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RapidTrace ® + User Manual

1. Code 3 Code 4 Code 5 Code 6 Code 7 Code 6 Code 9 Code 10 Code 11 Code 12 Code 13 Code 14 Code 15 Code 16 Selected Procedure Description Code 17 Code 16 Code 19 Code 20 Delete Selected Items TT PWD CASPE Figure 37 Assign Magnetic Rack Codes Window 2 Select the desired procedure in the Procedures Available list 3 Select the code number to be assigned in the Procedures assigned to rack codes list 4 Click the arrow button between the two lists The procedure name is displayed next to the code number 5 To assign the procedure to the selected code click the OK Save button Run a Procedure with Magnetically Encoded Racks 1 Place columns in the turret and load the sample test tubes or vials and the fraction test tubes into the rack Make sure to place the number of vials and or test tubes in the rack equal to the number of samples you want to extract 2 Place the rack into the RapidTrace module 3 Ensure the correct column plunger size is used for the columns If not replace it with the correct one 4 Push the Start Stop button located on the front of the module to start the magnetically encoded procedure P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Run Methods and Monitor Operations 53 NOTES u e Set up the computer in the Run RapidTrace window using either the RapidTracet Production software or the RapidTracet Methods Development
2. COMGIEION MEME ColuM dita sedaateadvadadtaeieehvioteds auhied sedadtaedecivocasdiamareen 36 Load the Sample onto the COlUMN ccc cece cece ee eeeeeeeeeeeeeeeeeeeeees 37 Purge and Clean the Cannula ccccccccccesseseeeeeeeeeeeeseueeeeseneggees 37 Save the Procedu E serimi eain A OT 38 Edita PrOcEdU uer a 38 Create Procedure WINKOW ccccccceceeeeeeeeeeeeeeeseeeeeeeseeeguuteeetetsegggs 39 Carryovel Preventi O vs ceteccszidc tial eavine wevad lode det sidactaeein weirdest een aes 41 ASSIGN PrOCeGUFES to Samples arisan EEE 42 Run Methods and Monitor Operations sssssss s2 22 22 2222222202 22 n 45 Run and Monitor Procedures on Up to Ten Modules cceee eee e ees 45 View and Print RUD RODOS oeie coke ecansawntatwiauntawnerseieuniquaecn 48 View the Selected Re port ccc n r N 48 Print the Selected Reports ccce aO OAE VE aa 49 Use Magnetically Encoded RackS ccccccceseeeeeeeeeeeeeeueeeeeeeessegeenenegs 49 Encode the RACK sitismcanttaiancenuts taadubdunaun dae dewadeee e RA 50 Magnet Ta Die ceraint na a a chee sume abaeteeerangecteds 51 Assign a Procedure to the Code crensian naaa EEEa 52 Run a Procedure with Magnetically Encoded RackS ccceeeeeee 52 Dally OPGlatlons ssasaiiiccesicias ecieenedcwaeeuaeedeedee aa 54 Prepare the RapidTrace Workstation ccceccececeeeeeeeeeeeeueeaneneenenneas 54 Prime the Reagent LINES saiicienieiiiiew sand une sania i
3. Use the following procedure to safely and effectively prepare the RapidTrace workstation for long term shutdown By removing all traces of water the chance of bacterial growth and or rust is eliminated The methanol disinfects the fluid path and any traces quickly evaporate Run this procedure on all modules RapidTrace User Manual Biotage Sweden AB P N 115655 Rev 04 Service 86 NOTE u If running 6 ml columns ensure that sample positions 1 3 5 7 and 9 are selected 1 Run CLEAN SPE one sample of 8 ml 2M NaOH one sample of 8 ml 2M HNO3 2 Create the procedure shown in Figure 70 Create procedure using reagent names for all modules Fie Edit Reagents Setup Variables Password Procedure Mame PURGES SPE No Ste Source Output vol ralirain iquie e P P Sense Created 09 05 201 1 1 Purge Cannula Reagl Cannula 6 5 No Last Modified fesjosj2ot i z Purge Cannula Reag Cannula 6 5 Mo i Run Time 100 48 3 Purge Cannula Reags Cannula 6 5 Mo Procedure Description i 4 Purge Cannula Reag4 Cannula 6 5 Mo p U 5 Purge Cannula ReagS Cannula 6 5 Mo z 6 Purge Cannula Reag Cannula 6 5 Mo 7 Purge Cannula Reag Cannula 6 5 Mo 5 Purge Cannula Reag Cannula 6 5 Mo Figure 70 Purge Reagents 3 Remove all reagent lines from the reagent bottles and run the procedure created in step 2 above PURGE8 SPE 4 Place all reagent lines into a large beaker of deionized water and run PURGES8 SPE 5 Remov
4. You use different software to run the RapidTracet workstation depending on what you want to do To set up the racks run a procedure or create reports e Select Start Programs Biotage RapidTrace SPE SPERUN or double click the SPERUN desktop icon to open the RapidTrace Production software see page 44 for details You cannot define reagents or create procedures using the RapidTracet Production software To use the RapidTrace Production software a procedure must be created using the RapidTracet Methods Development software see below To define reagents create procedures set up the racks runa procedure or create reports e Select Start Programs Biotage RapidTrace SPE SPE or double click the SPE desktop icon to open the RapidTracet Methods Development software see page 29 for details To create magnetic rack codes e Select Start Programs Biotage RapidTrace SPE MAGASIGN to open the Assign Magnetic Rack Codes to Procedures window see page 49 for details To re load the firmware e See Upgrade the RapidTracet Firmware on page 80 for details on upgrading the firmware Online help can be accessed at any time in the RapidTracet software by clicking the Help button in the lower right corner of each screen RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 29 Create Edit and Assign Procedures This section describes how to create and edit procedures assign
5. as gee Cutout for waste lines ge Figure 54 Cutout for Reagent and Cannula Waste Lines The lines have a twist connection located several centimeters from the back of the module to make the module easier to move Locate the fittings and untwist the connection The 3 meter 10 foot lines remain in the waste reservoir You can now move the modules RapidTrace User Manual Biotage Sweden AB Add or Move RapidTrace Modules 70 Reconnect Modules Reconnect the Communications Cables 1 Connect one RS 232 communications cable to the 9 pin port on the computer 2 Plug the other end of the RS 232 cable into the bottom 9 pin port on the back of the first module 3 For additional RapidTrace modules a Connect a second RS 232 communications cable to the top 9 pin port of the first module b Plug the other end of RS 232 cable into the bottom 9 pin port of the next module c Repeat until all modules are connected together Reconnect the Power Cords Connect the power cords to entry port on the back of the RapidTrace modules and to the power source Reconnect the Reagent Lines Reconnect the RapidTracet modules using the individual reagent lines provided in your start up kit The assembled manifolds may be used if they were in use prior to the move Reconnect I ndividual Reagent Lines 1 Match the corresponding labeled reagent line on the RapidTrace module with the line from the start up kit Tightly twist the two co
6. ee P N 115655 Rev 04 z RapidTrace Reports BER Listing of the last three reports From each Module Module 1 2 3 4 z 6 i 5 g Start Time 11 14 2010 04 47 54 PM 01 26 2011 02 35 38 PM 01 26 2011 02 36 09 PM 11 14 2010 04 45 13 PM 11 14 2010 04 47 57 PM 11 14 2010 04 47 50 PM 11 14 2010 04 45 07 PM 11 13 2010 05 37 56 PM 11 14 2010 01 56 16 PM 11 13 2010 05 37 57 PM Start Time 11 14 2010 04 49 20 PM 01 28 2011 02 36 20 PM 01 26 2011 02 45 12 PM 11 14 2010 04 47 57 PM 11 14 2010 04 45 14 PM 11 14 2010 01 56 21 PM 11 14 2010 04 47 51 PM 11 14 2010 01 56 23 PM 11 14 2010 04 47 53 PM 11 14 2010 01 56 16 PM View Selected Report Print Selected Reports View Usage Log Print Preview Start Time 11 14 2010 04 45 10 O1f26 2011 02 45 12 O1 26 2011 02 35 39 11 14 2010 04 45 13 11 14 2010 04 45 14 11 14 2010 04 45 14 11 14 2010 01 56 22 11 14 2010 04 47 52 11 13 2010 05 37 57 11 14 2010 04 47 53 Figure 34 RapidTrace Reports Window Only one report can be viewed at a time Select Start Programs Biotage RapidTrace SPE SPE or SPERUN or double click the SPE or SPERUN desktop icon The RapidTracet Methods Development or Production software opens Click the Reports button The RapidTrace Reports window opens Select the cell of the report you want to view then click the View Selected Report button The View Report window opens and displays the rack lay
7. File and Make it the Active File NOTES P N 115655 Rev 04 Since the default in the Module Number menu in the Reagent setup window is Module All any update made in the Reagent setup window that is followed by clicking the OK Save as Current button affects all modules unless a specific module is chosen first When Module All is selected in the Module Number menu the Reagent setup window displays the last settings saved even if these settings may only be used by one individual module To see the settings for each module select one module at the time in the Module Number menu The reagent setup file must be recalled and made active before a procedure can be created or run The following steps demonstrates how to recall a saved reagent setup file and make it active 1 Click the Reagent Setup button in the main window to open the Reagent setup window as shown in Figure 12 If you do not want to use the reagent setup for all modules a Select the Module Number menu to display a list of all modules see Figure 13 b Select the desired module and click the OK button The title bar changes to Reagent setup for module number no In the Reagent setup window select File Open The Open File dialog box opens Select the desired reagent setup file and click the Open button The settings in the selected file is displayed RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 32 Module 0 Mod
8. e Do not touch waste e Keep waste from heat or flame e Dispose of waste properly e Periodically check waste lines for damage e Make sure that the flow is not inhibited and that the waste reservoirs are large enough to hold waste generated Follow these steps to prepare the RapidTrace workstation for running procedures 1 Confirm that the waste reservoirs are empty 2 Ifthe workstation has not been used for ten hours or more or if new reagents have been placed on the workstation purge the reagent lines before running samples see Purge Reagent Lines on page 66 3 Confirm that all sample test tubes or vials are clean and that the correct number of fraction test tubes needed are on hand 4 Confirm that all columns are new and of the correct type for the procedure Verify there is a sufficient number of them available to run the samples 5 Perform a post run cleanup at the end of the day see Post Run Cleanup Procedure on page 56 RapidTrace User Manual Biotage Sweden AB Daily Operations 55 Prime the Reagent Lines Prime the reagent lines before running samples on a daily basis Also prime reagent lines whenever changing reagents To prime reagent lines create a procedure using the Purge and Clean cannula step for each reagent line that must be primed The recommended volume for each Purge and Clean cannula step is 6 ml with a flow rate of 30 ml min 0 5 ml sec The procedure shown below is an exam
9. procedures to samples and explains the Create procedure window Consult the online help for further software information Open the RapidTrace Methods Development Software 1 Select Start Programs Biotage RapidTrace SPE SPE or 7 double click the SPE desktop icon The main window opens as shown in Figure 11 SFE A Biotage RapidTrace SPE Workstation Version 2 1 0 40 BHA Comm Port Flow Rate Units Settings Help Reagent Setup Name Reagents For each of the units and set their sip speeds Create Procedures write Procedures For use in any sample position in any rack Setup Racks Assign a procedure For each sample in each rack Run Monitor Load run and monitor operation of all units Reports View and Print run reports Manual Control Operate individual Functions of modules to recover From error conditions Copyright Biotage Sweden 46 2011 Pork 1 Units mifmin PwD C 5PE Figure 11 RapidTracet Methods Development Software 2 See one of the following sections e Define the Reagents on page 30 e Create Procedures on page 32 e Assign Procedures to Samples on page 42 NOTE If you open the RapidTracet Production software the SPERUN icon the Comm Port menu Flow Rate Units menu Reagent Setup button and Create Procedures button are not displayed P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Define the Reagents The following procedure demonstrates how to define the
10. 11 Fax 46 18 56 57 11 E mail EU 1 pointsupport biotage com 1 Point Support Japan Phone 81 3 5627 3123 Fax 81 3 5627 3121 E mail J P 1 pointsupport biotage com Rest of the World Please contact your local distributor Biotage Product Repair Depot Biotage Product Repair Depot offers product repair services upgrades refurbishment and installation at reasonable costs and with quick turnaround for all customer owned equipment and accessories For further information or to obtain a quotation for services contact Biotage 1 Point Support see above Features of Biotage Product Repair Depot e Factory trained repair technicians e Two week turnaround from receipt at Biotage Shipping Customers are responsible for shipments both to and from Biotage specifying the carrier and choice of service P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Preface 3 Return Policy To ensure a safe environment for all our technicians it is mandatory for each returned product to include our chemical questionnaire stating contact chemicals chemicals used during application and cleaning steps taken prior to shipment Processing Once the product is returned it is evaluated for necessary repairs The customer is contacted with an estimate and may choose to go ahead with the repair or decline service If service is denied a minimum evaluation charge may apply Upon completion of the repair a purchase order or appropriate
11. Biotage Sweden AB Create Edit and Assign Procedures 33 Create procedure using reagent names for all modules File Edit Reagents Setup Variables Password Liquid No Step Source Output vol ral min bas Created 09 05 2011 04 14 48 PM E Items choosable for current grid selection e 2 3 4 5 6 7 8 9 Ok Save Figure 14 Create Procedure Window 2 Enter the desired name for the procedure in the Procedure Name text box For example type SPE1 as shown in Figure 15 Z Create procedure using reagent names for all modules Fie Edit Reagents Setup Variables Password Procedure Mame SPE1 Figure 15 Procedure Name m Add Reagent to Sample and Mix 1 Select the Step text box in the first row and select the Add reagent to sample and mix command The list of possible commands is displayed in the lower right corner of the window This is the first step in the sample procedure Items choosable For current grid selection Add reagent to sample and mix Condition column Load sample onto column Slow load sample onto column Rinse column Collect Fraction Purge and Clean cannula Pause Dry Column Add reagent to Mixing vessel Mix Reagents in Mixing Vessel Figure 16 Steps Command List Cannula displays as a default in the Output column as shown in Figure 17 P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 34 Z Create procedu
12. Chlorinated Waste Fraction 1 Fraction 2 Fraction 3 Fraction 4 Fraction 5 Fraction 6 Fraction 7 Fraction amp Fraction 9 Fraction 10 Figure 21 Output List 4 Select the Vol text box in the second row and enter the amount of reagent in ml to be used to condition the column 5 Select the ml min or ml sec text box in the second row and enter the flow rate at which the reagent is loaded onto the column bed NOTE Lt When writing procedures the files 1ml spe and 3ml spe can be opened in the Create procedure window and used as templates These procedures provide suggestions on a Starting point for flow rates Use the ITml spe template if you are using a 1 ml column plunger Use 3ml spe as a template for use with a 3 ml column plunger When using the 6 ml column plunger you can use the 1 or 3 ml template but ensure to change the volume in the Vol column and the flow rates to appropriate values In the example shown in Figure 22 5 ml of methanol is loaded onto the column at 5 ml min When the methanol has passed through the column it is collected in the reservoir for organic waste Procedure Mame SPE1 Liguid Mo Step Source Gutpuk vol raliroin Sense Z 1 Add to Sample Hz Cannula 5 30 Mo zZ Condition MeoH Org VW 5 5 Mo Figure 22 Create Procedure Window P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Create Edit and Assign Procedures 37 Load the Sample onto
13. Comply with all local state provincial or national laws and regulations related to chemical and waste storage handling and disposal Electrical Safety The wall outlet or the power cable connector on the back of the RapidTrace module should be accessible after the installation to enable an authorized Biotage service engineer to safely disconnect power from the module during servicing The computer sold with the RapidTrace module has internal lithium batteries Batteries should not be incinerated WARNING AAA Danger of explosion if battery is incorrectly replaced Replace only with the Same or equivalent type recommended by the manufacturer s instructions Mechanical Safety P N 115655 Rev 04 WARNING AA Instrument components may move during operation Always keep body parts hair jewelry and clothing away from the RapidTrace module during operation Procedures which could result in injury may be performed only by operators who have been warned of the potential hazards and have received adequate training in performing the procedures in the safest possible manner RapidTrace User Manual Biotage Sweden AB Table of Contents 8 Table of Contents PRCT ACE oina E E 1 Sale W coina EARR REN RARS EREEREER aia 6 PCI CO TEN ean E E ETRE AE AA NENEN 6 Chemical and Biological Safety enesnanenerernensrrrrerererrrrnrererrrrererren 6 PICU ICA SCY E E E A EE E E 7 Mechanical all CL Y teeta carceressarcutr
14. Connect lines here Check valve end To Reagents Figure 56 Reassembling Manifold String 4 Continue placing manifolds on the workstation connecting them to each successive reagent line until all eight reagents have been completed 5 Connect the check valves to the manifold and place them in the appropriate reagent bottle NOTE Lt Skip the following Reconnect the Gas Lines on page 72 section if gas drying is not to be used P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Add or Move RapidTrace Modules 72 Reconnect the Gas Lines If gas drying is to be used connect the gas lines to the gas tank using the appropriate fittings Follow the instructions below to reconnect the gas lines to your modules Reconnect a Gas Manifold Reconnect the manifold to the gas line using the instructions for reconnecting manifolded reagents see Reconnect Assembled Manifolds on page 70 NOTE The 1 8 inch 3 175 mm tubing is for the gas line while the 1 16 inch 1 59 mm tubing ts for reagents Reconnect an Individual Gas Line Attach the individual gas fitting 2 types of fittings are included in the start up kit between the line to the gas tank and the line to the module as Shown in Figure 57 Attach lines here Line to hvodule Line to Gas Tank Individual gas fitting Figure 57 Connecting the Gas Line Reconnect the Waste Lines The 3 meter 10 foot waste lines remained with
15. Items Selected Procedure Description Module 0 Module 5 Module 1 Module 6 Module 2 Module 7 Module 3 Module amp Module 4 Module 9 Check All Uncheck l OK save Figure 29 Setup Procedure Window P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 44 Close Without Saving Clicking the Close button closes the window without saving the setup you have established Multiple Fractions Multiple fractions require that sample positions on the rack are skipped For example if the procedure collects two fractions the procedure should be assigned to samples 1 3 5 7 and 9 Five sample test tubes or vials must be placed in these positions in the rack five columns in these positions on the turret and 10 fraction test tubes in the rack Procedures Available Procedures assigned to Module 0 and selected group SPE1 spe SPE1 spe Sample 4 Sample 5 SPE1 spe Sample 6 Sample 7 SPE1 spe Sample amp Sample 9 SPE1 spe Sample 10 Figure 30 Multiple Fractions NOTE The 6 ml RapidTrace t does not support multiple fraction test tubes per Sample P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Run Methods and Monitor Operations 45 Run Methods and Monitor Operations Run and Monitor Procedures on Up to Ten Modules P N 115655 Rev 04 The main functions of the Run RapidTrace window are to load run and monitor the operation of module
16. Mixer 4 5 30 No 7 Purge Cannula Mixer Cannula 5 30 Mo 5 Add to Mixer H20 Mixer 4 5 30 No q Purge Cannula Mixer Cannula 5 30 Mo Items choosable for current grid selection 10 Load Sample Waste 2 5 15 No 11 Rinse H20 Waste 3 16 Ma l2 Rinse H20 Waste 3 15 Mo 13 Rinse H20 Waste 3 16 Mao 14 Load Sample Waste 2 5 15 No 15 Rinse H20 Wastes 3 16 Mo 16 Rinse H20 Wastes 3 15 Mo 17 Rinse H20 Wastes 3 16 Mao 18 Purge Cannula H20 Cannula 5 30 Mo Figure 40 Procedure Window for Cleaning RapidTrace User Manual Biotage Sweden AB 6 Daily Operations 57 Z Reagent setup for all modules File Module Number Reagent Reagent Reagent Number Name Abbreviation Sip rnljrnin DI Water H20 Reagent 2 Reagz Reagent 3 Reags Reagent 4 Reagt Reagent 5 Reags Reagent 6 Reage Reagent 7 Reag 1 2 3 4 z 6 F 5 Reagent 6 Reags Waste Waste Waste Number Name Abbreviation Aqueous Waste Agu w Z Organic Waste Org W 3 Chlorinated WW Chlor W Column tubing volume o 40 2 Figure 41 Reagent Setup Window for Cleaning Click the Reagent Setup button in the main window to open the Reagent setup window and define the reagents as shown in Figure 41 Place two sample test tubes in the first two rack positions Pour 8 ml of 2M sodium hydroxide NaOH into the first sample test tube and 8 ml of 2M nitric acid HNO3 into the second test tube Place two empty columns with spacers in the pos
17. RapidTrace Start Up Kit P N C52006 including one 1 per order RapidTrace Software CD P N C125300 Validation CD and tubing kit Start Up Kit for 1 ml and 3 ml P N C59815 or 1 per module Start Up Kit for 6 ml P N C125810 Any racks ordered see available racks on page 12 Quantity ordered Any accessory kits ordered Quantity ordered Site Preparation This section provides complete information regarding site preparation A location meeting these requirements should be available prior to delivery of the RapidTrace workstation When setting up the RapidTrace modules Space for reagents and storage space for waste containers located below the modules must be available Confirm that an appropriate location is available with gas if necessary and electrical sources as specified in Specifications on page 87 before installing the RapidTrace workstation For instructions on installing additional modules see Add or Move RapidTracet Modules on page 65 Computer Requirements Space P N 115655 Rev 04 Windows XP Windows Vista or Windows 7 Minimum bench space for each RapidTracet module e Height 60 cm 23 6 in e Width 10 cm 3 9 in e Depth 55 cm 21 7 in RapidTrace User Manual Biotage Sweden AB Unpack and Site Preparation 12 Additional Space Requirements Work Area Weight Provide space to access the power cord power switch RS 232 communications cable ports and tubing at the back of the
18. Syringe Position command to rapidly empty the syringe and removing the blockage to the beaker 8 Reconnect the PTFE tubing to the syringe and the 12 port valve 9 Send the Warm Start command to re initialize the module and confirm that the syringe discharge is unblocked RapidTrace User Manual Biotage Sweden AB 10 11 Service 80 If the syringe discharge is still blocked repeat the above steps but change the syringe speed in step 6 to 6 ml min or 0 1 ml sec The slower motor speed produces more torque which may help to remove the blockage If the blockage cannot be removed replace the syringe assembly Upgrade the RapidTrace Firmware P N 115655 Rev 04 S Firmware can only be downloaded to one module at a time The firmware always loads to module 0 therefore set the number switch of each module to 0 when loading the firmware Only one module at the time can be designated as module 0 ensure that each module has a unique number assigned to it before starting the download NOTE A maximum of five modules can be connected when downloading the firmware to a module The following procedure downloads the RapidTrace firmware to each of the modules 1 2 If you have more than 5 modules disconnect module 5 from module 4 Ensure that all connected modules are switched on and that they have a unique number between 0 and 4 if having 5 modules connected To change a number use the switch on the front of the mod
19. column bed Derivatize A step done post extraction to bind a group to the analyte to enhance detection The step s used to remove analyte s of interest from the column May me be done in single or multiple steps When analyte s are eluted from the column they are eluted into volumes called fractions Single or multiple fractions may be collected lon Exchange This interaction occurs between an analyte carrying a charge positive or negative and a sorbent with the opposite charge The step when the sample is put onto the column bed The initial sample which is most commonly plasma urine or serum May also be tissue extracts or other bodily fluids such as bile meconium etc Mixed Mode The chemistry used to achieve the separation in multiple modes or more than one mode The two or more modes are mixed together in the column Means used to achieve the separation for example in a reverse phase separation the mode of the separation is reverse phase Normal Phase Refers to the chemistry occurring when polar interactions such as hydrogen bonding dipole dipole and a variety of other interactions occur between the functional group of the sorbent group and the bonds of the analyte Common normal phase sorbents are CN NH and Si P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Glossary 94 Packing The material used to achieve the separation Material Particle Size The size of the si
20. dialog box opens If the AutoRun dialog box opens click the RapidTracet software option to start the installation If the computer has AutoRun disabled open My Computer navigate to the CD drive and double click the setup exe file to begin the installation Click the Next button in the Welcome window Select the accept the terms in the license agreement option to accept the terms of the displayed software license agreement and click the Next button Fill in the customer information and select the installation permissions anyone or only for me and click the Next button in the Customer Information window Select the setup type complete or custom and click the Next button in the Setup Type window Click the Install button The installation process may take several minutes to complete When installation is complete click the Finish button The installation adds shortcuts to the RapidTracet programs to the Start menu and desktop see Start RapidTrace Software on page 28 Set the Format for Numbers Dates and Time For the RapidTrace software to work properly the computer has to use U S format for numbers dates and time 1 2 P N 115655 Rev 04 Press the A R keys The Run dialog box opens Enter intl cpl in the Open text box and click OK The Regional and Language dialog box opens RapidTrace User Manual Biotage Sweden AB P N 115655 Rev 04 Install RapidTrace Software 16 Type the name o
21. in your reagent bottles for your second workstation RapidTrace User Manual Biotage Sweden AB Add or Move RapidTracet Modules 66 Purge Reagent Lines WARNING AAAAA Exercise caution when handling fluids in the laboratory Before moving modules or adding a module to a manifolded workstation liquids must be removed from the reagent lines To remove fluid from the lines complete the following steps 1 Remove all the lines from the reagent bottles and place them into a clean empty container 2 Write a procedure to purge the reagent lines taking the miscibility of the reagents into account An example of a procedure for eight reagents is shown Figure 48 Create procedure using reagent names for all modules Fie Edit Reagents Setup Variables Password Procedure Mame PURGES SPE No Ste Source Output vol mlimirn Liquid P P Sense Created 09 05 201 1 1 Purge Cannula Reagl Cannula 6 5 No Last Modified fesjasj2ot i z Purge Cannula Reage Cannula 6 5 Mo i Run Time 100 48 3 Purge Cannula Reag Cannula 6 5 Mo Procedure Description This proced 4 Purge Cannula Reag4 Cannula 6 5 Mo l reagent iie 5 Purge Cannula Reags Cannula 6 5 Mo 7 6 Purge Cannula Reag Cannula 6 5 Mo 7 Purge Cannula Reag Cannula 6 5 Mo 5 Purge Cannula Reag Cannula 6 5 Mo Figure 48 Purge Reagent Lines 3 If moving manifolded modules or adding a module to a manifolded workstation a Assign the procedure to sample 1 in t
22. keep body parts hair jewelry and clothing away from the RapidTrace module during operation To STOP an individual module click the Stop button for that module RapidTrace User Manual Biotage Sweden AB P N 115655 Rev 04 Run Methods and Monitor Operations 46 To run all modules click the Run All button Note that any entered delay times will be ignored i e all runs will start immediately If different procedures are assigned to individual modules the Run All button is not available WARNING Always keep body parts hair jewelry and clothing away from the RapidTrace module during operation To stop all modules click the Stop All button Follow these steps to run your procedures 1 Place columns in the turret and load the sample test tubes or vials and the fraction test tubes into the rack Make sure to place the number of vials and or test tubes in the rack equal to the number of samples you want to extract 2 Place the rack into the RapidTrace module 3 Ensure the correct column plunger size is used for the columns If not replace it with the correct one 4 Select Start Programs Biotage RapidTrace SPE gt SPE or SPERUN or double click the SPE or SPERUN desktop icon The RapidTracet Methods Development or Production software opens 5 Click the Setup Racks button The Setup Procedure Sequence window opens 6 Click the Setup Racks button The Setup Procedure Sequence window opens 7 Assign
23. ml or 3 ml columns The 6 ml RapidTrace holds up to five 1 ml 3 ml or 6 ml columns P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB RapidTrace Parts and Functions 21 Side View Table 3 Side View of the RapidTracet Module Covers the valve syringe and syringe drive Provides access to shuttle to change internal tubing Rack Holds the sample test tubes or vials and the fraction test tubes For a list of all available racks see Racks and Vessels on page 12 WARNING AVA Always keep body parts hair jewelry and clothing away from the RapidTrace module during operation P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Rear View P N 115655 Rev 04 RapidTrace Parts and Functions 22 Figure 7 Rear View of the RapidTracet Module WARNI NG AA Hazardous voltage still exists within the workstation when the AC power is switched off Always unplug the power cord before changing fuses or servicing the equipment Table 4 Rear Parts and Functions 1 Hole for Reagent e 8 reagent lines and Gas Lines e Gas line Exhaust Fan Ventilates the internal electronic components RS 232 When multiple modules are used the RS Communications 232 output is used to connect the Cable Port Output communications cable to the next module A Power Switch Switches the module AC power on or off 5 Power Entry Connects the module to power source via an AC power cord and houses th
24. page 56 RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 42 To prevent carryover between samples we recommend that Purge and Clean cannula steps be used in the procedure The purge steps should be placed in three locations of the procedure as shown in Figure 28 Liquid No Step Source Output vol mlimin ZEE Eresbed ps os 2011 i Z Condition H20 Waste 3 12 Mo Run Time 3 Load Sample Waste z 3 Mo Procedure Description 4 Rinse H20 Waste Z 6 Mo 5 Purge Cannula Hz Cannula z 30 Mo 6 Rinse 20 Waste 3 6 Mo 7 Collect MeoH Fract1 z 3 No 5 Purge Cannula MeOH Cannula 3 30 Mo 9 Purge Cannula Hz Cannula 3 30 Mo There hane ble Few m eee mid malakin Figure 28 Purge Steps C ae First Purge Cannula The first Purge and Clean cannula step is done step 5 in the with the first rinse reagent used often water or procedure above an aqueous buffer after the first rinse step occurs This first rinse step allows any sample still present in the syringe after the load step to be moved onto the column with the rinse step Second Purge The second Purge and Clean cannula step Cannula step 8 in occurs after the collect step and should use the the procedure elution solvent typically a strong solvent to above thoroughly strip the cannula of any remaining analyte eliminating carryover between samples Third Purge The third Purge and Clean cannula step occurs Cannula step 9 in as the las
25. reagents used in a P N 115655 Rev 04 procedure Create Edit and Assign Procedures 30 1 Click the Reagent Setup button in the main window to open the Reagent setup window as shown in Figure 12 A Reagent setup for all modules File Module Number Reagent Reagent Number Name Water Methanol Acetone Isopropanol Toulene Hexane Terahydrofu 1 2 3 4 5 6 A 8 Ethanol Waste Waste Number Name Reagent Abbreviation H20 MeOH Sip ml min Aceton Isopra Tol Hex THF EtOH Waste Abbreviation Aqueous Waste Organic Waste Chlorinated Wi Column tubing volume 0 40 a v Aqu W Org W Chlor w Default Entries OK Save as current Figure 12 Reagent Setup Window For each reagent used in the procedure enter the following information on the row corresponding to the line the reagent uses e the reagent name e the desired abbreviation e the sip speed at which the syringe will pull the reagent out of the bottle The speed range is 0 6 to 42 ml min 0 01 to 0 7 ml sec The default setting is 30 ml min 0 5 ml sec For each waste line enter the following information e the waste name e the desired abbreviation Enter the amount of liquid present in the line between the 12 port valve and the column plunger in the Column tubing volume text box Use 0 4 ml when the tubing for gas drying is not connected Change this value to 0 9 ml when the gas valve is plumbed into the fluid pat
26. running this application will be stored in a file named Review tt in the working directory of this application 2 Click the Open Procedure button The Open File dialog box opens and lists all of the RapidTrace procedures in the c SPE directory The extension for procedure files in RapidTrace is spe P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Appendix 96 Open File Look im 3 SPE e m LML SPE ite 3ML SPE My Recent CLEAN SPE Documents SPE1 spe Desktop My Documents gs My Computer 3 Select the desired procedure file in the File name text box and click the Open button The procedure is opened in the RapidTrace Procedure Checker software a Rapid Trace Procedure Checker 1 Procedure Name CNSPESSPE1 spe Column Packing Type Bed Dimensions Reverse Phase Membrane lon exchange Packed Bed Normal Phase Bed Size Mixed Function Irn Milligrams Continue Cancel 4 Select the desired Column Packing Type option Reverse Phase lon Exchange Normal Phase or Mixed Function 5 Select the desired Bed Dimensions option Membrane or Packed Bed 6 Ifthe Packed Bed option is selected enter the volume of packing material in milligrams in the column or the bed volume in the Bed Size text box Bed volume must be less than 1500 mg 7 Click the Continue button to review the selected procedure When the review is completed the res
27. test tubes and 12x75 mm fraction test tubes as a reference follow the steps below Soe hol Saer Hole for magnet cower for magret CORT 1 2345 LO HOT USETHIS HOLE IF IT 15 OH YOUR FACE Figure 36 Magnetically Encoding the Rack 1 Remove the two screws from both ends of the rack and remove the magnet cover Below the cover are several holes for magnets The five holes used to encode the rack are shaded and numbered 1 through 5 in the picture above The first hole which is directly next to the screw hole may not be on your particular rack However if the rack has this hole disregard it 2 Follow the magnet table below to properly code your rack Place a magnet in each of the holes that are shaded in the table 3 Remount the magnet cover 4 Label your rack appropriately so you can identify either the procedure or the code number you are running P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Magnet Table MAGNETS CODE ODODO 99000 7 e0e0o5 _ O00000 _ O00000 _ 00000 _ O00000 _ P N 115655 Rev 04 RapidTrace User Manua Biotage Sweden AB Run Methods and Monitor Operations 52 Assign a Procedure to the Code 1 Select Start Programs Biotage RapidTrace SPE MAGASIGN The Assign Magnetic Rack Codes to Procedures window opens as shown in Figure 37 Assign Magnetic Rack codes to Procedures 7 1 Procedures Available Procedures assigned to rack codes Code 1 Code
28. the Column 1 Select the Step text box in the third row and select on of the following commands e Load sample onto column The flow rate range is 0 36 ml min to 42 ml min 0 006 ml sec to 0 7 ml sec e Slow load sample onto column The flow rate range is 0 048 ml min to 4 2 ml min 0 0008 ml sec to 0 07 ml sec The list of possible commands is displayed in the lower right corner of the window This is the third step in the procedure Sample displays as a default source in the adjacent Source column 2 Enter the cannula depth from the bottom of the test tube or vial in the Cannula Depth in mm from bottom text box If you wish the cannula to go to the bottom of the test tube or vial leave the value at 0 zero 3 Select the Output text box in the third row and select where you want the sample to go after being loaded onto the column A list of possible outputs is displayed in the lower right corner of the window The output can be any of the three waste reservoirs or a fraction test tube 4 Select the Vol text box in the third row and enter the amount of sample in ml to be loaded onto the column The volume range is 0 1 to 5 8 ml 5 Select the ml min or mlI sec text box in the third row and enter the flow rate at which the sample i loaded onto the column bed In the example shown in Figure 23 5 8 ml of sample is loaded onto the column at 1 2 ml min When the sample has passed through the column waste is collected in the
29. the waste reservoirs when the modules were moved 1 Move the 3 meter 10 foot lines to the modules ensuring that each line is attached to its corresponding numbered line on the module 2 Place the line in the appropriate waste reservoir 3 Check the Reagent setup window for your designation of waste 1 2 and 3 Add a Module to the Workstation P N 115655 Rev 04 NOTE L Only qualified personnel should install RapidTrace modules Add the module to the end of the workstation furthest from where the reagent lines enter into the reagent bottles Set the address of the module appropriately RapidTrace User Manual Biotage Sweden AB Add or Move RapidTrace Modules 73 Connect the Communications Cable 1 Locate the RS 232 communications cable that goes to the computer Disconnect this cable from the bottom 9 pin port of the module adjacent to the new module and place it into the bottom 9 pin port of the new module 2 Attach the new RS 232 cable from the start up kit to the top 9 pin port of the new module 3 Plug the other end of the RS 232 cable into the bottom 9 pin port of the next adjoining module Connect the Power Cord Connect the power cord to the power entry port on the back of the new module and to the power source Connect the Reagent Lines You may connect the new module using individual reagent lines provided in your start up kit or you may add the new module to your manifolded workstation Con
30. workstation Provide space for reagents on the bench The RapidTrace t modules can be individually plumbed and use up to 8 reagents or they can be manifolded together so the entire workstation uses up to 8 reagents Flat stable level surface 14 5 kg 32 lbs per module Compressed Gas Supply optional feature Clean dry regulated air nitrogen etc WARNING Never use hydrogen or other flammable gases Use of incorrect gasses may cause combustion or an explosion Fitting for Gas Supply For connection of gas supply to fit 1 8 ID gas tubing Compressed Gas Supply Inlet Pressure e 0 7 bar 10 psi minimum e 2 8 bar 40 psi maximum WARNING To avoid personal injury or damage to the RapidTrace module DO NOT exceed the maximum inlet pressure of 2 8 bar 40 psi Communications Cables A standard 1 5 meter 5 foot RS 232 communications cable with male and female 9 pin connector ends is supplied with each RapidTrace module Racks and Vessels P N 115655 Rev 04 Each RapidTracet module requires one rack The following racks are available 13x100 mm fraction test tube Sample Fraction Description Positions Positions 13x100 mm sample test tube and 10 10 12x75 mm fraction test tube 13x100 mm sample test tube and 10 RapidTrace User Manual Biotage Sweden AB Columns Unpack and Site Preparation 13 Sample Fraction Description Positions Positions 16x100 mm sample test tube and 10 10 16x100 mm fraction
31. Lines Steel Polypropylene ES YES YES YES YES YES YES YES Can cause problem Dichloromethane CHoClo Can cause problem DCM Ethyl Acetate EA CHzCOOCHsCH3 YES ES YES S sopropanol IPA C3HgO YES YES Methanol MeOH CH30H Nitric Acid to 2M HNO3 YES Rinse with YES H O after use Sodium Hydroxide NaOH YES YES YES to 2M NOTES P N 115655 Rev 04 1 u Polypropylene is used in the check valve housing mixing chamber and wash and waste stations HCI at concentrations greater than 0 1M can attack stainless steel and is not recommended Always rinse the entire fluid path with water immediately after using solutions containing HCI H S0 4 at concentrations greater than 0 01M can attack stainless steel and is not recommended Always rinse the entire fluid path thoroughly after use For best performance always rinse the entire fluid path thoroughly after use For information on compatibility with other solvents contact the Biotage 1 Point Support see page 2 RapidTrace User Manual Biotage Sweden AB Reference Data 90 Flow Rate Conversion Chart po foo 0 004 0 24 0 005 0 3 0 006 0 36 ea ps P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Reference Data 91 Accessories and Kits NOTE Lt All part numbers are subject to change without notice For ordering information please refer to Contact Biotage 1 Point ee On page 2 ee _ ee _ de _ men
32. PE No Ste Source Output vol ralirain Liquid P P Sense Created 09 05 201 1 1 Purge Cannula Reagl Cannula 6 5 No Last Modified fesjosj2ot i z2 Purge Cannula Reage Cannula 6 5 Mo Run Time 100 48 3 Purge Cannula Reag Cannula 6 5 Mo Procedure Description i 4 Purge Cannula Reag4 Cannula 6 5 Mo p die 5 Purge Cannula ReagS Cannula 6 5 Mo a 6 Purge Cannula Reag Cannula 6 5 Mo 7 Purge Cannula Reag Cannula 6 5 Mo 5 Purge Cannula Reag Cannula 6 5 Mo Figure 62 Purge Reagent Lines P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Waste Test P N 115655 Rev 04 Add or Move RapidTrace Modules 76 2 Inthe Setup Procedure Sequence window assign the procedure to Samples 1 and 2 While the test is running e Check that there are no leaks in the fluid path e Check that air is not being pulled in once the lines are primed e The lines should be fully primed by the start of the second sample f leaks are noted retighten fittings Write a procedure to test for leaks in the waste lines using appropriate reagents for specific waste lines i e aqueous organic etc While performing the test check the back of the modules for leaks in the waste fluid path and retighten fittings as necessary Create procedure using reagent names for all modules File Edit Reagents Setup Variables Password Procedure Mame WASTE spe Liquid Mo Step Source Gutpuk vol ralirain Sense ZZ Eree
33. PE VI WN a TEE ee 22 PEA Pu MONG aea A E E 23 Start the RapidTracet Workstation cccccccsecscecesceeeeceeeeceeeeeeeneeeaneaes 25 Software OverVie W 2 cece cccce cece eee eect et eeeeeeeeeeeeeeeteeeeeeeteegeeeeteneaeeetsegegs 25 Rapid Thrace Start MENU smsinwicrnesasiencier nani ederewninwen KENEEN EPNER 25 RapidTrace ICONS cccccecccccccee eee ceeeeeee eee ceeeeeeeeee eee seeueeeneaneaeen ean eass 25 Turn on the RapidTracet Modules ccccccesccseeeeeseeeeeeeeeeeeevaneeeeneanes 26 E Za Ol ss srccacone nuaacestnanracanateb nearest ante AEAEE i 26 PGW Ale CROCK peronie parses nates E TIAN energie een EEEE 27 Start RapidTrace Software ccccceccccesceceeseeeeeeeeeseeeevaeeeeaeenvaneneaeenees 28 SEE CIO EEE E EE E EE E E E A T AET 28 Create Edit and Assign Procedures sssssssss2ususu2 suuonsuunnnnnnnnnnnn 29 Open the RapidTracet Methods Development Software cccceseeseee eee 29 DENNE TNO R O NE aE EE N ETE E EAE ENER 30 Save the Reagent Setup as a Set File uununonunnnenererrrrsrrrerrrrererrrrne 31 Recall a Saved Set File and Make it the Active File c0eeee ees 31 Create Procedures ccccec cece cee eee e ee eeeeeeeeeeeeeeeteeeeeeetteeeeettenegueetseegenegs 32 Name TAG PROC CONC arraren EEEE EE EE EAEE 32 Add Reagent to Sample and MiX ssnssesrererererrsrerrrrsrererrrrerererrnn 33 P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Table of Contents 9
34. Procedure Checker is installed with the RapidTrace software RapidTrace Procedure Checker offers valuable assistance to the user in two important ways e Identifies procedural oversights and errors e Suggests ways to optimize and improve procedure efficiency The goal for any RapidTrace procedure is an extraction that yields a reproducible result with a high recovery and low levels of carryover If the procedure analyzed by RapidTracet Procedure Checker meets these requirements carefully review the recommendations made by the software to determine if they are applicable for that procedure A RapidTrace procedure may be checked with RapidTracet Procedure Checker either before or after the procedure has been run If the procedure operates effectively no changes need to be made RapidTracet Procedure Checker recommends changes if shortcomings or errors are encountered Suggestions made by the software should be considered as guides to improving procedure performance It is not necessary to incorporate any or all suggestions offered by RapidTracet Procedure Checker Use RapidTrace Procedure Checker 1 Select Start Programs Biotage RapidTrace 7 SPE Procedure Checker or double click the Procedure Checker desktop icon The Rapid Procedure Checker software opens Procedure Checker z Rapid race Procedure Checker 2 1 This application will review RapidTrace procedures and make suggestions to improve performance The results from
35. RapidTrace Start Menu The following options are found when selecting Start Programs Biotage RapidTrace SPE e MAGASIGN used for assigning procedures to coded racks e Procedure Checker used for checking procedure files for errors e SPE used for methods development e SPERUN used for production e User Manual RapidTrace Icons There are three RapidTrace software icons on the desktop SPE SPERUN and Procedure Checker Some users may not have access to all the icons due to security levels at your company Table 6 RapidTrace Software Icons on the Desktop freon Name pesei RapidTracet Methods Allows access to Development SPE Setup reagents Create procedures Select communications port Select flow rate units Setup racks Run and monitor Reports Manual control Online help P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Start the RapidTracet Workstation 26 Table 6 RapidTrace Software Icons on the Desktop Continued Meon Name pesei RapidTrace Production Allows access to E7 SPERUN Setup racks Run and monitor SPERUM Reports Manual control Online help RapidTrace Procedure Checks the procedure files for 7 Checker errors and suggests improvements Procedure Checker NOTE RapidTracet software does not contain volume checking for exceeding the volumes of your sample test tubes or vials fraction test tubes and mixing chamber Turn on the RapidTrace M
36. SPE gt SPE or double click the SPE desktop icon Select the Settings menu The Settings dialog box opens as shown in Figure 5 z RapidTrace Settings working Folder CASPE iad COMM Port Flow Rate Units 3 6 mifSec ml Min Figure 5 Settings Dialog Box Click the button to browse for the desired working folder The Browse For Folder dialog box is opened Select the desired working folder and click the OK button Click the Save button in the Settings dialog box RapidTrace User Manual Biotage Sweden AB RapidTracet Parts and Functions 19 RapidTrace t Parts and Functions Front View 1 2 3 4 5 6 7 8 9 11 10 12 Figure 6 Front View of the RapidTrace Module WARNI NG AAA The valve syringe and syringe drive contain pressurized liquids and components may move during operation Always keep body parts hair jewelry and clothing away from the RapidTrace module during operation P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB RapidTracet Parts and Functions 20 Table 2 Front Parts and Functions Gas Valve Activates gas drying of the column bed if the valve is plumbed into the module and you use the Dry Column step Mixing Vessel Creates a mixed reagent when you use the Add Reagent to Mixing Vessel and Mix Reagents in Mixing Vessel steps Performs all dispense and aspirate functions The syringe draws up either sample or reagent through the 12 port valve as spe
37. User Manual Biotage Preface 1 Preface Product I nformation Keep your product information readily available in case you have to contact Biotage for any reason Record the product information below found on your shipping documents RapidTracet Software Version see the information printed on the RapidTrace software CD Copyright Information in this document is subject to change without notice and does not represent any commitment from Biotage Sweden AB All contents 2011 Biotage Sweden AB All rights reserved No material may be reproduced or published without the written permission of Biotage Sweden AB Trademarks The following trademarks are owned by Biotage AB Biotage Advancer AFFINILUTE Endeavor EVOLUTE ExploraSep Firefly design FLASH FlashMaster FlashVac HPFC HP SIL Initiator Isolera ISOLUTE IST IST design Kiloprep KP C18 HS KP C18 WP KP C4 WP KP NH KP Sil MIP4SPE MIP Rule of 6 MIP 4 Process MIP 4 Proteins PathFinder PRESSURe 48 PRESSURe 96 RapidTrace Resolux Samplet SIM SNAP SP1 SP4 SP Wave Syro Wave TurboVap VacMaster V 10 ZIF ZIF SIM ZIP and 1 Point Support Other product and company names mentioned herein may be trademarks or registered trademarks and or service marks of their respective owners and are used only for explanation and to the owners benefit without intent to infringe Statement of Proper Use Rapidtrace is a high throughput w
38. a procedure to each sample see Assign Procedures to Samples on page 42 8 When you have assigned a procedure to all samples click the OK Save button to save and return to the main window 9 Click the Run Monitor button The Run RapidTrace window opens see the example in Figure 32 10 To delay a run set the Delay check box and enter the start time 11 To run all modules click the Run All button Note that any entered delay times will be ignored i e all runs will start immediately If different procedures are assigned to individual modules the Run All button is not available 12 To run an individual module click the Run button for that module Once a module is running the computer has downloaded the S necessary information into the module and you can use the computer for other purposes However for module monitoring purposes you may remain in or return to the Run RapidTrace window at any time Each module s box displays information on the step that the module is performing or any errors that have occurred RapidTrace User Manual Biotage Sweden AB Run Methods and Monitor Operations 47 Z Run RapidTrace Beep Module 0 Module 1 Module 2 Module 3 Module 4 Add to Sample Add to Sample 5ml 5ml of H25 of H22 at 0 0833 msec at 0 0833 msec al Delay 10 24 C Delay Figure 32 Two Modules Running SPE1 SPE Procedure Setup the Beep Control The beep control allows a beeper to soun
39. ach it as follows a Attach the line end with the compression screw to the gas valve port at approximately the two o clock position On older valves connect to the valve s Normally Open NO port b Attach the other end of the line to the 12 port valve position that you removed the line from in step 1 Unblock a Syringe Discharge Tube P N 115655 Rev 04 The syringe discharge tube is the horizontal stainless steel tube that connects the base of the syringe to the 12 port valve If this tube becomes blocked a blocked syringe discharge error message displays WARNING AAAAA Always use extreme care when handling fluids in the laboratory To unblock the syringe discharge tube follow the procedure below 1 Click the Manual Control button in the main window of the RapidTrace Methods Development or Production software 2 Turn the 12 port valve to the reagent bottle containing water using the Twelve Port Valve command S For most applications water should be Reagent1 3 Fill the syringe with 6 ml of water using the Syringe Position command 4 Place a small beaker or other appropriate vessel under the syringe discharge tube to collect liquid 5 Disconnect the small length of PTFE tubing running from the syringe discharge tube to the 12 port valve 6 Set the syringe speed to 42 ml min or 0 7 ml sec using the Syringe Speed command This is the fastest syringe speed 7 Set the syringe position to 0 ml using the
40. ane rererere 7 Unpack and Site Preparation cccccccssscnssseeeeeeecceeeesssennnuaeeeeesseseesnaas 11 Unpack the Workstation and Check the Parts ccccceceeeeeeeeeeeeeeees 11 DIC PRED ab ON aeea tual eyes da a0eei que venues ieeaaw atten E 11 COMMUNICATIONS CableS ccc ccc ee cece eee e esses eee teeeeeeeeeeeeeeetaeegeeeeegs 12 RACKS and VESSEIS cece ccecee cece ee eeee eee eeeeeeeeeeeeeeeeteeegueetteegueeetseengs 12 CO ONS es esac wv esse EE iets ee ene eae a neste eee nee cae 13 Waste RESEIVOIS ccccce cece ee tee eee eeeeeeeeeeeeeeeeetteeeeeeteeegeeetseeueeettnegas 13 Install RapidTracet Hardware cccccseccceececeeccceeeeceeeeceeceeuaneceaceeneeears 14 Reagent Line Configuration cc cece c ccc cee eee e eee eeeeeeeeeeeeeeeeeeenennneenngs 14 Install RapidTracet Software cccccsccecsceceseeeeeeeaeeeeaeeeeaeeauaeeaeaneneaneaes 15 Install the RapidTracet Software cccccccesccceeeeeeeeeeeevaeeeeaeeeeanen sass 15 Set the COMMUNICATIONS POIt cc cece eee cee ee eee e ee eeeeeeeeeeeeeeeeteeeueeeteeenes 17 Set the POW Rate UNIES wsco sceraescwnssceneesmensaseues oweseseeasuscacenisee yidswesenats 17 Set the Working FOICELS cce cece cece eee e eee e eee eeeeeeeeeeeeeteeeeeeeeeeeneaaas 18 RapidTracet Parts and FUNCtIONS ccccccecceeeccecueceeuecuaeeeeeeeeeaneeeaneaes 19 OIG VY e ates arora nace wate anda on beaten barns e rae ES 19 se RA E E E O emeaonanvsa cane E E E nee E E T 21
41. ard Risk of body parts hair jewelry or clothing getting caught in a moving part Risk of exposure to biohazards Risk of eye injury wear safety glasses Risk of fire Risk of poison aA Risk of explosion RapidTrace User Manual Biotage Sweden AB P N 115655 Rev 04 Preface 5 Table 1 Important Symbols Continued symbol Hazardous fumes Lifting hazard May result in injury Protective ground symbol Ground symbol Signifies that the RapidTrace module has passed safety tests for grounding power line transience and current leakage Ea epee Equipment Yellow Caution risk of danger labels are Red Stop color coded Blue Mandatory action Green Safe condition or information Helpful hints additional information RapidTrace User Manual Biotage Sweden AB Safety Safety 6 The following safety information about RapidTrace is included in this documentation Read and review all safety information before operating the workstation e Required Training below e Chemical and Biological Safety below e Electrical Safety on page 7 e Mechanical Safety on page 7 Required Training Ensure that all personnel involved with the operation of the RapidTracet workstation have e Received instruction in general safety practices for laboratories e Received instruction in specific safety practices for the equipment e Read and understood all related SDSs WARNING Use
42. ation 3 Click the Send button The module selected performs the operation 4 Repeat steps 2 and 3 for each operation that you want to include in the macro All of the operations that are included in the selected macro are listed in the Procedure I nstructions field 5 Click the Save Routine button to save the macro The Save As dialog box opens 6 Enter the desired macro name in the File name text box and click the Save button The software adds an err extension which is the default extension in RapidTracet software for macros P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Manual Control 64 Run a Macro 1 Click the Recall Saved Routine button The Open dialog box opens 2 Select the desired macro and click the Open button 3 Enter the module number in the Module text box Only one module can be operated at a time unless 10 is entered Entering 10 in this text box causes the macro to run on all modules 4 To run the macro click the Run Displayed Routine button 5 To clear the macro from the Manual Control window click the Clear Routine button P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Add or Move RapidTracet Modules 65 Add or Move RapidTrace Modules Overview You can move or relocate your RapidTrace workstation To make re installation easier review the module s plumbing prior to disassembly so you can put it back together There are colored labels in the sta
43. atory e Dispose of chemical or infectious waste in accordance with good laboratory practices and local state provincial or national environmental and health regulations Appropriate power outlets for the RapidTracet modules the computer and the monitor must be available See Specifications on page 87 RapidTrace User Manual Biotage Sweden AB Install RapidTrace Hardware 14 Install RapidTrace Hardware During installation the computer is connected to the RapidTracet modules up to ten modules and diagnostics are run to confirm the operation of the hardware To add a module see page 72 For assistance with installation please contact Biotage 1 Point Support see page 2 Reagent Line Configuration P N 115655 Rev 04 Before the modules are installed decide the plumbing arrangement for the reagent lines There are two options 1 Manifold Setup Use this setup when you want to use the same reagents for all modules in the workstation Each module is plumbed together with a manifold and has a check valve in the reagent bottle The check valve prevents reagent from flowing out of the reagent line if you remove a module from the workstation Each reagent bottle should have a stopper to prevent contamination and to help keep the check valve at the bottom of the bottle 2 Individual Reagent Lines Use this setup when you want to use different reagents for each module Kits of tubing weights can be ordered P N C50973 to k
44. authority to operate the equipment RapidTrace User Manual Biotage Sweden AB Preface 4 WEEE Compliance Statement Valid for customers in EU countries We are committed to being a good corporate citizen As part of that commitment we strive to maintain an environmentally mummy COnscious manufacturing operation The European Union EU has enacted a directive on product recycling Waste Electrical and Electronic Equipment WEEE and over time this directive will be implemented in the national laws of each EU member state Products falling under the scope of the WEEE Directive are identified with a crossed over wheelie bin symbol on the product label as indicated to the left To forward the products for recycling or proper disposal use an authorized collection system or return them to Biotage Sweden AB Table of Symbols P N 115655 Rev 04 Table 1 contains symbols that identify particularly important information and alert you to the presence of hazards These symbols may appear in this manual and or on the product it describes Table 1 Important Symbols symbol DANGER An imminently hazardous situation which if o not avoided will result in death or serious injury WARNI NG Caution risk of danger Refer to the user documentation NOTE A cautionary statement an operating tip or maintenance suggestion may result in instrument damage if not followed aA Hazardous voltage risk of shock injury Crush haz
45. bar 40 psi maximum Connections RS232 Input Connects the module to the computer RS232 Output Used when multiple modules are connected Heat Output per Module 50 100 watts Ventilation Cooling RapidTrace is cooled by the exhaust fan located at the rear of the module Grounding RapidTrace is grounded through the three pronged power cord and through the grounding terminal in the power entry module located at the rear of the module Mounting RapidTrace should be mounted only in a horizontal position on a flat sturdy surface P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Reference Data 88 Column Bed General P N 115655 Rev 04 The 3 ml RapidTrace is capable of running any column in the 1 or 3ml syringe type format with a bed height between 0 14 cm and 5 9 cm The 6 ml RapidTrace is capable of running any column in the 1 3 or 6 ml syringe type format with a bed height between 0 14 cm and 5 9 cm To measure the bed height measure from the Luer tip to the top of the frit in the column RapidTrace User Manual Biotage Sweden AB Reference Data 89 Solvent Compatibility Chart Solvent Aqueous Buffer Solutions The RapidTrace fluid path contains PTFE stainless steel and polypropylene Refer to the chart below for reagent compatibility with these materials NH3 mona e Ammonium hydroxide NH4OH Rinse with H2O Y before using organic solvents Chloroform CHCls Stainless PTFE
46. carryover as part of transferring a method to the RapidTracet workstation The strongest organic reagent should be used when cleaning and purging the cannula This will most effectively clean the fluid path of any remaining Sample NOTE Lt If the sample contains proteins i e plasma or serum samples a Purge and Clean cannula step should be performed with water prior to performing a Purge and Clean cannula step with a strong organic solvent The water rinse helps remove protein from the fluid path Proceed with caution when using protein samples to prevent any protein precipitation The following is a general procedure to determine carryover 1 Runa blank sample one that contains no analyte 2 Runa sample that contains a very high concentration of analyte 3 Run two additional blank samples 4 Analyze the blank samples for carryover of analyte The carryover measured is from the entire process of preparing the sample not just the RapidTracet procedure For most applications the carryover measured could come from any manual sample preparation step the RapidTracet procedure any sample evaporation or derivation and or the final sample analysis It is important to determine what each portion of the Sample preparation contributes to the total carryover If carryover is detected in the RapidTracet procedure examine the steps used to wash out the fluid path and clean as described in Clean the RapidTrace t Modules on
47. ce text box in the first row and select the reagent to be added to the sample The list of possible sources the reagents Specified in the Reagent setup window see Define the Reagents on page 30 is displayed in the lower right corner of the window P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 35 Items choosable For current grid selection Mixing Vessel Figure 19 Source List 7 Select the Vol text box in the first row and enter the amount of reagent in ml to be added to the sample 8 Select the mlI min or ml sec text box in the first row and enter the flow rate at which the reagent is added to the sample NOTE The rate at which reagent is aspirated pulled out of the reagent bottle is defined by the sip speeds in the Reagent setup window 9 If you want to turn on the liquid sensor and detect if there is liquid in the syringe click on No in the Liquid Sense text box in the first row No changes to Yes Failure to pull liquid occurs if the reagent bottle is empty or the fluid path is blocked If the sensor does not detect liquid it assumes that the reagent has run out The sensor sends a signal to stop the procedure and lights the error LED The liquid sensor should not be turned on for volumes of 1 2 ml or less Switch the sensing option off by clicking again on Yes The sensor is off when the text box displays No In the examp
48. cified in the procedure and dispenses it back through the 12 Syringe Drive and Liquid Sensor port valve to the column plunger or cannula as specified in the procedure If you set Liquid Sense in a procedure to Yes the sensor detects the presence of liquid in the syringe If it does not detect liquid an error occurs and the procedure stops 12 Port Valve Directs the liquid flow from the syringe to one of the following ports as specified in the procedure Reagents 1 through 8 8 different ports Vent Cannula Column plunger Mixing vessel Wheel Selects a module address of 0 through 9 Power LED LED Lit when the power is on LED Lit when the module is running a procedure Start Stop eer Starts the procedure for a magnetically encoded rack or stops any procedure if it is running When using magnetically encoded racks the modules must be connected to the computer Column Plunger Delivers the sample or reagent to the column The column plunger moves into the column and places the reagent or sample directly onto the column bed There are three different plunger sizes 1 3 and 6 ml Use the correct plunger size for your columns Cannula Accesses the sample test tube or vial to add reagents to the Sample mix the sample or to draw the sample into the syringe and load it onto the column as specified in the procedure Column Turret Holds the columns The 3 ml RapidTrace holds up to ten 1
49. d connecting them to each successive reagent line until all eight reagents have been completed 7 After appropriately cleaning the check valves place them in the new reagent bottles Connect the Gas Line If gas drying of the column bed is being used follow the instructions below to connect the gas line to the new module Connect a Gas Manifold Connect a gas manifold to the gas line at the rear of the module that is being added as per the instructions on page 73 Connect a Manifold steps 2 through 5 F The gas line should already be attached to the gas tank NOTE The 1 8 inch 3 175 mm tubing is for the gas line and the 1 16 inch 1 59 mm tubing is for reagents Connect an Individual Gas Line The start up kit includes a 3 meter 10 foot gas line two types of fittings to connect the gas line to a gas Supply and an individual gas fitting 1 Attach the 3 meter 10 foot gas line to the gas tank using the appropriate fitting 2 Attach the individual gas fitting between the line to the gas tank and the line to the module Figure 60 Attach lines here Line to Gas Tank Line to hvodule Individual gas fitting Figure 60 Connecting Gas Lines P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Add or Move RapidTrace Modules 75 Connect the Waste Lines The four waste lines extend from a cutout at the base of the back of each module 1 Locate the waste line kit within the start up kit These l
50. d when a module encounters an error and when the modules in your workstation have completed the procedures Any number between 0 and 100 may be entered into the text box This value represents the number of repeats per signal Test the beep to determine the preferred setting Entering 0 disables the option and no beep sounds When a module has an error it beeps in the same manner as the test beep When all modules are finished running they beep ten times longer than the test beep NOTE Lt Since the RapidTracet module is controlled from a computer the beep can sound only if a sound card has been installed on the computer To set and test the beep 1 Select the Beep menu The Beep Control window opens Z Beep Control Enter Number of Repeats Per Signal e E Figure 33 Beep Control Window 2 Enter the desired number of beeps 3 Click the Test button The computer sounds the test beep 4 To save the setting click the OK button P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB View and Print Run Reports The RapidTrace Reports window displays the last three reports from each module Run Methods and Monitor Operations 48 Pay close attention to the date and time to determine which report you wish to see The main functions of the RapidTrace Reports window are to view and print run reports and to access the sample counter for each module with the View Usage Log button View the Selected Report
51. dure remains open Or 2 Click the OK Save button The Save As dialog box opens showing where the file will be saved and the file name Click the Save button to save the file and return to the main window gt eE My Recent E CLEAN SPE Documents Desktop My Documents 3 hy Computer hyt Figure 24 Save As Dialog Box Edit a Procedure The following steps demonstrate the process of editing a procedure 1 Click the Create Procedures button in the main window The Create procedure window opens 2 Select File gt Open The Open File dialog box opens 3 Select the procedure you wish to edit and click the Open button 4 Make the desired changes To add a step select the step to insert the step above and select Edit Insert A new row Is added above the highlighted step To delete a step select it and select Edit Delete The selected step is deleted 5 After edits have been made click OK Save to save the edits to the file The edited version of the file can also be saved under another name by selecting File Save As P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 39 Create Procedure Window P N 115655 Rev 04 The Create procedure window is used to write edit and save procedures To access this window open the RapidTracet Methods Development software select Start Programs Biotage RapidTrace SPE SPE or double click the SPE deskt
52. e Both aqueous and organic waste exits through this line as the lines are primed P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Daily Operations 56 Clean the RapidTrace Modules The following post run cleanup procedure is recommended with routine maintenance Cleaning the modules removes any proteins that may have built up in the fluid path NOTE Lt Do not leave a module inactive for more than one day without cleaning Post Run Cleanup Procedure ee P N 115655 Rev 04 NOTE u As both biological and organic waste may contain proteins it is important that the waste lines are cleaned At least 50 ml water and at least 8 ml of both 2M sodium hydroxide NaOH and 2M nitric acid HNO3 are required for the cleanup procedure Sodium hydroxide and nitric acid eliminate protein buildup in the fluid path and neutralize each other Water flushes the pathway for effective cleanup Z Create procedure using reagent names for all modules File Edit Setup Variables Password Procedure Mame CLEAN SPE Reagents No Ste Source Gutpuk vol ralrain Liquid P Sense Created f 1 13 95 8 21 Purge Cannula H20 Cannula 3 24 No Last Modified i28 96 PETH z Add to Mixer Sample Mixer 2 5 15 No Run Time 13 40 3 Purge Cannula Mixer Cannula 2 6 30 Mo j Procedure Description This is the ten 4 Add to Mixer H20 Mixer 4 5 30 No l the cleaning 5 Purge Cannula Mixer Cannula 5 30 Mo F 6 Add to Mixer H20
53. e all reagent lines from water beaker and run PURGE8 SPE 6 Place all reagent lines into a large beaker of methanol and run PURGE8 SPE 7 Remove all reagent lines from the methanol beaker and run PURGE8 SPE 8 Turn all modules off 9 Decontaminate the exterior of the RapidTrace module based on the use of the module and the samples and reagents used WARNING AAAAA Liquids used with the RapidTrace workstation can be infectious toxic flammable and or corrosive Refer to the SDS Safety Data Sheet for detailed information regarding chemicals used in your applications Handle all samples using good laboratory practices to prevent biohazards RapidTrace User Manual Biotage Sweden AB Reference Data 87 Reference Data Specifications Power 100 240 VAC 10 Fuses 1 6 Amp 5 x 20 mm fast acting P N C47254 Weight per Module 14 5 kg 32 Ibs Dimensions 10 x 55 x 60 cm W x D x H per Module 3 9 x 21 7 x 23 6 in Operating Temperature 59 F to 95 F 15 C to 35 C Operating Humidity 0 to 85 relative humidity non condensing Storage Temperature 50 F to 122 F 10 C to 50 C If upgraded with the new opto sensor P N C133967 Solvent Inlets 8 reagent inlets individually configurable aspirate dispense rates Waste Outlets 4 separate organic aqueous and biological waste Gas Inlet l gas inlet 2 8 bar 40 psi maximum Optional Feature Compressed Gas Supply Inlet 0 7 bar 10 psi minimum Pressure 2 8
54. e fuses RS 232 Connects the module to the computer if it Communications is the first module or connects the module Cable Port Input to the output of the previous module Waste Lines 3 column waste lines and 1 cannula waste line RapidTrace User Manual Biotage Sweden AB RapidTracet Parts and Functions 23 External Plumbing Figure 8 External Plumbing Diagram WARNING Never use hydrogen or other flammable gases Use of inappropriate gas may cause combustion or an explosion WARNING AAAAA Liquid exiting the solvent and sample waste lines can be infectious toxic flammable and or corrosive Refer to the Safety Data Sheet SDS for detailed information regarding chemicals used in your applications e Do not touch waste e Keep waste from heat or flame e Dispose of waste properly e Periodically check waste lines for damage e Make sure that the flow is not inhibited and that the waste reservoirs are large enough to hold waste generated P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB RapidTrace Parts and Functions 24 Table 5 External Plumbing Parts and Functions 1 Syringe and liquid sensor 12 Port Valve Directs the liquid flow from the syringe to one of the following ports as specified in the procedure Reagents 1 through 8 8 different ports Vent Cannula Column plunger Mixing vessel Vent Port on 12 Port draws air from the vent as Valve Gas Valve Activa
55. ed Racks on page 49 The Run All button is only available when all modules are running the same procedure The Run All button may not display in earlier versions of the RapidTrace software Upgrade to the latest version Check to ensure that the correct procedure is assigned to the correct module and that all vials and or test tubes and columns are in place Go to the Manual Control window Send the Warm Start Command to re initialize the module Restart the run from the Run RapidTrace window when initialization is complete RapidTrace User Manual Biotage Sweden AB Service 83 Device Unavailable message displays or assigned procedures disappear when Run RapidTrace window initializes Syringe leaking above plunger Syringe leaking at base Clogged fluid path at cannula column plunger or waste station Air bubbles in reagent lines Tubing falls out of fittings Lines do not stay primed O rings on column plunger need to be replaced often P N 115655 Rev 04 e Check and tighten the connections between the modules and the computer Delete and re enter the communications port number Confirm that the proper port is assigned under the Comm Port menu Switch communications port to rule out port failure Switch all modules and the computer off wait 10 seconds and restart the computer and the modules Remove knurled nuts from bottom of syringe to remove the black plate and the syringe base Tur
56. eden AB Service 84 Replace the Fuses Each RapidTrace module is equipped with a universal AC power entry port The same fuses are used for 100 240 VAC This section describes how to replace the fuses WARNING AA Electrical shock hazard switch the power off and disconnect the power cord before changing the fuses For continued fire protection and correct functioning of the module replace fuses only with fuses of the same type and rating Tools needed Small flat bladed screwdriver To replace the fuses on a RapidTrace module 1 Switch the power off and unplug the power cord from the power source and the power entry port on the back of the module 2 Using a small flat bladed screwdriver gently pry the fuse cover open The fuse cover is connected to the power entry port and does not come off Open the fuse cover fully The power cord must be removed before the fuse cover will open Fuse cover Fuse block Figure 67 Opening the Fuse Cover 3 Using a small flat bladed screwdriver gently pry the fuse block out of the power entry port housing 4 Remove the two 1 6 A fuses 5 Install two new 1 6 A fuses as shown in Figure 68 100 240 VAC 2 1 6 Amp 5 x 20 mm Fast Acting P N C47254 Figure 68 Fuse Configuration P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Service 85 6 Place the fuse block into the power entry port with the fuses toward the inside of the power entry por
57. eep the reagent lines at the bottom of the reagent bottles Each kit comes with eight 8 weights i e order one kit per RapidTrace module See Contact Biotage 1 Point Support on page 2 WARNING A AA Liquid exiting the solvent and sample lines can be infectious toxic flammable and or corrosive Refer to the SDS Safety Data Sheet for detailed information regarding chemicals used in applications e Do not touch waste e Keep waste from heat or flame e Dispose of waste properly e Periodically check waste lines for damage e Make sure that the flow is not inhibited and that the waste reservoirs are large enough to hold waste generated Always exercise extreme caution when handling fluids in the laboratory RapidTrace User Manual Biotage Sweden AB Install RapidTrace Software 15 Install RapidTrace Software The RapidTrace software can be installed on a computer with Windows XP Windows Vista or Windows 7 Your RapidTracet Start Up Kit P N C52006 contains one CD To install the software follow the instructions below NOTE For the RapidTracet software to work properly the computer has to use U S format for numbers dates and time see Set the Format for Numbers Dates and Time below Install the RapidTrace Software 1 2 Insert the RapidTracet Software CD into the computer s CD drive If the computer has AutoRun enabled either the installation starts automatically or the AutoRun
58. f a program folder document or Internet resource and Windows will open it for you Open intl cpl kd This task will be created with administrative privileges Figure 1 Run Dialog Box Windows 7 Select the Regional Options tab Windows XP or the Formats tab Windows 7 and Vista Select English United States from the drop down list in the Standards and Formats area Windows XP or from the Formats Current format drop down list Windows 7 and Vista Click the OK button to save the change Date and time formats Short date yroy MM dd Long date dddd MMMM dd yyyy What does the notation mean Examples Short date 2011 09 02 Long date Friday September 02 2011 Short time 08 21 Long time 08 21 28 Additional settings Go online to learn about changing lanquages and regional formats Figure 2 Regional and Language Dialog Box Windows 7 RapidTrace User Manual Biotage Sweden AB Install RapidTrace Software 17 Set the Communications Port SPE The Comm Port menu in the RapidTrace Methods Development software enables you to set the communications port that the RapidTrace module is connected to on the computer NOTE For the computer to communicate with a RapidTrace module the RS 232 communications cable must be attached to the assigned communications port on the computer and to the module 1 Open the RapidTracet Methods Development software select Start Programs B
59. g at sample 1 unless there are multiple fractions Refer to Multiple Fractions on page 44 for more information When using the 6 ml RapidTrace only use samples 1 3 5 7 and 9 4 Select the modules you do want to assign the procedure to in the lower left corner of the window If there are less than ten modules in your workstation it is still acceptable to select all ten modules 5 Click the arrow button between the two lists The selected procedure is assigned to the selected sample s for the selected module s If the procedure is assigned to several modules the list title changes to Procedures assigned to Module no and selected group 6 Repeat steps 2 through 5 until a procedure has been assigned to all Samples In the example shown in Figure 29 the procedure SPE1 spe has been assigned to samples 1 through 5 and procedure Iml spe to Samples 6 through 10 for all modules To remove a procedure from a sample select the sample and click the Delete Selected Items button 7 Click the OK Save button to save the setup and return to the main window Z Setup Procedure Sequence Pef Procedures Available Procedures assigned to Module O and selected group SML SPE Sample 1 SPE1 spe CLEAN SPE Sample 2 SPE1 spe SPE1 spe Sample 3 SPE1 spe Sample 4 SPE1 spe Sample 5 SPE1 spe iL Sample 6 1ML SPE Sample 7 1ML SPE Sample amp 1ML SPE Sample 9 1ML SPE Sample 10 1ML SPE Delete Selected
60. h Refer to the online help for further information If you want to save the settings as current for all modules click the OK Save as current button If you only want to use the settings for one or several individual modules or save the settings for later use save the settings in a set file see Save the Reagent Setup as a Set File on page 31 Once the settings are saved in a file they can be assigned to any module RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 31 Save the Reagent Setup as a Set File The settings in the Reagent setup window can be saved as a data file for later use This procedure describes how to save the entered settings as a set file Once the settings are saved as a set file they can be assigned to any module at any time 1 Select File Save As in the Reagent setup window The Save As dialog box opens Enter the desired file name in the File name text box The software automatically attaches the set extension to the file name Name the files so you can easily find them Consider naming the file to reflect the function of the procedure or the class of the agents for example a drugs of abuse procedure might be named doa set Click the Save button to save the file and return to the Reagent setup window To close the Reagent setup window and return to the main window click the Close button Recall a Saved Set
61. h of the column bed The volume range is 1 to 6 ml The default value is 2 ml Column Air Push Speed Multiplier This factor increases the airflow rate through the column after a reagent or sample step The slow liquid flow rates required to push reagents or Samples through the column are not usually necessary for the air push after a reagent or sample step This parameter can be used to speed up the run time for the procedure without decreasing recovery Sip Speeds mlimirn Mixer 30 00 4 Sample 15 00 Constants Column air push volume Column air push speed multiplier 2 Figure 26 Setup Variables Window RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 41 Assign Password Window Procedures and reagent setups can be password protected i e you will need the password to open the Create procedure and Reagent setup windows The password may be any 128 character string of printable keyboard characters Do not forget your password If you forget your password call Biotage 1 Point Support see Contact Biotage 1 Point Support on page 2 Z Assign Password Type in new password Figure 27 Assign Password Window Carryover Prevention P N 115655 Rev 04 Carryover is a type of contamination that occurs when some of a sample remains in the system which can carryover into the next sample The fluid path transports both reagents and samples therefore you should check for
62. he Setup Procedure Sequence window b Run the procedure for all modules in the workstation A test tube must be in sample position 1 on your racks 4 If moving modules with individual reagent lines a Assign the procedure to sample 1 and 2 in the Setup Procedure Sequence window b Run the procedure for all modules to be moved 5 When the modules complete the procedure check the reagent lines for fluid P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Add or Move RapidTrace Modules 67 Moving Manifolded Modules Purge Reagent Lines Before moving modules liquids must be removed from the reagent lines To remove fluid from the lines see Purge Reagent Lines on page 66 Disconnect Plumbing When liquid has been removed from the reagent lines and the power switched off unplug the power cords and the RS 232 communications cables and disconnect the plumbing WARNING If gas is being used turn off the gas at the gas tank first then disconnect the gas line attached to the tank Disconnect Reagent and Gas Lines WARNING AA Confirm that gas has been turned off before removing the gas connection Locate the modules to be moved It is easiest to remove the modules at the end of the workstation furthest from where the reagent lines are placed into the reagent bottles If the entire workstation is moved it is not necessary to attach the plugs mentioned below in steps 1 and 2 1 Locate the p
63. ines are 3 meters 10 feet long and are labeled 1 through 4 2 Attach each waste line to its corresponding numbered line on the module 3 Place each waste line in the appropriate waste reservoir 4 Check the Reagent setup window for the designation of waste lines 1 2 and 3 There are colored labels in the start up kit to help identify the lines eee Cutout for waste lines LERF vn Figure 61 Cutout for Reagent and Cannula Waste Lines Operations After Moving or Adding Additional Modules After moving the workstation or adding additional modules you need to run a purge test and a waste test Begin by turning on the modules Observe them as they initialize Initialization is a self test run by a module every time it is switched on It assures that all components of the module are in correct position to start running samples and it confirms that the module is properly functioning If an error is encountered during initialization the error LED illuminates Refer to Initialization on page 26 Purge Test Run a purge test for all modules in your workstation to prime the lines with reagent and check for leaks 1 Write a procedure to purge the reagent lines taking the miscibility of the reagents into account An example of a procedure for eight reagents is shown in Figure 62 Create procedure using reagent names for all modules Fie Edit Reagents Setup Variables Password Procedure Mame PURGES S
64. iotage RapidTrace SPE gt SPE or double click the SPE desktop icon 2 Select the Comm Port menu The Port Number drop down list is displayed as shown in Figure 3 Pork Number Figure 3 Comm Port Window 3 Select the communications port that the RapidTracet module is connected to on the computer from the Port Number drop down list 4 Click the OK button Set the Flow Rate Units E SFE P N 115655 Rev 04 The Flow Rate Units menu in the RapidTrace Methods Development software enables you to set the flow rate units to ml sec or ml min The default flow rate is ml sec 1 Open the RapidTracet Methods Development software select Start Programs Biotage RapidTrace SPE SPE or double click the SPE desktop icon 2 Select the Flow Rate Units menu The flow rate units options are displayed as shown in Figure 4 mliSec mliMin Figure 4 Flow Rate Units Menu 3 Select either ml sec or mI min to display all flow rates in the selected units 4 Click the OK button RapidTrace User Manual Biotage Sweden AB Install RapidTrace Software 18 Set the Working Folder The Settings menu in the RapidTrace Methods Development software enables you to set the working folder i e the folder where all your procedures are saved The default working folder is C SPE E SFE P N 115655 Rev 04 1 Open the RapidTracet Methods Development software select Start Programs Biotage RapidTrace
65. itions for sample 1 and 2 in the turret Empty columns with spacers can be found in the start up kit Open the Setup Procedure Sequence window click the Setup Racks button in the main window and assign the clean spe procedure Supplied with the software to sample 1 and 2 Run the method using the reagent setup created in step 1 Clean the Exterior of the RapidTrace Modules P N 115655 Rev 04 Always wipe up spills immediately Wipe the exterior surfaces of the RapidTracet modules with a damp cloth after each use WARNING AA AAA Liquid used with the RapidTrace workstation can be infectious toxic flammable and or corrosive Refer to the SDS Safety Data Sheet for detailed information regarding chemicals used in your applications RapidTrace User Manual Biotage Sweden AB Manual Control 58 Manual Control Features of the Manual Control Window P N 115655 Rev 04 To access the Manual Control window click the Manual Control button in the main window of the RapidTrace Methods Development or Production software The Manual Control window operates individual module functions to recover from error conditions Macros group the individual operations together to perform a task See Use Macro Routines on page 63 E RapidTrace Manual Control BER Low Level Instructions Frocedure Instructions Syringe Twelve Port Valve Shuttle Sample Shuttle Collect Shuttle Waste Shuttle Wash Shuttle Gut Column Pl
66. k Controller Contact Biotage 1 Point Support C55076 Check Valve Kit for Manifold Reagent Set of 8 check valves Lines corsa Spare Fitings and tubing ET c59806 Gas Conversion tines RR css __ 3miSPEGeladapterkE OOO eserse OOOO C133967 40 ml Rack Upgrade with Sensor Contains sensor software and one 40 ml sample rack C133969 6 ml Turret Upgrade Kit Contains 6 ml turret software and adaptors for 1 and 3 ml columns P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Glossary 93 Glossary The molecule of interest in the sample that is to be isolated Anion An ionic exchange mechanism whereby the functional groups on the Exchange sorbent are cationic or positively charged The mass of packing material in the column Cartridge The container holding the phase The cartridge may be referred to as tube or column This manual uses the term column Cation An ionic exchange mechanism where the functional groups on the sorbent are anionic or negatively charged Exchange Collect The action used to remove analyte s of interest from the column May be done in single or multiple steps May be referred to as collecting fraction s Column Bed Refers to the material packed into the column Condition The step s used to prepare the column bed to bind the analyte s of Interest which is are the first step s in most SPE procedures Referred to as solvation or activation of the
67. ked 09 05 2011 fal Condition Reagl Waste 6 42 Mo Last Modified losyosyz011 zZ Condition Reage Waste2 6 42 Mo Run Time 255 3 Condition Reags Wastes 6 42 Mo Procedure Description This oroced Figure 63 Waste Test RapidTrace User Manual Biotage Sweden AB Service Service 77 Remove the Front Cover P N 115655 Rev 04 The front cover on the RapidTracet module protects the valve syringe and syringe drive If you need to access any of these parts you must remove the front cover You do not have to remove the front cover to access the Run button on the front of the RapidTrace module WARNING AA Reassemble all covers before operating the RapidTrace module To remove the front cover 1 Grasp the lower sides of the front cover Front Cover Figure 64 Front Cover 2 Lift the cover straight up to clear the cover locating pins shown in Figure 65 at the top of the RapidTracet module then toward the front away from the RapidTracet module a a A Figure 65 Front Cover Locating Pins RapidTrace User Manual Biotage Sweden AB Service 78 Gas Drying Conversion Older valves As shipped the RapidTracet modules are not set up for gas drying of the column bed To use gas drying you must change the plumbing 12 PORT Valve Remove this line from the 12 port Valve to column Newer valves 2 o clock e Older valves WO E 7 i Attach this line Newer valves o clock fr
68. le shown in Figure 20 5 ml of water is added to the sample at 30 ml min using the cannula with the liquid sensor turned off Procedure Mame SPE1 Liquid Mo Step Source Output Val mlimin Sense ia 1 Add to Sample H20 Cannula 5 apl Mo 3 Figure 20 Add To Sample Command NOTE Lt The flow rate range when using the Add reagent to sample and mix command is 0 36 to 42 ml min 0 006 to 0 7ml sec For more information on flow rates refer to the Clean the S RapidTtrace Modules on page 56 P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Create Edit and Assign Procedures 36 Condition the Column 1 Select the Step text box in the second row and select the Condition column step The list of possible steps is displayed in the lower right corner of the window This row represents the second step in the procedure 2 Select the Source text box in the second row and select the reagent to be used to condition the column A list of possible sources is displayed in the lower right corner of the window 3 Select the Output text box in the second row and select where you want the reagent to go after being loaded onto the column bed A list of possible outputs Is displayed in the lower right corner of the window The output can be any of the three waste reservoirs or a fraction test tube Waste names are defined in the Reagent setup window Items choosable For current grid selection Aqueous Waste Organic Waste
69. lica and other packing material in the column In most SPE columns the particle size is 40 120 microns HPLC columns are 4 microns and larger The type of packing material in the column Polymeric Some SPE columns are based on a solid phase made of polymers rather Resin than silica Reverse Phase Refers to the chemistry occurring when non polar interactions occur between the carbon hydrogen bonds on the functional group of the sorbent group and the carbon hydrogen bonds of the analyte Common reverse phase sorbents are C18 C8 CH and PH The base material used for the binding of functional groups Some SPE columns are packed with a gel based material rather than Silica The material packed into the column commonly a silica with a functional group bound to it Syringe Type The design of the column used on the RapidTrace workstation which Format looks like the barrel of a syringe The step s used to flush the column with reagent to remove unwanted species after the sample Is applied May be called rinse The step s used to flush the column with reagent to remove unwanted species after the sample is applied Sometimes called wash P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Appendix 95 Appendix RapidTrace Procedure Checker Overview RapidTrace Procedure Checker software assists the user in creating optimal and efficient procedures for the RapidTrace workstation RapidTrace
70. lugs that came in the start up kit in the bag labeled Manifold pieces and plugs There should be nine plugs per bag LL Figure 49 Plug 2 Locate the manifold pieces see Figure 50 as described in Identify Reagent Plumbing Setup on page 65 and detach them from the module Insert an extra plug in the opening There can be up to 9 manifold pieces per module e 8 manifolds for reagents 1 through 8 e 1 manifold for the gas line if gas drying is used Figure 50 Manifold Plumbing Piece P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Add or Move RapidTracet Modules 68 3 Untwist all connectors attaching the reagent lines to the manifold pieces for the modules that are being relocated and attach plugs to those positions on the manifold pieces 4 If gas drying is being used turn off the gas and then disconnect the gas lines for the modules that are being relocated see Figure 51 and attach plugs to those positions Remove this line Line ta Gas Tank Line to Module Figure 51 Gas Line Disconnect Waste Lines The four waste lines extend from a cutout at the base of the back of each module a ai Cutout for waste lines Figure 52 Cutout for Waste Lines The lines have a twist connection located several centimeters from the back of the module to make the module easier to move Locate the fittings and untwist the connection The 3 meter 10 foot lines remain in the waste reservoir Yo
71. means of payment is required before return shipment RapidTrace Service and Customer Support Plans FCC CE P N 115655 Rev 04 Biotage offers a full range of services to ensure your success From our original factory warranty through a comprehensive line of customer support plans Biotage offers you Field Support Engineers and In house Specialists who are dedicated to supporting your hardware software and application development needs Our programs can include such useful services as e preventative maintenance e diagnostic servicing performed on site by an authorized Biotage service engineer e extended use of Biotage 1 Point Support e automated remote troubleshooting e software updates e after hour weekend and holiday support e repair depot servicing e parts labor and travel expense coverage e other customized services upon request For further information contact Biotage 1 Point Support see page 2 This device complies with part 15 of the FCC United States Federal Communications Commission rules Operation is subject to the following two conditions 1 this device may not cause harmful interference and 2 this device must accept any interference received including Interference that may cause undesired operation This device complies with all CE rules and requirements NOTE Changes or modifications to this equipment not expressly approved by the party responsible for compliance could void the user s
72. n the glass barrel to reset the PTFE seal and reassemble Restart the run If the syringe continues to leak replace the syringe Remove knurled nuts from bottom of syringe to remove the black plate and the syringe base Re seat the syringe base and reassemble Restart the run If the syringe continues to leak replace the syringe Attempt to determine the cause of the syringe leakage and resolve the problem before restarting the run The most common reasons are e Particulate in the sample e The flow rate in the procedure is too fast causing excessive pressure If the particulate in the sample caused the problem evaluate the initial sample preparation to prevent this from happening If the flow rate is too fast reduce the flow rate e Run a test sample using water to determine exactly where the clog occurs Run the appropriate plunger routine command in the Manual Control window Before running fill a sample test tube and the mixing vessel with 2M NaOH and place the waste lines in a beaker of 2M NaOH Order retaining clips from Biotage P N C38413 and install them on fittings to hold tubing in place Inspect the columns Look for packing material on inside of column Discontinue using those columns For 1 ml columns order replacement O ring P N C60969 For 3 ml columns order replacement O ring P N C45096 For 6 ml columns order replacement O ring P N C46643 RapidTrace User Manual Biotage Sw
73. ne sani ae earns 55 Clean the RapidTrace Modules ccceccccceceeeeeeeeeeeeeeaeveeeeveneaeuaeeneanes 56 Post RUN Cleanup PrOCECULe c cece cece eeeeeeeeeeeeeeeeeeseeeeeeeteneaaeees 56 Clean the Exterior of the RapidTracet MOduIeS ceeceeeeeeeeeenees 57 Mania CORENON anrcsin A E Aa 58 Features of the Manual Control WiINdOW ssessesssesserersrerrrrerererrrrereren 58 FUNCUONS drian E a ANE A ETA TA 59 Mod le NUMDE si 8 audeatee meni eae a a a a a 59 Macro ROUTING BUON Serera 59 Perform Individual Operations sesesersrrrrsrsrerrrrsrererrrrrrrrrrrrrrrrrerrn 60 WSe MaC OROULINGS arera A a a a ET 63 Croate and Savea MAACO soiree teena A Ea 63 RUM a MaC Onenna T O a EN dane ABE Aa vane a 64 Add or Move RapidTracet Modules sccccscecescenecceneeeeaeeeeaeeneaeeaeanenes 65 OVEIVICW iesrcsenrrisini tenani NEAN E ENAERE DEERE 65 Identify Reagent Plumbing SetUp sseserererrererererrerererrrrerrrrrrrrereren 65 Purge Reagent ENGS orse aera a a pune Sense 66 Moving Manifolded MOdules cccccceceeeeeeeeeeeeeeeeeeeeeeeeeeeeseseennenenngs 67 PUrOe Reagent EINES erison a a tid sense neat cami win EEE 67 DISCONNECE PIUMDINO icaxsainaseesvadetuuesves aeea aen 67 Move Modules with Individual Reagent Lines ccc eee e cece eeseeeeeeeees 68 Purge Reagent LINES ocna aa a a tient eviae NN 68 DISCONNECE PIUIM DIN O errean aa a E ai 68 RECONNECE MOIES eirocrirniri doni A ETA 70 Reconnect the Communicatio
74. nect I ndividual Reagent Lines 1 Match the corresponding labeled reagent line on the module with the line from the start up kit and tightly twist the two connectors together Repeat for all eight lines 2 Place the reagent lines in the reagent bottles and place them in an empty container to keep them clean For additional information on refer to Reagent Line Configuration on page 14 Connect a Manifold 1 Remove fluid from the reagent lines see Purge Reagent Lines on page 66 2 Locate the manifold pieces and plugs in the start up kit Remove two manifold pieces 3 Insert the Luer fitting on the end of one manifold piece onto the T connector of the next piece Figure 58 and twist until the two manifold pieces are connected firmly Pp ra es ra Figure 58 Connecting Two Manifold Pieces Together 4 Work on one manifold string at a time as each string is for a different reagent Lay the new manifold piece for reagent 1 along the back of the new module so the tubing end faces its adjacent module P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Add or Move RapidTrace Modules 74 5 Connect the line for reagent 1 from the new module to the manifold Figure 59 Use the labels in the start up kit to help identify the lines Attach reagent line sr rf Ee rx EVI Neighbor module Hew Module Figure 59 Connecting Two Modules Together 6 Continue placing manifolds on the workstation an
75. netically encoded racks enable the user to designate a specific procedure to a rack Many laboratories find this useful in production mode When using magnetically encoded racks the procedure does not have to be assigned to samples in the Setup Procedure Sequence window because the module reads the magnets and automatically knows which procedure to run The module runs the number of samples corresponding to the number of sample test tubes or vials placed in the rack Only one procedure may be assigned per rack Follow these steps to magnetically encode a rack 1 Write the procedure you wish to magnetically encode using the RapidTracet Method Development software SPE icon as you would any procedure All magnetically encoded procedures must contain at least one Collect fraction step RapidTrace User Manual Biotage Sweden AB Run Methods and Monitor Operations 50 2 Encode the rack by placing magnets in the rack in a sequence representing a code see the next section 3 Assign the procedure that includes at least one Collect fraction step to the code chosen in step 2 using the RapidTrace MAGASIGN software see Assign a Procedure to the Code on page 52 Encode the Rack To magnetically encode a rack the following items are needed e A RapidTrace rack e Kit of magnets provided in your start up kit e A slotted flat bladed screwdriver e The code number to be assigned Using this picture of a rack with 13x100 mm sample
76. nnectors together Repeat for all eight lines 2 Place the reagent lines in the reagent bottles For additional information on individual reagent lines refer to Reagent Line Configuration on page 14 Reconnect Assembled Manifolds Follow the instructions below to switch manifolds from a four module workstation to two workstations each composed of two modules S Skip to step 2 if the entire workstation has already been moved 1 Modify the manifold string for two separate workstations by disconnecting the string at the length appropriate for the new workstation see Figure 55 P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Add or Move RapidTrace Modules 71 Untywist here and add Check Untwist here Valve line from and add plu Kit 55076 E C E Check salye end T S e To Reagents Figure 55 Disconnecting Manifold String 2 To reconnect the manifolds work on one manifold string at a time as each string is for a different reagent Lay the manifold for reagent 1 on the back of the workstation with the check valve end closest to the reagent bottles 3 If plugs are attached remove them and connect the line for reagent 1 from each module in the workstation to the manifold Labels in the start up kit can be used to help identify lines For example if you have a two module workstation connect the lines as shown in Figure 56 Feag 1 From Module 1 Reag 1 From Module 2 Remove plugs if there ae arty and
77. ns Cables ssssesssereererererrrrerererrr 70 Reconnect the Power Cords ccceeeceeceeeeeeseeeeeeeeseesseeeeeesseegages 70 P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Table of Contents 10 Reconnect the Reagent ONGS rcr oaa aaa 70 Reconnect tne Gas LINES sensos aan 72 Reconnect The Waste LINES ciwrsiiersieenczamdvloteartaevarntaadtiiteniwraiiaons 72 Add a Module to the Workstation cccc cee cseeeeeeeeeeeeeeeeeeeeeetseeneenes 72 Connect the Communications Cable ccc cece eee ecee eee eeeeeeeeeeeeeeneeees 73 Connect the Power COG iid cocdacticteuie piri Gai ae te cdatadce tans raar 73 Connect the Reagent LINES srice a a a 73 Connect ENG Gas Me ieee eed outings ecw loemate eS E aie wore adel tatceoata 74 Connect the Waste LINGS cc ccc ccce cece et eee seen eeeeeeeeeeeeeueeeteeeeeeeeegs 75 Operations After Moving or Adding Additional Modules ccseeeeees 75 PUTOS TEST neneiia a a ERE R EE 75 Wacte TOSE orroe E E EE TAE 76 SOE VIC ssri a a eas eee es 77 REMOVE the Front COV Cle aeaa Ea edaeuaateredsae A eases eeu eens 77 Gas DRYING CONVElSION resin ooe aaaea luau eiawietvaaueuscney Aa A 78 Unblock a Syringe Discharge TUDGC cc eee e eee e ee eeeee eee eeeeeeeeeeenneeeenes 79 Upgrade the RapidTrace Firmware cccccecseceeeeceeeeeeeeeeseueeaeenenneanens 80 TFOUDICSNOOUING csrsyan a a dasa se walaecanaee 82 RODICE Chloe HUSeS araoa E a A ates aidanton 84 Lon
78. nual Control 63 Warm Start Re initializes the RapidTracet module A warm start is almost the same as switching the power button off and on A warm start moves the module to a ready to run condition During a warm start the module empties the syringe empties the mixing chamber and moves the rack to its out position After a self check the module is fully operational and ready for you to run samples perform maintenance procedures or initiate a system shutdown Use Macro Routines A macro is a series of commands that are grouped together under a single command making running tasks quicker and easier Note There is no error checking in the macro mode of operation Example A macro is run that has been written to perform operations on two samples After processing sample 1 the computer finds that a test tube or vial is not in position 2 on the rack The computer will hang cease to function and need to be rebooted Create and Save a Macro If an incorrect message is sent during the creation of a macro routine the entire routine macro must be rewritten To create and save a macro 1 Enter the module number in the Module text box in the Manual Control window Only one module can be operated at a time unless 10 is entered Entering 10 in this text box causes the macro to run on all modules 2 Select an operation in the Low Level Instructions field and any additional choices that are necessary for that oper
79. o Term SNULOGOWN rcnianerinn E RAAE ERT R AS 85 SHULGOWN PROCCOUN C wisi cities anadancetaanonmetnaunier eens dbuneinee aw eawaunieo nein 85 Reference Datacion a i 87 SPECINCIHONS aaa a a E OE EE EEA NETE 87 Column Beds Genel a lissomudarecacstadaaivean date ner eae aebat ible dat eu ewe neds 88 SOIVeNnt Compatibility CHAR wists teers ital ecs tera a TaN 89 FIOW Rate Conversion CHALE sscriiinenecanenmnoumesareeaieunnnes mee aterenntaneeateweanes 90 ACECESSONIES and KITS sicecs tates ves cao ieneus Sateue teeter neues a radaateawatnedes 91 GIOSS ONY si tisieteisesintiitetsdestndes eetitiianiendanenteatedesiaeuiecebieiss edna unesaiteegens 93 AO DGNGIX witisecccennetrsnsternssesstiapadiiacrcisitinmeaetieieietseeneneaTeR 95 RapidTrace Procedure Checker OVErvVieW cccececeeeeeeeeeeeeeeanenneanes 95 Use RapidTracet Procedure Checker ccceseceeceeeeeeeaeeeeeeenneneeneuneanes 95 P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Unpack and Site Preparation 11 Unpack and Site Preparation Unpack the Workstation and Check the Parts Unpack the shipping boxes and verify receipt of all the parts listed below Inspect the parts for any evidence of physical damage NOTE L Lift the RapidTracet module only at the designated lift points Do not lift by the top plastic cover Use care when unpacking the RapidTrace workstation RapidTracet Modules Quantity ordered RapidTrace Notebook Controller Quantity ordered
80. odules Initialization P N 115655 Rev 04 Before you start the RapidTrace software you must turn on all of the RapidTrace modules To turn on each RapidTrace module 1 Switch the power switch on the back of each module to on 1 Power Switch Figure 9 Power Switch on Rear of the RapidTrace Module 2 Each module initializes when it is switched on See Initialization below for a description of the initialization process 3 When initialization is complete check the hardware to confirm that the RapidTracet workstation is ready to run procedures See Hardware Check on page 27 for a list of items to check Initialization is a module self test that occurs every time a RapidTracet module is switched on The self test checks that all components of the module are in the correct position to start running samples and confirms that the module is functioning properly RapidTrace User Manual Biotage Sweden AB Start the RapidTracet Workstation 27 If an error is encountered during initialization the error LED illuminates see Figure 10 For initialization the RapidTrace module requires that a rack be placed into the shuttle The computer does not need to be switched on and no test tubes vials or columns are necessary When the power is switched on or a Warm Start command is sent from the Manual Control window the RapidTrace module goes through the initialization process During initialization li
81. om the 12 port valve to the column Attach this line from the gas valve to the column P N 115655 Rev 04 Figure 66 External Plumbing Diagram WARNING AAA Never use hydrogen or other flammable gases Use of inappropriate gas may cause combustion or an explosion WARNING AAAAA Liquid exiting the solvent and sample waste lines can be infectious toxic flammable and or corrosive Refer to the Safety Data Sheet SDS for detailed information regarding chemicals used in your applications e Do not touch waste e Keep waste from heat or flame e Dispose of waste properly e Periodically check waste lines for damage e Make sure that the flow is not inhibited and that the waste reservoirs are large enough to hold waste generated 1 Remove both ends of the line that connects the 12 port valve to the column plunger See the diagram above and RapidTracet Parts and Functions on page 19 for the location of parts RapidTrace User Manual Biotage Sweden AB Service 79 2 Locate the 37 cm 14 6 in line in the gas conversion kit labeled 3 and attach it as follows a Attach the line end with the compression screw to the gas valve port located at approximately the eight o clock position On older valves connect to the valve s Common C port b Attach the other end of the line to the column by pushing it onto the column plunger 3 Locate the 16 5 cm 6 5 in line in the gas conversion kit labeled 1 and att
82. on the back of the 12 port valve through 2 full rotations Access this valve through the slit in the side of the module or by removing the upper section cover Resume the run Blocked syringe e See Unblock a Syringe Discharge Tube on page 79 discharge Rack missing or not centered on shuttle Column bed not aligned not sensed or too small Magnetic rack error messages display or wrong procedure runs Run All button disappears in the Run RapidTrace window Module does not start after the Run button is pressed P N 115655 Rev 04 Confirm that the rack is properly engaged on the two pins of the shuttle In the Manual Control window send the Shuttle Waste command The error LED should not be lit Send the Status command The Reply Message should show Stopped not Error Confirm that the columns are properly installed and that the turret is aligned with the column plunger In the Manual Control window send the Warm Start command When initialization is complete restart the run Refer to Column Bed General on page 88 for more information If magnetically encoded racks have not been configured do not use the Start Stop button on the module Instead start and stop runs by using the buttons in the Run RapidTrace window If magnetically encoded racks have been configured re check the procedure assignments and make any necessary changes before re starting See Use Magnetically Encod
83. op icon and click the Create Procedures button 2 Create procedure using reagent names for all modules File Edit Reagents Setup Variables Password Liquid No Step Source Output vol ml min eels Created 09 05 2011 04 14 48 PM Items choosable for current grid selection 2 3 4 5 6 7 8 9 Ok Save Figure 25 Create Procedure Window New Procedure Procedure Name The procedure name is the same as the file name The software automatically attaches the spe extension to the file name Created When a new procedure is created the software automatically accesses the time and date from the computer s operating system and places the information in this text box Last Modified When an existing procedure is changed the software automatically accesses the time and date from the computer s operating system and places the information in this text box Run Time When the procedure is saved the software estimate the time to run the procedure Procedure Description Specific information about the procedure such as reagent set used or the column type may be entered into this text box The software displays this description when you assign the procedure to samples RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 40 Create Procedure Window Menus The Create procedure window has five main menus File Opens a new file opens an existing file deletes a file
84. orkstation dedicated to solid phase extraction SPE It is a rugged automated platform for quick development of reliable automated procedures from manual laboratory methods WARNINGS AA e To reduce the risk of electric shock do not remove the cover No user serviceable parts are inside Refer to an authorized Biotage service engineer if help is required e Use this product only in the manner described in this manual If the equipment is used in a manner not specified by the manufacturer the protection provided by the equipment may be impaired P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Preface 2 Contact Biotage 1 Point Support Before you contact Biotage 1 Point Support please check the online help and the manual for a probable cause and solution to your question Call fax or e mail Biotage 1 Point Support or request support online www biotage com When contacting 1 Point Support please have the following information ready e Company name and contact information e Serial number s e Software version found by selecting About RapidTrace from the Help menu in the RapidTrace Methods Development software e A brief description of the symptoms or technical problems you are experiencing 1 Point Support USA Phone 1 800 446 4752 press 3 at the auto attendant Outside US 1 704 654 4900 Fax 1 704 654 4917 E mail US 1 pointsupport biotage com 1 Point Support Europe Phone 46 18 56 59
85. out and the event log RapidTrace User Manual The rack layout in the box on the left identifies the procedures that are assigned to the samples and if a sample test tube or vial is present If no sample test tube or vial is present the procedure does not run on that sample In this example see Figure 35 there were only one sample present sample 1 Biotage Sweden AB Run Methods and Monitor Operations 49 e The event log shows the date and time the procedure ran a running log of the times each sample began when the module stopped and any errors that occurred In this example the procedure was stopped 13 minutes and 34 seconds after it began The log also shows a Rack ID representing the code assigned to a magnetically encoded rack View Report Kef Rack Layout Event Log Start Time 01 28 2011 02 36 20 PM Rack sample Tube Hae SES Rack IDO Yes CLEAN SPE Sample Time Event Mo 00 00 00 Running 00 00 24 SkartSample a 00 13 34 Stopped 2 3 4 z 6 i 5 a Figure 35 View Report Window If a magnetically encoded rack was not used the Rack ID displays a o0 Print the Selected Reports One report may be printed at a time when a printer is connected to the computer To print select the report you wish to print in the RapidTrace Reports window then click the Print Selected Reports button The report prints to the Windows default printer Use Magnetically Encoded Racks S P N 115655 Rev 04 Mag
86. ple that primes four reagent lines 1 to 4 with 6 ml of each of four reagents Biotage recommends that this procedure be run with two samples which would prime each of the reagent lines with 12 ml a volume that is sufficient for either individual or manifolded reagent lines Create procedure using reagent names for all modules Fie Edit Reagents Setup Variables Password Procedure Mame PURGE4 spe N St 5 Output vol iin 2M E S 2g nes P Sense Created 09 05 2011 1 Purge Cannula H20 Cannula 6 30 No Last Modified fesjasj2ot i z Purge Cannula Elute Cannula 6 30 No Run Time a54 3 Purge Cannula MeOH Cannula 6 30 No Procedure Description 4 Purge Cannula H20 Cannula 6 30 No 5 Purge Cannula Buff Cannula 6 30 No T 6 Purge Cannula H20 Cannula 6 30 No Figure 38 Prime Reagent Lines NOTE u To prevent salting out of buffers confirm that organic solvents are always preceded and followed by water not buffers Always use water as the first and last reagent to purge the lines Use the Procedure Description text box to describe the prime procedure Created 09 05 2011 11 08 56 4M Procedure Description This procedure purges lines 1 to 4 with 6 ml of reagent Water is the first and last reagent Figure 39 Prime Procedure Description All waste generated from a Purge and Clean cannula step exits Ce through waste line 4 It is advisable to have this line in a waste reservoir that contains mixed wast
87. re using reagent names for all modules Fie Edit Reagents Setup Variables Password Procedure Mame 5pe1 Mo Step Source Gutpuk vol mlimirn n Cannula Depth mm bo g above bottom of tube m 1 Add to Sample Cannula No 2 Mix Cycles e E Mix Speed 30 0 Mix Volume ml os B 6 5 q Items choosable for current grid selectior 11 4dd reagent to sample and mix Condition column 12 Load sample onto column Slow load sample onto column 13 Rinse column 14 Collect Fraction Purge and Clean cannula 15 Pause Dry Cobiirnn Figure 17 Create Procedure Window Adding a Step 2 Enter the cannula depth above the bottom of the test tube or vial in the Cannula Depth mm above bottom of tube text box in mm If you wish the cannula to go to the bottom of the test tube or vial leave the value at O zero 3 Enter the number of mixing cycles in the Mix Cycles text box Entering 0 causes no mixing of the sample and reagent mixture to occur 4 Enter the mix speed in the Mix Speed text box The flow rate units depends on your setting ml sec or ml min in the Flow Rate Units menu in the main window 5 Enter the mixing volume the amount of the sample and reagent mixture the cannula aspirate and dispense in the Mix Volume ml text box in ml Cannula Depth mm above bottom of tube Mix Cycles Mix Speed lap Mix Volume ral Figure 18 Settings for the Add Reagent to Sample and Mix Command 6 Select the Sour
88. reservoir for aqueous waste Continue writing the procedure according to the information below When the procedure has been completed enter a short description of the procedure in the Procedure Description text box Procedure Mame SPE1 Liquid Mo Step Source Gutpuk vol mlinir Sense i Ereebed ps os 2011 i 1 Add to Sample H20 Cannula 5 30 No Last Modified fesyosj2ort zZ Condition MeOH Org VW 5 5 Mo Run Time 1 10 3 Load Sample Agu W 5 8 1 2 Mo i Procedure Description 4 Rinse Aceton Org W 6 3 Mo 5 Collect MeoH Fract1 6 1 2 No 7 6 Purge Cannula H20 Cannula 6 apl Mo Figure 23 Create Procedure Window Purge and Clean the Cannula A Purge and Clean cannula step with water should always be the last step in your procedure as it helps prevent carryover between samples This step cleans the liquid handling syringe the 12 port valve and the cannula We recommend that all procedures contain multiple Purge and Clean cannula steps For more information about purge and clean operations refer to Carryover Prevention on page 41 P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Create Edit and Assign Procedures 38 Save the Procedure There are two ways of saving the procedure 1 Select File Save As The Save As dialog box opens showing where the file will be saved and the file name Click the Save button to save the file After saving the procedure the Create procedure window with the saved proce
89. rt up kit to help with line identification NOTES e Only qualified personnel should move a RapidTrace t module e Before moving a module confirm that power has been switched off and that the power cord and the RS 232 communications cables have been unplugged Identify Reagent Plumbing Setup P N 115655 Rev 04 There are two module setups e Manifold Setup Reagent lines between modules are connected The workstation uses the same set of reagent bottles with one line that draws up reagent through a check valve e Individual Reagent Lines Each module has eight reagent lines leading directly from the module to the reagent bottle s 1 Determine which plumbing setup your workstation uses On the back of each module there is a cutout for the reagent lines 1 16 diameter tubing and the gas line 1 8 diameter tubing a Figure 46 Cutout for Reagent and Gas Lines Cutout for 8 at 2 2 reagent lines a g and 1 gas line 2 Ifyou have manifold pieces shown in Figure 47 connected to your reagent lines follow the instructions in Moving Manifolded Modules on page 67 Otherwise follow the instructions in Move Modules with Individual Reagent Lines on page 68 Figure 47 Manifold Plumbing Piece The entire workstation or just a part of it can be moved To move a part of the workstation only a check valve kit P N C55076 is needed This kit contains tubing and fittings for additional lines to place
90. s The Run RapidTrace window displays a box representing each module in a 10 module workstation Each module box has both a Run and a Stop button The window shows which RapidTrace t modules are active powered on and attached to the computer through RS 232 communications cables by Showing the assigned procedures The computer polls the modules every few seconds for updates Run RapidTrace Beep Module 0 Module 1 Module 2 Module 3 5PE1 spe 5PE1 spe 5PE1 spe 5PE1 spe 5PE1 spe 5PE1 spe 5PE1 spe 5PE1 spe SPE1 spe SPEL spe IML SPE IML SPE 1ML SPFE 1ML SPE 1ML SPFE 1ML SPE 1ML SFE 1ML SPFE O 1ML SPE O 1ML SPE C delay 10 16 2 C delay 10 16 C Delay 10 16 C Delay Figure 31 Run RapidTrace Window Figure 31 shows a two module workstation with the modules addressed as numbers 1 and 2 In the example shown in Figure 31 the SPE1 spe procedure has been assigned to samples 1 through 5 and the Iml spe procedure to samples 6 through 10 NOTES e f RapidTrace modules are switched off and or are not attached to the computer no procedures can be assigned to those modules e The 6 ml RapidTrace only uses samples 1 3 5 7 and 9 To RUN an individual module click the Run button for that module To delay the run set the Delay check box and enter the start time er Double clicking the Run button issues a STOP command WARNING AA Always
91. saves the current procedure as another file name and prints the current procedure Edit Inserts a step in a procedure or deletes a step from a procedure Reagents Allows you to use previously defined reagents while writing a procedure If you have a reagent setup active for an individual module you can pull down the Reagents menu and select the module number to use the reagent setup as you write your procedure The software defaults to the setup for all modules Setup Variables Sets the sip speed for the mixer vessel and sample the column air push volume and the column air speed multiplier See Setup Variables Window below Password Allows you to set a password for your procedures and reagent setups i e you will need the password to open the Create procedure and Reagent setup windows See Assign Password Window on page 41 Setup Variables Window To open the setup variables window select the Setup Variables menu in the Create procedure window The following parameters are available P N 115655 Rev 04 Sip Speeds The flow rates at which the syringe aspirates pulls the reagent mixture from the mixing vessel or the sample The flow rate range is 0 6 to 42 ml min 0 01 to 7 ml sec Column Air Push Volume Air is used to push reagents or sample through the fluid path to the column to clear the reagent line The air push volume is specified in ml depending on the size of the column barrel and the dept
92. software e Do not use the Run or Run All button in the Run RapidTrace window to start a run with magnetically encoded racks When you press the Start Stop button on the front of the module the magnets are only read A rack with magnets in place may be used in non magnetic mode by using the Setup Procedure Sequence window and the Run or Run All button in the Run RapidTrace window to start the run P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Daily Operations 54 Daily Operations Many of the steps below are performed in specific RapidTrace windows You can access all windows from the main window in the RapidTracet Methods Development software To open the Methods Development software select Start Programs Biotage RapidTrace SPE gt SPE or double click the SPE desktop icon Prepare the RapidTrace Workstation P N 115655 Rev 04 When preparing the RapidTrace workstation check the reagents to verify they are fresh correct for the procedure sufficient to run the desired number of samples and on the correct numbered line WARNING AA To avoid eye injury wear safety glasses when working with reagents Always use extreme care when handling fluids in the laboratory WARNING AAAAA Liquid exiting the solvent and sample waste lines can be infectious toxic flammable and or corrosive Refer to the SDS Safety Data Sheet for detailed information regarding chemicals used in your applications
93. speed remains at the speed of the previous procedure until it is changed Syringe Position Positions the syringe plunger in the barrel For example a value of 0 places the syringe plunger directly at the bottom of the barrel and a value of 1 ml places the syringe plunger about 0 24 ml above the bottom of the barrel Valid range is 0 to 6 ml This command functions with the shuttle in any position S Whenever a procedure stops running the syringe position should be reset to O zero before resuming the procedure run Turret Moves the turret to the designated column number The rack must be in the waste or wash position use the Shuttle Waste or Shuttle Wash command and tubes and or vials must be in the rack Twelve Port Valve Turns the valve position to the designated position This command functions with the shuttle in any position Version Displays the firmware version in the Reply Message field Example RT136 Aug 19 2011 11 33 33 ROM 10 17 94 11 33 47 The first date and time is when the firmware was created and the second when the bootloader was created If RT136 is displayed in the Reply Message field the firmware used with the new opto sensor is installed on the module The new opto sensor is used with the 40 ml scintillation vials rack P N C133989 If RT13 is displayed the firmware used with the old opto sensor is installed P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Ma
94. sten to the module to assure that the shuttle is moving smoothly and check that the error LED does not illuminate If an error LED is on refer to Troubleshooting on page 82 Hardware Check After initialization of all RapidTrace modules check the hardware to confirm that the RapidTracet workstation is ready to run procedures Power Run Error Figure 10 Power Run and Error LED Item Confirm that Power LED Green light is illuminated If not check that the RapidTrace module is switched on Run LED Run light is off If not a run is in progress Wait until the run is complete or stop the run Error LED Error light is off If not go to the Manual Control window select STATUS and correct the problem Module ID Each module has a unique module identification number If not assign a unique number to each module using the switch at the front of each module Syringe Syringe is at the HOME position If not go to the Manual Control window and move the syringe to the HOME position the plunger is at the bottom of the syringe O ml with a small gap The syringe plunger is clean and no liquid is on top of the syringe plunger If the syringe is not clean run the cleanup procedure as described in Post Run Cleanup Procedure on page 56 P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Start the RapidTracet Workstation 28 Start RapidTrace Software Get Help Help P N 115655 Rev 04
95. t The hole in the fuse block must line up with the pin in the power entry port housing as shown in Figure 69 Pin Alignment hole Figure 69 Installing the Fuse Block 7 Close the fuse cover and press so it snaps into place 8 Connect the power cord to the power entry port on the back of the module and to the power source 9 Switch the RapidTracet module on The module should initialize immediately Ff the RapidTrace module does not immediately initialize confirm that the correct fuses have been installed and that the fuses are correctly seated Long Term Shutdown Occasionally the RapidTrace workstation may be taken out of service for a prolonged period It is very important to prepare the modules for downtime To prevent salting out of buffers and corrosion from any acid used rinse the reagent lines with water Removing the standard reagent set and rinsing with water is essential NOTES u e Do not allow water to sit in the fluid path and valve with no movement for an extended period of time i e approximately ten days or more e Standing water in the lines can cause bacteria growth especially in warm humid environments Rust may form in the brazed fittings of the 12 port valve If a RapidTrace workstation will not be used for an extended period of time i e approximately ten days or more it must be kept clean and dry Follow the procedure below Shutdown Procedure P N 115655 Rev 04
96. t step in the procedure and always uses the procedure water Never use a buffer as a last step because above that would leave buffer salts in the fluid path Assign Procedures to Samples P N 115655 Rev 04 NOTE L When using the 6 ml RapidTrace only use samples 1 3 5 7 and 9 The Setup Procedure Sequence window is used to assign procedures to Samples The same procedure can be assigned to all samples in a rack or a different procedure can be assigned to each sample in the rack The following steps demonstrate the process of assigning procedures to Samples 1 Click the Setup Racks button in the main window The Setup Procedure Sequence window opens 2 Select the desired procedure in the Procedures Available list The list contains all saved procedures Refer to the Selected Procedure Description text box for a description of the selected procedure if entered when the procedure was created RapidTrace User Manual Biotage Sweden AB Create Edit and Assign Procedures 43 3 Select the sample s to assign the procedure to in the Procedures assigned to Module O list The list corresponds to the sample positions in the rack To select several samples hold down the Ctrl key while selecting To select a range of samples e g samples 1 through 5 select the first sample e g sample 1 hold down the Shift key then select the final Sample e g sample 5 Procedures must be assigned consecutively beginnin
97. tes gas drying of the column bed if the valve is plumbed into the module and the Dry Column step is used in a procedure 1 ml 3 ml or Places reagents or samples on the column 6 ml Column bed There are three different plunger sizes Use the correct plunger size for your columns Creates a mixed reagent when the Add Reagent to Mixing Vessel and Mix Reagents in Mixing Vessel steps are used in a procedure Cannula Accesses the sample test tube or vial to add reagents to the sample mix the sample or to draw the sample into the syringe to load it onto the column as specified in the procedure Plunger P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Start the RapidTracet Workstation 25 Start the RapidTrace Workstation Software Overview The RapidTrace software has the following distinct characteristics e Employs Windows based software with user friendly interfaces e Allows for all samples to be run under the same procedure or individual Samples to be run under different procedures e Simultaneously processes up to ten samples in a ten module workstation e The 3 ml RapidTrace collects one to ten fractions per sample The 6 ml RapidTrace collects one to five fractions per sample e Controls the flow rate for each step in the procedure e Segregates up to three types of waste from the column and one type from the cannula e Links procedures to magnetically encoded racks for ease of operation
98. test tube 13x100 mm sample test tube and 12x75 mm fraction test tube chilled rack 40 ml scintillation vial and 10 16x100 mm fraction test tube WO Can only be used on modules if the new opto sensor has been installed All the racks above can be magnetically encoded This enables the user to designate a specific procedure to a rack instead of assigning a procedure to each sample For more information see Use Magnetically Encoded Racks on page 49 Note that the test tubes and vials are not supplied with the racks You must supply the appropriate syringe barrel type processing columns e 3 ml RapidTrace 1 or 3 ml columns Each RapidTracet module is set up for 1 ml columns A 3 ml column plunger is provided for easy conversion e 6 ml RapidTrace 1 3 or 6 ml columns Each RapidTracet module is set up for 6 ml columns A 1 ml and a 3 mi column plunger can be ordered for easy conversion Waste Reservoirs Power P N 115655 Rev 04 You must supply the waste reservoirs Each RapidTracet module has four 4 waste lines You determine the destination of lines 1 2 and 3 Line 4 carries the results of any purge and clean cannula operation You should consider a separate reservoir for this line For more information refer to Specifications on page 87 WARNING AAAAA e To avoid eye injury wear safety glasses when working with reagents Always use extreme care when handling fluids in the labor
99. this product only in the manner described in this manual If the equipment is used in a manner not specified by the manufacturer the protection provided by the equipment may be impaired Chemical and Biological Safety P N 115655 Rev 04 WARNING AAAAA In some applications chemicals or samples used with the RapidTrace module are potentially hazardous and can cause illness e Read and understand the safety data sheet SDS provided by the chemical manufacturer before you store handle or work with any chemical or hazardous material e Minimize contact with and inhalation of chemicals and chemical waste e Wear appropriate personal protective equipment when handling chemicals or samples e g safety glasses gloves or clothing For additional safety guidelines consult the SDS e Handle all samples using good laboratory practices to prevent biohazards e Do not leave chemical containers open Use only with adequate ventilation including a fume hood if necessary e Check regularly for chemical leaks or spills If a leak or spill occurs follow the chemical manufacturer s cleanup procedures as recommended in the SDS e Dispose of chemical or infectious waste in accordance with good laboratory practices and local state provincial or national environmental and health regulations RapidTrace User Manual Biotage Sweden AB Safety 7 e After emptying waste reservoirs seal the waste reservoirs appropriately e
100. tion on one or all modules 1 Click the Manual Control button in the main window of the RapidTrace Methods Development or Production software 2 Enter the module number in the Module text box in the middle of the Manual Control window or use the up and down arrows to select another module Entering 10 in this text box causes the operation to run on all modules 3 Select the operation in the Low Level Instructions field and any additional choices that are necessary for that operation 4 Click the Send button to send the command to the selected module s Each operation or command and their function are described below Operation Command Cannula Three options are available with this command e Up Moves the cannula up to the home position out of the sample test tube or vial Into Wash Moves the cannula into the wash station To avoid damaging the cannula confirm that the rack is in the wash position before lowering the cannula see Shuttle Wash below Into Sample Moves the cannula into the sample To avoid damaging the cannula confirm that the rack Is in the sample position before lowering the cannula see Shuttle Sample below Column Plunger Before performing the first column plunger operation move the turret to the sample position using the Turret command and the shuttle to the waste or wash position using the Shuttle Waste or Shuttle Wash command Three options are available with this command Up Mo
101. tle Collect command the test tube must be in the assigned position and the shuttle in the waste or wash position use the Shuttle Waste or Shuttle Wash command Shuttle Out Sends the shuttle out rest position Shuttle Sample If the shuttle is out first send the shuttle to the waste or wash position using the Shuttle Waste or Shuttle Wash command before sending it to a sample position Shuttle Wash Moves the shuttle to the cannula wash position and the cannula above the cannula waste station Shuttle Waste Moves the shuttle to the designated waste line Status While the RapidTrace module is running a procedure the module s current status such as Stopped displays here If there is an error condition and you select Status and then click the Send button an error message displays in the Reply Message field Make sure that you have selected the correct module in the Module text box P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Manual Control 62 Syringe Three options are available with this command e Syringe Speed and Low Syringe Speed Sets the speed that you want the syringe to use when delivering liquids The range for syringe speed is 0 36 to 42 ml min 0 006 to 0 7 ml sec when using the Syringe Speed command and 0 048 ml min to 4 2 ml min 0 0008 ml sec to 0 07 ml sec when using the Low Syringe Speed command During manual control the syringe speed may need to be adjusted The syringe
102. ts C60969 1 ml SPE O Ring CHEMRAZ Replacement O ring for the syringe plunger qty 1 C45096 3 ml SPE O Ring CHEMRAZ Replacement O ring for the syringe plunger qty 1 C46643 6 ml SPE O Ring CHEMRAZ Replacement O ring for the syringe plunger qty 1 a See C50973 Tubing Weight Kit for Reagent Lines Set of eight weights C38413 Retaining Clips Hold tubing in place C50974 Rack 13x100 mm Sample Tube amp Qty 1 12x75 mm Fraction Tube C50976 Tube Rack 13x100 mm Sample Tube Qty 5 amp 12x75 mm Fraction Tube C58309 Rack 13x100 mm Sample Tubes amp Qty 1 13x100 mm Fraction Tube C56786 Rack 16x100 mm Sample Tubes amp Qty 1 16x100 mm Fraction Tube C56536 Rack 13x100 mm Sample Tubes amp 12x75 mm Fraction Tube 9 Position Chilled Rack 16x100 mm Fraction Tubes 54405 Magnet Kit for Magnet Kit for Encoding Racks Racks C55091 11 mm Vial Adapter For use with the standard rack C50974 to collect fractions directly into GC vials qty 10 C55827 4 ml Vial Adapter For use with the standard rack C50974 to collect fractions directly into GC vials qty 10 P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Reference Data 92 Part Number Description o ments fee 3 ml Column 3 ml Column Plunger C52006 RapidTrace Start Up Kit w Contains one RapidTracet Software Software CD P N C125300 Validation CD and tubing kit C52234 Syringe Kit Available through service only C52689 RapidTrace Noteboo
103. u can now move the modules Move Modules with Individual Reagent Lines Purge Reagent Lines Before moving modules liquids must be removed from the reagent lines To remove fluid from the lines see Purge Reagent Lines on page 66 Disconnect Plumbing When the fluid has been removed from the reagent lines and the power switched off unplug the power cord and the RS 232 communications cables and disconnect the plumbing WARNI NG If gas is being used turn off the gas at the gas tank first then disconnect the gas line attached to the tank P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Add or Move RapidTracet Modules 69 Disconnect Reagent and Gas Lines WARNING AA Confirm that gas has been turned off before removing the gas connection Locate the plumbing as described in Identify Reagent Plumbing Setup on page 65 There can be up to 9 lines per module e Reagents 1 through 8 e Gas line if gas drying is used Untwist each of the reagent line connections located several centimeters from the back of the module If gas drying is being used turn off the gas and then disconnect the gas lines for the modules that are being relocated see Figure 53 Remove this line Line ta Gas Tank Line to Module Figure 53 Gas Line Disconnect Waste Lines P N 115655 Rev 04 The four waste lines extend from a cutout at the base of the back of each module re a Se
104. ule To load the firmware onto module O double click the Load_rt13 bat Or Load_rt136 bat file in the C Program Files Biotage RapidTrace SPE RLoad directory The Load_rt136 bat file must be used if the new opto sensor used with the 40 ml scintillation vials rack P N C133989 is installed on the module If the new opto sensor is not installed the Load_rt13 bat file must be used A DOS window displays the message Loading RapidTrace Firmware Please Wait Watch module O as the firmware is being loaded Confirm that the power run and error LEDs at the front of the module are lit indicating that loading is occurring The computer displays a busy cursor When loading stops the cursor on the computer stops spinning check that module O initializes If any of these steps in steps 4 and 5 do not perform check your setup and double click the Load_rt13 bat Or Load_rt136 bat file again When the firmware has been loaded onto module 0 set the number switch on the front of module O to the number that is used on the next module to be upgraded and set the switch on the next module to be upgraded to 0 Repeat steps 3 through 7 for each additional module that are connected RapidTrace User Manual Biotage Sweden AB P N 115655 Rev 04 10 Service 81 When all the modules have been upgraded set the number switches back to as they where before you started loading firmware to the modules If you have more than 5 RapidTrace mod
105. ule 1 Module 2 Module 3 Module 4 Module 5 Module 6 Module Z Module amp Module 9 Module All Figure 13 Module Number List 5 To use the settings click the OK Save as current button The settings will be used until you select the default settings click the Default Entries button or another set file 6 If you assign the reagent setup to a single module and want to assign it to another module repeat steps 2 through 5 7 To close the Reagent setup window and return to the main window click the Close button NOTE Lt Once you click the OK Save as Current button this instructs the software to use these setup parameters when creating and running a procedure Create Procedures The following sections describe how to create a procedure for RapidTrace Name the Procedure below Add Reagent to Sample and Mix on page 33 Condition the Column on page 36 Load the Sample onto the Column on page 37 Purge and Clean the Cannula on page 37 Save the Procedure on page 38 The Create procedure window is described on page 39 Name the Procedure P N 115655 Rev 04 To create a new procedure and name the procedure 1 Click the Create Procedures button in the main window The Create procedure window opens as shown in Figure 14 See Create Procedure Window on page 39 for a detailed description of the window RapidTrace User Manual
106. ules a b C Disconnect module O from the computer Connect module 5 directly to the computer Using the switch on the front of each module set modules 5 through 9 to modules O through 4 Repeat the above download procedure for all modules see steps 2 through 7 When all the modules have been upgraded set the number switches back to as they where before you started loading firmware to the modules Connect module O to the computer and connect module 5 to module 4 RapidTrace User Manual Biotage Sweden AB Service 82 Troubleshooting This section shows some potential problems and gives possible solutions for each problem If other problems occur or if the problem is not corrected contact Biotage 1 Point Support for assistance see page 2 Problem Sample fraction test tube vial not detected 12 port valve positioning error Possible Solution Check for missing test tube or vial or wrong test tube or vial type Ensure that all fraction and sample test tubes or vials are in place Use glass test tubes or vials if possible Clean the opto sensor with a cotton swab dipped in isopropyl alcohol Go to the Manual Control window Fill the rack with test tubes or vials Send the Shuttle Waste command Send the Rack command The Reply Message should read Rack XXXX O3FF O3FF If not adjust the opto sensor position by loosening the thumbscrew located at the bottom of the opto sensor e Turn the brass disc
107. ults are displayed P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB P N 115655 Rev 04 10 11 Appendix 97 a Rapid Trace Procedure Checker 1 Rapid race Review of C VSPENSPE1 spe 1 kis important to keep sample waste in one waste port and segregated from any reagents that might cause precipitation of proteins or other materials in the waste lines 2 itis best to assign reagent 1 to the reagent which ts used immediately after the load 3 There should be a minimum of three purge and clean cannula steps to prevent carryover and clogs It can be helpful to add purge and clean steps AFTER THE FIRST RINSE STEP to clean the cannula sooner To print the comments and suggestions click the Print button The software stores these comments and suggestions in an automatically generated file called review txt in the C SPE directory This file can be read by opening it in a word processor Each time a procedure is run through RapidTracet Procedure Checker a new review txt file is generated To save the review txt file for later reference rename it in Windows Explorer This will prevent it from being overwritten the next time a procedure is reviewed To check another procedure click the Run Again button To close RapidTrace Procedure Checker click the Exit button To edit the procedure using suggestions from RapidTracet Procedure Checker see Edit a Procedure on page 38 RapidTrace User Manual Biotage S
108. unger Version Rack Stop Continue Warm Start Message Out 0 Clear Routing Routine ai Reply Message Recall Save Routine Run Displayed Routine Figure 42 Manual Control Window NOTE Lt There is no error checking when operating in the Manual Control window RapidTrace User Manual Biotage Sweden AB Manual Control 59 Functions The Low Level Instructions field in the upper left corner of the Manual Control window lists the individual modular functions Low Level Instructions Syringe Twelve Port Valve Shuttle Sample Shuttle Collect Shuttle waste Shuttle Wash Shuttle Gut Column Plunger Figure 43 Functions List Module Number The Module text box in the middle of the Manual Control window shows the module number to be operated Only one module can be operated at a time unless 10 is entered in this text box Entering 10 in this text box causes all the modules to run Module Figure 44 Module Number Macro Routine Buttons The four buttons in the lower right corner of the Manual Control window are for clearing saving recalling and running a macro routine See Use Macro Routines on page 63 for more information Clear Routine Recall Save Routine Run Displayed Routine Figure 45 Macro Routine Buttons P N 115655 Rev 04 RapidTracet User Manual Biotage Sweden AB Manual Control 60 Perform Individual Operations To perform an individual opera
109. ves the column plunger up into the home position that is completely out of the column Lock Turret Moves the column plunger about halfway into the column and locks the turret Squash Column Moves the column plunger as tightly as possible onto the top of the column bed The column must be in place test tubes and or vials must be in the rack and the turret must be locked using the Turret or Lock Turret command P N 115655 Rev 04 RapidTrace User Manual Biotage Sweden AB Manual Control 61 Continue If an error occurs the Continue command re starts the procedure run at the selected sample after you correct the error This operation does not work with macros it only works with procedures run individually A report cannot be generated after using the Continue command To obtain a report set up the rack and columns to run starting at sample 1 Edit the Setup Procedure Sequence window appropriately and re run the procedure using the Run RapidTrace window Turns gas valve ON or OFF listed in minutes Rack Queries the module to determine how many magnets sample test tubes or vials and fraction test tubes are present in the rack The hexadecimal xxxx XxXxX Xxxx in the Reply Message field indicates Magnets Present Samples Present Fractions Present O magnets 10 sample tubes or vials 10 fraction tubes Shuttle Collect Moves the shuttle to the assigned designated fraction test tube Before using the Shut
110. weden AB SUPPORT North America Phone 1 800 446 4752 press 3 Outside US 1 704 654 4900 Fax 1 704 654 4917 US 1 pointsupport biotage com Europe Phone 46 18 56 59 11 Fax 46 18 56 57 11 EU 1 pointsupport biotage com Japan Phone 81 3 5627 3123 Fax 81 3 5627 3121 JP 1 pointsupportjpn biotage com Part Number 115655 Rev 04 ORDER DISTRIBUTORS North America Please visit our website Phone 1 704 654 4900 www biotage com Fax 1 704 654 4917 for contact details ordermailbox biotage com Europe Phone 46 18 56 57 10 Fax 46 18 56 57 05 order biotage com Japan Phone 81 3 5627 3123 Fax 81 3 5627 3121 jp_order biotage com

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