 00110 16010 20 uL sample loop stainless steel Valco eee 00301 30000 Optional Tools Hexdriyerz0 29 1n erent eset eese deeem e detur punc D ted 00025 01810 Here Oe iat Gu GEG eu GE Geb eu Guugu E Marble 00025 08041 Tool pin extractor AMP large eesseeeeeeeeeeeenen nennen nennen nennen 00725 00013 Tool pin extractor AMP small 00725 00020 Wrench Allen hex drive 1 4 in with handel 00725 00015 6 16 Finnigan LCQpECA Hardware Manual Th
128. ield To clean the spray shield wipe the inside and outside of the spray shield with methanol and a Kimwipe Reassembling the API Stack To reassemble the API stack proceed as follows Figure 4 7 for the location of the API stack components 1 Wipe the heated capillary sleeve and the 0 299 in ID O ring with a lint free tissue Ensure that the heated capillary sleeve P N 70005 20224 and the 0 299 in ID O ring P N 00107 10059 are in good condition Replace them if necessary 2 Seatthe heated capillary mount bushing in the end of the heated capillary mount 3 Insert the heated capillary P N 97000 98002 though the heated capillary mount and heated capillary mount bushing 4 Place the 0 299 in ID O ring and the heated capillary sleeve over the end of the heated capillary so that the heated capillary protrudes by approximately 2 5 cm 1 in past the end of the heated capillary sleeve 5 Insert the heated capillary heated capillary mount heated capillary mount bushing O ring and heated capillary sleeve through the connector retainer and into the spray shield until the heated capillary and heated capillary sleeve protrude from the atmospheric pressure side of the spray shield Make sure that the heated capillary cable is on the same side as the connector on the connector retainer 6 Screw the heated capillary mount into the spray shield by hand until it is tight The heated capillary mount bushing should seat in the end
129. in the space occupied by the old power supply g Tighten by hand the fastener that holds the 8 kV power supply to the tower h Reconnect to the rear of the System Control PCB at J5 the thick cable that comes from the 8 kV power supply i Reconnect to the 8 kV power supply the thin cable that comes from the API panel Go to step 7 7 Return the embedded computer to its original position as follows a Liftthe embedded computer up and away from the MS detector chassis Lift up the embedded computer a sufficient distance to access the bottom of the embedded computer b Reconnect to the bottom of the embedded computer the cable that comes from the switching power supplies c Reconnect the fan power cable to the embedded computer fan Make sure that the plug on the end of the cable contours the fan that is the concave side of the plug is against the fan d Reposition the embedded computer in its original position in front of the tower 5 40 Finnigan LCQpEcA Hardware Manual Thermo 2uest L cQ Service Maintenance Replacing PCBs and Assemblies ThermoC2uest 10 11 e Tighten the six fasteners that secure the embedded computer to the vacuum manifold base plate and chassis f Reconnect the cables that connect to the top of the embedded computer See Figure 5 14 on page 5 42 and Figure 5 15 on page 5 44 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cove
130. ing procedure to place the LCQDECA system in the Standby condition 1 2 Quse el ng Wait until data acquisition if any is complete Turn off the flow of sample solution from the LC or other sample introduction device Note For instructions on how to operate the LC from the front panel refer to the manual that came with the LC From the Tune Plus window choose Control Standby or click on the On Standby button to put the MS detector in Standby condition When you choose Control Standby the LCQpzca turns off the electron multiplier conversion dynode 8 kV power to the API source ring electrode RF voltage and octapole RF voltage The LCQDECA also turns off the auxiliary gas and sets the sheath gas flow to 0 units See Table 3 1 on page 3 11 for the On Off status of MS detector components when the MS detector is in the Standby condition The System LED on the front panel of the MS detector is illuminated yellow when the system is in Standby condition Flush the spray shield and the entrance end of the heated capillary of the API source as describe in the topic Flushing the Spray Shield and Heated Capillary in the User Maintenance chapter Cap the heated capillary with the septum Leave the API flange withdrawn from the spray shield Purge the rotary vane pump oil as described in the topic Purging the Oil in the Rotary Vane Pumps in the User Maintenance chapter Leave the MS detector power on Leave the LC power on
131. innigan LCQpeca Hardware Manual 4 5 User Maintenance API Source Maintenance 4 6 L cQ Cleaning the Spray Shield and the Heated Capillary You need to clean the spray shield and the heated capillary on a regular basis to maintain optimum performance of your API source A good practice is to flush the spray shield and heated capillary at the end of each operating day after you flush the sample transfer line sample tube and API probe with a 50 50 methanol water solution from the LC If you are operating the system with nonvolatile buffers in your solvent system or high concentrations of sample you may need to clean the spray shield and heated capillary more often You do not have to vent the system to flush the spray shield and heated capillary To clean the spray shield and the heated capillary proceed as follows 1 Turn off the flow of liquid from the LC or other sample introduction device to the API source 2 Place the MS detector in Off condition CAUTION Place the MS detector in Off condition before you open the atmospheric pressure ionization API source The presence of atmospheric oxygen in the API source when the MS detector is On could be unsafe LCQpzca automatically turns the MS detector Off when you open the API source however it is best to take this added precaution 3 Loosen the two flange retainer bolts that secure the API flange ESI or APCI flange to the spray shield 4 Pull bac
132. isplays several tune functions a frequency cursor and a frequency window See Figure 5 7 c Allow the program to make at least five passes Then determine whether the frequency cursor lies within the frequency window Thermo 2uest Finnigan LCQpEca Hardware Manual 5 19 Service Maintenance ek Cleaning the lon Optics and Mass Analyzer LC e If the frequency cursor lies within the frequency window then the ring electrode RF voltage frequency is tuned properly Select the Stop button and exit from the diagnostics program e If the frequency cursor lies outside the frequency window then you need to manually adjust the ring electrode RF voltage frequency Leave the Graph view displayed Go on to the next step Eh am Goid Sranbinda eise ae Gegen Hei ee Se se ua aiu e lolo eret gia Se l 2 ita Te Ah Wane LEI FREQUENCY CURSOR FREQUENCY WINDOW Figure 5 7 Graph view for ring electrode RF voltage tuning 6 Manually adjust the ring electrode RF voltage frequency as follows Open the left front door of the MS detector b With a Phillips screw driver remove the air deflector to expose the tuning stud c With a wrench loosen the 9 16 in lock nut that holds the tuning stud in place See Figure 5 8 d With a screw driver turn the tuning stud until the frequency cursor lies slightly to the left of the center of the frequency window The cursor should shift slightly to the right when
133. it P N 70005 62013 you might receive an electrical shock if you touch the black LC union Therefore for your safety and in compliance with international safety standards you must cover the LC union with the Metal Needle Safety Insulator P N 70001 20637 before you operate the instrument Installation instructions P N 70001 97090 are included in the kit Operation of the instrument without the safety sleeve impairs the safety protection provided I by the instrument and thus could lead to serious injury i Slide the Metal Needle Safety Insulator P N 70001 20637 over the LC union Install the fused silica capillary tube and PEEK safety sleeve as follows a Use a fused silica cutting tool to cut a 25 4 cm 10 0 in piece of 0 1 mm ID x 0 19 mm OD fused silica capillary P N 00106 10499 Ensure that you cut squarely the ends of the fused silica tubing b Feedthe sample tube through the precut 25 4 cm 10 0 in 009 in ID x 0 240 in OD PEEK safety sleeve P N 00301 22806 Ensure that the ends are flush to each other c Slide a red Fingertight fitting P N 00101 18195 and a brown ferrule P N 00101 18119 wide end first onto the PEEK safety sleeve d Connect the PEEK safety sleeve and ferrule to the black LC union by tightening the red Fingertight fitting Ensure that the Fingertight fitting is securely tightened around the PEEK safety sleeve otherwise the sample stream might enter between the fused
134. ith the methanol water solution Note If you are finished operating your LCQprca for the day cap the heated capillary with the septum Leave the API flange withdrawn from I the spray shield Clearing the Bore of the Heated Capillary The bore of the heated capillary can become blocked by buffer salts or high concentrations of sample A stainless steel hypodermic tube has been included in your accessory kit for clearing a blocked heated capillary If the pressure in the capillary skimmer region as measured by the Convectron gauge drops considerably below 0 8 Torr you should suspect a blocked heated capillary You do not have to vent the system to clear the bore of the heated capillary To clear the bore of the heated capillary proceed as follows l 2 3 Turn off the flow of liquid from the LC to the API source Place the MS detector in Off condition CAUTION Place the MS detector in Off condition before you open the atmospheric pressure ionization API source The presence of atmospheric oxygen in the API source when the MS detector is On could be unsafe LCQpzca automatically turns the MS detector Off when you open the AP source however it is best to take this added precaution Loosen the two flange retainer bolts that secure the API flange ESI or APCD to the spray shield Pull back the API flange from the spray shield Finnigan LCQpEcA Hardware Manual 4 7 User Maintenance DECA API Source M
135. its storage container Maintaining the APCI Probe The APCI probe requires a minimum of maintenance The APCI sample tube 150 um ID fused silica tubing is preinstalled at the factory However if the sample tube becomes obstructed with salt precipitates or is broken you need to replace it Also you might need to disassemble the APCI probe for cleaning or to replace a part Figure 4 3 shows the major components of the APCI probe You do not need to vent the system to perform maintenance on the APCI probe GROUND WIRE HEATER COIL HEATER 0 625 IN QUARTZ RETAINER O RING INSULATOR 0 185 IN 0 614 IN N O RING Pd O RING V e e e e en e e e e e e e e e SAMPLE TUBE APCI NOZZLE uc SAMPLE TUBE AUXILIARY P INLET FITTING GAS TUBE 0 185 IN VAPORIZER O RING VAPORIZER FLANGE CASING Figure 4 3 Cross sectional view of the APCI probe 4 20 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA User Maintenance Le Q API Source Maintenance Note You should flush the APCI probe at the end of each working day by flowing a 50 50 methanol water solution from the LC through the APCI I source Refer to the topic Flushing the Sample Transfer Line Sample I Tube and API Probe on page 4 5 Note Wear clean gloves when you handle APCI probe components The following procedures are discussed in this section e Removing the APCI probe assembly e Disassembling the APCI probe assembly e Cleani
136. k and ship the defective switching power supply assembly to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms j Install the new switching power supply assembly in the space occupied by the old assembly k Tighten by hand the fastener that holds the switching power supply assembly to the tower l Reconnect the cable that is connected to the reset button cable m Reconnect the two cables to the Power Module to the two upper connectors on the Power Module n Reconnect the cable that is connected to the fan cable o Reconnect the cable to the Waveform Amplifier PCB to the connector on the Waveform Amplifier PCB p Reconnect the two cables to the Analyzer Auxiliary PCB to the two connectors on the Analyzer Auxiliary PCB q Reconnect the cable to the RF Voltage Amplifier PCB to the connector on the RF Voltage Amplifier PCB Go to step 7 To replace the Turbomolecular Pump Controller proceed as follows a Disconnect from the Turbomolecular Pump Controller the thick cable to the turbomolecular pump b Disconnect from the Turbomolecular Pump Controller the thin cable that comes from the Power Module c Loosen by hand or with a Phillips screwdriver the fastener that holds the Turbomolecular Pump Controller to the tower d Remove the Turbomolecular Pump Controller from the tower e Unpack the new Turbomolecular Pump Controller P N 97000 60150 Retain
137. k the API flange from the spray shield CAUTION AVOID BURNS At operating temperatures the APCI vaporizer and heated capillary can severely burn you The APCI vaporizer typically operates at 400 to 600 C and the heated capillary typically operates at 100 to 350 C Allow the heated vaporizer and heated capillary to cool to room temperature for approximately 20 min before you touch or remove either component 5 Temporarily place a large Kimwipe or other lint free tissue at the bottom of the spray shield The Kimwipe is required to absorb the solution used to flush the heated capillary and spray shield Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ThermoC2uest 10 Fill a spray bottle with a 50 50 solution of HPLC grade methanol distilled water Spray approximately 5 mL of the solution at the opening of the heated capillary Do not touch the heated capillary with the tip of the spray bottle Use the spray bottle filled with the 50 50 solution of HPLC grade methanol distilled water to flush contaminants from the interior surface of the spray shield Remove the Kimwipe you used to absorb the solution Swab the surface of the spray shield with a dry Kimwipe Ensure that you have removed any salt or other contaminants that may have been deposited on the spray shield If you are operating in the ESI mode wipe off the ESI spray nozzle with a Kimwipe soaked w
138. l environment This equipment generates uses and can radiate radio frequency energy If it is not installed and used in accordance with the instruction manual it may cause harmful interference to radio communications Operation of this equipment in a residential area is likely to cause harmful interference In this case the user will be required to correct the interference at his her own expense G Thermo 2uest Notice on Lifting and Handling of ThermoQuest LC and LC MS Division Instruments For your safety and in compliance with international regulations the physical handling of this ThermoQuest instrument requires a team effort for lifting and or moving the instrument This instrument is too heavy and or bulky for one person alone to handle safely Notice on the Proper Use of ThermoQuest LC and LC MS Division Instruments In compliance with international regulations If this instrument is used in a manner not specified by ThermoQuest Corporation the protection provided by the instrument could be impaired DUO 97033 DECA 97044 TMQ APG SJ 4 August 99 DECA Contents We Contents Read This First iet siepe Hx aeu POR ESEXEOR ERR FUR e EXPL IPAE TPNREE RR E INR NU ETE IUDA E EN RNIN RENE REM S URS EON RMRUN v Changes to the Manual and Online Help vi Eltere vii Typographical Conyenti ns EE E e e bt ELO EA xi Data Gul EE xi Notes Cautions and CAUTIONS He ee HH eene ee enhn e nn eser ne xii er eg ET xiii Bep
139. le inlet of the APCI manifold With a 3 8 in open end wrench tighten down the sample tube inlet fitting to secure the fitting and compress the O ring Unscrew and remove the vaporizer casing from the vaporizer flange to expose the nozzle Gently slide the sample tube through the sheath gas tube of the APCI probe and out the APCI nozzle Watch for the sample tube to exit the APCI nozzle Screw the APCI manifold into the APCI probe sheath gas tube Use a fused silica cutting tool to cut the exit end of the sample tube so that approximately 1 mm protrudes past the tip of the APCI nozzle See Figure 4 5 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA User Maintenance Le Q API Source Maintenance FITTING FERRULE O RING 00101 18195 00101 18196 00107 04000 Hes Sap SAMPLE SAMPLE TUBE FERRULE EXIT END SAMPLE TUBE TRANSFER LINE INLET FITTING 00101 18120 NUT FUSED SILICA CAPILLARY 00301 22912 70005 20250 70005 20220 00106 10498 m Figure 4 4 APCI sample tube APCI NOZZLE EXIT END OF SAMPLE TUBE Figure 4 5 Proper position of the exit end of the APCI sample tube ThermoC2uest Finnigan LCQpEcA Hardware Manual 4 25 User Maintenance API Source Maintenance L cQ Note Once the APCI sample tube has been cut to the proper length you can remove the APCI manifold and accurately measure and reco
140. le tube The ESI probe produces charged aerosol droplets that contain sample ions The ESI probe accommodates liquid flows of 1 uL min to 1 mL min without splitting The ESI probe includes the fused silica sample tube PEEK safety sleeve ESI spray needle ESI spray nozzle and ESI manifold Sample and solvent enter the ESI probe through the fused silica sample tube The sample tube is a section of 0 1 mm ID fused silica capillary that extends from a Fingertight fitting and ferrule secured to the grounded fitting holder through the sample inlet and into the spray needle The spray needle to which a Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Thermo 2uest Functional Description API Source large negative or positive voltage is applied typically 4 5 to 5 kV sprays the sample solution into a fine mist of charged droplets The spray nozzle directs a flow of sheath gas and auxiliary gas at the droplets The ESI manifold houses the spray nozzle and the spray needle and includes the sheath gas auxiliary gas and sheath liquid plumbing The sheath gas plumbing and auxiliary gas plumbing deliver dry nitrogen gas to the spray nozzle The sheath liquid plumbing delivers sheath liquid to the spray nozzle The ESI probe has inlets for the introduction of sample solution sheath gas auxiliary gas and sheath liquid into the API source The sheath gas is an inner coaxial nitrogen gas that sprays nebulizes the sample so
141. lect the Graphs tab See Figure 5 4 a p Reposition the Diagnostics dialog box so that it does not obscure the Graph view 3 Tune the quadrupole octapole RF voltage as follows Select Tune octapole frequency in the Test Type text box b Select the Once option button in the How many times group box c Start the quadrupole octapole RF voltage tune program A frequency function appears in the Graph view See Figure 5 5 The minimum of the frequency function should lie between 2400 and 2550 kHz d When the octapole tune program is finished LCQpEca displays the message Do you want to accept the octapole frequency Select the Yes button Figure 5 4 Diagnostics dialog box Graph page ThermoC2uest Finnigan LCQpEcA Hardware Manual 5 17 Service Maintenance Qui Cleaning the lon Optics and Mass Analyzer LC Eis iem G i Fesg icch ndm Deg Dames Hee Sue ze jj ajeri i e i Seri hina LI Fm He pen FI Ali Dies ER Figure 5 5 Graph view for quadrupole octapole RF voltage tuning 4 Tune the ring electrode RF voltage modulation as follows Select Tune RF modulation in the Test Type text box b Select the Once option button in the How many times group box c Start the ring electrode RF modulation tune program The Graph view should look like Figure 5 6 e The standing wave ratio switch line should be at 10 V over the entire range e The detected RF voltage should be a straight
142. line that begins at the origin and intersects the standing wave ratio switch line near the highest mass line e The RF voltage modulation should be a curved line that begins at the origin and intersects the highest mass line at a value between 3 5 and 4 5 V 5 18 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA Service Maintenance Le Q Cleaning the lon Optics and Mass Analyzer STANDING WAVE RATIO SWITCH DETECTED RF VOLTAGE HIGHEST MASS RF VOLTAGE MODULATION Figure 5 6 Graph view for ring electrode RF voltage modulation tuning d Inspect the Graph view e If the three above conditions are met proceed to step 5 e If the three above conditions are met over part of the range but not all of the range the curves flatten or change value abruptly tune the RF voltage frequency as described in step 5 Then repeat step 4 e If the standing wave ratio switch detected RF voltage and RF voltage modulation lines are all flat then there might be a loose connection Make sure that all cables and leads are properly connected and that the spring loaded pin on the RF voltage feedthrough properly contacts the ring electrode Repeat step 4 5 Tune the ring electrode RF voltage frequency as follows a Select Tune RF frequency in the Test Type text box The Continuously option button in the How many times group box is automatically selected b Start the ring electrode RF frequency tune program The Graph view d
143. lution into a fine mist as it exits the sample tube Typical sheath gas flow rates for ESI are 20 to 40 psi for sample flow rates of 5 to 10 uL min and 80 units for sample flow rates of 200 to 1000 u min When you tune the LCQpEcA you may need to adjust the sheath gas flow rate until the ion signal is stable The auxiliary gas is an outer coaxial nitrogen gas that assists the sheath gas in the nebulization and evaporation of sample solutions The auxiliary gas also helps lower the humidity in the ion source Typical auxiliary gas flow rates for ESI are 10 to 20 units Auxiliary gas is usually not needed for sample flow rates below 100 uL min Refer to Table 1 1 for specific guidelines for LC ESI MS operation The sheath liquid is a solvent used to stabilize and enhance the ESI process for some solution chemistries for example high aqueous content that do not readily form an electrospray and to provide make up solvent in CE and CEC applications Sheath liquid is injected by the syringe pump and exits the spray nozzle coaxially to the sample tube ESI FLANGE ga c NONE FLANGE RETAINER BOLT r a ZS GROUNDED FITTING HOLDER ESSERE E H be PROBE RETAINER BOLT ESI PROBE Figure 1 1 ESI probe assembly Finnigan LCQpEcA Hardware Manual 1 3 Functional Description API Source O 2 PROBE FJ _ POSITION OZ 4 31 Table 1 1 Guidelines for LC ESI MS Operation LC Flow Rates Suggested Probe Heat
144. ly Catdstosccnontaanomqamae gege xiv Functional Descrip tiie err 1 1 a E EE 1 2 APT Probe Ar ege 1 2 1 2 Jon Opes snr erepta TERRE RR EEE EEE EEA ee 1 9 ye fen EE coa eo PI IDEA M CEDE Cun DN DM EE 1 10 1 4 Ion Detection EE 1 11 Changing ESI or APCI Probe Assemblies sssoccscsssssssocccccesessssooocccceessssooccccessessosooccssese 2 1 2 1 Installing the ESI Probe Assembly EE 2 2 22 Removing the ESI Probe Assembly ode ei REA RAM AAA 2 3 2 3 Installing the APCI Probe Assembly ccc apse lere ivive ire Seven rv rey Se dr sen 2 4 2 4 Removing the APCI Probe Assembly cco rtr tersieesreespeerterxtesten eate eter 2 5 System Shutdown Startup and Reset eee e eee eee eee eese eee eee eee eee een sae e esses tnaaus 3 1 3 1 Shutting Down the System in an Emergency sese 3 2 3 2 Placing the System in Standby Condition EE 3 3 3 3 Shutting Down the System Completely eere ertet tette ee ger Gren det Ze dee 3 4 3 4 Starting Up the System after a Complete Shutdown eee 3 6 ThermoC2uest Finnigan LCQpEcA Hardware Manual i Contents DECA Wie Starting Up the MS Detector dee dee e dE ge E RA Ee E e E 3 6 Setting Up Conditions for Operation eese nennen 3 7 3 57 Resetting the MS Detector ee tate d ep EUR EH RARE UAE AERA RIA a asbra anien ii 3 8 3 6 Resetting the Tune and Calibration Parameters to their Default Values sssse 3 9 3 7 Turning Off
145. n place Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Functional Description lon Detection System Thermo 2uest 1 4 lon Detection System The LCQDECA is equipped with a high sensitivity off axis ion detection system that produces a high signal to noise ratio and allows for voltage polarity switching between positive ion and negative ion modes of operation The ion detection system includes a 15 kV conversion dynode and a channel electron multiplier The ion detection system is located at the rear of the vacuum manifold behind the mass analyzer See Figure 1 3 The conversion dynode is a concave metal surface that is located at a right angle to the ion beam A potential of 15 kV for negative ion detection or 15 kV for positive ion detection is applied to the conversion dynode When an ion strikes the surface of the conversion dynode one or more secondary particles are produced These secondary particles can include positive ions negative ions electrons and neutrals When positive ions strike a negatively charged conversion dynode the secondary particles of interest are negative ions and electrons When negative ions strike a positively charged conversion dynode the secondary particles of interest are positive ions These secondary particles are focused by the curved surface of the conversion dynode and are accelerated by a voltage gradient into the electron multiplier The conversion dynode shield tube and disk s
146. nalyzer Auxiliary PCB c With a Phillips screwdriver remove the screws that hold the Analyzer Auxiliary PCB to the top of the vacuum manifold Remove the Analyzer Auxiliary PCB d Unpack the new Analyzer Auxiliary PCB P N 97000 61340 Retain the packing materials so that you can pack and ship the defective PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms e Install the new PCB in the place occupied by the old PCB f With a Phillips screwdriver reinstall the screws that secure the Analyzer Auxiliary PCB to the top of the vacuum manifold g Reinstall the metal cover to the top of the Analyzer Auxiliary PCB h Reconnect all cables to the Analyzer Auxiliary PCB that you disconnected in step 5a Go to step 8 To replace the Waveform Amplifier PCB proceed as follows See Figure 5 15 on page 5 44 for the location of the Waveform Amplifier PCB a Disconnect all cables to the Waveform Amplifier PCB Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing b With a Phillips screwdriver remove the metal cover from the Waveform Amplifier PCB Finnigan LCQpEca Hardware Manual 5 49 Service Maintenance Q DECA Replacing PCBs and Assemblies LC c With a Phillips screwdriver remove the screws that secure the Waveform Amplifier PCB to the top
147. ng the APCI probe components e Removing the APCI sample tube e Installing the APCI sample tube e Reassembling the APCI probe assembly e Reinstalling the APCI probe assembly Removing the APCI Probe Assembly Remove the APCI probe assembly from the LCQpeca as described in the topic Removing the APCI Probe Assembly in the Changing ESI or APCI Probe Assemblies chapter CAUTION AVOID BURNS The APCI vaporizer heater can reach temperatures of 800 C Always allow the APCI probe to cool to ambient temperatures before handling or removing the APCI probe from the APCI flange Caution Wrench flats on the APCI probe components are provided for your convenience when you dismantle the APCI probe NEVER USE I THE WRENCH FLATS TO TIGHTEN THE APCI PROBE COMPONENTS Only tighten the APCI probe components by hand Thermo 2uest Finnigan LCQpEcA Hardware Manual 4 21 User Maintenance API Source Maintenance 4 22 L cQ Disassembling the APCI Probe Assembly To disassemble the APCI probe assembly proceed as follows 1 Remove the corona discharge needle P N 70005 98033 by pulling it free from the corona discharge needle assembly Store the needle by inserting it into one of the foam walls of the APCI probe assembly storage container Caution Do not break the APCI sample tube In step 2a carefully pull the APCI manifold straight back from the APCI probe to prevent the sample tube from touc
148. ng the Ring Electrode and Quadrupole Octapole RF Voltages on page 5 16 2 Inthe Tune Plus window choose Diagnostics Diagnostics The Diagnostics dialog box appears See Figure 5 11 3 Select one of the following options Refer to Table 5 3 e To test all of the electronic subsystems that is the vacuum system power supplies lenses ion detection system and RF voltage electronics click on the All tab and select the Everything option e To test an individual subsystem click on the tab corresponding to that subsystem and select the appropriate options 4 Select how many times you want to run the tests and whether or not you want to print reports or to stop on a failure 5 Select the Start button to start the diagnostics Finnigan LCQpEcA Hardware Manual 5 27 Service Maintenance DECA Seng e LEO LCQpeca starts testing and displays a chronological log of all diagnostic tests in the Testing text box Once testing for a specific subsystem is completed LCQpeca displays either Pass or Fail in the Results group box If the LCQpzcaA diagnostics indicates a problem perform the maintenance procedure indicated by the LCQpeca diagnostics For more information on the LCQpzcA diagnostics refer to the LCQpEca online Help Figure 5 11 Diagnostics dialog box All page 5 28 Finnigan LCQpECA Hardware Manual ThermoC2uest Service Maintenance Diagnostics L cQ Graphs Instrui Tue geg bDmpeskew Tabl
149. nt value of the electron multiplier voltage in the Ion Detection System dialog box which can be reached from the Tune Plus window by clicking on the ion detection system button If you are having problems with the ion detection system you need to replace the anode and cathode of the electron multiplier You can replace the cathode separately or as part of the electron multiplier assembly ELECTRON MULTIPLIER cc ramp Figure 5 9 Top cover plate of vacuum manifold showing electron multiplier 5 22 Finnigan LCQpeca Hardware Manual ThermoC2uest L cQ Service Maintenance Replacing the Electron Multiplier To replace the anode and cathode of the electron multiplier or the entire electron multiplier assembly proceed as follows 1 Shut down and vent the system as described in the topic Shutting the System Down Completely in the System Shutdown Startup and Reset chapter Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 Remove the top cover plate of the vacuum manifold as described in the topic Removing the Top Cover Plate of the Vacuum Manifold on page 5 6 Note Wear clean lint free nylon or cotton gloves when you handle the electron multiplier components With an Allen wrench remove the two socket head screws that hold the electron multiplier support to the top cover plate of the vacuum manifold With one hand hold the high vol
150. nwire Ethernet cable to data system computer Ethernet terminators are secure configuration jumper is set to pin 3 on Ethernet PCB If necessary replace Ethernet PCB and update Ethernet address in data system computer ThermoC2uest Finnigan LCQpEcA Hardware Manual A 4 L cQ Table A 2 Initialization and download diagnostics continued Troubleshooting 0 30 X86 EXECTask application Control DSP PCB embedded Check cables in Embedded Computer check resets Control DSP PCB computer RESET LED is red See Control DSP PCB Figure 5 4 Waveform DDS PCB embedded Check Waveform DDS PCB and associated computer RESET LED is green cables System Control PCB remove right Check cable from Waveform DDS PCB to side cover RESET LED is off System Control PCB 0 34 X86 EXECTask application Acquisition DSP PCB embedded Check cables in Embedded Computer check resets Acquisition DSP computer RESET LED is red See Acquisition DSP PCB PCB Figure 5 4 0 40 Data system down loads Data system computer downloads Check data system computer hard drive for ICL files to LCQDECA and files Data system computer screen corruption recompiles shows instrument initialization 2 10 LCQDECA begins Vacuum LED front LED panel is Check ribbon cable from System Control PCB to initialization green front LED panel check data system computer for error messages System Control PCB high voltage relay clicks If necessary replace Control DSP P
151. of the heated capillary mount and apply a force that compresses the 0 299 in ID O ring against the heated capillary sleeve 7 Reconnect the heated capillary cable to the connector that is held by the connector retainer Turn the locking ring on the cable clockwise to lock the cable 8 Insert the tube lens and skimmer mount over the heated capillary until it seats in the heated capillary mount The tube lens and skimmer mount should be aligned such that the heated capillary cable comes out of the opening in the side of the tube lens and skimmer mount 9 Align the guide pin on the tube lens with the guide pin hole on the tube lens and skimmer mount Reinstall the tube lens by inserting it into the tube lens and skimmer mount 4 32 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ThermoC2uest 10 11 12 13 14 Align the lead pin on the skimmer with the lead pin hole on the tube lens and skimmer mount Reinstall the skimmer by inserting it into the tube lens and skimmer mount Reconnect the tube lens lead to the lead pin on the tube lens Use needlenose pliers if necessary Reconnect the skimmer lead to the lead pin on the skimmer Use needlenose pliers if necessary Push the heated capillary from the atmospheric pressure side of the spray shield until the opposite end of the heated capillary abuts with the tube lens and skimmer mount Note Ensure that the
152. of the tower Remove the Waveform Amplifier PCB d Unpack the new Waveform Amplifier PCB P N 96000 61110 Retain the packing materials so that you can pack and ship the defective PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms e Install the new PCB in the place occupied by the old PCB f With a Phillips screwdriver reinstall the screws that secure the Waveform Amplifier PCB to the top of the tower g Reinstall the metal cover to the top of the Waveform Amplifier PCB h Reconnect all cables to the Waveform Amplifier PCB that you disconnected in step 6a Go to step 8 7 To replace the RF Voltage Amplifier PCB proceed as follows a Disconnect all cables to the RF Voltage Amplifier PCB Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing b With a Phillips screwdriver remove the metal cover from the RF Voltage Amplifier PCB c With a Phillips screwdriver remove the screws that secure the RF Voltage Amplifier PCB to the top of the tower Remove the RF Voltage Amplifier PCB d Unpack the new RF Voltage Amplifier PCB P N 97000 61090 Retain the packing materials so that you can pack and ship the defective PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms e
153. old the mass analyzer with one hand loosen the two thumb screws that hold the analyzer mount to the baffle 9 With one hand holding the mass analyzer and the other hand holding the analyzer mount lift the mass analyzer octapole and analyzer mount out and away from the baffle on the top cover plate Be careful not to touch the electron multiplier with the mass analyzer This could damage the electropolished surface Disassembling the lon Optics and Mass Analyzer To disassemble the ion optics and mass analyzer proceed as follows See Figure 5 2 for the location of the ion optics and mass analyzer components 1 Remove the quadrupole from the quadrupole mount 2 Remove the octapole from the analyzer mount 3 Disassemble the mass analyzer as follows a Remove the entrance lens by pulling the entrance lens out of the entrance lens sleeve b Remove the entrance lens sleeve by squeezing the sleeve and pulling it out of the recess in the entrance endcap electrode c Remove the exit lens by pulling the exit lens out of the exit lens sleeve Use the connector pin to aid you pull off the lens LCQbpEcA Hardware Manual 5 9 Service Maintenance Q DECA Cleaning the lon Optics and Mass Analyzer LC d Remove the exit lens sleeve by squeezing the sleeve and pulling it out of the recess in the exit endcap electrode Unscrew and remove the two analyzer nuts from the analyzer posts Remove the two spring washers from the analyze
154. om pin 4 of the 8 pin feedthrough to the entrance endcap electrode by inserting the pin on the end of the lead into the socket in the electrode Reconnect the electrical lead from pin 5 of the 8 pin feedthrough to the exit endcap electrode by inserting the pin on the end of the lead into the socket in the electrode Reconnect the electrical lead from pin 7 of the 8 pin feedthrough to the exit lens Ensure that the exit lens lead pin does not contact the analyzer nut Reconnect the damping gas line to the nipple on the exit endcap electrode Note Check all leads and ensure that they are secure and that they go to the proper electrodes Finnigan LCQpECA Hardware Manual 5 13 Service Maintenance Cleaning the lon Optics and Mass Analyzer 95 Ds Neos rs 1 VE A S c t A k EN Kc X Lg A Z e S ware Aer ift ew item k d Ki an Fi w 0 46 4 PIN FEEDTHROUGH Figure 5 3 Analyzer electrical connections 5 14 QUADRUPOLE 8 PIN FEEDTHROUGH em nomm HORE NER DON Dad ey s i V 8 F aiii aa EE A i l Ka EN Ammonium m vm ibam MT ee i ON I d ox i i I r1 r1 i 7 ei d 3 k A LE Illy oT dA i II i J VI i ii LE f INTEROCTAPOLELENS i ENTRANCE 5 Y LENS ENDCAP ELECTRODES 4 PIN FEEDTHROUGH L EXIT LENS Finnigan LCQpEcA Hardware Manual L cQ Thermo 2uest L cQ Service Maintenance Cleaning the l
155. om the feedthrough Disconnect the electron multiplier high voltage cable at the electron multiplier power supply Disconnect from the top of the electron multiplier and conversion dynode power supplies the electrical cable that comes from the System Control PCB Loosen by hand or with a Phillips screwdriver the two fasteners that hold the electron multiplier and conversion dynode power supply module to the MS detector chassis Carefully lift the electron multiplier and conversion dynode power supply module up and away from the MS detector You must replace the conversion dynode power supply and the electron multiplier power supply together as a module P N 97000 98042 Retain the packing materials so that you can pack and ship the defective power supply module or PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms Install the electron multiplier and conversion dynode power supply module in the space occupied by the old power supply module With a Phillips screwdriver tighten the two fasteners that hold the electron multiplier and conversion dynode power supply module to the MS detector chassis Reconnect to the electron multiplier and conversion dynode power supplies the electrical cable that comes from the System Control PCB Reconnect the electron multiplier high voltage cable to the electron multiplier power supply Reconnect the conversion dynode high
156. omolecular Pummp 5 61 Replaceable Parts iiniiniaiiiiunuaidauiudiatianainaiaunuduaauaisdsanisuaicaiaiides 6 1 MS Detector TEE 6 2 ESLDProbe Assemblys oe ertet tre ete cu cu a rot ree eee E 6 2 APCI Probe Asselbuer eege eet eege ee EE EE See EE 6 3 AP Prope GU de HRS 6 4 E dE EE 6 5 Ioni OptieS 6 i a eH t tL ELI pU LI Heer bo te Hbro Lite beet D 6 5 EE 6 6 Ion Detection System Electron Multiplier Conversion Dynode 6 6 Top Cover Plate of Vacuum Mantold essere nee 6 7 Divert Inject Valve oed RERO UM E Me et ve ea 6 7 Syringe PUrmpc o2 Bai et Af et feet eeben beet beet reet obe bebo fete o PL te eee Po 1d 6 7 Turbomolecular Pump e ee a eee ae eee aede eee ttes 6 8 Rotary Vane Pumps iod dte dde dede Aad 6 8 Vacuum System Assemblies essere eene eene nnnree nennen 6 8 Mechanical Assemb lies ett ete eer e regere e eee ee 6 9 Electrical Assemblies eege ege eege eege EE EE Ee de ee 6 9 Printed Circuit Boards EC Bast EE 6 10 ThermoC2uest Finnigan LCQpEcA Hardware Manual iii Contents DECA Wie RF Control Detection Assemblies RR RR 6 11 CADIS m n 6 11 COVERS t torte men EERERIBNM 6 13 Data System Hardware 6 13 Chemicals Kaitaia e taeae S eea Nabea ere bebat er a dette epe eee 6 13 Access ry m S 6 14 Recommended Spares em eene eem rm tette ertet eerte t Tasso EE ih 6 15
157. on Optics and Mass Analyzer ThermoC2uest Cleaning the lon Detection System The conversion dynode and electron multiplier of the ion detection system must be kept dust free Clean the conversion dynode and electron multiplier whenever you remove the top cover plate of the vacuum manifold Cleaning the conversion dynode and electron multiplier involves only blowing them with clean dry gas such as nitrogen Freon gas is not recommended Do not use liquids to clean the ion detection system components Always cover the opening in the top of the vacuum manifold with a large lint free tissue whenever you remove the top cover plate of the vacuum manifold Reinstalling the Top Cover Plate of the Vacuum Manifold Use the following procedure to reinstall the top cover plate of the vacuum manifold Remove the tissue from the opening in the top of the vacuum manifold 2 Check the O ring that surrounds the opening for signs of wear and replace it if necessary P N 97000 40015 Make sure that the O ring is seated properly Note Periodically remove any contamination that might be on the inner walls of the manifold by wiping the inner walls with a lint free tissue soaked in HPLC grade methanol Use a cotton tipped applicator soaked in methanol to clean around inlets and feedthroughs 3 Carefully lift the top cover plate up by its two handles and turn it over Orient the top cover plate such that the electron multiplier is over the c
158. onversion dynode Carefully insert the guide posts on the underside of the top cover plate into the guide holes in the vacuum manifold Slowly lower the cover plate onto the opening in the vacuum manifold Take care not to damage the components on the underside of the cover plate Ensure that the cover plate is seated properly on the vacuum manifold 4 Use a 7 16 in open end wrench to reconnect the helium damping gas line to the fitting See Figure 5 1 5 Reconnect at ANAL AUX 1 IN the octapoles cable that comes from the Analyzer Auxiliary PCB 6 Reconnect at ANALYZER the lenses cable that comes from the System Control PCB 7 Reconnect at ANAL AUX 2 IN and ANAL AUX 3 IN the two endcap electrode cables that come from the Analyzer Auxiliary PCB Finnigan LCQpECA Hardware Manual 5 15 Service Maintenance Q DECA Cleaning the lon Optics and Mass Analyzer LC 8 Reconnect at ACQU DSP the electrometer cable 9 Reconnect at MULT the electron multiplier high voltage cable that comes from the electron multiplier power supply Reinstalling the Top Cover of the MS Detector Reinstall the top cover of the MS detector as follows 1 Open the left and right front doors of the MS detector 2 With one hand under the center of the top cover place the top cover on the MS detector chassis Slide the top cover forward until it is engages the four guides located at the rear of the chassis 3 Lower the front of the top c
159. ootnote set er ro met Leo ier Len oer eo ssp e 97000 20186 RF detector plate insulator eee ee eessecesssneeecessseeeceessaeeceessaeeesessaeeeeesaeees 96000 20048 RE detector ring shield ener teet en ee ete teet tret tutes 97000 20266 Screw pan head Phillips 6 32 x 3 8 in stainless steel 00415 63206 Stud fine tuning c s pom Fre eb Eee eb re a e ee eee tree eee 94011 20107 Terminal lug ring 6 solder nennen 00007 41500 Terminal lug ring 3 8 in solder seen 00007 39500 Tubing Teflon 18 gauge 0 016 in wall thickness eene 00007 94330 Kit RF F eedthirous li oerte NEEN EEN DEE Eege oe saos dee o cu Pose Vues noise uae d 96000 62024 O ring 1 37 in ID 0 103 in thick Viton 00107 10400 Screw pan head Phillips 6 32 x 1 2 in stainless steel 00415 63208 RE feedthrough e rere etre ot Pet ur ete 97000 60169 Cables Iit Cchassis cables 55e T OUR RE REEERI DU Ie SERE EEPEE SENSE SEES ESQ REC DRE ERE GET seen 97044 62050 Cable electron multiplier power supply electron multiplier feedthrough 96000 63008 Cord power 230 V ac 15 A North America seseeeeeee 96000 98035 Cord power 230 V ac 15 A Internapona 96000 98036 Cable System Control PCB ion gauge Convectron gauge 97000 63001 Cable API stack internal heated capillary tube lens skimmer 97000 63002 Cable System Control PCB spray shield assem
160. over onto the chassis so that the two guide posts located on the front underside of the top cover enter the guide holes located on the top of the chassis 4 Secure the top cover to the chassis with the two latches located on the front of the chassis Close the left and right front doors of the MS detector Reconnect any tubing between the syringe pump and the API source to accommodate your instrument configuration Starting Up the System Start up the system as described in the topic Starting Up the System After a Complete Shutdown in the System Shutdown Startup and Reset chapter Tuning the Ring Electrode and Quadrupole Octapole RF Voltages You need to tune the ring electrode RF voltage and the quadrupole octapole RF voltage whenever you service the mass analyzer or ion optics You also need to tune these voltages if you replace any electronic assembly that is involved in producing the RF voltages You use the Diagnostics program to tune the ring electrode and quadrupole octapole RF voltages 5 16 Finnigan LCQpEcA Hardware Manual Thermo 2uest Service Maintenance LC Que Cleaning the lon Optics and Mass Analyzer To tune the ring electrode and quadrupole octapole RF voltages proceed as follows 1 Allow the LCQpzcA to pump down for at least 15 min after start up 2 Open the Diagnostics dialog box and Graph view as follows a Open the Tune Plus window b Inthe Tune Plus window open the Diagnostics dialog box Se
161. pletely dry reinstall it on the rear of the MS detector or replace it with a new one P N 97000 20299 Finnigan LCQpECA Hardware Manual 4 35 Chapter 5 Service Maintenance This chapter describes MS detector maintenance procedures It is your responsibility to maintain your system properly However the procedures in this chapter are perhaps best performed by a ThermoQuest Customer Support Engineer MS detector maintenance procedures are listed in Table 5 1 Table 5 1 Service maintenance procedures MS Detector Procedure Frequency Procedure Location Component lon optics Clean quadrupole As needed Page 5 5 octapole and interoctapole lens Trap entrance lens Clean trap entrance lens As needed Page 5 5 Mass analyzer Clean mass analyzer Yearly or as needed Page 5 5 lon detection system Clean ion detection system Whenever the top Page 5 15 electron multiplier and cover plate of the conversion dynode vacuum manifold is removed lon detection system Replace electron multiplier If noise in spectrum is Page 5 22 anode and cathode excessive or proper electron multiplier gain can not be achieved Fuses Replace fuse If fuse has blown Page 5 30 PCBs Replace PCB If PCB fails Page 5 35 lon gauge Replace ion gauge If ion gauge fails Page 5 43 Turbomolecular Change oil reservoir At least once a year Page 5 59 pump Turbomolecular Replace turbomolecular If turbomolecular pump Page 5 59
162. porizer heater cable to the connector on the front panel of the MS detector beneath the APCI probe assembly Make sure that the red dot on the cable is aligned with the red mark on the connector 2 4 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Changing ESI or APCI Probe Assemblies Removing the APCI Probe Assembly 2 44 Removing the APCI Probe Assembly To remove the APCI probe assembly proceed as follows 1 10 11 12 Thermo 2uest Stop the flow of sample solution from the LC or syringe pump into the APCI probe Disconnect the corona needle high voltage cable from the corona needle high voltage connector To disconnect the cable turn the locking ring on the cable counterclockwise until you can pull the cable free Disconnect the vaporizer heater cable from the connector on the front panel Leave the cable connected to the APCI flange To disconnect the cable pull back on the locking ring on the cable Disconnect the sample transfer line from the APCI probe Disconnect the sheath gas line from the APCI probe Disconnect the auxiliary gas line from the APCI probe CAUTION The APCI vaporizer heater can reach temperatures of 800 C Always allow the APCI probe to cool to ambient temperatures before handling it Loosen the two flange retainer bolts that secure the APCI probe assembly to the API spray shield Pull back the APCI probe assembly from the spray shield With one
163. pply Voltage V From toroidal transformer static 31 SUPPLIES 36V Supply Voltage V PS1 Harness RF PCB cable Sys Ctrl PCB static 38 SUPPLIES 150V Supply Voltage Xfrmr or Linear Supply Harness Sys Ctrl PCB Thermo 2uest Finnigan LCQpEcA Hardware Manual Troubleshooting L cQ Table A 4 Diagnostic details continued static 24 SUPPLIES 150V Supply Voltage Xfrmr or Linear Supply Harness Sys Ctrl PCB static 42 SUPPLIES 205V Supply Voltage Xfrmr or Linear Supply Harness Sys Ctrl PCB static 40 SUPPLIES 205V Supply Voltage Xfrmr or Linear Supply Harness Sys Ctrl PCB static 35 SUPPLIES Ambient Temp C AD592 on Sys Ctrl PCB both 17 not listed Tubegate V Tubegate Top Cover PCB cable Sys Ctrl PCB static 14 not listed Entrance Lens V Entrance Lens Top Cover PCB cable Sys Ctrl PCB static 05 not listed Multiplier DAC Electron Mult cable EM supply cable Sys Ctrl PCB A 10 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Index A accessory kit replaceable parts 6 14 Acquisition DSP PCB location figure 5 42 replacing 5 41 Analyzer Auxiliary PCB fuses replacing 5 32 fuses replacing CAUTION 5 30 replacing 5 46 Analyzer PCB replacing 5 46 anode electron multiplier description 1 11 replacing 5 22 APCI manifold location figure 4 20 APCI nozzle reinstalling 4 23 removing 4 23 APCI probe cleaning 4 23 disa
164. pump pump fails Frequency depends on analytical conditions ThermoC2uest Finnigan LCQpeca Hardware Manual Service Maintenance DECA Wie For instructions on maintaining LCs or autosamplers refer to the manual that comes with the LC or autosampler The topics included in this chapter are as follows e Tools and supplies e Frequency of cleaning e Cleaning the ion optics and mass analyzer e Replacing the electron multiplier e Diagnostics e Replacing a fuse e Replacing PCBs and Assemblies e Replacing the oil reservoir in the turbomolecular pump Note The keys to success with the procedures in this chapter are e Proceed methodically e Always wear clean lint free gloves when handling the components of the ion optics mass analyzer and ion detection system l e Always place the components on a clean lint free surface large lint free tissue whenever you remove the top cover plate of the l vacuum manifold l e Never overtighten a screw or use excessive force e Never insert a test probe for example an oscilloscope probe into the e Always cover the opening in the top of the vacuum manifold with a sockets of female cable connectors on PCBs 5 2 Finnigan LCQpECA Hardware Manual ThermoC2uest DECA Service Maintenance LC Q Tools and Supplies 5 1 Tools and Supplies The LCQDECA requires very few tools for you to perform maintenance procedures
165. r of the MS Detector on page 5 16 Close the front doors of the MS detector Restart the system as described in the topic Starting Up the System After a Complete Shutdown in the System Shutdown Startup and Reset chapter Run the LCQpeca diagnostics to verify that the system is operational Replacing PCBs in the Embedded Computer The Ethernet PCB P N 97000 60165 Acquisition DSP PCB P N 97000 61260 Control DSP PCB P N 97000 61270 Waveform DDS PCB P N 97000 61430 and CPU PCB P N 97044 60250 reside in the embedded computer See Figure 5 14 To replace a PCB in the embedded computer proceed as follows 1 Place the electronics service switch in the Service Position or shut down and vent the LCQpeca system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter CAUTION Make sure that the LCQpeca electronic service switch is in the Service Position or shut down the system and disconnect the power l cord before you proceed Open the front doors of the MS detector With a Phillips screwdriver loosen the two fasteners that hold the front cover to the embedded computer Remove the front cover of the embedded computer Locate the PCB you want to replace See Figure 5 14 Disconnect all electrical cables to the PCB that you want to replace With a Phillips screwdriver remove the screw that holds the PCB to the card cage Finnigan LCQpeca Hardwa
166. r posts Remove the exit endcap electrode from the analyzer posts Gg Co P Remove the two quartz spacer rings and the ring electrode EH Remove the entrance endcap electrode from the posts Unscrew and remove the two posts from the analyzer mount T Cleaning the lon Optics and Mass Analyzer Parts Use the following procedure to remove contamination from the ion optics and mass analyzer parts Clean each part in turn After cleaning place each part on a clean lint free surface Caution Take care not to chip scratch or break the spacer rings of the mass analyzer Take care not to bump or jar the quadrupole and octapole I Do not place the quadrupole or octapole in an ultrasonic cleaner Note When you clean the ion optics and mass analyzer parts pay particular attention to the inside surfaces 1 With a soft tooth brush or lint free swab scrub the ion optics or mass analyzer part with a solution of detergent and water 2 Rinsethe part with tap water to remove the detergent Rinse the part with distilled water 4 Place the part in a tall beaker and immerse it completely in HPLC grade methanol Move the part up and down in the methanol for 15 s Note Wear clean lint free nylon or cotton gloves to handle the parts after you clean them in methanol 5 10 Finnigan LCQpEcA Hardware Manual Thermo 2uest L cQ Service Maintenance Cleaning the lon Optics and Mass Analyzer Th
167. rd how far I the sample tube extends past the end of the APCI manifold The length I should be about 6 5 cm 2 5 in In the future sample tube replacement I does not require complete disassembly of the APCI probe just install the l fused silica tubing in the APCI manifold and cut it to the proper length Reassembling the APCI Probe Assembly To reassemble the APCI probe assembly proceed as follows 1 10 11 Unscrew and remove the APCI manifold from the APCI probe Be careful not to damage the sample tube Gently screw the vaporizer casing back into the vaporizer flange Reinstall the heater coil and quartz insulator into the vaporizer casing Use a Phillips screwdriver to reattach the electrical ground wire to the vaporizer flange Make sure that the flat side of the connector is against the vaporizer flange Reinstall the heater retainer and secure it with the socket head screw Reinstall the APCI probe minus the APCI manifold into the APCI flange Carefully slide the sample tube through the APCI flange through the sheath gas tube and out the APCI nozzle With one hand holding the vaporizer casing to keep the probe from turning screw the APCI manifold onto the APCI probe Rotate the APCI probe until the half moon of the heater retainer is oriented away from the tip of the corona discharge needle when the corona discharge needle is installed Tighten the probe retainer bolt to secure the APCI probe to the A
168. re 10 to 20 units The droplets in the mist then enter the vaporizer and the vaporizer flash vaporizes the droplets at temperatures up to 600 C Typical vaporizer temperatures are 450 to 550 C for most flow rates Refer to Table 1 2 for specific guidelines for LC APCI MS operation Table 1 2 Guidelines for LC APCI MS Operation LC Flow Rate LC at flow rates from Heated Capillary Vaporizer Sheath Gas Auxiliary Gas Temperature Temperature Typical setting Typical setting Required Not required but usually 150 to 225 C 400 to 550 C helps to reduce solvent 0 2 to 2 mL min Typical setting 50 to 100 units background ions Typical setting 0 to 20 units Thermo 2uest The sample vapor is swept toward the corona discharge needle by the flow of the sheath and auxiliary gases The corona discharge needle assembly is mounted on the APCI flange The assembly positions the tip of the corona discharge needle near the vaporizer A high potential typically 3 to 5 kV is applied to the corona discharge needle to produce a corona discharge current of up to 10 WA A typical value of the corona discharge current is 5 LA The corona discharge from the needle produces a reagent ion plasma primarily from the solvent vapor The sample vapor is ionized by ion molecule reactions with the reagent ions in the plasma APCI requires a constant source of electrons for the ionization process Thus the corona discharge current is set and reg
169. re Manual 5 41 Service Maintenance Q DECA Replacing PCBs and Assemblies LC d ETHERNET PCB j ACQUISITION DSP HE E m ad 5 1 G 4 uxo JE RER REPOSITIONING SLOT l i CONTROL DSP PCB Ta Zeg WAVEFORM DDS PCB CPU PCB REPOSITIONING SLOT Figure 5 14 Embedded computer with front cover removed 5 42 Finnigan LCQpECA Hardware Manual ThermoC2uest L cQ Service Maintenance 10 11 12 13 14 15 Replacing PCBs and Assemblies Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing Unseat the PCB from the backplane and pull it out of the embedded computer Unpack the new PCB Retain the packing materials so that you can pack and ship the defective PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms Seat the new PCB in the backplane With a Phillips screwdriver reinstall the screw that holds the PCB to the card cage Reconnect all electrical cables to the PCB that you replaced Reinstall the front cover of the embedded computer Tighten by hand the two fasteners that hold the front cover to the embedded computer Close the front doors to the MS detector Place the electronics service switch in the Operating Position Run the LCQpeca diagnostics to verify that the system is operational Replacing
170. re the ESI probe assembly to the slide adapter with the knurled fastener that is located on the underside of the slide adapter Push the ESI probe assembly against the spray shield Secure the ESI flange to the spray shield with the two flange retainer bolts Connect the sheath gas line and blue fitting to the inlet labeled Sheath Gas on the ESI probe Connect the auxiliary gas line and green fitting to the inlet labeled Aux Gas on the ESI probe Connect the sample transfer line to the grounded fitting If you are using sheath liquid connect the sheath liquid line and fitting to the inlet labeled Sheath Liquid on the ESI probe If you are not using sheath liquid ensure that the white 1 4 28 Tefzel plug P N 00101 18075 is screwed in the sheath liquid inlet on the ESI probe The Tefzel plug should be fingertight Do not overtighten the plug Connect the high voltage power cable to the connector labeled HV on the ESI probe Turn the locking ring on the cable clockwise to secure the cable 2 2 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Changing ESI or APCI Probe Assemblies Removing the ESI Probe Assembly Thermo 2uest 2 2 Removing the ESI Probe Assembly To remove the ESI probe assembly proceed as follows 1 10 11 Stop the flow of sample solution from the LC or syringe pump into the ESI probe If necessary stop the flow of sheath liquid into the ESI source Disconnect the
171. re written as superscripts In the corresponding online Help exponents are written with a caret or with e notation because of design constraints in the online Help For example MS n in the online Help 10 5 in the online Help ThermoC2uest L cQ Read This First Typographical Conventions ThermoC2uest Typographical Conventions Typographical conventions have been established for ThermoQuest LC and LC MS Division manuals for the following e Data input e Notes Cautions and CAUTIONS e Topic headings Data Input Throughout this manual the following conventions indicate data input and output via the computer e Prompts and messages displayed on the screen are represented in this manual by capitalizing the initial letter of each word and italicizing each word e Input that is to be entered by keyboard or buttons that are to be clicked on by the mouse is represented in bold face letters Titles of topics chapters and manuals also appear in bold face letters e For brevity expressions such as choose File Directories are used rather than pull down the File menu and choose Directories e Any command enclosed in angle brackets lt gt represents a single keystroke For example press lt F1 gt means press the key labeled F7 e Any command that requires pressing two or more keys simultaneously is shown with a hyphen connecting the keys For example press lt Shift gt lt F
172. ringe Control PCB System Control PCB Select Status View in Tune Plus Scroll to SYRINGE PUMP STATUS Start syringe pump in Tune Plus ThermoC2uest Finnigan LCQpEcA Hardware Manual A 8 L cQ Troubleshooting Table A 4 Diagnostic details Test Type in Readback Instrument Device Name Signal Potential Repair Path Diagnostics Device Status Static Both Number Static and Dynamic static 22 SOURCE Discharge Voltage kV APCI probe cables 8kV PS cable Sys Ctrl PCB static 21 SOURCE Discharge Current pA APCI probe cables 8kV PS cable Sys Ctrl PCB static 29 SOURCE APCI Vaporizer Temp APCI probe vaporizer heater cables Sys Ctrl PCB static 22 SOURCE Spray Voltage kV ESI probe cables 8kV PS Sys Ctrl PCB static 21 SOURCE Spray Current uA ESI probe cables 8kV PS Sys Ctrl PCB both 19 SOURCE Sheath Gas Flow Rate Flow valve assy cable I O PCB cable Sys Ctrl PCB both 20 SOURCE Aux Gas Flow Rate Flow valve assy cable I O PCB cable Sys Ctrl PCB both 23 SOURCE Capillary Voltage Capillary assy cable Sys Ctrl PCB static 28 SOURCE Capillary Temp Capillary heater assy cable Sys Ctrl PCB static 09 VACUUM lon Gauge 10E 5 Torr lon Gauge cable Sys Ctrl PCB static 11 VACUUM Convectron gauge Torr Convectron Gauge cable Sys Ctrl PCB both 30 ION OPTICS Octapole 1 Offset V Octapole 1 Top
173. rio eo arena epe essees n ine b o eoe Egee 96000 61090 Fuse 0 50 A 5 x 20 mm 250 V quick acting F2 sss 00006 07608 Fuse 1 00 A 5 x 20 mm 250 V quick acting OI 00006 07610 PCB RF Voltage Control 96000 61100 PCB Syringe P rmp s EEN ERE MERE GRE N MEM RENE MEME NEE bi letets big 97000 61410 PCB System Control sssssscscccsssssssssssscccscsssssssssscccsssssssssssssccsssscsssssssscsssees 97044 61010 Fuse 0 16 A 5 x 20 mm 250 V time lag F1 PA 00006 01700 Fuse 0 25 A 5 x 20 mm 250 V time lag OI 00006 11204 Fuse 0 40 A 5 x 20 mm 250 V time lag F8 F9 00006 05080 Fuse 2 50 A 5 x 20 mm 250 V GepeEPOoi skeno n irse 00006 11202 Fuse 2 50 A 5 x 20 mm 250 V time lag OHIO 00006 09510 Fuse 3 15 A 5 x 20 mm 250 V time lag F5 00006 10510 Finnigan LCQpEcA Hardware Manual ThermoC2uest Qui Replaceable Parts Le MS Detector PCB Vent Delay lt i scscscccsccssesesesesesesecssedesesnsnsececesedssegesasosesesssssesssadesesesssssssesesesesssss 97000 61370 Battery 7 2 V nickel cadmium sees eene 00301 05720 PCB Waveform Amplifier sese 96000 61110 RF Control Detection Assemblies Assembly RE RT EE 97000 60141 Assembly RF detec tO 25 52 EE soi bool e EEUU teo EE etsi SE epo coe e coe 97000 60078 Assembly RF plate ceramic eene nennen 97000 60133 Connector coax BNC bulkhead jack RUN 00004 33000 EE detector lid housing i iiine f
174. rrow end of a new cathode P N 00022 02400 first through the spring washer and then through the high voltage ring f Place the electron multiplier shield over the wide end of the cathode such that the screw holes in the electron multiplier shield are aligned with the screw holes in the high voltage ring g Hold the high voltage ring and electron multiplier shield together to depress the spring washer Secure the high voltage ring to the electron multiplier shield by using the two Phillips head screws The cathode should be held in place between the high voltage ring and the electron multiplier shield h Insert the end of the high voltage tube in the electron multiplier feedthrough in the top cover plate Reattach the high voltage ring to the support plates by inserting the two screws in the sides of the high voltage ring into the notches in the two support plates Tighten the two Phillips head screws that secure the high voltage ring to the two support plates Reinstall the top cover plate of the vacuum manifold over the opening in the vacuum manifold as described in the topic Reinstalling the Top Cover Plate of the Vacuum Manifold on page 5 15 Finnigan LCQpECA Hardware Manual 5 25 Service Maintenance Replacing the Electron Multiplier 5 26 L cQ 12 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 13 Start up the LCQpEca system as des
175. rsion dynode power supply Analyzer PCB Analyzer Auxiliary PCB Waveform Amplifier PCB RF Voltage Amplifier PCB or battery battery backup proceed as follows 1 Place the electronics service switch in the Service Position or shut down and vent the LCQpeca system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter CAUTION Make sure that the LCQpsca electronic service switch is in the Service Position or shut down the system and disconnect the power I cord before you proceed 2 Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 e To replace the electron multiplier power supply and the conversion dynode power supply go to step 3 e To replace the Analyzer PCB go to step 4 e To replace the Analyzer Auxiliary PCB go to step 5 e To replace the Waveform Amplifier PCB go to step 6 e To replace the RF Voltage Amplifier PCB go to step 7 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Service Maintenance Replacing PCBs and Assemblies 3 To replace the electron multiplier power supply and or the conversion dynode power supply proceed as follows See Figure 5 15 on page 5 44 for the location of the electron multiplier and conversion dynode power supplies a Disconnect the conversion dynode high voltage cable at the conversion dynode feedthrough by pulling it free fr
176. s within the instrument and indicate whether the circuits pass or fail the tests If there is a problem with the instrument electronics the LCQpeca diagnostics can often locate the problem You can then often correct the problem by replacing a faulty PCB or assembly The LCQpeca diagnostics does not diagnose problems that are not electrical in nature For example it does not diagnose poor sensitivity due to misaligned or dirty components or to improper tuning Therefore it is important to have someone who is familiar with system operation and basic hardware theory run the diagnostics and use it to assist in isolating any problems Before running the diagnostics consider the following e Did the system fail when you were running samples e Did problems occur after you performed maintenance on the instrument data system or peripherals e Did you change the system s configuration cables or peripherals just before the problem occurred If the answer is yes to the first item above there is the possibility of a hardware failure and running the diagnostics is appropriate If the answer is yes to one of the last two items above the problem is probably mechanical not electrical Verify that alignment configurations and cable connections are correct before you run the LCQDECcA diagnostics To run the LCQpeca diagnostics proceed as follows 1 Tune the ring electrode and quadrupole octapole RF voltages as described in the topic Tuni
177. set the LCQDEcA tune and calibration parameters to their default values proceed as follows In the Tune Plus window choose File Restore Factory Calibration to restore the default calibration parameters or choose File Restore Factory Tune Method to restore the default tune parameters due to improper API source settings spray voltage sheath and auxiliary Note Make sure that the problems that you might be experiencing are not gas flow heated capillary temperature etc before resetting the system parameters to their default values Finnigan LCQpECA Hardware Manual 3 9 System Shutdown Startup and Heset L cQ Turning Off Selected MS Detector Components 3 10 3 7 Turning Off Selected MS Detector Components There are five ways that you can turn off some or all of the MS detector components Turn off individual MS detector components from the Tune Plus window Turning off individual MS detector components may be necessary when you are troubleshooting or when you are running certain diagnostic procedures Place the MS detector in Standby condition Standby is the normal condition to leave the MS detector in when it is not in use Choose Control Standby or toggle the On Standby button from the Tune Plus window to place the MS detector in Standby condition Place the MS detector in the Off condition The Off condition is similar to Standby condition except all high voltage components of the MS
178. spheric pressure region also called the spray chamber of the API source The APCI flange mounts on rails that allow movement of the flange toward and away from the vacuum manifold for easy servicing Two flange retainer bolts hold the flange in place against the spray shield of the API stack When the APCI flange is in the operating position against the spray shield it compresses the high voltage safety interlock switch The APCI probe ionizes the sample by atmospheric pressure chemical ionization The APCI probe accommodates liquid flows of 100 uL min to 2 mL min without splitting Thermo 2uest Finnigan LCQpEcA Hardware Manual L cQ Functional Description API Source The APCI probe includes the APCI sample tube nozzle sheath gas and auxiliary gas plumbing and vaporizer Sample and solvent enter the APCI nozzle through the sample tube The sample tube is a short section of 0 15 mm ID fused silica tubing that extends from the sample inlet to 1 mm past the end of the nozzle The manifold houses the APCI nozzle and includes the sheath gas and auxiliary gas plumbing The APCI nozzle sprays the sample solution into a fine mist The sheath gas and auxiliary gas plumbing deliver dry nitrogen gas to the nozzle Typical sheath gas flow rates for APCI are 60 units for sample flow rates of 100 L min 80 units for sample flow rates of 1 mL min and 85 units for sample flow rates of 2 mL min Typical auxiliary gas flow rates for APCI a
179. ss PFA 15 ft 4 5 m l 00101 50100 Tubing fused silica 0 150 mm ID x 0 390 mm OD 2 ft 0 6 m l 00106 10498 Tubing fused silica 0 050 mm ID x 0 190 mm OD 6 ft 1 8 m 00106 10502 Tubing fused silica 0 1 mm ID x 0 4 mm OD deactivated 3 ft 1 m 00106 10504 Tubing fused silica 0 1 mm ID x 0 190 mm OD 6 ft 1 8 m I 00106 10499 Tubing PVC unreinforced clear 3 8 in ID 10 ft Om 00301 22895 Tubing PEEK red 0 005 in ID x 1 16 in OD 5 ft 1 5 m Lowes 00301 22912 Wrench Allen Hex 1 4 in ball point eee 00725 00022 Recommended Spares Battery 7 2 V mckel7 cadmium wis ana eR AR ta tes 00301 05720 Bushing snap 1 75 in diameter white plastic seeeseseese 00201 19081 De ring filter DOK oo eerte Ttt temen 97000 98004 IS ssi seri Oeo shat cts shot ose esc Cose ie ice Cie Cod oh Cres Ne 97000 20298 EaticI00 ctm 24 Vds secret sta RL 00013 00243 Ram Elton estie Eege 97000 62021 IOS ET EE 97000 20299 Emger Guard EE 00007 18600 Fitting Swagelok bulkhead union 1 8 in x 1 8 in stainless steel 00101 02102 Foot DUMPET E c cc cU 00007 18115 Fuse 0 16 A 5 x 20 mm 250 V time lag 00006 01700 Fuse 0 25 A 5 x 20 mm 250 V time lag 00006 11204 Fuse 0 40 A 5 x 20 mm 250 V time lag 00006 05080 Fuse 0 50 A 5 x 20 mm 250 V quick acting ssss
180. ssees 70005 60105 Bulkhead nut corona e EE 70005 20227 Compression nut corona be 70005 20226 Connector receptacle HV buede 00004 89626 Contacting socket Best eer 70001 30016 Corona tube APCL voice iii rrt sech tva dE ea va eee e va v NEE eo 70005 20225 Needle housing corona be 70005 20296 Needle COLONA thm n tto e EET IR TT 70005 98033 O ring 0 176 in ID 1 16 in thick Viton essere 00107 02575 Resistor fixed carbon composite 1 4 W 22 MQ ag 00015 27820 Screw set socket 2 56 x 1 16 in stainless steel 00451 08025 Spring contacting corona Die 70005 20228 Spring compression stainless steel 00201 11523 Screw thumb APCI probe retainer bot 97000 20268 Screw thumb API flange retainer bot 97000 20304 API Probe Guide Kat Guide APTE Probe ener erre eere ee eere eee Ro eoe eR ERO RIO sesesecesesesecescsesecescsssesess 97000 62009 Adapter slide API probe ertt tte ee 97000 20270 Guide API probe flange css 97000 20232 O ring 0 237 in ID 0 103 in thick Von 00107 12250 O ring 0 296 in ID 0 139 in thick Von 00107 04210 NICI AE IEN 97000 20285 Screw pan head Phillips 6 32 x 1 2 in stainless steel 00415 63208 Screw thumb 1 2 in x 20 UNC API probe cece ceceeccccceeeeeeeesnneeeeeeeeeeeees 97000 20286 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Replaceable Parts MS Detector Shaft left APT side 97000 20261 Kit API Micro MER e
181. ssembling 4 22 flushing 4 5 maintenance 4 20 nozzle 1 5 reassembling 4 26 reinstalling 4 27 removing 4 22 vaporizer temperature 1 5 APCI probe assembly changing 2 1 corona discharge needle 1 5 description 1 4 disassembling 4 22 flange 1 4 installing 2 4 reassembling 4 26 removing 2 5 replaceable parts 6 3 APCI probe assembly figure 1 6 APCI sample tube installing 4 24 length 4 26 removing 4 24 replacement note 4 26 replacing 4 20 APCI source on off status table 3 11 3 12 opening with MS detector on CAUTION 4 6 4 7 API probe assembly changing between ESI and APCI 2 1 flange retainer bolts 1 2 API probe guide replaceable parts 6 4 Thermo 2uest API source APCI probe assembly 1 4 API stack 1 6 maintenance overview 4 5 on off status table 3 11 3 12 opening with MS detector on CAUTION 4 6 4 7 safety interlock switch 1 2 API stack cleaning 4 27 4 31 description 1 6 disassembling 4 30 heated capillary 1 6 heated capillary mount 1 7 heated capillary replacing 4 27 maintaining 4 27 reassembling 4 32 reinstalling 4 33 removing 4 28 replaceable parts 6 5 skimmer 1 7 spray shield 1 6 tube lens 1 7 tube lens and skimmer mount 1 7 assemblies electrical replaceable parts 6 9 mechanical replaceable parts 6 9 vacuum system replaceable parts 6 8 AT box See embedded computer auxiliary gas description 1 3 flow rates APCI
182. ssssseeeeeeeeee 00006 07608 Fuse 1 00 A 5 x 20 mm 250 V quick acting 0 eceeeesceecceeeeeeeeenneeeeeeeeeeeeenaaees 00006 07610 Fuse 1 60 A 5 x 20 mm 250 V quick acting ssssseeeeeeenee 00006 08610 Fuse 2 50 A 5X 20 mm 250 V Type E serere terret oet terree 00006 11202 Fuse 2 50 A 5x 20mm 250 V time lag iis eee ether eerte eet e eere t eee c 00006 09510 Fuse 3 15 A 5 x 20 mm 250 V time lag esses eene eene 00006 10510 Hinze open LO degree nose a abo ab aab npn pes 00250 08003 Nut hex KEP 6 32 cadmium plated essere 00460 16321 Nut hex KEP 8 32 stainless steel 00461 28320 Plug 1 75 in diameter white nylon sse 00201 20500 Pump oil turbomolecular reservoir felt TPH 240 00950 01116 ThermoC2uest Finnigan LCQpEcA Hardware Manual 6 15 Replaceable Parts Q DECA Divert Inject Valve Accessories amp Optional Tools LE Pump oil rotary vane vacuum pump IL 00301 15101 Screw pan head Phillips 6 32 x 1 3 4 in zinc plated 00405 63228 Screw pan head Phillips 6 32 x 1 2 in stainless steel 00415 63208 Screw pan head Phillips 6 32 x 1 4 in stainless steel 00415 63204 Screw pan head Phillips 6 32 x 3 8 in stainless steel 00415 63206 Screw pan head slot 2 56 x 1 4 in stainless steel 00414 25604 Screw pan head slot 6 32 x 1 4 in cadmium plated 00404 63204 St d ball 6 32 5 0 375 In iiideset
183. st Finnigan LCQpEcA Hardware Manual 4 23 User Maintenance API Source Maintenance 4 24 L cQ Removing the APCI Sample Tube To remove the APCI sample tube from the APCI manifold proceed as follows 1 With a 3 8 in open end wrench remove the sample tube inlet fitting P N 70005 20250 0 239 in ID O ring P N 00107 04000 and sample tube from the APCI manifold Discard the old sample tube See Figure 4 4 Remove the exit end nut P N 70005 20220 0 016 in ID PEEK ferrule P N 00101 18120 and sample tube from the sample tube inlet fitting Installing the APCI Sample Tube To install a new APCI sample tube proceed as follows 1 10 Use a fused silica cutting tool to cut a piece of 150 um ID 390 um OD fused silica tubing P N 00106 10498 to a length of approximately 15 em 6 in Ensure that you squarely cut the ends of the fused silica tubing Slide the exit end nut P N 70005 20220 and ferrule P N 00101 18120 onto the length of the fused silica tubing See Figure 4 4 Check the condition of the 0 239 in ID O ring P N 00107 04000 on the sample tube inlet fitting Replace it if necessary Insert the fused silica tubing into the sample tube inlet fitting Slide the exit end nut and ferrule down the fused silica tubing and into the sample tube inlet fitting Tighten the exit end nut to secure the new sample tube fused silica tubing Gently slide the sample tube through the samp
184. stainless steel 00108 09001 Hose adapter 25 mm ge norte teva ceed ope ert ete epos 00108 09005 Hose PVC reinforced 1 0 in ID 1 25 in OD 00301 24141 Union duo forelines 90 degree essere 97000 20294 Union triple forelines esses eene 97000 20283 Vacuum hardware clamp KF 20 25 steel 00102 10070 Finnigan LCQpEcA Hardware Manual ThermoC2uest DECA Replaceable Parts Wie MS Detector Assembly Helium Inlet ee etse uge 97000 60137 Ferrule 1 8 in to 0 4 mm graphite Nespel 00101 18115 Fitting Swagelok bulkhead union 1 8 in x 1 8 in brass 00101 02101 Fitting Swagelok plug 1 8 in FPT bass 00101 02210 Regulator 0 10 psi 1 8 in NPT stainless steel 00105 03010 Tubing fused silica 0 075 mm ID 0 67 ft 0 2 m eee 00106 10520 Tubing Teflon 0 125 in OD 0 030 in width FEP esee 00101 50000 Kit DE OTTEN 97000 62005 Adapter pump manifold 1 0 in hose to wall 97000 20215 Convectton M E 00105 00501 O ring 0 862 in ID 0 103 in thick Non 00107 15350 Ribbon dope 1 4 in esses eene enne eren nienia niatie hiat 00301 16501 Screw pan head Phillips 6 32 x 1 1 2 in stainless steel 00425 63224 Kit Lid Manifold eese eee eee sees ee eee sees nets aae eta set ena sets estes ouise 97000 62006 Manifold lid rent eran chin than tian anaes
185. supplies P3 RF control P8 LC T O P4 Switching power supplies J2 APCI heater J4 Transformer XMFR P1 High speed serial P6 backside of PCB 8 kV power supply J5 backside of PCB 13 Reinstall the protective cover over the System Control PCB as follows a Insert the protective cover into the guide slots on the MS detector chassis and push the cover down until it is seated With Phillips screwdriver tighten the five screws that hold the protective cover to the MS detector chassis 14 Reinstall the right side cover of the MS detector as follows a Place the cover against the right side of the MS detector such that the studs on the cover insert into the guide slots on the System Control PCB protective cover Slide the side cover forward about 1 2 cm 0 5 in until the studs on the cover lock in the guide slots Tighten by hand the fastener that secures the side cover to the chassis of the MS detector 15 Reinstall the top cover of the MS detector as described in the topic Reinstalling the Top Cover of the MS Detector on page 5 16 16 Place the electronics service switch in the Operating Position 17 Run the LCQpeca diagnostics to verify that the system is operational Finnigan LCQpECA Hardware Manual 5 53 Service Maintenance Q DECA Replacing PCBs and Assemblies LC Replacing the RF Voltage Control PCB To replace the RF Voltage Control PCB and its housing proceed as follows See
186. switch is in the Service Position or shut down or shut down the system and disconnect I the power cord before you proceed Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 Remove the right side cover of the MS detector as follows a Loosen the fastener that secures the right side cover to the chassis of the MS detector b Slide the side cover back about 1 2 cm 0 5 in and then pull it out and away from the MS detector Remove the System Control PCB protective cover as follows a With Phillips screwdriver loosen the five screws that hold the protective cover to the MS detector chassis b Pull the cover up and out of the guide slots on the MS detector chassis Finnigan LCQpEcA Hardware Manual 5 51 Service Maintenance Q DECA Replacing PCBs and Assemblies LC 5 Disconnect all cables to the System Control PCB The following cables are connected to the System Control PCB e on gauge Convectron gauge P9 e Front panel P2 e Analyzer J3 e Spray shield J6 e RFand waveform amplifiers P12 e Analyzer Aux P5 e Electron multiplier conversion dynode power supplies P3 e RF control P8 e LCI O P4 e Switching power supplies J2 e APCI heater J4 e Transformer XMFR P1 e High speed serial P6 backside of PCB e 8 kV power supply J5 backside of PCB 6 With a Phillips screwdriver loosen the eight fasteners
187. t On Off Off Off Corona discharge needle of of Off Off APCI vaporizer Off Off Off Off ESI needle of of Of Of Sheath gas Off Off Off Off Auxiliary gas of of Off Off Helium damping gas On On On On Vent valve Closed Closed Closed Open after 30 s Turbomolecular pump On On On Off Rotary vane pump On On On Off Vent Delay PCB On On On Off after 30 s Embedded computer On On Off Off Turbomolecular Pump On On On Off Controller Power supply electron Off Off Off Off multiplier Power supply conversion Off Off Off Off dynode Power supply 8 kV of of Off Off Power supply 5 15 24 V On On Off Off dc switching Power supply 36 28 V dc On Off Off Off switching Thermo 2uest Finnigan LCQpEcA Hardware Manual 3 11 System Shutdown Startup and Reset Turning Off Selected MS Detector Components L cQ Table 3 1 On Off status of MS detector components voltages and gas flows continued Power supply 24 V dc keep On On On Off alive Power supply 180 V dc On On Off Off Power supply 150 V dc On Off Off Off Power supply 36 V dc On Off Off Off Power supply 20 V dc On On Off Off Power supply 205 V dc On Off Off Off Power supply 24 V ac On On Off Off Power supply 4 V ac On On Off Off Fan turbomolecular pump On On On Off Fan RF
188. t free from the heated capillary mount Detach the skimmer from the tube lens and skimmer mount by pushing on its lead pin Detach the tube lens from the tube lens and skimmer mount by pushing the tube lens away from the skimmer mount Unscrew the locking ring on the heated capillary cable Then disconnect the heated capillary cable from the connector on the connector retainer Loosen the heated capillary mount from the spray shield by turning it counterclockwise Use a wrench if necessary Remove the heated capillary heated capillary sleeve heated capillary mount 0 299 in ID O ring and bushing by pushing the heated capillary out of the spray shield from the atmospheric pressure side Pull the heated capillary sleeve and 0 299 in ID O ring off the end of the heated capillary 10 Pull the heated capillary out of the heated capillary mount Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ThermoC2uest Cleaning the API Stack Components Inspect the API stack components for contamination that results from routine use If dirty clean the API stack components as described in the following topics Cleaning the tube lens Cleaning the skimmer Cleaning the heated capillary Cleaning the spray shield Note Solvents required for cleaning the API stack components For most cleaning applications HPLC grade methanol is the solvent of choice However the use of
189. tack e Ion optics e Mass analyzer e Ion detection system electron multiplier conversion dynode e Top cover plate of vacuum manifold e Divert inject valve e Syringe pump e Turbomolecular pump e Rotary vane pumps e Vacuum system assemblies e Mechanical assemblies e Electrical assemblies e Printed circuit boards PCBs e RF control detection assemblies e Cables e Covers ESI Probe Assembly Assembly ESI E 97044 60110 Connector receptacle HV buede 00004 89626 Container ESI and APCI probes eene 00707 10030 Ferrule 0 008 in ID KEL F HPLC eerte 00101 18114 Ferrule 0 016 in ID PEEK polyetheretherketone HPLC 00101 18120 Ferrule 0 027 in ID PEEK HP 00101 18119 Fitting HPLC adapter 10 32 x 1 4 in KEL F eseeeeeeeeee 00101 18080 Fitting finger nut HPLC 10 32 DEER 00101 18081 Fitting ferrule 1 8 in B E EEN 00101 18199 Fitting Fingertight 2 Upchurch AA 00101 18195 Fitting flangeless stainless steel 1 8 in blue Delne co an lon ln 00101 18200 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Replaceable Parts MS Detector Fitting flangeless stainless steel 1 8 in green Delrin Fitting transfer line internal union 1 16 in stainless steel Fitting plug 1 4 in x 28 Tefzel HPLC esses Flange RE sessanta hen ee Ana teste tek Ee RE er
190. tage tube and with the other hand hold the electron multiplier support Then detach the high voltage tube from the high voltage feedthrough in the top cover plate and remove the electron multiplier as a unit The anode remains in the anode feedthough in the top cover plate See Figure 5 10 Remove the anode from the anode feedthrough by unscrewing it counterclockwise by hand Install a new anode P N 96000 20076 in the anode feedthrough in the top cover plate by screwing it clockwise by hand If you want to replace the entire electron multiplier install a new electron multiplier P N 96000 60036 in the next step If you want to replace only the cathode install the old electron multiplier in the next step ThermoC2uest Caution Be careful not to damage the surface of the electron multiplier shield The electron multiplier shield has been electropolished to prevent field emission Finnigan LCQpECA Hardware Manual 5 23 Service Maintenance Replacing the Electron Multiplier L cQ ELECTRON MULTIPLIER SHIELD CATHODE SUPPORT PLATE ES HIGH VOLTAGE RING A ARN HIGH VOLTAGE TUBE Figure 5 10 Electron multiplier exploded view assembled view top cover view 5 24 ELECTRON MULTIPLIER ASSEMBLED Finnigan LCQpeca Hardware Manual ELECTRON MULTIPLIER HIGH VOLTAGE ANODE FEEDTHROUGH BL ELECTRON MULTIPLIER TOP COVER Thermo 2uest L cQ Service Maintenance Replacing the Elec
191. th the background gas aid in the desolvation of the ions and increases sensitivity If the tube lens offset voltage is too high however collisions with the background gas can be energetic enough to cause the ions to fragment This fragmentation called ion source collision induced dissociation CID decreases sensitivity When you tune the LCQDECA you adjust the tube lens offset voltage to maximize sensitivity by balancing desolvation with fragmentation The tube lens also serves as a gate to stop the injection of ions into the mass analyzer during ion detection A potential of 200 V is used to deflect positive ions away from the opening in the skimmer and a potential of 200 V is used to deflect negative ions away from the opening in the skimmer Ions from the tube lens pass through the skimmer and enter the ion optics region The skimmer acts as a vacuum baffle between the higher pressure capillary skimmer region at 1 Torr and the lower pressure ion optics region at 10 Torr of the vacuum manifold The skimmer is at ground potential The bore of the heated capillary is mechanically offset with respect to the opening in the skimmer to reduce the number of neutral molecules and large charged particles that pass through the skimmer which might create detector noise The heated capillary mount screws into the spray shield on the capillary skimmer region side The tube lens and skimmer mount attaches to the heated capillary mount The tube
192. the packing materials so that you can pack and ship the defective Turbomolecular Pump Controller to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms f Install the new Turbomolecular Pump Controller in the space occupied by the old controller Finnigan LCQpECA Hardware Manual 5 39 Service Maintenance Q DECA Replacing PCBs and Assemblies LC g Tighten by hand the fastener that holds the Turbomolecular Pump Controller to the tower h Reconnect to the Turbomolecular Pump Controller the thin cable that comes from the Power Module i Reconnect to the Turbomolecular Pump Controller the thick cable that goes to the turbomolecular pump Go to step 7 6 To replace the 8 kV power supply proceed as follows a Disconnect from the 8 kV power supply the cable that comes from the API panel b Disconnect from the rear of the System Control PCB at J5 the thick cable that goes to the System Control PCB c Loosen by hand or with a Phillips screwdriver the fastener that holds the 8 KV power supply to the tower d Remove the 8 kV power supply from the tower e Unpack the new 8 kV power supply P N 97000 60142 Retain the packing materials so that you can pack and ship the defective 8 kV power supply to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms f Reinstall the new 8 kV power supply
193. tion figure 5 60 functional description mass analyzer 1 10 fused silica sample tube ESI reinstalling 4 14 fused silica sample tube installing 4 14 fuses MS detector Analyzer Auxiliary PCB 5 32 replacing 5 30 replacing CAUTION 5 30 RF Voltage Amplifier PCB 5 32 System Control PCB 5 32 table 5 31 G ground wire APCI probe location figure 4 20 guidelines LCQDECA operation table 1 4 1 5 H hardware data system replaceable parts 6 13 heated capillary bore clearing 4 7 Finnigan LCQpeca Hardware Manual Hl L cQ Index cleaning 4 31 Communication LED MS detector reset 3 8 description 1 6 Communication LED MS detector startup 3 6 flushing 4 6 Power LED MS detector reset 3 8 on off status table 3 11 3 12 positioning note 4 33 replacing 4 27 heated capillary mount description 1 7 heater coil APCI probe location figure 4 20 I interoctapole lens description 1 9 on off status table 3 11 3 12 voltages 1 9 interoctapole lens lead location figure 5 8 ion detection system cleaning 5 15 conversion dynode 1 11 description 1 11 electron multiplier gain 1 11 electron multiplier voltage setting 5 26 electron multiplier checking 5 22 electron multiplier description 1 11 electron multiplier replacing 5 22 on off status table 3 11 3 12 replaceable parts 6 6 ion gauge on off status table 3 11 3 12 replacing 5 43 ion optics cleaning 5
194. tron Multiplier ThermoC2uest 10 11 With one hand holding the high voltage tube and the other hand holding the electron multiplier support install the electron multiplier on the top cover plate Ensure that the high voltage tube is properly inserted in the high voltage feedthrough and that the screw holes in the electron multiplier support are aligned with the screw holes in the top cover plate Reinstall the two socket head screws that secure the electron multiplier support to the top cover plate Tighten the screws with an Allen wrench e Ifyou installed a new electron multiplier in step 8 go to step 11 e Ifyou want to replace the cathode go on to the next step To replace the cathode proceed as follows See Figure 5 10 a With a Phillips screwdriver loosen but do not remove the two screws that secure the support plates to the high voltage ring b With one hand hold the high voltage tube With the other hand hold the high voltage ring Then detach the high voltage tube from the high voltage feedthrough and remove the electron multiplier Place it on a clean surface The electron multiplier support and the support plates should remain attached to the top cover plate c Turn the assembly over With a Phillips screwdriver remove the two screws that secure the electron multiplier shield to the high voltage ring d Remove the electron multiplier shield and cathode from the high voltage ring e Insert the na
195. ts that are introduced into the system Maintenance procedures are provided below to do the following e Flushing the sample transfer line sample tube and API probe e Cleaning the spray shield and the heated capillary e Cleaning the bore of the heated capillary e Maintaining the ESI probe e Maintaining the APCI probe e Maintaining the API stack CAUTION AVOID EXPOSURE TO POTENTIALLY HARMFUL MATERIALS Always wear protective gloves and safety glasses when I you use solvents or corrosives Also contain waste streams and use proper ventilation Refer to your supplier s Material Safety Data Sheets MSDS I for procedures that describe how to handle a particular solvent Flushing the Sample Transfer Line Sample Tube and API Probe You should flush the sample transfer line sample tube and API probe at the end of each working day or more often if you suspect they are contaminated by flowing a 50 50 methanol distilled water solution from the LC through the API source To flush the sample transfer line sample tube and API probe proceed as follows 1 Make sure that the API flange is secured to the spray shield by the two flange retainer bolts 2 Letthe solution flow through the sample transfer line sample tube and API probe for 15 min After 15 min turn off the flow of liquid from the LC to the API source Leave the API source including the APCI vaporizer sheath gas and auxiliary gas on for an additional 5 min F
196. tte encnanenenanamenenenameenenemedanemem 97000 20338 Sleeve entrance lens asnanananehanohanehan ah ena e E TR 97044 20002 Sleeve exit lens eege 97044 20001 Spacer TNS ue re pee ee e p P e EL AA ELLE LEER 97000 20302 Spring washer 0 33 in ID 0 49 in OD stainless steel 00474 11618 Tubing Teflon 14 gauge 0 016 in wall thickness eene 00007 94320 lon Detection System Electron Multiplier Conversion Dynode Disk shield dyn de 5 1 e e tete elas et ee te Nahe abe ee 97000 20263 Kl Eelere 97000 20210 Kit Conversion Dy nde sesgegtueksgeeeg ege EkeeeeeeCeee kees eege Cheese Geess gkgeee 97000 62085 Eeedthrougb dynode 2 eg 2 eR Ret 97000 60171 O ring 1 37 in ID 0 103 in thick Viton sess 00107 10400 Screw pan head Phillips 6 32 x 1 2 in stainless steel 00415 63208 Spring coil 1 358 in ID 0 083 in height seeeeee 00201 11680 Tube shield dynode soc codice ebe Eeer EC ENEE 97000 20275 Kit Electron Multipliers sssri esee nitro aee ay en Ye ea Fue a unas pon a lone suya nao poeni anu 96000 62019 Anode electron multiplier 1 2 oo eoo DES EE E ek 96000 20076 Eeedthrough HV eege 96000 20073 Feedthrough electron multiplier eene 96000 20072 O ring 0 375 in ID 0 103 in thick Viton eese 00107 07000 L cQ Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ Replaceable Parts MS Detector O ring 0 688
197. tup and Reset Q DECA Shutting Down the System in an Emergency LC 3 1 Shutting Down the System in an Emergency If you need to turn off the MS detector in an emergency place the main power circuit breaker switch located on the power panel on the right side panel of the MS detector in the Off O position See Figure 3 1 This turns off all power to the MS detector including the vacuum pumps Although removing power abruptly will not harm any component within the system this is not the recommended shutdown procedure to follow Refer to the topic Shutting Down the System Completely for the recommended procedure To turn off the LC autosampler and computer in an emergency use the on off switches on the LC autosampler and computer respectively ELECTRONICS MAIN POWER CIRCUIT RESET BUTTON SERVICE SWITCH BREAKER SWITCH Figure 3 1 Power panel showing the Reset button electronics service switch and the main power circuit breaker switch 3 2 Finnigan LCQpEcA Hardware Manual ThermoC2uest L cQ ThermoC2uest System Shutdown Startup and Reset Placing the System in Standby Condition 3 2 Placing the System in Standby Condition The LCQDECA system does not need to be shut down completely if you are not going to use it for a short period of time such as overnight or over weekends When you are not going to operate the system for 12 hours or more you can leave the system in a Standby condition Use the follow
198. ulated The potential applied to the corona discharge needle varies as needed to provide the required current Finnigan LCQpeca Hardware Manual 1 5 Functional Description ek API Source Le APCI FLANGE FLANGE RETAINER BOLT PROBE RETAINER BOLT APCI PROBE Figure 1 2 APCI probe assembly API Stack The API stack consists of the components of the API source that are held under vacuum except for the atmospheric pressure side of the spray shield The API stack includes the spray shield heated capillary tube lens skimmer heated capillary mount and tube lens and skimmer mount The same API stack is used for both ESI and APCI ionization modes See Figure 1 3 The spray shield is a stainless steel concave assembly that in combination with the ESI or APCI flange forms the atmospheric pressure region of the API source also called the spray chamber The spray shield inserts into an opening in the vacuum manifold and serves as a base for the API stack An opening in the bottom of the spray shield serves as a drain for waste liquid Two flange retainer bolts on the ESI or APCI flange secure the flange to the atmospheric pressure side of the spray shield The heated capillary assists in desolvating ions that are produced by the ESI or APCI probe The heated capillary is an elongated cylindrical tube made of metal that has a hole bored through the center of its long axis A heater embedded in the capillary surrounds the
199. ve PCB to the ThermoQuest Repair Center in San Jose Be sure to note the apparent problem or symptoms on the enclosed forms Carefully align and seat the Analyzer PCB into the 8 pin and 4 pin feedthroughs on the top cover plate With a Phillips screwdriver reinstall the screws that hold the Analyzer PCB to the top cover plate With a Phillips screwdriver reinstall the metal cover Use a 7 16 in open end wrench to reconnect the helium damping gas line to the fitting Reconnect at P5 the octapoles cable that comes from the Analyzer Auxiliary PCB Reconnect at P4 the lenses cable that comes from the System Control PCB Reconnect at P2 and P3 the two endcap cables that come from the Analyzer Auxiliary PCB 5 48 Finnigan LCQpEcA Hardware Manual Thermo 2uest L cQ Service Maintenance Replacing PCBs and Assemblies ThermoC2uest r Reconnect at P1 the electrometer cable s Reconnect the electron multiplier high voltage cable that comes from the electron multiplier power supply Go to step 8 To replace the Analyzer Auxiliary PCB proceed as follows See Figure 5 15 page 5 44 for the location of the Analyzer Auxiliary PCB a Disconnect all cables to the Analyzer Auxiliary PCB Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing b With a Phillips screwdriver remove the metal cover from the A
200. vectron gauge pressure should increase to a normal value approximately 1 Torr If you l can not clear the heated capillary by this method use the instructions for removing the heated capillary from the spray shield in the topic Maintaining the API Stack on page 4 27 Then try clearing the heated l capillary from the exit end by the same method 8 Push the API flange assembly against the spray shield 9 Secure the API flange to the spray shield with the two flange retainer bolts 4 8 Finnigan LCQpeca Hardware Manual ThermoC2uest L cQ User Maintenance API Source Maintenance ThermoC2uest Maintaining the ESI Probe The ESI probe may be fitted with either a fused silica sample tube or an optional blunt tip 32 gauge stainless steel needle The 0 100 mm ID x 0 190 mm OD fused silica sample tube P N 00106 10499 is supplied in the standard API2 Accessory Kit P N 70005 60109 The blunt tip 32 gauge stainless steel needle P N 00950 00954 is supplied in the optional API2 Metal Needle Kit P N 70005 62013 If the fused silica sample tube or stainless steel needle becomes blocked or broken you need to replace it You can replace the sample tube or the stainless steel needle without disassembling the ESI probe However to clean interior surfaces replace the ESI spray needle or needle seal you need to disassemble the ESI probe Note You should flush the ESI probe at the end of each working day by flowing a 50
201. vice Maintenance Replacing the Oil Reservoir in the Turbomolecular Pump ThermoC2uest 5 8 Replacing the Oil Reservoir in the Turbomolecular Pump You need to replace the oil reservoir in the turbomolecular pump at least once a year Replacing the oil reservoir in the turbomolecular pump involves the following steps e Removing the turbomolecular pump e Changing the turbomolecular pump oil reservoir e Reinstalling the turbomolecular pump Note If the turbomolecular pump fails it must be replaced P N 00108 02642 To replace the turbomolecular pump remove the pump as described in the topic Removing the Turbomolecular Pump Then install a new pump as described in the topic Reinstalling the Turbomolecular Pump Removing the Turbomolecular Pump To remove the turbomolecular pump proceed as follows 1 Shut down and vent the system as described in the topic Shutting Down the System Completely in the System Shutdown Startup and Reset chapter 2 Open the left and right front doors of the MS detector by loosening the 1 4 in Allen screw on the right front door with an Allen wrench Disconnect any sample tubes between the syringe pump and the API source before opening the right front door 3 Remove the top cover of the MS detector as described in the topic Removing the Top Cover of the MS Detector on page 5 6 4 Loosen the red hose clamp Edwards KF20 that secures the vacuum hose to the turbomolecular pump
202. voltage cable to the conversion dynode feedthrough Go to step 8 ThermoC2uest Finnigan LCQpEcA Hardware Manual 5 47 Service Maintenance Replacing PCBs and Assemblies L cQ 4 To replace the Analyzer PCB proceed as follows See Figure 5 15 on page 5 44 for the location of the Analyzer PCB a Disconnect at P5 the octapoles cable that comes from the Analyzer Auxiliary PCB Disconnect at P4 the lenses cable that comes from the System Control PCB Disconnect at P2 and P3 the two endcap electrode cables that come from the Analyzer Auxiliary PCB Disconnect at P1 the electrometer cable If necessary use a small screw driver to loosen the screws that secure the cable Disconnect the electron multiplier high voltage cable that comes from the electron multiplier power supply Use a 7 16 in open end wrench to disconnect the helium damping gas line from the fitting With a Phillips screwdriver remove the metal cover from the Analyzer PCB With a Phillips screwdriver remove the screws that hold the Analyzer PCB to the top cover plate of the vacuum manifold Caution To prevent damage to the electronics due to electrostatic discharge attach an electrostatic discharge ESD strap to your wrist before continuing Unseat and remove the Analyzer PCB from the top cover plate Unpack the new Analyzer PCB P N 97033 61051 Retain the packing materials so that you can pack and ship the defecti
203. xcessive air and water in the vacuum manifold can cause reduced sensitivity tuning problems and a reduced lifetime of the electron multiplier Ensure that the helium pressure and nitrogen pressure are within the operational limits helium 40 10 psig 275 70 kPa nitrogen 100 20 psig 690 140 kPa Note Air in the helium line must be purged or given sufficient time to be purged for normal LCQpeca performance Select the Status View button in the Tune Plus window Check to see if the pressure measured by the ion gauge is below about 5 x10 5 Torr and the pressure measured by the Convectron gauge is around 1 Torr Compare the values of the other parameters in the status panel with values that you recorded previously Continue to set up for ESI or APCI operation as you normally do Finnigan LCQpeca Hardware Manual 3 7 System Shutdown Startup and Heset L cQ Resetting the MS Detector 3 8 3 5 Resetting the MS Detector If communication between the MS detector and data system computer is lost it may be necessary to reset the MS detector using the Reset button on the power panel The procedure given here assumes that the MS detector and data system computer are both powered on and are operational If the MS detector data system computer or both are off refer to the topic Starting Up the System after a Complete Shutdown To reset the MS detector press the Reset button located on the power panel See Figure 3
204. yzer Auxiliary PCB 97000 63024 Cable power supply 5 V 15 V 24 V 200 W ISA bus embedded computer motherboard System Control PCB system fans 97000 63025 Cable Power Module power supplies 5 15 24 36 nesnese 97000 63026 Cable Power Module reset button embedded computer reset connector 97000 63027 Cable interconnect power module power supply 5 V 15 V 24 V 200 W System Control PCHR 97000 63028 Cable 24 V keep alive power supply Power Module turbomolecular pump fan Vent Delay DCH 97000 63029 Harness Power Mettlach SS e ester ed eds 97044 63010 Cable interconnect embedded computer Control DSP PCB Acquisition DSP PCB Gribbont 97000 63031 Cable interconnect embedded computer Control DSP PCB Waveform DDS PCB rbbon 97000 63032 Cable interconnect embedded computer ISA bus embedded computer motherboard CPU PCB reset ribbon 97000 63033 Cable RF Voltage Amplifier PCB Low Pass Filter PCB coax 97000 63034 Cable Low Pass Filter PCB RF voltage coil connection at front box 97000 63035 Cable System Control PCB Front Panel PCB ribbon 97000 63036 Cable Front Panel PCB Serial I O PCB eee 97044 63050 Cable Power Module internal Ethernet connector Ethernet PCB embedded computer 97000 63040 Cable Waveform DD

Finnigan LCQ DECA - Charles E. Schmidt College of Science

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