bNovate Technologies BactoSense Reference Handbook
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bNovate Technologies BactoSense Reference Handbook

Rapid bacterial monitoring system
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Document number: 40103-02EN
Version: 02
Valid from: SW 2.2
Reference Handbook
BactoSense
Rapid Bacterial Monitoring System

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  • Page 1 Document number: 40103-02EN Version: 02 Valid from: SW 2.2 Reference Handbook BactoSense Rapid Bacterial Monitoring System...
  • Page 2 © bNovate Technologies SA, subject to technical changes without notice. This document has been written by bNovate Technologies SA. Copying or modifying the content or giving this document to third parties is permitted only with the express consent of bNovate Technologies SA.
  • Page 3 Technologies SA Tel. +41 21 552 14 21 Ch. Dent d’Oche 1A info@bnovate.com CH-1024 Ecublens www.bnovate.com Switzerland...

  • Page 4: Table Of Contents

    Reference Handbook BactoSense Table of Contents 1 General user information ........1 1.1 Purpose of the reference handbook .
  • Page 5 Reference Handbook BactoSense 7 Error messages and troubleshooting ......53 7.1 Warnings ........53 7.2 Non-critical errors .

  • Page 6: General User Information

    Quick Guide Basic information needed to quickly operate the BactoSense. 40108 Cleaning Kit Usage of the reagent kit to decontaminate the BactoSense. User Manual 40107 Validation Kit Usage of the reagent kit used to validate proper functioning of the BactoSense.

  • Page 7: Safety Symbols

    Pictograms All pictograms used in this document are explained below. Additional information about the current topic. Practical procedures when working with the BactoSense. The screenshot is an example of the graphical user interface and may be different on your device.

  • Page 8: Integration And Configuration

    The alarm is shown in the measurement summary when viewing a result. • A signal can be sent out to a PLC through digital outputs (configurable). Figure 2-1 Alarm configuration in the BactoSense graphical user interface. Select, enable or disable alarms. Users can configure up to 9 Name of the currently selected alarm.

  • Page 9: Digital Input Configuration And Plc Mode

    Integration and configuration Reference Handbook BactoSense Figure 2-2 BactoSense alarm sources. For a selected source, a condition and a threshold are set. In the example above, an alarm is triggered on a certain cartridge filling level. The following procedure describes how to configure the alarm:...
  • Page 10 Reference Handbook BactoSense Integration and configuration Table 2-1 Overview of digital input states and associated functions. DIGITAL INPUT DESCRIPTION Force PLC mode: The instrument is idle but a slave to the PLC. Run configurable protocol / measurement interval Run configurable protocol / measurement interval...
  • Page 11 Integration and configuration Reference Handbook BactoSense Enable or disable digital inputs. Protocol parameters: Sample name, If disabled, PLC mode is never protocol, and gate. active. Select the input state you wish to If enabled, start the protocol configure. When the state...

  • Page 12: Digital Output Configuration

    Digital output configuration This section describes the configuration of digital outputs on the BactoSense. The physical connection of the outputs to the BactoSense is described in the instruction manual in section 5.4 and 5.5. The values of digital outputs are modified in the following situations: •...
  • Page 13 Integration and configuration Reference Handbook BactoSense The following procedure describes how to adjust the digital outputs. WORK STEP ADDITIONAL INFO / IMAGES Navigate to the Home menu of the BactoSense user interface. Press the Auto mode settings button. Press the Digital outputs button.

  • Page 14: Analogue Output Configuration

    Analogue output configuration This section describes the configuration of analogue outputs on the BactoSense. The physical connection of the outputs to the BactoSense is described in the instruction manual in section 5.4 and 5.5. The analogue current output is changed in the following situations: •...
  • Page 15 Integration and configuration Reference Handbook BactoSense Only Admin users can edit the analogue 4 .. 20 mA outputs. Figure 2-4 Analogue output settings Source: Defines which measurement Output port selection result is transmitted by this output port. Lower limit 4 mA: Which value of...

  • Page 16: Digital And Analogue Output Testing

    Reference Handbook BactoSense Integration and configuration WORK STEP ADDITIONAL INFO / IMAGES Define the lower limit of the range (figure When the source is equal to this 2-4, position 3). value, 4 mA will be output on the selected port.
  • Page 17 Integration and configuration Reference Handbook BactoSense The following procedure describes how to test the analogue and digital outputs. WORK STEP ADDITIONAL INFO / IMAGES Navigate to the Home menu of the BactoSense user interface. Press the Auto mode settings button.

  • Page 18: Demo Mode

    Reference Handbook BactoSense Integration and configuration Demo mode Demo mode can be used when demonstrating the device or when learning how to navigate the menus and use the functions. When it is activated, the instrument reboots into a special mode that displays demonstration data (the owner’s measurement results are hidden). All the instrument’s functions are replaced by simulations that never move the hardware or...

  • Page 19: Factory Reset

    Integration and configuration Reference Handbook BactoSense Factory reset Factory reset reverts most of the instrument settings to the factory values: Gating limits, measurement interval, default protocol names, users, language and network settings. This option is accessible only by the Admin and Service logins.

  • Page 20: Network Configuration

    Dynamic IP DHCP A: For check the check box (a). Note: This is the preferred configuration for most cases when the BactoSense is connected to a router or switch. B: For Static IP uncheck the DHCP check box (a) and enter the desired network configuration (b).

  • Page 21: Set Ntp Servers

    Integration and configuration Reference Handbook BactoSense Set NTP Servers Network Time Protocol (NTP) is a computer network protocol which is used to synchronise time on computers across a network. By default, these are set to synchronise to the Network Time Foundation servers (ntp.org). You have the possibility to set custom NTP servers in the Date and Time menu.

  • Page 22: Retrieve Service Information

    Reference Handbook BactoSense Integration and configuration 2.10 Retrieve service information Figure 2-6 Intervention info screen WORK STEP ADDITIONAL INFO / IMAGE Navigate to the Home menu of the BactoSense user interface. Press the Maintenance button. Press the Intervention info button.

  • Page 23: Review The Service Intervention Log

    Integration and configuration Reference Handbook BactoSense 2.11 Review the service intervention log The following procedure describes how to view details of past service interventions. WORK STEP ADDITIONAL INFO / IMAGE Navigate to the Home menu of the BactoSense user interface.

  • Page 24: Import / Export Settings

    Reference Handbook BactoSense Integration and configuration 2.12 Import export settings Settings are exported to a USB drive as per section 6.1.1. The settings are compiled to a timestamped file ending with *.bnv. In order to import the settings in a new instrument, or as a backup, it is necessary to copy the *.bnv file at the root of the USB drive, or in the...

  • Page 25: Field Bus Interface

    • The BactoSense must have the Modbus TCP optional license (see section 3.1.2). • The BactoSense must have the Modbus TCP service activated in the System settings / System services menu. • The BactoSense must be connected to the bus system.

  • Page 26: How To Activate The Modbus Tcp License

    An authentication code will then be sent to you. It can be transmitted by mail, e-mail or by phone. • Each BactoSense unit has its own authentication code . WORK STEP ADDITIONAL INFO / IMAGE Navigate to the Home menu of the BactoSense user interface.

  • Page 27: Address List On Modbus Tcp

    Field bus interface Reference Handbook BactoSense 3.1.3 Address list on Modbus TCP: The following values can be read with Modbus function 3 or 4 and written with Modbus function 16. REGISTER ADDRESS DATA TYPE FUNCTION VALUES (OFFSET) 300201 0x00C8 Unsigned...
  • Page 28 Reference Handbook BactoSense Field bus interface The following values can be read with Modbus function 3 or 4. REGISTER ADDRESS DATA TYPE FUNCTION VALUES (OFFSET) 300001 0x0000 UInt16 Digital Bit 0: Output 1 400001 (individual bits) Outputs Bit 1: Output 2...
  • Page 29 Field bus interface Reference Handbook BactoSense REGISTER ADDRESS DATA TYPE FUNCTION VALUES (OFFSET) 300008 0x0007 UInt16 Measuremen IDLE 0 400008 t stage INITIALIZING 1 HEATING 2 FILLING 3 PRIMING 4 MIXING 5 INCUBATING 6 ANALYZING 7 CLEANING 8 FLUSHING 9...
  • Page 30 Reference Handbook BactoSense Field bus interface REGISTER ADDRESS DATA TYPE FUNCTION VALUES (OFFSET) 300022 0x0015 UInt32 MSB Cartridge 400022 serial no 300023 0x0016 UInt32 LSB 400023 300024 0x0017 UInt32 MSB Fill serial no 400024 300025 0x0018 UInt32 LSB 400025 300026...
  • Page 31 Field bus interface Reference Handbook BactoSense REGISTER ADDRESS DATA TYPE FUNCTION VALUES (OFFSET) 300042 0x0029 UInt16 Lifetime of [0, 100], percentage of 400042 valve movements remaining remaining before service. 300043 0x002A UInt16 Lifetime of [0, 100], percentage of 400043 plunger...
  • Page 32 Reference Handbook BactoSense Field bus interface REGISTER ADDRESS DATA TYPE FUNCTION VALUES (OFFSET) 300123 0x007A UInt32 MSB Live ICC Same as ICC, but the 400123 value is updated live 300124 0x007B UInt32 LSB during a measurement. 400124 300125 0x007C UInt32 MSB...

  • Page 33: Results And Data Analysis

    Results and data analysis Reference Handbook BactoSense Results and data analysis Measurement results The figure below shows the result of a selected measurement. From here, the user can delete or rename the measurement, look up older results (and export them), or export the result.

  • Page 34: Introduction To Gates

    Default gating sets. They have been carefully designed to be applicable to the vast majority of samples. • The default gates on the BactoSense can be found when pressing on Gate settings in the Home menu of the BactoSense user interface. •...

  • Page 35: List Of Available Gating Sets And Operations

    Reference Handbook BactoSense 4.2.2 List of available gating sets and operations A list of all available gating sets on the BactoSense can be found when pressing Gate settings in the Home menu of the BactoSense user interface. Figure 4-2 List of available gating sets and options to copy and create new sets. Default gates are preconfigured and cannot be deleted or edited.

  • Page 36: Gates And Result Parameters

    Reference Handbook BactoSense Results and data analysis Gates and result parameters Depending on the cartridge used for a measurement, different parameters are measured. The following sections give an overview over the different cartridge types, their gating sets and result parameters.

  • Page 37: Icc Cartridge

    Results and data analysis Reference Handbook BactoSense 4.3.2 ICC cartridge ICC refers to Intact Cell Count. The ICC cartridge is therefore used to measure the concentration of intact cells. Table 4-3 Gating set used for the ICC cartridge. GATE TYPE...

  • Page 38: Icc+ Cartridge

    Reference Handbook BactoSense Results and data analysis 4.3.3 ICC+ cartridge The ICC+ cartridge is similar to the ICC cartridge, but allows the user to use one additional polygon gate. Table 4-5 Gating set used for the ICC+ cartridge. GATE TYPE...

  • Page 39: Change Gates

    A prerequisite for regating is the presence of such additional gating set. Find all available gating sets for your cartridge type when pressing Gate settings on the Home menu of the BactoSense user interface. • The process of modifying an existing gating set is described in section 4.4.3.

  • Page 40: Create A New Gating Set

    Reference Handbook BactoSense Results and data analysis 4.4.2 Create a new gating set New gating sets can be created either from a copy of an existing gating set, or from scratch. Creating a new gating set from a copy WORK STEP...

  • Page 41: Edit Existing Gating Sets

    Results and data analysis Reference Handbook BactoSense 4.4.3 Edit existing gating sets Apart from default gating sets, all other gating sets can be modified. Gate editing can comprise renaming, changing the position of the vertical gate, and changing the number and position of the corners of the polygon gate.
  • Page 42 Reference Handbook BactoSense Results and data analysis The following procedure describes how to adjust a gate: WORK STEP ADDITIONAL INFO / IMAGE Navigate to the Home menu of the BactoSense user interface. Press the Gate settings button. Press the Edit button of the gate you wish to edit.

  • Page 43: Strategy To Adjust Gates For Tcc And Icc

    Reference Handbook BactoSense 4.4.4 Strategy to adjust gates for TCC and ICC The BactoSense is delivered with default gate sets that are suitable for the vast majority of samples. If needed however, advanced users have the possibility to adjust the gate.
  • Page 44 Reference Handbook BactoSense Results and data analysis WORK STEP ADDITIONAL INFO / IMAGE On the result view, press the Re-gate result button. Select the gate you just created, and re- process the data with the new gate by pressing the button Confirm.
  • Page 45 Results and data analysis Reference Handbook BactoSense WORK STEP ADDITIONAL INFO / IMAGE To place the HNA/LNA limit, open again the FL1 histogram and locate the minimum between the LNA and HNA peaks (vertical line on the image). Write down its FL1 value (e.g.

  • Page 46: Comparison With Other Flow Cytometers

    Results and data analysis Comparison with other flow cytometers To compare results of the BactoSense to another flow cytometer, a reference solution containing auto fluorescent beads can be analyzed. This method allows the user to compare the measurement scales of different devices.
  • Page 47 Results and data analysis Reference Handbook BactoSense WORK STEP ADDITIONAL INFO / IMAGE On the FL1 vs counts histogram, estimate the log value of each peak’s center on the FL1 axis. In this example, we obtain approximately (in log): peak = 4.05 peak = 4.3...

  • Page 48: Web User Interface

    (active process, cartridge level, alerts etc.) • The BactoSense needs to be connected to the same network as the computer that accesses the web interface. • The web interface can be loaded on any browser on desktop computers or mobile devices.

  • Page 49: Start Page In Manual Mode

    Web user interface Reference Handbook BactoSense Start page in manual mode Figure 5-1 Start page on web user interface   Menu State of the instrument Language: Drop-down menu for   Dashboard with latest results changing the language. Logout from Web interface and Progress of the current ...

  • Page 50: Download A Zip File With Multiple Results

    Reference Handbook BactoSense Web user interface Download a zip file with multiple results The results from multiple measurements can be downloaded as a zip file. This zip includes the FCS file and summary plots of each measurement. WORK STEP ADDITIONAL INFO / IMAGES On the web interface, select the Results page on the navigation panel on the left.

  • Page 51: Animate The Evolution Of Dot Plots

    Web user interface Reference Handbook BactoSense Animate the evolution of dot plots The web interface can animate dot plots from the Auto mode, to help visualize the progression of the measurements. This feature shows static images in rapid succession; therefore the animation can only be exported using screen recording software.

  • Page 52: Take Screenshots Of The Gui

    The screenshot is displayed below. 5.10 Reboot from web user interface The BactoSense can be rebooted from the web interface according to the following procedure. The instrument cannot switch on remotely. WORK STEP...

  • Page 53: Data Access And Export

    Data access and export Reference Handbook BactoSense Data access and export Export data to USB device To export measurement data, refer to the instruction manual, section 7.6.1. 6.1.1 Export settings, diagnostics, or all to USB device The “Special import/export” function allows users to export either all measurement data from the instrument, or to export only diagnostics data which can be interpreted by service technicians.

  • Page 54: Retrieve Data Via Ftp

    Reference Handbook BactoSense Data access and export Retrieve data via FTP BactoSense data can be remotely accessed using the FTP protocol (RFC 3659). • FTP authentication uses the username/password pairs used in the GUI of the instrument. Default account names are: basic, advanced, and admin.

  • Page 55: Retrieve Files Via Http Or Https

    Only needed in case you changed BactoSense. the configuration. Retrieve the IP address of the BactoSense by For information about network navigating to the Home menu of the configurations (i.e. static and BactoSense user interface, and pressing the dynamic IP settings), refer to System info button.
  • Page 56 Only needed in case you changed BactoSense. the configuration. Retrieve the IP address of the BactoSense by navigating to the Home menu of the BactoSense user interface, and pressing the System info button. Open a web browser on your device and enter the target file address into the address field.

  • Page 57: Gui Relay Using Vnc

    It transmits the keyboard and mouse input from one computer to another, relaying the graphical-screen updates, over a network. The embedded VNC server in the BactoSense is capable of sharing the user interface over the local area network (LAN) only (exception: remote access using a VPN).

  • Page 58: Error Messages And Troubleshooting

    Reference Handbook BactoSense Error messages and troubleshooting Error messages and troubleshooting Warnings Warnings appear when unusual behavior is detected during an otherwise successful measurement. They can indicate reduced accuracy of the measurement results or indicate impending errors. Unlike errors, warnings do not prevent the instrument from functioning, but users should pay attention to them as they can indicate sources of inaccuracies.

  • Page 59: Non-Critical Errors

    Error messages and troubleshooting Reference Handbook BactoSense ERROR NAME DESCRIPTION CAUSES / WHAT TO DO CODE Air bubbles The sample appears to • Check sampling device is detected contain air bubbles. installed properly. • Check the sample for bubbles. •...
  • Page 60 Reference Handbook BactoSense Error messages and troubleshooting Table 7-2 List of non-critical errors. ERROR NAME DESCRIPTION CAUSES / WHAT TO DO CODE Cartridge door Cartridge door is open open and prevents • Close door and retry measurements from the measurement.
  • Page 61 Error messages and troubleshooting Reference Handbook BactoSense ERROR NAME DESCRIPTION CAUSES / WHAT TO DO CODE System The inner temperature is • Reduce ambient overheated too high for operation. temperature, or increase measurement interval to allow instrument to cool down.
  • Page 62 Reference Handbook BactoSense Error messages and troubleshooting ERROR NAME DESCRIPTION CAUSES / WHAT TO DO CODE Pump motion The motion of the pump • Non-critical error. blocked is blocked. Repeat the measurement. If the problem persists, contact a service technician.

  • Page 63: Critical Errors

    Error messages and troubleshooting Reference Handbook BactoSense Critical errors CRITICAL ERRORS If a critical error occurs during operation, it has the following effects: • The protocol immediately stops. • The instrument goes into critical error state, and manual intervention is needed before any new protocol can be launched.
  • Page 64 Reference Handbook BactoSense Error messages and troubleshooting ERROR NAME DESCRIPTION CAUSES / WHAT TO DO CODE Storage disk full Insufficient storage • Delete old space to continue measurements and operation. try again (see instruction manual, section 8.2.7) • This will delete the...
  • Page 65 Error messages and troubleshooting Reference Handbook BactoSense ERROR NAME DESCRIPTION CAUSES / WHAT TO DO CODE Power Supply Communication with Communication power supply module • Service required. Error impossible. Pump Communication with • The cartridge door is Communication pump module timed out.
  • Page 66 Reference Handbook BactoSense Error messages and troubleshooting ERROR NAME DESCRIPTION CAUSES / WHAT TO DO CODE Processing Signal processing circuits • Please execute the memory memory has overflowed. Clean Optics protocol overflow (see instruction manual, section 7.7.1). • Retry the measurement.

  • Page 67: Low Temperature Operation And Standby Heating

    Error messages and troubleshooting Reference Handbook BactoSense Low temperature operation and standby heating The instrument needs to operate in a controlled temperature range to ensure reliable and reproducible measurement results. At very low and very high ambient temperatures (below 5 °C or above 30 °C), protocols are forbidden from running. At temperatures between 5 °C and 20 °C, the instrument regulates the enclosure temperature in two ways:...

  • Page 68: Table Of Acronyms

    Reference Handbook BactoSense Table of acronyms Table of acronyms Table 8-1 Acronyms ACRONYM DESCRIPTION Flow Cytometry Standard (FCS) is a data file standard for the reading and writing of data from flow cytometry experiments. The FCS specification has traditionally been developed and maintained by the International Society for Advancement of Cytometry (ISAC).

  • Page 69: Index

    Index Reference Handbook BactoSense Index Modbus TCP 20 Activation Acronyms 63 Gate+ 33 Address list Additional documentation 1 Gating License Alarm configuration 3 Change Analog output Default gating sets Configuration Edit Network configuration 15 Description New gate 35 Testing Introduction...
  • Page 70 Reference Handbook BactoSense Index Validation kit 1 VNC 52 Warnings 53 Web user interface 43 Connection Dotplot Download FCS Download results Reboot Winter mode 62 XLSX 45 Zip 45...
  • Page 71 Technologies SA Tel. +41 (0)21 552 14 21 Ch. Dent d’Oche 1A info@bnovate.com CH-1024 Ecublens www.bnovate.com Switzerland...

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