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Endress+Hauser Analytik Jena Biometra TRIO 30 Operating Manual Download Page 39

Biometra TRIO 

Creating, editing and saving programs 

 

Version 03_19 

39 

7

 

Creating, editing and saving programs 

7.1

 

Programming modes 

The Biometra TRIO software offers spreadsheet programming or graphical program-
ming. Use the following buttons to toggle between the two modes (see Figure 16 and 
Figure 17). 

G

RAPHICAL VIEW

 

 

S

PREADSHEET VIEW

 

 

 
The following screenshots show the spreadsheet and graphical programming mode. 

 

Figure 16  Biometra TRIO spreadsheet programming 

 

Figure 17  Biometra TRIO graphical programming screen 

Summary of Contents for Analytik Jena Biometra TRIO 30

Page 1: ...Operating manual BiometraTRIO Triple Powered PCR thermal cycler...

Page 2: ...551 50 68 6 66 Email Service analytik jena com http www analytik jena com Operating manual valid from software version ME 1 70 RE 1 46 Microsoft and Windows are registered trademarks of Microsoft Cor...

Page 3: ...pplications 15 3 2 General Description 15 3 3 Special features 16 3 3 1 Thermal Block 16 3 3 2 High Performance Smart Lid 16 3 3 3 Display 16 3 3 4 User specific quick start function 17 3 3 5 Easy pro...

Page 4: ...continuing and stopping programs 58 9 1 Display during run 58 9 2 Pause Program 59 9 3 Continue Program 60 9 4 Skip Step 60 9 5 Stop Program 61 10 Protocol Wizard 62 10 1 Select Polymerase 62 10 2 En...

Page 5: ...l thermal cyclers 101 14 6 Adapt protocols from other cyclers 101 14 7 Release wheel in case of blocked lid 101 15 Maintenance and Repair 102 15 1 Factory calibration 102 15 2 Servicing and Repair 102...

Page 6: ...uick selection screen 51 Figure 27 Biometra TRIO program overview screen 52 Figure 28 Biometra TRIO program overview screen with program preview 53 Figure 29 Biometra TRIO multiblock selection query 5...

Page 7: ...er properties screen 83 Figure 63 Biometra TRIO security query 84 Figure 64 Biometra TRIO documentation screen 85 Figure 65 Biometra TRIO Run Logfile overview screen 85 Figure 66 Biometra TRIO Run Log...

Page 8: ...Contents Biometra TRIO Manual 8 Version 03_19...

Page 9: ...ocol and program are used synonymously these are one or more programmed temperature steps with different or the same holding times and cycles Instructions for actions which occur in chronological orde...

Page 10: ...r is suitable for fast PCR applications thereby helping to shorten program run times 1 3 Warranty and liability The warranty duration and liability comply with the legal requirements and the provi sio...

Page 11: ...afety symbols Replace damaged safety symbols immediately The following safety symbols are attached to the inside of the heated lid and the rear of the device CAUTION Hazard area Proceed with due care...

Page 12: ...o The operator must ascertain the latest ver sion of these regulations The operating manual must be accessible to the operating and service personnel at all times 2 5 Safety instructions transport and...

Page 13: ...ronment The Biometra TRIO must not be operated with flammable explosive or volatile substances 2 6 3 Safety instructions electrical equipment Work on the electrical components of the Biometra TRIO may...

Page 14: ...ck If the number of samples in the block is too low there is a risk of the tubes being damaged and sample liquid leaking out For your own safety please observe the potential infectious qualities of th...

Page 15: ...time status and temperature profile for each run A touchscreen keypad allows you to enter information into fields on the screen The Biometra TRIO can run three inde pendent PCR reactions simultaneousl...

Page 16: ...e electronics By the per fect sealing the Peltier elements are protected and the instruments life time is ex panded 3 3 2 High Performance Smart Lid The Biometra TRIO heated lid has been optimized to...

Page 17: ...several pre installed program templates for differ ent applications The program templates provide a general protocol structure and can be easily adapted for the current experiment The protocol wizard...

Page 18: ...t 3 3 8 Open system philosophy The Biometra TRIO is an open system regarding consumables and reagents Depend ing upon the sample block the system can be used with single tubes strips or plates PCR pla...

Page 19: ...in table Technical specifications see chapter 18 p 107 Let equilibrate the Biometra TRIO Thermal Cycler to room temperature before starting operation 1 to 6 h Make sure that the appliance connector a...

Page 20: ...open the Biometra TRIO Thermal Cycler The display contrast can be adjusted to local light conditions 4 4 Operation Voltage WARNING Danger of electric shock Prior to connecting the Biometra TRIO Therma...

Page 21: ...9 21 5 Control elements 5 1 The Biometra TRIO front view Figure 2 Biometra TRIO front view 5 2 The Biometra TRIO rear view At the Biometra TRIO backside the Ethernet port mains plug and mains switch a...

Page 22: ...d or non skirted if tubes have flat or domed caps or if the plastic ware has 0 1 ml or 0 2 ml format the Biometra TRIO accepts almost all formats By the high performance smart lid HPSL technology with...

Page 23: ...completely new software as user interface 5 5 1 Keyboard For some applications names addresses or passwords have to be defined For these purposes the Biometra TRIO software offers a keyboard to enter...

Page 24: ...2 Keypad In some screens of the Biometra TRIO software digits have to be entered For this pur pose the software features a virtual keypad integrated in some screens Figure 6 Biometra TRIO keypad The k...

Page 25: ...r navigation SCROLL UP SCROLL RIGHT SCROLL DOWN SCROLL LEFT 5 5 4 Confirm or Cancel For many screens user entries have to be confirmed to avoid unintended operating errors Press CONFIRM to accept sett...

Page 26: ...EMENT NEW USER USER MANAGEMENT ON OFF DELETE USER EDIT USER PROTOCOL WIZARD NEW POLYMERASE EDIT POLYMERASE DELETE POLYMERASE TEMPERATURE OPTIMISATION STEP TOS EDIT PRIMER CONCENTRATION EDIT PRIMER CAL...

Page 27: ...W PROGRAM OPEN TEMPLATE COPY PROGRAM COPY ALL PROGRAMS DELETE PROGRAM EDIT PROGRAM START PROGRAM CHOOSE BLOCK START PROGRAM CHOOSE BLOCK START PROGRAM STOP PROGRAM DONE SAVE PROGRAM SAVE AS PAUSE PROG...

Page 28: ...STEP DELETE STEP TEMPERATURE INCREMENT TIME INCREMENT HEATING RATE PREHEATING OFF PREHEATING ON TOOLS SETTINGS DATE AND TIME AUTOMATIC USER LOGOUT BEEPER NETWORK DISPLAY BRIGHTNESS DISPLAY DARKER DISP...

Page 29: ...SAVE ALL RUN LOG FILES TO USB VIEW RUN LOG FILE VIEW PROGRAM POWER ON LOGFILE LOG FILE SELF TEST ERROR LOG FILE EXTENDED SELF TEST START EXTENDED SELF TEST STOP EXTENDED SELF TEST SERVICE INFO FILE BA...

Page 30: ...ter Power On Logfile p 87 6 2 Log in Screen After the instrument has passed the power on self test the log in screen is displayed The log in screen offers the following functions Command Function Chap...

Page 31: ...button to selected a user Figure 9 Biometra TRIO select user screen Note The button position can change The button for the latest logged in user is al ways shown at the top left position of the screen...

Page 32: ...ease note that the password query is case sensitive Figure 10 Biometra TRIO enter password screen Note If a user directory is not password protected the software skips the enter pass word screen see F...

Page 33: ...n be FREE RUN or PAUSE and is indicated by the color of the button and the textbox in the middle of the button 2 in Figure 12 In the line above the textbox the current sample block temperature is show...

Page 34: ...uick startfunction p 34 Is the status is RUN or PAUSE a touch of the button will lead to the program overview screen instead If the block status button is used in the log in screen before a user is lo...

Page 35: ...ock SAMPLE BLOCK 1 SAMPLE BLOCK 2 SAMPLE BLOCK 3 Select and touch a program in the table for quick start Press the START button to start the selected program START ON BLOCK X To start a program on mul...

Page 36: ...activated see chapter Edit user p 81 ENABLE A USER TO EDIT COPY OR DELETE OWN PROGRAMS Press the corresponding button to activate the programming mode or to select a pro gram from the list of templat...

Page 37: ...t a sample block press SAMPLE BLOCK 1 SAMPLE BLOCK 2 SAMPLE BLOCK 3 To start the incubation press the START INCUBATION button START INCUBATION Figure 15 Biometra TRIO incubation mode screen During inc...

Page 38: ...s only available if more than one sample block is running Note To stop the incubation use the corresponding command Do not switch off the instrument while the incubation is running The instrument will...

Page 39: ...offers spreadsheet programming or graphical program ming Use the following buttons to toggle between the two modes see Figure 16 and Figure 17 GRAPHICAL VIEW SPREADSHEET VIEW The following screenshot...

Page 40: ...o See chapter 7 6 1 Cycles See chapter 7 6 1 Temperature increment T C See chapter 7 6 2 Time increment t s See chapter 7 6 3 Ramping rate R C s See chapter 7 6 4 TOS step See chapter 7 6 5 If a progr...

Page 41: ...eral program templates for different purposes You may use a template and modify the program as desired or you can select BLANK BLANK is program with no pre defined steps see Figure 19 Spreadsheet prog...

Page 42: ...name using the Bi ometra TRIO virtual keyboard see chapter Keyboard p 23 Note If a character is pressed the pre displayed name will be deleted and a new pro gram name can be set If the program name sh...

Page 43: ...the block since no unnecessary cooling against the heating cover is required 7 5 Set preheating mode The heated lid can be set to preheating ON or OFF using the corresponding buttons PREHEATING OFF P...

Page 44: ...See chapter 7 6 1 CYCLES Defines the number of repeats The maximum number of repeats is 999 See chapter 7 6 1 Temperature increment to increase or decrease the set temperature with each cycle by the...

Page 45: ...en steps it is not necessary to confirm the settings for each single step and to leave the edit step screen but you can fill in the parameters for sev eral steps and confirm the settings after all ste...

Page 46: ...ure increment press the following button see Figure 22 and fill in a value between 20 C and 20 C in the corresponding input box TEMPERATURE INCREMENT T Note Temperature increments only become active i...

Page 47: ...or optimisation of new PCR protocols very often gradient enabled Thermocyclers are used The Biometra TRIO offers no gradient function but by the temperature optimisa tion step TOS function programs ma...

Page 48: ...Creating editing and saving programs Biometra TRIO 48 Version 03_19 Figure 24 Biometra TRIO Temperature Optimisation Step screen...

Page 49: ...the number of cycles remains the same 7 8 Delete step To delete a step select a program step in the Biometra TRIO programming screen see Figure 16 and Figure 17 and press DELETE STEP Note If a step is...

Page 50: ...will increase by 1 and the new program is saved at the selected location Figure 25 Program overview screen There is also the option of selecting a user directory or a program location using the quick...

Page 51: ...the program name To do this press the SAVE AS button and enter the new program name using the Bi ometra TRIO keyboard see section Assign program names p 42 SAVE AS After selecting the user directory...

Page 52: ...ER USERS The Biometra TRIO software offers a quick start function for previously used programs The quick start function is described in chapter 6 6 This chapter deals with the start of stored programs...

Page 53: ...ery select the sample block to start and confirm your selection Figure 29 Biometra TRIO multiblock selection query The program will be started on the selected sample blocks Note For programs including...

Page 54: ...tons to select a user directory and a storage place in the Biometra TRIO program overview screen see Figure 30 The program to be copied is highlighted in green If the number of user directories or pro...

Page 55: ...e Biometra TRIO program overview screen see Figure 30 If the number of user directories is higher than can be maximal displayed in the list the buttons above and below the user list can be used to scr...

Page 56: ...of user directories or programs is higher than can be maximal displayed in the list the buttons above and below the user and program list can be used to scroll up and down To delete the selected progr...

Page 57: ...ser directory in the Biometra TRIO program overview screen see Figure 30 If the number of user direc tories is higher than can be maximal displayed in the list the buttons above and below the user can...

Page 58: ...f the sample block in the corresponding screen SAMPLE BLOCK 1 SAMPLE BLOCK 2 SAMPLE BLOCK 3 9 1 Display during run After a program is started see chapter Display during run p 58 the Biometra TRIO soft...

Page 59: ...heated lid has reached the target tempera ture and the 40s equilibration phase has passed the first program step starts During program run the current step is highlighted in yellow in GRAPHICAL VIEW...

Page 60: ...Logfile For example if the last step in a program is a pause the program has to be stopped by pressing the STOP button see chapter Stop Program p 61 before switching off the instrument 9 3 Continue Pr...

Page 61: ...cycler offers the option to stop multiple sample blocks simultaneously Press the following button in the Biometra TRIO run screen see Figure 34 CHOOSE BLOCK STOP PROGRAM Activate the corresponding ch...

Page 62: ...ram templates for up to 8 polymerases can be stored by the Biometra TRIO software Figure 39 Biometra TRIO polymerase selection screen Pre installed in the software is the program template for Analytik...

Page 63: ...me for the elongation step becomes calculated by the expected product length see chapter Primer Annealing Temperature Calculator p 66 The corresponding input boxes for the annealing temperature and el...

Page 64: ...selected However the storage place can be modified by using the cursor key function above and below the list To save the new or edited polymerase press SAVE Note If the selected storage place is alrea...

Page 65: ...ing temperature Ta see below is used for the annealing and extension step 2 Enter the PCR product length Note The product length is used by the software to calculate the elongation time The software u...

Page 66: ...ram is displayed in graphical or spreadsheet mode and can be edited To save the program created by the protocol wizard follow the in structions in chapter 7 9 Note Programs have to be saved before the...

Page 67: ...re and displayed in brackets left to the input fields Figure 46 Biometra TRIO primer annealing temperature calculator screen To adjust the primer or salt concentration press EDIT CONCENTRATION In the...

Page 68: ...temperature Tm and calculated annealing temperature Ta are displayed Press the SAVE TEMP button to transfer the calculated primer annealing temperature to the protocol wizard see Figure 46 SAVE TEMP T...

Page 69: ...etween the primer Tm values is 4 C or less the Ta is calculated as the average Tm value minus 5 C If the difference between the primer Tm values is higher than 4 C the Ta is cal culated as the lower T...

Page 70: ...lders programs users and user settings to USB See chapter 11 6 CYCLER INFO Provides general information on the instrument See chapter 11 7 CONTACT Biometra contact data See chapter 11 8 Figure 48 Biom...

Page 71: ...1 1 5 TOUCH SCREEN CALIBRATION Calibrate touch screen See chapter 11 1 6 FACTORY SETTINGS Reset the settings See chapter 11 1 7 Figure 49 Biometra TRIO settings screen Press the corresponding button t...

Page 72: ...RACTERS JUMP TO THE NEXT INPUT BOX Note The following keys are inactive in the date and time screen and cannot be used 11 1 2 Automatic user logout Note The automatic user logout can only be configure...

Page 73: ...tic user logout OFF Note The following keys are inactive in the automatic user logout screen and cannot be used 11 1 3 Configure Beeper Note The beeper can only be configured by users with the right S...

Page 74: ...RATION The Biometra TRIO can handle static and dynamic IP addresses Activate the corre sponding checkbox to choose between dynamic DHCP and static IP address man agement If DHCP see Figure 54 is activ...

Page 75: ...e The function makes it possible to check if only authorized persons have network access to the device The app is available for iOS Apple App Store and Android Google Play Store driven systems The PCR...

Page 76: ...ter Edit user p 81 ENABLE A USER TO CONFIGURE THE SYSTEM CONFIGURATION The display brightness can be adjusted to the local light conditions To adjust the brightness use the corresponding buttons DARKE...

Page 77: ...Figure 56 Biometra TRIO touch screen calibration screen 11 1 7 Factory settings Note The factory settings tool can only be executed by users with the right SYSTEM CONFIGURATION activated see chapter E...

Page 78: ...thermal cyclers 3 Do not switch off the user management if you are not absolutely sure All rights settings will get lost and can only be restored if a backup file is available The user management can...

Page 79: ...rights settings of other users The settings for each user can be modified see chapter Edit user p 81 by the ad ministrator and will be stored by the Biometra TRIO software Note If the user management...

Page 80: ...p 81 ENABLE A USER TO CREATE A NEW USER An administrator can create users of all groups and modify their rights settings A user with generic rights is only allowed to create users with generic or limi...

Page 81: ...each user the language setting be comes saved by the instrument The language setting can be changed during operation and the instrument does not be switched off and rebooted 11 2 2 Edit user Note Use...

Page 82: ...om a backup file To modify the user rights press USER PROPERTIES In the next screen the user can be defined as Administrator User with generic rights User with limited rights For each user group templ...

Page 83: ...r each user DELETE USER Allows to delete existing user accounts WRITE DELETE PROGRAMS OF OTHER USERS Allows to edit copy and delete all programs of all users READ ALL PROGRAMS OF OTHER USERS If inacti...

Page 84: ...since at least one user must be administrator of the Biometra TRIO Thermal Cycler Confirm the security query to delete the selected user Figure 63 Biometra TRIO security query The user and all of his...

Page 85: ...for the latest programs Figure 65 Biometra TRIO Run Logfile overview screen The Run Logfiles are sorted by date and time The latest started program is shown in position 1 in the table Additionally the...

Page 86: ...te of the program run Block number Name of the vendor Messages Software version Serial number Cycler User initials Block type Cycler type Figure 66 Biometra TRIO Run Logfile screen To view the corresp...

Page 87: ...e Run Logfile overview screen see Figure 66 SAVE RUN LOGFILE TO USB Use SELECTED RUN LOGFILE TO USB to save single Run Logfiles to USB Use ALL RUN LOGFILES TO USB to save all Run Logfiles to USB 11 3...

Page 88: ...func tions and components like cooler thermal tracking heating and cooling rate refrig eration heated lid and regulation see figure below Press on the corresponding button to see the results for a sp...

Page 89: ...age depending on the voltage type of the device 100 V 115 V 230 10 each The device must be cooled to the ambient temperature of 20 C to 25 C after the last application During the Extended Self Test th...

Page 90: ...ions and to let check the instrument itself Before starting the Extended Self Test insert a microplate or if applicable two strips or a row of tubes to the first and last column of the sample block se...

Page 91: ...e The Extended Self Test will take approximately 30 minutes to finish and the instrument is blocked no other program can be started while the test is running To stop the Extended Self Test press STOP...

Page 92: ...ler and press INFO FILE TO USB The Service Info File can be send by e mail to the Biometra service department For contact details see chapter 11 8 11 6 Backup The backup function is used to synchroniz...

Page 93: ...cler Info Tool presents several general information about the instrument like Cycler type Revision number power board Company Software version power board Serial number Cycler Software version power b...

Page 94: ...Tools Biometra TRIO 94 Version 03_19 Figure 76 Biometra TRIO cycler info screen 11 8 Contact Shows contact details for the Biometra service department Figure 77 Biometra TRIO contact details screen...

Page 95: ...d on a 96 well aluminum block and falls below minimum permitted temperature The lower temperature is increased to the minimum permitted value If for example a gradient is pro grammed from 5 C to 25 C...

Page 96: ...rely before starting the program NOTICE The use of oil between samples and sample block is not necessary If you wish to use oil never use silicone oil Use mineral oil Ensure that the ventilation slits...

Page 97: ...it a program template press NEW FROM TEMPLATE select a template and press OPEN TEMPLATE To edit a stored program select a user directory select a program and press EDIT The Biometra TRIO programming s...

Page 98: ...value between 0 1 C and max To define a Temperature Optimisation Step press button TOS Enter the primer annealing temperature and define the temperature increment The temperature for each sample block...

Page 99: ...ogram from the list and press START To start a program from a user directory press the button PROGRAMS in the home screen In the next screen select a user directory and a program and press the Start b...

Page 100: ...estart The Biometra TRIO Thermal Cycler features an automatic restart If a power failure occurs during the run the instrument will continue the run when the power returns In case of long term power fa...

Page 101: ...pled In this situation the clutch mechanism is active in both directions clicking noise in either direction To unlock wheel press down metal pin with a ball pen and turn wheel carefully This pin overr...

Page 102: ...his scope must only be performed by Bi ometra GmbH customer service personnel or authorized and trained persons Any unauthorized intervention limits warranty entitlements If the device exhibits any fa...

Page 103: ...before using it on the device Avoid contamination by handling sample substances with care Wipe spilled samples or reagents immediately with an absorbent cloth or piece of paper If the Biometra TRIO i...

Page 104: ...declaration as an editable PDF document in Ger man or English from the Internet https www analytik je na com fileadmin content service customer Declaration_of_decontamination_en _01 pdf Complete the...

Page 105: ...metra uses an extra designed packaging system with inserts of foamed material NOTICE The Thermal Cycler is only protected from transport damage if the original transport box is used and the packing in...

Page 106: ...dispose of any waste materials that occur during measurements sample materials in accordance with statutory and local regu lations At the end of its service life the Biometra TRIO and all its electro...

Page 107: ...rature Optimisation Step TOS Temperature Uniformity 95 C 0 60 C after 15 s 70 C 0 30 C after 15 s 55 C 0 20 C after 15 s Temperature Range 3 C to 99 C Control Accuracy 0 1 C Software User specific qui...

Page 108: ...15 C to 35 C 70 air humidity max 2000 m NN Dimensions WxDxH 30 cm x 41 cm x 25 cm Weight 17 3 kg Measured inside the block Capacity increases to 35 x 0 5 ml tubes by use of small cap tubes 1 The netwo...

Page 109: ...Biometra TRIO Declaration of Conformity Version 03_19 109 19 Declaration of Conformity...

Page 110: ...ntinue 59 Copy 52 Copy all 54 Cycles 45 Delete 55 Delete all 55 Edit parameters 43 Graphical Programming 39 Heated lid temperature 42 Heating Cooling rate 46 Insert or delete step 48 Loop 45 Name 42 N...

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