Stay ahead with the latest electron microscopy software updates

We are always looking to improve your electron microscopy experience, whether through enhanced access to service experts, easy to use step-by-step guides, or hands-on training. We also know your electron microscopy lab requires maintenance to stay in top shape. A critical component of this ecosystem is powerful software that enables you to get the best results possible from your instrumentation. That is why we offer a constant stream of improvements and updates to our software, ensuring you are able to achieve your goals as quickly and easily as possible.

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Release notes

EPU and Smart EPU

SPA acquisition software

Description of updates

  • Smart EPU with EPU Quality Monitor or with Embedded CryoSPARC Live
    • EPU supports integration with Embedded CryoSPARC Live.
    • An improved version of the Smart Filter functionality is available. Smart Filter automatically filters out obviously bad foil holes in a Gridsquare.
    • Smart Filter now works with Holey Gold grids.
    • Smart Filter works better with other filters such as the Remove Grid Holes Close to Grid Bar filter and the Ice Filter.
  • EPU Multigrid
    • Rather than manually creating individual sessions in the Multigrid queue, you can now use the Auto-create Sessions functionality to automatically create identical sessions--one for each acquired Atlas--and add it to the Multigrid queue.
    • Sessions with incomplete parameters are now clearly indicated.
    • Upon automatically adding sessions to the MultiGrid queue, a pop-up informs you of those located on the C-drive.
    • In the Multgrid queue, the Atlas of the selected session is shown at the bottom of the session's info.
    • You can now create a Multigrid queue right from the Home tab.
  • General Improvements
    • The two buttons Create session from preferences and Save session to preference have been removed from the EPU tab. In order to import your EpuSessionPreferences files, use the Home > Saved Preferences > Import button. This will place your imported session in Saved Preferences. You can then create a session from Saved Preferences at any time.
    • Improved instructions for running Optimize Beam.
    • The image quality during preparation is now as high as a preview or an image acquired during an automated run.
  • To obtain update: Download here

Note: You can upgrade to EPU 3.x if you have a valid EPU license. Some of the Smart EPU features will need a full upgrade of Athena performed by service and depend on the existence of certain additional packages.

SPA acquisition software

Description of updates

  • Smart EPU with EPU Quality Monitor or with Embedded CryoSPARC Live
    • EPU now has a dedicated grid type for Holey Gold grids. This grid type also supports hexagonal layouts of foil holes. This feature is in Beta release.
    • Smart Filter is a new functionality that automatically filters out and de-selects inappropriate holes during Hole Selection. The button is found in the Selection ribbon group. Smart Filter works with Prepare All Squares. It is executed for each gridsquare during the execution of an automatic recipe. This feature is in Beta release.
    • Certain features (EQM, Smart plugins) are disabled when unusable or irrelevant to the selected settings.
  • EPU Multigrid
    • In the MultiGrid queue, it is now possible to delete individual EPU sessions.
  • General Improvements
    • To save storage space with EPU fractions files, the Compression option is available in the Data Acquisition Preset when supported. Requires Falcon 4(i) camera and TEM 7.13 and higher.
    • Trial License: EPU now allows users a trial period valid for three months after which one can buy a license in order to continue using EPU.
    • In EPU Template Definition and Area Selection, the visualized beam diameter now better represents the actual beam diameter on the system.

To obtain update: Download here

Note: You can upgrade to EPU 3.x if you have a valid EPU license. Some of the Smart EPU features will need a full upgrade of Athena performed by service and depend on the existence of certain additional packages.

SPA acquisition software

Description of updates

  • The Home Page is available on all configurations, it allows easy management of favorite settings and contains various useful shortcuts.
  • A Fast Screening option is added, which automatically selects a few holes per gridsquare to easily screen grids. This feature can also be used in combination with Multigrid to efficiently screen many grids.
  • In Hole Selection the ribbon has been cleaned up, several options are now available through a flapout.
  • Targeting accuracy has been improved, leading to better positioned micrographs during Automated Acquisition.
  • The Atlas Alignment procedure has been improved to be more robust and accurate when loading a grid on the stage or when executing a Multigrid session.
  • More guidance has been added to Multigrid.
  • Various ice filter improvements have been added, including context menu shortcuts for easier adjustments.
  • The Pause button in Automated Acquisition has been removed.
  • The application startup has been improved.
  • Several other small improvements and fixes.

Download here

SPA acquisition software

Description of updates

  • EPU Software automatically opens the column valves when needed.
  • In combination with TEM Server 7.11 (Titan 3.11 / Talos 2.11) several image acquisitions functionalities have been optimized to further increase throughput for the Thermo Scientific Falcon 4i Detector.
  • The “Session Setup” tasks have been revised and simplified.
  • The calibration of AFIS clusters has been improved by measuring the actual attainable image beam shift range.
  • Lens normalizations have beam improved to reduce navigation inaccuracies.
  • The Auto Zero-Loss auto-function for Gatan BioQuantum and BioContinuum filters is more robust.
  • An issue with the objective aperture during screening has been resolved.

Download here

SPA acquisition software

Description of updates

  • AFIS/clustering range increased to 12 μm resulting in less stage moves and increased throughput for "Fast Acquisition" mode.
  • In combination with TEM Server 7.10 (Titan 3.10 / Talos 2.10) several image acquisitions functionalities have been optimized to further increase throughput.
  • When available EPU uses and reports the dose that is calculated by the camera that is compensated for coincidence loss, the dose measurement is more accurate than previously calculated by EPU.
  • Improvements in screening workflow.
  • For “auto-eucentric by stage tilt” the "minimum cross correlation quality" parameter is replaced by the more user-friendly "maximum z-height deviation".

    Download update

    SPA acquisition software

    Description of updates

    • Screening functionality is now enabled also on side-entry loader systems
    • Gatan K3 camera dark reference acquisition is now configurable
    • The accuracy of automated acquisition in automatically re-loaded samples (e.g., multigrid) is improved
    • Various other performance improvements and bug fixes
    • Resolved issue for 2.12 Win 7

      Download update

      SPA acquisition software

      Description of updates

      • Manually add grid-squares on custom positions.
      • A traffic light for system readiness and recovery is now available on all Krios configurations, model G3 or later. Requires Titan 3.8 or later.
      • A new, more efficient way to calculate stage settling time after moving.
      • Time-based Gatan K3 Dark Reference image acquisition.
      • Multiple smaller fixes and performance improvements.

        Download update

        SPA acquisition software

        Description of updates

        • A traffic light reports the system readiness status for a successful high-quality data acquisition. If this traffic light is not green for all monitored parameters, then the Recover function automatically adjusts the parameters that are out-of-range. The traffic light and recovery functions are only available on Krios systems with TEM Server 7.7 or later, and a Falcon 4 camera in bottom-mounted or post-filter position.
        • The EPU Multigrid option enables the consecutive execution of multiple Automated Acquisition runs. 

          Download update

          *Multigrid availability:

          • Free for (Titan) Krios systems with Windows 10 (upgrade)
          • Paid option for all other systems

          SPA acquisition software

          Description of updates

          • EPU > Hole Selection and Area Selection, and EPU > Automated Acquisition: In manual mode, the Alpha tilt angle at which each individual Grid Square is prepared is automatically applied again during the Automated Acquisition run.
          • EPU > Automated Acquisition: The MRC2014 FEI2 Extended Header image format is introduced. Among other specification improvements, the FEI2 Extended Header specification contains more metadata fields than the FEI1 Extended Header. The FEI1 Extended Header format is now frozen, it will no longer be extended with new metadata. Some of the new metadata fields in the FEI Extended Header are not filled yet.
          • EPU > Automated Acquisition: The throughput for the Gatan K2 camera is improved. Requires TEM Server 7.6 or later

            Download update

            SPA acquisition software

            Applicable instruments

            Description of updates

            • Atlas > Screening: Automated Atlas Alignment after Load Sample
            • EPU > Session Setup: The New Session function offers an option to create the new EPU Session with the same settings and parameter values as the current EPU Session
            • Hole Selection and Area Selection: The new Automated Preparation functions significantly decrease the amount of time and effort that is needed to manually select the acquisition targets for EPU session
            • Automated Acquisition: On systems with a CFEG, the tip is automatically flashed during the Automated Acquisition run to ensure a stable and optimal `electron beam. (requires Titan R3.5.x or later).

            Download update

            SPA acquisition software

            Applicable instruments

            Description of updates

            • Improvements in square selection and hole selection for a smoother workflow:
              • No longer need to move with the stage to navigate through grid-square images for hole selection.
              • Option to navigate between grid-square images directly from the hole selection page.
              • Various other usability enhancements.
            • Automatic periodic acquisition of dark reference images for Gatan K3 camera (requires server version 2.4 (Talos)/3.4 (Krios) or later).
            • Improvements in square selection and hole finding algorithms, especially for gold grid specimens.
            • Improvements in targeting accuracy and throughput of “Fast acquisition”.
            • Various usability and performance improvements as well as bug fixes, including:
              • Ability to copy template defocus list to all areas with one click.
              • Warning for the AutoLoader TMP running when starting a new Automated Acquisition.
              • Simplified look and feel for Atlas Screening.

              Download update

              SPA acquisition software

              Applicable instruments

              Description of updates

              • Acquisition and Optics Presets: The Falcon 4 camera is now available
              • Fast acquisition mode
                • Targeting accuracy is improved. For every Grid Square a foil hole position refinement action improves the hole finding accuracy and a foil hole position correction calibration minimizes the effects of any misalignment
              • Smart Grid Square selection
                • Selection now starts from the categories chosen at screening
                • An algorithm analyzes the user selection and proposes similar grid squares as well as the ability to extend the current selection with the best match from the remaining squares
              • Screening
                • Various improvements including the ability to re-acquire an Atlas and to choose the number of tiles
              • Usability improvements
                • UI responsiveness when changing camera settings is much better
                • Grid Square detection algorithm is significantly improved

              Download update

              SPA acquisition software

              Applicable instruments

              Description of updates

              • Gatan BioQuantum 1967 with K3 camera is now also supported in EPU on systems with Titan 3.2.X or later, or Talos 2.2.X software or later.
              • Preparations > Acquisition and Optics Presets: The most recent acquired preview for each Present remains available until a new Preview is acquired. On the preview image, the context menu provides navigation options.
              • Preparations > Acquisition and Optics Presets: In the Data Acquisition Preset it is possible to select the C2 Aperture. The other Presets automatically use the same C2 Aperture, except for the Atlas Preset, which will always use the largest available C2 Aperture.
              • Atlas > Screening: In the Data Acquisition Preset it is possible to select the C2 Aperture. The other Presets automatically use the same C2 Aperture, except for the Atlas Preset, which will always use the largest available C2 Aperture.
              • Atlas > Acquire Atlas: The Load from Screening function imports the Atlas for the loaded specimen from the Screening task. This way, no new Atlas needs to be acquired. If the specimen has rotated or has otherwise shifted, then it is still possible to acquire a new Atlas.

              • Improvements and other changes:
                • EPU > Template Definition: The Defocus List is simplified, so it is much more user-friendly to create, edit and remove defocus values, and to copy defocus lists to existing Acquisition Areas.
                • EPU > Template Definition: The position of an Acquisition Area relative to the center of a Foil Hole is no longer specified in separate X and Y distances, but as the radial distance.
                • EPU > Setup Session: The selection of values and settings that is supported by the Session Preferences is extended with Hole Selection, Area Selection and Automated Acquisition Settings (incl. Phase Plate settings).
                • EPU > Hole Selection and EPU > Automated Acquisition: The accuracy of the Find Holes function is significantly improved.

              Download update

              SPA acquisition software

              Applicable instruments

              Description of updates

              • Up to double throughput by using “Faster Acquisition” mode that utilizes Aberration Free Image Shift (AFIS requires at least Titan 2.15) in combination with hole clustering
              • Lacey carbon by default uses Faster Acquisition mode if available
              • Option for fast session setup from previously saved preferences that include Camera and Optics settings, session information and template definition
              • Support for the Gatan Bioquantum K3 detector (requires Titan 2.15.2):
                • Asynchronous data acquisition for maximum throughput
                • Support for LZW compressed TIFF output format for dose fractions
              • Usability improvements:
                • Objective aperture automatically retracted for Atlas acquisitions
                • Ability to load cartridge to stage from within the EPU Screening task
              • Various performance improvements and bug fixes

              Availability

              • Included in service contracts
              • EPU 2.x is only available on Titan 2.12 and later, and Talos 1.12 and later
              • EPU 2.x does not support the Falcon 2 camera
              • EPU 1.x can be updated to EPU 2.x in case of service contract, it does not require license renewals.

              Download update


              EPU-D

              Electron Diffraction acquisition software

              Description of updates

              • Bug fixes and TEM server compatibility

                Download update

                Electron Diffraction acquisition software

                Applicable instruments

                Description of updates

                • General: Improvements in optics handling are introduced to avoid center stop drifting away from the beam stop position.
                • Acquisition: Optimized position calibration is now also used during batch acquisition.

                  Download update

                  Electron Diffraction acquisition software

                  Applicable instruments

                  Description of updates

                  • TEM Server compatibility release.

                  Download update

                  Electron Diffraction acquisition software

                  Description of updates

                  • Acquisition: The MRC2014 FEI2 Extended Header image format is introduced. Not all new metadata fields are filled yet.

                    Download update

                    Electron Diffraction acquisition software

                    Applicable instruments

                    Description of updates

                    • Session Setup:
                      • Tilt Series can now be stored as SMV files.
                    • Automated Acquisition:
                      • The Image Display can now show the Tilt Axis.
                      • The Image Display can now toggle between Diffraction and TEM Imaging mode.
                      • An acquired Tilt Series can now be played back as a video.
                      • An acquired Tilt Series can now be exported as an H.264 MPEG4 video.

                      Download update

                      Micro Electron Diffraction (MED / Micro-ED) acquisition software

                      Applicable instruments

                      Description of updates

                      • Beta Batch feature that includes:
                        • Definition of multiple positions to be acquired in a sequence.
                        • Ability to pre-visit all defined positions to acquire a diffraction screening image.
                        • Acquisition of reference imaging mode picture before screening/tilt series.
                        • Visualization of the results.
                      • The Atlas screening task for systems with AutoLoader is now available in EPU-D as well.
                      • Ability to inspect the intensity and resolution of a specific point in diffraction patters.
                      • Various usability and performance improvements including:
                        • Control of the C2 aperture via the presets.
                        • Improved auto-contrast brightness behavior during tilt series acquisition.

                      Download update

                      Micro Electron Diffraction (MED / Micro-ED) acquisition software

                      Applicable instruments

                      Description of updates

                      • Licensing: a 30-day Trial License is available
                      • Optimized Position calibration to compensate for an offset between the tilt axis of the stage and the optical center of the aligned column
                      • Session Setup: acquired images can be saved as a single stacked MRC image file per Tilt Series

                      Contact on-site software service

                      Micro Electron Diffraction (MED / Micro-ED) acquisition software

                      Applicable instruments

                      Description of updates

                      • Image Display:
                        • Resolution Rings: this Image Display overlay gives a quick overview of the resolution of the diffraction pattern. This overlay can easily be centered with the diffraction pattern.
                        • Diffraction Ruler: this Image Display overlay enables an easy method to measure the resolution of a particular bright spot.
                        • Frame Slider: after the acquisition of a Tilt Series is completed, the Frame Slider enables inspection of the acquired images.
                      • Atlas: An automatic check validates the integrity of a loaded Atlas.
                      • Automated Acquisition:
                        • Name: each Tilt Series must have a unique name. This name is included of the file-path for the acquired images.
                        • Auto Eucentric: automatically sets the specimen to eucentric height, using the stage tilt method.
                        • Histogram > Reset Auto Levels: reverts custom contract, brightness and gamma to the values that are calculated by the auto-level algorithm.
                      • Improvements:
                        • Automated Acquisition: The automatic contrast-brightness is improved.

                      Contact our on-site software service for update.

                      Micro Electron Diffraction (MED / Micro-ED) acquisition software

                      Applicable instruments

                      Description of updates

                      • This is the first release of the EPU-D software. The EPU-D software is a new product in the range of Thermo Scientific TEM Cryo-EM application software products

                      Availability

                      • Included in Micro ED commercial package

                      Contact our on-site software service for update


                      TEM Server

                      Server software for life sciences

                      Description of updates

                      High End TEMs:

                      • Increased tolerance to pressure spikes in the Octagon
                        When a holder is loaded, a short pressure spike can occur. In preceding software releases, the vacuum system immediately stops the IGPco and IGPcl as soon as the pressure exceeds the upper threshold value. To restore operational conditions, the user needs to recover vacuum. Short and small pressure spikes in the octagon are tolerated, they no longer trigger an immediate stop of the column IGPco and IGPcl.
                      • On System Display (OSD)
                        The options for Airlock pumping times on the OSD now match with the TEM User Interface.
                      • Automated alignments
                        The algorithms that are used by multiple automated detection and alignment functions have been improved. This results in faster, more accurate and more reliable automated alignments, and a higher throughput with better quality in (among others) the SPA workflow.
                      • Sherpa > Customer > OptiSTEM
                        When the A1 fine limit is approached, the optimal quality of the OptiSTEM correction can deteriorate. A warning is displayed in the logging panel when the A1 fine limit is approached.
                      • Storage Server connections
                        The RPC connection between the Storage Server on one side, and Thermo Fisher cameras with any type of CMTS on the other side is now more robust.

                      Mid-Range TEM:

                      • On System Display (OSD)
                        The options for Airlock pumping times on the OSD now match with the TEM User Interface.
                      • Automated alignments
                        The algorithms that are used by multiple automated detection and alignment functions have been improved. This results in faster, more accurate and more reliable automated alignments, and a higher throughput with better quality in (among others) the SPA workflow.
                      • Align Genie
                        The Mh sub-mode, and the LM-STEM and uP-STEM modes are no longer supported in the Align Genie. These modes were introduced as Beta functionality and remain available in the user interface, but they do not meet the required reliability specifications.
                      • 4D-STEM with Panther STEM
                        4D-STEM experiments with Panther STEM detectors are now supported on Talos systems.
                      • CFEG
                        The CFEG is now available for Talos F200i, F200X and F200X G2. Low kV alignments Talos F200i, F200C and F200C G2 now support 30 kV alignments.
                      • Storage Server connections
                        The RPC connection between the Storage Server on one side, and Thermo Fisher cameras with any type of CMTS on the other side is now more robust.

                      Entry Level TEM:

                      • Automated alignments
                        The algorithms that are used by multiple automated detection and alignment functions have been improved. This results in faster, more accurate and more reliable automated alignments, and a higher throughput with better quality in (among others) the SPA workflow.
                      • On System Display (OSD)
                        The left-side menu now remains available during the execution of a workflow. Sample manipulation actions are now available in the Cassette screen. The guidance for LN2 filling that is displayed when changing to cryo mode is improved.
                        When a Cryo Cycle is aborted on the CLS and/or on the TEM, a screen is displayed to inform the user about the 'abort' status.
                        The OSD shows a warning when the Semi Automated Loader (SAL) service is not running.
                        The Cooldown TEM screen is simplified.
                        The Overview and Details tabs are merged into a single Status screen.
                        The TEM and CLS images better represent the physical appearance of the equipment.
                      • MicroProbe at higher magnification
                        In MiCo, an HM uP sequence is added for MicroProbe mode in the HM magnification range. This sequence ensures that the system is properly aligned for the Hole/Eucentric Height Preset in EPU.
                      • Storage Server connections
                        The RPC connection between the Storage Server on one side, and Thermo Fisher cameras with any type of CMTS on the other side is now more robust.

                      To obtain update: Contact our On-Site software update service

                      Server software for life sciences

                      Description of updates

                      High End TEMs:

                      • Lorentz mode
                        When the All lenses zero setting is active, the lens values in the TEM User Interface will now show 0%.
                      • Falcon 4(i)
                        The Falcon 4 and Falcon 4i camera can now also be configured on a system with Monochromator.
                      • Selectris (X)
                        The TEM User Interface now provides more detailed information when the Selectris filter is not operational.
                      • EMPAD 3S STEM detector
                        The EMPAD 3S detector can now be configured in the following positions: Bottom-mounted, on-axis; Filter-mounted or Service hatch.
                      • NanoMEGAS
                        NanoMEGAS can now be enabled in STEM mode.
                      • Storage Server
                        The reliability of the connection with the Storage Server is improved.
                        The Traffic Light functionality now also monitors the status of the connection to the Storage Server.
                      • Collision Prevention
                        The collision prevention functionality now blocks simultaneous insertion of the Single-X detector and the Automatic Cryo Box.

                      Mid-Range TEM:

                      • Selectris (X)
                        The TEM User Interface now provides more detailed information when the Selectris filter is not operational.
                      • Ceta-F
                        The Ceta-F camera is now also supported on Talos L120, F200C and F200i.
                      • EDS
                        Super-X G2 and Super-X G2 Lite are now also supported on Talos F200i. On a system with an EDS detector, it is now possible to configure four Automated Aperture Mechanisms (AAM).
                      • EMPAD 3S STEM detector
                        The EMPAD 3S detector can now be configured in the following positions: Bottom-mounted, on-axis; Filter-mounted, and Service hatch.
                      • NanoMEGAS
                        NanoMEGAS can now be enabled in STEM mode.
                      • Fringe Free Alignments
                        The Fringe Free alignment option is now also available on Talos systems.
                      • Storage Server
                        The reliability of the connection with the Storage Server is improved. The Traffic Light functionality now also monitors the status of the connection to the Storage Server.
                      • Collision Prevention
                        The collision prevention functionality now blocks simultaneous insertion of the Single-X detector and the Automatic Cryo Box.

                      Entry Level TEM:

                      • Cryo Cycle
                        • On the CLS, the conditions for Cryo Cycle recommendation are updated:
                          Current temperature: Cryo; Next temperature: Cryo=
                          • More than 8 hours without Cryo Cycle.
                          • More than 9 sample transfers without Cryo Cycle.
                          • CLS Pot is opened.
                          Current temperature: Cryo; Next temperature: Room temp=
                          • None
                          Current temperature: Room; Next temperature: Cryo=
                          • More than 3 days in Room Temperature mode.
                          • The CLS is used:
                            • Standby mode is interrupted.
                            • A sample transfer is started.
                            • The Transfer Device is docked or undocked.
                            • The CLS Pot is opened.
                          Current temperature: Room; Next temperature: Room=
                          • More than 7 days without Cryo Cycle.
                        • The OSD now uses three separate screens to guide the user through the Cryo Cycle procedure: two screens for preparation, followed by one screen for the execution of the Cryo Cycle.
                        • The default Cryo Cycle duration is changed to 480 minutes.
                        • The estimated remaining time for a Cryo Cycle now depends on the LN2 level. This makes the estimation more accurate.
                        • An ongoing Cryo Cycle on the TEM or the CLS no longer locks the OSD on the other unit. This makes it possible to simultaneously perform a Cryo Cycle on the TEM and on the CLS.
                      • Temperature Control
                        The OSD now shows the temperature status of the CLS and the TEM.
                        And an animated guide how to refill the LN2 Dewar on the TEM.
                        The Go to Cryo procedure can be stopped after the LN2 level has reached OK. It is no longer necessary to wait until the LN2 Dewar is completely filled before starting the sample manipulation actions.
                      • Sample Transfer
                        If a sample transfer is started while a Cryo Cycle is recommended on the CLS and/or the TEM, then a warning is displayed that requests the user to start the Cryo Cycle. It is possible to ignore the warning and resume the sample transfer procedure without performing a Cryo Cycle.
                        The OSD now shows a progress bar for the current status and progress of the sample transfer between the CLS and the TEM.
                        The LED strip on the CLS indicates the status of the Transfer Device (TD):
                        • On: TD is connected, no action needed.
                        • Blinking: insert or remove the TD.
                        • Off: TD is not connected, no action need.
                      • Storage Server
                        The reliability of the connection with the Storage Server is improved. The Traffic Light functionality now also monitors the status of the connection to the Storage Server.
                      • Error Recovery
                        The error handling and recovery functions on the TEM and on the CLS are significantly extended and improved.
                        The OSD on the TEM now shows a button to recover from an error condition.
                        After the emergency stop (EMO) is pressed on the CLS, the OSD on the CLS shows instructions how to bring the CLS back to an operational state.
                        After a recovery procedure on the CLS, the Cryo or Room temperature mode is determined as follows:
                        • If the LN2 level is above Critical level, then the CLS goes to Cryo mode.
                        • If the LN2 level is between Critical and Empty, then the CLS goes to Error mode and requests the user to select the desired temperature mode.
                        • If the LN2 level is Empty, then the CLS goes to Room temperature mode.

                      To obtain update: Contact our On-Site software update service

                      Server software for life sciences

                      Description of updates

                      Source and HT:

                      • On titan systems, the High-T flash button in CFEG control > Expert flap-out is removed. Instead, the system automatically assigns the most suitable flashing function (either Low-T or High-T flash) to the Flash button.

                      Vacuum:

                      • For systems with a Titan Basic G2.0 vacuum system, the Vacuum control panel > Settings > Airlock pump time options list is extended with 900, 1200, 1500 and 1800 seconds.

                      Optics:

                      • The automated Sherpa > AFIS alignment is now also available on Talos F200C.

                      Cameras, filters, and detectors:

                      • Falcon 4i is now also available as a bottom-mounted camera on Talos F200i and F200S.
                      • To prevent damage to the sensor of a Falcon 4 or Falcon 4i camera during continuous acquisition, the beam will be blanked when: 
                        • The magnification changes. 
                        • The magnification range changes (LM <> HM). 
                        • The probe mode changes (MicroProbe <> Nanoprobe).
                      • Sherpa > Energy Filter: The automated Crossover Correction tuning is now available for Supervisor users.
                      • Ceta-F is now also available on Talos F200i and L120C.
                      • EMPAD. The metadata in the image file is extended with additional parameters: PixelSize, DiffractionPatternRotation, and ImageRotation.

                      Motion and Sample Loaders:

                      • WARNING: The CryoCycle procedure now uses target temperatures instead of a timer
                        • Autoloader: docker temperature exceeds 228 K 
                        • Column: holder temperature exceeds 280 K
                      • After a CryoCycle, the following Temperature Control states are available: 
                        • All Nitrogen Temperature: Temperature Control will put the system to All Nitrogen Temperature state immediately after the CryoCycle is completed. 
                        • All Nitrogen Temperature delayed: Temperature Control will put the system to All Nitrogen Temperature state at the specified date and time. 
                        • All Room Temperature delayed: Temperature Control will put the system to All Room Temperature state at the specified date and time. This state is only available after a CryoCycle of both the Column and Autoloader.

                      All items below are applicable for Tundra systems:

                      • The heater on the LN2 Dewar in the Tundra system now has a configurable maximum temperature with a configurable margin, so that all LN2 can evaporate without overheating the Dewar.
                      • Semi-Automated Loader (SAL)
                      • The Exchange Position Wizard is now available, including motor calibration.
                      • The LED Matrix on the Tundra indicates the status of the SAL: 
                        • Blue: OK. 
                        • Blinking blue: OK, exchange is ongoing. 
                        • Red: Not OK. 
                        • An emergency stop button (EMS) is available. When pushed, the ongoing exchange is aborted, and the Cryo Loading Station (CLS) reverts to a standby status. Recovery of the EMS status is guided via the On System Display (OSD).
                      • On System Display (OSD): 
                        • Guidance is added for the execution of a Cryo Cycle, including how to bring the Tundra system to a cryogenic temperature status. 
                        • Maintenance screens: A function is added to manually detach the transfer device and a guidance is added to refill the LN2 Dewar on the CLS.
                      • Contact our on-site software service for update

                         

                      Server software for life sciences

                      Description of updates

                      • Support for the Thermo Scientific Falcon 4i Detector on all systems that support its predecessor, the Falcon 4 Detector.
                      • The Falcon 4i Detector is available as a BM and an EF camera.

                      Contact our on-site software service for update

                       

                      Server software for life sciences

                      Description of updates

                      • On systems with a Thermo Scientific Selectris (X) filter, the EFTEM lens series are revised. After a software upgrade from TEM Server 7.8.X or earlier, all EFTEM alignments and all EFTEM magnification calibrations must be renewed for all high-tension voltages.
                      • The Gatan US1000XP, OneView, or Continuum NR cameras have moved from the GCI2 interface to the faster and more stable GatanRpcServer interface

                      Contact our on-site software service for update

                       

                      Server software for life sciences

                      Applicable instruments

                      • (Titan) Krios with Windows 10

                      Description of updates

                      • It is now possible to configure two Falcon 4 cameras on a single system: one in bottom-mounted position (BM) and one in energy filter position (EF).
                      • Advanced TEM Scripting additions:
                        • AutoLoader functions
                        • Temperature Control functions
                        • Selectris Slit control functions
                      • Krios
                        • The Focus Stigmator calibration is now available in Sherpa, enabling AutoCTF and 3-fold asigmatism correction.
                        • The Magnification Calibration for Krios systems is now based on the oriented gold specimen instead of the cross-grating specimen. This results in a higher accuracy of the 3D reconstructions.
                           
                      • Glacios / Talos dose impact
                        • With R2.7.1, a new spot sizes series is introduced
                        Glacis / Talos dose impact
                        • With the original spot sizes series, screen current fluctuates within 35–85% when changing the spot size. For better predictability a new spot size series is introduced which keeps the screen current fluctuation within 50–60%.
                        • Due to the changed spot size series, each spot size value will result in a different dose on the camera compared with the previous TEM server versions.
                        • When unchanged dose on the camera is desired, session parameters need to be adjusted accordingly. In order to recover the same dose on the camera it may be required to change spot size and gun lens values.

                        Availability:

                        • Included in service contracts
                        • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for Glacios/Talos and (Titan) Krios

                        Contact our on-site software service for update

                        Server software for life sciences

                        Applicable instruments

                        • (Titan) Krios with Windows 10

                        Description of updates

                        • Source and High Tension:
                          • CFEG: Supported by the Ice Growth microscope test.
                          • CFEG: The Smart BCM based ramping algorithm is now available for the High Temperature flash procedure.
                        • Vacuum:
                          • The Vacuum Analyzer replaces the obsolete Pressure Logger.
                        • Optics:
                          • The CEOS Corrector software and user interfaces now support the following Gatan filters:
                            • Gatan Continuum 1069 Dual with K3 camera.
                            • Gatan BioContinuum 1067 with K3 camera.
                        • Cameras and Detectors:
                          • EMPAD 3S: Allows stand-alone 3rd party STEM detectors to synchronize with the Panther STEM CAB/A scan engine.
                          • 4D STEM with Ceta-2: The pixels in the first column of the camera sensor are no longer over-exposed.
                          • Gatan GMS: The software interface with Gatan Digital Micrograph now supports Dose Protector events for the following Gatan filters:
                            • Continuum 1069 with K3
                            • BioContinuum 1067 with K3
                            • BioQuantum 1967 with K3
                            • BioQuantum 967/968 with K2
                          • Gatan GMS: The following applications and processes can now be executed with regular user privileges. It is no longer necessary to use the Run as Administrator option:
                            • The GMS application.
                            • RpcServer (started automatically) for all configurations with a BioQuantum 1967 or Continuum 1067 filter and the Gatan camera is shipped with a dedicated Gatan PC.
                            • GfiRemoteProxy (started automatically) for all system configurations where the Gatan camera is shipped with a dedicated Gatan PC.
                        • Motion and Autoloader:
                          • Autoloader TMP: Recovery function automatically recovers TMPAL errors on the Autoloader. If recovery fails, then a message is displayed and a new UEC is logged.
                          • Piezo Controller: New firmware must be uploaded to the Piezo controller. If the Piezo controller is powered on and connected, then the firmware is uploaded automatically during the TEM Server installation. If not, then the firmware can be uploaded manually via TAD.

                          Availability:

                          • Included in service contracts
                          • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for Glacios/Talos and (Titan) Krios

                          Contact our on-site software service for update

                          Server software for life sciences

                          Applicable instruments

                          Description of updates

                          • For all systems with an Autoloader and/or a Falcon 4 camera, it is strongly recommended to upgrade because of a critical bug fixes
                          • Source and High Tension: o CFEG
                            • The new smart Beam Current Measurement (BCM) based ramp up function ensures stable beam currents after a low temperature flash.
                            • CFEG: The timestamp of the most recent CFEG Flash is added to the metadata parameters in the MRC2014 FEI2 Extended Header image format.
                            • CFEG: CFEG is now also available for Metrios AX 4.0.
                            • Sherpa: HT Conditioning tool which supersedes standalone TEM FEG Auto Alignment Software
                          • Optics
                            • Falcon 4 Pro-active Protector: The range of the Falcon 4 Pro-active Protector is extended with High Tension voltages below 200 kV.
                            • Sherpa > APM: The following procedures are automated:
                              • Condenser center TEM
                              • Condenser stigmation
                            • OptiSTEM+:
                              • Improved feedback with user guidance when the procedure fails.
                              • The A2 and B2 procedures can now be executed separately.
                              • The new B2/A2 single shot function executes one iteration of the procedure. On bad specimens, this function gives the user the more control to optimize the system step-by-step.
                          • Cameras and Detectors
                            • Selectris and Selectris X: The Thermo Scientific Selectris and Thermo Scientific Selectris X Energy Filters are introduced for Krios and Glacios microscopes.
                            • Falcon 4:
                              • Continuous Acquisition (Live Mode) is available for the factory account. Continuous Acquisition streams the live image to TIA.
                              • Advanced Scripting now supports EER acquisition.
                            • Flucam Viewer: A new overlay is available with a 360 degree scale.
                            • Gatan Continuum with K3: The Duty Cycle setting is now supported. This allows for shorter exposure times (< 0.0133 sec), which leads to better results for the Monochromator auto-tuning procedure on a system with UltiMono.
                          • Motion and Autoloader
                            • OSD: New functions on the On-System Display (OSD) for Krios G4:
                              • Load Cartridge can now be done in one step.
                              • The Cassette Slot status (empty / filled) is now displayed.

                            Availability:

                            • Included in service contracts
                            • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for Glacios/Talos and (Titan) Krios

                            Contact our on-site software service for update

                            Server software for life sciences

                            Applicable instruments

                            Description of updates

                            • (Titan) Krios, Source and High Tension: Support for CFEG beam current stability optimization routines to condition the tip before first use.
                            • (Titan) Krios, Vacuum: IGP2CI power supply support
                            • Optics:
                              • Added the Camera to Camera calibration FluCam in Sherpa.
                            • Cameras and Detectors:
                              • Falcon 4: The Gain Reference image for EER acquisitions is now stored as a TIFF file on the Storage Server to support EPU Quality Monitor (EQM) and 3rd party image processing applications.
                              • Falcon 4: CMTS-based Qualification Tool for Sensor Package qualification.
                              • Falcon 4: camera is now also available for Talos F200C systems
                              • Gatan Continuum: The Gatan BioContinuum filter is now supported in embedded configuration.
                              • Gatan Continuum: Embedding is now available for systems shipped stand alone. See WI 308947 for details.
                              • Gatan Continuum: It is now possible to align the corrector with the post-filter camera of a Gatan Continuum 1065/1066 filter, provided that the camera is available as EF-CCD in the CCD/TV Camera control panel.
                              • Gatan Continuum: For a Gatan Continuum dual-camera filter only the camera that is configured as EF-CCD can be used for corrector alignment.
                              • Gatan K3: Forced defect correction is now supported for uncorrected counting / super resolution acquisitions. This correction allows for valid dark corrected fractions for post-processing clients.
                              • FluCam: The FluCam image is now available on the On System Display (OSD)

                              Availability:

                              • Included in service contracts
                              • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for (Titan) Krios

                              Contact our on-site software service for update

                              Server software for life sciences

                              Applicable instruments

                              Description of updates

                              • For HT Tank G2.3, fast ramping is now available on systems with a corrector
                              • Camera to Camera calibration now supports the FluCam in combination with the Ceta camera
                              • Falcon 4: Drift Corrected Frame Integration (DCFI) is now supported for drift up to 50 px/s
                              • For the Gatan BioQuantum with K3 camera, the CDS mode is now supported in embedded configuration
                              • For Gatan BioQuantum with K3 camera cameras, Dark Reference image can be made (via EPU and Tomography)

                                Availability:

                                • Included in service contracts
                                • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for (Titan) Krios

                                Contact our on-site software service for update

                                Server software for life sciences

                                Applicable instruments

                                Description of updates

                                • Falcon 4 now supports Electron Event Registration (EER) and Integration Mode
                                • Gatan Continuum S1077 is now available as an embedded filter
                                • Ultimono is automatically disabled after 3 days to prevent emitter deterioration and long recovery times
                                • Sherpa
                                  • OptiSTEM now supports systems with XFEG and with X-CFEG sources
                                  • OptiMono now supports Gatan Continuum filters
                                  • OptiMono+ extends the regular OptiMono functionality to Ultimono conditions

                                  Availability:

                                  • Included in service contracts

                                  Contact our on-site software service for update

                                  Server software for life sciences

                                  Applicable instruments

                                  Description of updates

                                  • The Falcon 4 camera is available in bottom-mounted configuration, only in combination with a Ceta camera
                                  • Extended Drift Correction is now available for Falcon 3EC cameras
                                  • When High Tension switches off, the Lensref no longer scales down
                                  • Dose Protection for Falcon 4 on systems with a CEOS corrector
                                  • New automatic alignments
                                    • The manual Rotation Center alignment is replaced by an automated version
                                    • Center Objective Aperture: Accuracy is improved from a reasonable centered aperture to a perfectly centered aperture
                                    • Rotation Center Alignment:
                                      • Automated version is now available for Talos systems
                                      • Increased speed and robustness
                                    • Presets for EFTEM mode:
                                      • Use counting mode instead of linear mode
                                      • Use align integrated image
                                      • Use spot size 7 or 8, depending on alignment

                                    Availability:

                                    Contact our on-site software service for update

                                    Server software for life sciences

                                    Applicable instruments

                                    • Glacios/Talos and (Titan) Krios with Windows 7

                                    Description of updates

                                    • Last W7 (maintenance) release! This is the recommended release for all Windows 7 systems.
                                    • For all systems with an Autoloader and/or Falcon 4 camera, it is strongly recommended to upgradeto Windows 10

                                      Availability:

                                      • Included in service contracts
                                      • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for (Titan) Krios

                                      Contact our on-site software service for update

                                      Server software for life sciences applications

                                      Applicable instruments

                                      Description of updates: 2.15.1, 2.15.2

                                      • Titan 2.15.1: No embedding for BioQuantum-K3
                                      • Titan 2.15.2: Embedding for BioQuantum-K3
                                      • Embedding for Ceta-D camera
                                      • Advanced TEM scripting
                                      • Automated Performance Monitoring (APM): The Objective aperture precondition for the Center Objective Aperture alignment is changed from the 70 µm to the 100 µm aperture
                                      • Aberration Free Image Shift (AFIS), which enables EPU to achieve a higher throughput
                                      • Automatic Cryo-cycle for systems with an Autoloader

                                      Availability

                                      • Titan 2.15.1: Does not support BioQuantum-K3
                                      • Titan 2.15.2: Only runs if BioQuantum-K3 is presentIncluded in service contracts
                                      • The AFIS calibration must be done by a Thermo Fisher Scientific engineer
                                      • Advanced TEM scripting is free-of-charge, but must be activated via our On-Site software update service

                                      Contact our on-site software service for update

                                      Server software for life sciences applications

                                      Applicable instruments

                                      Description of updates

                                      • Advanced TEM scripting (Extended scripting interface for academic third-party data acquisition software)
                                        • Falcon 3EC (counting mode) support
                                        • Interface to switch to next phase plate position
                                      • Automated Permance Monitoring (APM)
                                        • The objective aperture precondition for the center objective aperture alignment is changed from the 70 µm to the 100 µm aperture

                                      Availability

                                      • This software release only supports Advanced TEM scripting on Krios G3i. Other platforms will be supported later (expected in June 2019 for all Krios platforms)
                                      • Titan 2.14.1 shall only support APM on Krios G3i systems
                                      • Included in service contracts

                                      Contact our on-site software service for update

                                      Server software for life sciences

                                      Description of updates

                                      • Support for the Thermo Scientific Falcon 4i Detector on all systems that support its predecessor, the Falcon 4 Detector.
                                      • The Falcon 4i Detector is available as a BM and an EF camera.

                                      Contact our on-site software service for update

                                       

                                      Server software for life sciences

                                      Description of updates

                                      • On systems with a Thermo Scientific Selectris (X) filter, the EFTEM lens series are revised. After a software upgrade from TEM Server 7.8.X or earlier, all EFTEM alignments and all EFTEM magnification calibrations must be renewed for all high-tension voltages.
                                      • The Gatan US1000XP, OneView, or Continuum NR cameras have moved from the GCI2 interface to the faster and more stable GatanRpcServer interface

                                      Contact our on-site software service for update

                                       

                                      Server software for life sciences

                                      Applicable instruments

                                      Description of updates

                                      • Source and High Tension:
                                        • CFEG: Supported by the Ice Growth microscope test.
                                        • CFEG: The Smart BCM based ramping algorithm is now available for the High Temperature flash procedure.
                                      • Vacuum:
                                        • The Vacuum Analyzer replaces the obsolete Vacuum Logger.
                                        • The IGP Cable disconnect timeout is decreased from 5 minutes to 15 seconds.
                                        • The TEM HAL dialog (tstHalNG) has a new Vacuum-only profile.
                                        • The Vacuum service dialog has a new notification about waiting 15 minutes for Falcon 4.
                                      • Optics:
                                        • Align Genie new alignments:
                                          • Center C2 (STEM nP Imaging mode).
                                          • Beam Tilt Pivot Points (STEM nP Imaging mode).
                                          • Condenser Stigmation (STEM nP Imaging mode).
                                          • Set Eucentric Height (cross-grating in TEM uP).
                                      • Cameras and Detectors:
                                        • EMPAD 3S: Allows stand-alone 3rd party STEM detectors to synchronize with the Panther STEM CAB/A scan engine.
                                        • 4D STEM with Ceta-2: The pixels in the first column of the camera sensor are no longer over-exposed.
                                        • Gatan GMS: The software interface with Gatan Digital Micrograph now supports Dose Protector events for the following Gatan filters:
                                          • Continuum 1069 with K3
                                          • BioContinuum 1067 with K3
                                          • BioQuantum 1967 with K3
                                          • BioQuantum 967/968 with K2
                                        • Gatan GMS: The following applications and processes can now be executed with regular user privileges. It is no longer necessary to use the Run as Administrator option:
                                          • The GMS application.
                                          • RpcServer (started automatically) for all configurations with a BioQuantum 1967 or
                                          • Continuum 1067 filter and the Gatan camera is shipped with a dedicated Gatan PC.
                                          • GfiRemoteProxy (started automatically) for all system configurations where the Gatan camera is shipped with a dedicated Gatan PC.
                                      • Motion and Autoloader:
                                        • Autoloader TMP: Recovery function automatically recovers TMPAL errors on the Autoloader. If recovery fails, then a message is displayed and a new UEC is logged.
                                        • Piezo Controller: New firmware must be uploaded to the Piezo controller. If the Piezo controller is powered on and connected, then the firmware is uploaded automatically during the TEM Server installation. If not, then the firmware can be uploaded manually via TAD.
                                           
                                      • Glacios / Talos dose impact
                                        • With R2.7.1, a new spot size series is introduced
                                      Glacios / Talos dose impact
                                      • With the original spot size series, screen current fluctuates within 35–85% when changing the spot size. For better predictability a new spot size series is introduced which keeps the screen current fluctuation within 50–60%.
                                      • Due to the changed spot size series, each spot size value will result in a different dose on the camera compared with the previous TEM server versions.
                                      • When unchanged dose on the camera is desired, session parameters need to be adjusted accordingly. In order to recover the same dose on the camera it may be required to change spot size and gun lens values.

                                      Availability:

                                      • Included in service contracts
                                      • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for Glacios/Talos and (Titan) Krios

                                      Contact our on-site software service for update

                                       

                                      Server software for life sciences

                                      Applicable instruments

                                      Description of updates

                                      • For all systems with an Autoloader and/or a Falcon 4 camera, it is strongly recommended to upgrade because of a critical bug fixes
                                      • Source and High Tension: o CFEG
                                        • The new smart Beam Current Measurement (BCM) based ramp up function ensures stable beam currents after a low temperature flash.
                                        • CFEG: The timestamp of the most recent CFEG Flash is added to the metadata parameters in the MRC2014 FEI2 Extended Header image format.
                                        • CFEG: CFEG is now also available for Metrios AX 4.0.
                                        • Sherpa: HT Conditioning tool which supersedes standalone TEM FEG Auto Alignment Software
                                      • Optics
                                        • Falcon 4 Pro-active Protector: The range of the Falcon 4 Pro-active Protector is extended with High Tension voltages below 200 kV.
                                        • Sherpa > APM: The following procedures are automated:
                                          • Condenser center TEM
                                          • Condenser stigmation
                                        • OptiSTEM+:
                                          • Improved feedback with user guidance when the procedure fails.
                                          • The A2 and B2 procedures can now be executed separately.
                                          • The new B2/A2 single shot function executes one iteration of the procedure. On bad specimens, this function gives the user the more control to optimize the system step-by-step.
                                      • Cameras and Detectors
                                        • Selectris and Selectris X: The Thermo Scientific Selectris and Thermo Scientific Selectris X Energy Filters are introduced for Krios and Glacios microscopes.
                                        • Falcon 4:
                                          • Continuous Acquisition (Live Mode) is available for the factory account. Continuous Acquisition streams the live image to TIA.
                                          • Advanced Scripting now supports EER acquisition.
                                        • Flucam Viewer: A new overlay is available with a 360 degree scale.
                                        • Gatan Continuum with K3: The Duty Cycle setting is now supported. This allows for shorter exposure times (< 0.0133 sec), which leads to better results for the Monochromator auto-tuning procedure on a system with UltiMono.
                                      • Motion and Autoloader
                                        • OSD: New functions on the On-System Display (OSD) for Krios G4:
                                          • Load Cartridge can now be done in one step.
                                          • The Cassette Slot status (empty / filled) is now displayed.

                                        Availability:

                                        • Included in service contracts
                                        • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for Glacios/Talos and (Titan) Krios

                                        Contact our on-site software service for update

                                        Server software for life sciences

                                        Applicable instruments

                                        Description of updates

                                        • (Titan) Krios, Source and High Tension: Support for CFEG beam current stability optimization routines to condition the tip before first use.
                                        • (Titan) Krios, Vacuum: IGP2CI power supply support
                                        • Optics:
                                          • Added the Camera to Camera calibration FluCam in Sherpa.
                                        • Cameras and Detectors:
                                          • Falcon 4: The Gain Reference image for EER acquisitions is now stored as a TIFF file on the Storage Server to support EPU Quality Monitor (EQM) and 3rd party image processing applications.
                                          • Falcon 4: CMTS-based Qualification Tool for Sensor Package qualification.
                                          • Falcon 4: camera is now also available for Talos F200C systems
                                          • Gatan Continuum: The Gatan BioContinuum filter is now supported in embedded configuration.
                                          • Gatan Continuum: Embedding is now available for systems shipped stand alone. See WI 308947 for details.
                                          • Gatan Continuum: It is now possible to align the corrector with the post-filter camera of a Gatan Continuum 1065/1066 filter, provided that the camera is available as EF-CCD in the CCD/TV Camera control panel.
                                          • Gatan Continuum: For a Gatan Continuum dual-camera filter only the camera that is configured as EF-CCD can be used for corrector alignment.
                                          • Gatan K3: Forced defect correction is now supported for uncorrected counting / super resolution acquisitions. This correction allows for valid dark corrected fractions for post-processing clients.
                                          • FluCam: The FluCam image is now available on the On System Display (OSD)

                                          Availability:

                                          • Included in service contracts
                                          • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for (Titan) Krios

                                          Contact our on-site software service for update

                                          Server software for life sciences

                                          Applicable instruments

                                          Description of updates

                                          • Align Genie: Added the following alignments:
                                            • Align Rotation Center
                                            • All LM Magnifications
                                          • The 100 kV alignment is now available for Talos F200i
                                          • The SP Twin Lens is now supported
                                          • Falcon 4 is now available for Talos systems in Standard mode
                                          • For the Gatan BioQuantum with K3 camera, the CDS mode is now supported in embedded configuration
                                          • For Gatan BioQuantum with K3 camera cameras, Dark Reference image can be made (via EPU and Tomography)

                                            Availability:

                                            • Included in service contracts

                                            Contact our on-site software service for update

                                            Server software for life sciences

                                            Applicable instruments

                                            Description of updates

                                            • (Sherpa > Spot Saturation) automatically optimizes gun tilt and filament heating to maximize the beam current and optimize the shape of the spot, without overheating the filament. Spot Saturation is only available for systems with a LaB6 source.
                                            • The Vacuum Analyzer replaces the obsolete Vacuum Logger too.
                                            • The Vent All action is automated.

                                              Availability:

                                              • Included in service contracts

                                              Contact our on-site software service for update

                                              Server software for life sciences

                                              Applicable instruments

                                              Description of updates:

                                              • The Falcon 4 camera is available in bottom-mounted configuration, only in combination with a Ceta camera
                                              • Extended Drift Correction is now available for Falcon 3EC cameras
                                              • When High Tension switches off, the Lensref no longer scales down
                                              • Dose Protection for Falcon 4 on systems with a CEOS corrector
                                              • New automatic alignments
                                                • The manual Rotation Center alignment is replaced by an automated version
                                                • Center Objective Aperture: Accuracy is improved from a reasonable centered aperture to a perfectly centered aperture
                                                • Rotation Center Alignment:
                                                  • Automated version is now available for Talos systems
                                                  • Increased speed and robustness
                                                • Presets for EFTEM mode:
                                                  • Use counting mode instead of linear mode
                                                  • Use align integrated image
                                                  • Use spot size 7 or 8, depending on alignment

                                                Availability:

                                                Contact our on-site software service for update

                                                Server software for life sciences

                                                Applicable instruments

                                                • Glacios/Talos and (Titan) Krios with Windows 7

                                                Description of updates

                                                • Last W7 (maintenance) release! This is the recommended release for all Windows 7 systems.
                                                • For all systems with an Autoloader and/or Falcon 4 camera, it is strongly recommended to upgradeto Windows 10

                                                  Availability:

                                                  • Included in service contracts
                                                  • Windows 7 to Windows 10 commercial upgrades are available as Non Standard Request (NSR) for (Titan) Krios

                                                  Contact our on-site software service for update

                                                  Server software for life sciences applications

                                                  Applicable instruments

                                                  Description of updates

                                                  • Advanced TEM scripting
                                                  • Automated Performance Monitoring (APM): The Objective aperture precondition for the Center Objective Aperture alignment is changed from the 70 µm to the 100 µm aperture
                                                  • Automatic Cryo-cycle for systems with an Autoloader

                                                  Availability

                                                  • Talos 1.15.1: Does not support BioQuantum-K3 (will be available in Talos 1.15.2)
                                                  • Included in service contracts
                                                  • Advanced TEM scripting is free-of-charge, but must be activated via our On-Site software update service

                                                  Contact our on-site software service for update

                                                  Server software for life sciences applications

                                                  Applicable instruments

                                                  Description of updates

                                                  • Automated Performance Monitoring (APM)
                                                    • New function that assesses the microscope alignment status in a semi-automated fashion

                                                  Availability

                                                  • Included in service contracts
                                                  • Advanced TEM scripting is not yet supported in this release, but is expected to become available starting with the Talos 1.15 software update (July 2019) for Glacios/Talos platforms

                                                  Contact our on-site software service for update


                                                  Tomography

                                                  Tomography software

                                                  Description of updates

                                                  • Calibrations for more accurate targeting of identifiable features during automated Data Acquisition. It also improves the alignment between tiles of Atlas and Search Map images.
                                                  • Dose Symmetric group sizes of 2, 3 and 4.
                                                  • Trigger ZLP Adjustment and Phase Plate Activation every Nth tilt series.
                                                  • A measurement tool for the Image Display.
                                                  • A Lamella orientation tool is introduced to measure distances on the Image Display.

                                                  To obtain update: Download here

                                                  Description of updates

                                                  • Tilt series can be reconstructed into tomograms using Tomo Live for easier review and quality control.
                                                  • Reconstructed datasets can be viewed anywhere using our web-based portal supported by Athena.
                                                  • Dataset filtering based on certain parameters and/or manual rating.
                                                  • Reconstruction exporting in batches ready for segmentation and processing.
                                                  • Additional Exposure Areas in the Batch Position template can now be defined off-axis.
                                                  • Multiple Search Maps can now be acquired automatically and unattended
                                                  • Support for Ceta-F camera, as well as compressed TIF on Falcon 4(i) cameras.

                                                  To obtain update: Download here

                                                  Tomography software

                                                  Description of updates

                                                  • Batch positions can be defined on previously acquired Search Maps, for easier and faster set-up.
                                                  • Previously defined batch positions can be edited before the position is refined.
                                                  • [Beta] Multiple exposure areas on the tilt axis can be added to each batch position, for faster acquisition.
                                                  • An additional high magnification centering step has been added for single tilt series with large start angles to improve targeting accuracy.
                                                  • EDS images can be acquired at selected angles, for faster acquisition.
                                                  • Time estimation values are more accurate and are updated throughout the automated acquisition.
                                                  • Various other usability and performance improvements.

                                                  Download update

                                                  Tomography software

                                                  Description of updates

                                                  • Sample navigation, batch mode and dose symmetric tilt scheme are now available in STEM mode. Tomography 4 Software is no longer required.
                                                  • Set up of EDS acquisition (using Thermo Scientific Velox Software) has been improved.
                                                  • Defining optics and detector settings for STEM has been simplified.
                                                  • Search maps can be acquired faster when using image/beam shift (beta). Non-square maps are now supported.
                                                  • Column valves open semi-automatically when needed.
                                                  • As opposed to EPU, the column valves are not opened automatically to avoid sample damage.
                                                  • An estimation of the acquisition time is available before starting an automated acquisition.
                                                  • On Talos systems, it is now possible to visualize the beam diameter for more accurate batch position setup.
                                                  • Various other usability and performance improvements.

                                                  Download update

                                                  Tomography software

                                                  Description of updates

                                                  • Search maps are now available to acquire and use medium magnification maps to improve navigation on your sample and more accurately add acquisition areas.
                                                  • All sample navigation features that are available in batch mode can also be used for single tilt series.
                                                  • Holder calibrations and predictions can be used for the dose-symmetric tilt scheme.
                                                  • Holder calibrations are saved for specific holder types and predictions automatically use the correct type.
                                                  • Auto-eucentric by stage tilt now accepts a maximum acceptable z-height deviation.
                                                  • Different multiple defocus values can be set for consecutive batch positions automatically.
                                                  • In "Batch" mode, you can select a subset of position for acquisition.
                                                  • During automated batch acquisition, you can skip the current position in case of problems.
                                                  • Various other usability and performance improvements.

                                                  Download update

                                                  TOMO acquisition software

                                                  Applicable instruments

                                                  Description of updates

                                                  • Movie Player is available to easily review acquired data. When in batch mode, the positions are conveniently listed to quickly select different positions.
                                                  • Tilt series results can be exported as movies in standard H.264 format.
                                                  • Improved annotations in Atlas and Overview image scale based on zoom level, and only show detailed information such as beam diameter when appropriate. If positions are too close, they are grouped together.
                                                  • Improved annotations in Search image show not just the annotations for the position to be added, but also for all other previously added positions close by. They also allow you to move Focus and Tracking areas at the same time, instead of separately as before.
                                                  • Holder calibration results can be opened and viewed within the app.
                                                  • Scaling of non-square images is improved when resizing the app.
                                                  • Handling of missing or corrupt presets has improved.
                                                  • Various other usability and performance improvements were made.

                                                    Availability

                                                    Free of charge for service contracts

                                                    Download update

                                                    TOMO acquisition software

                                                    Applicable instruments

                                                    Description of updates

                                                    • Improved annotations in the Overview image show details of all positions, including the focus and tracking areas.
                                                    • Multiple Overview images can be saved to easily navigate across different grid squares.
                                                    • Acquire a Single Atlas on autoloader systems even when the autoloader status is not initialized (e.g. no cassette docked).
                                                    • Metadata are saved in MDOC format.

                                                      Availability

                                                      Included in service contracts

                                                      Download update

                                                      TOMO acquisition software

                                                      Applicable instruments

                                                      Description of updates

                                                      • Tomography > Template Definition and Batch Positions:
                                                        • The Condition Area with Stage function is now available.
                                                      • Tomography > Batch Positions:
                                                        • The Acquire Overview function acquires and displays an image of the Grid Square in which the Batch Positions are identified with labeled markers. The color of each marker corresponds with the status of the Batch Position. The Overview image makes it easier to navigate and to identify the locations for new and existing Batch Positions.

                                                        Availability

                                                        For first-time installations, a 90-day Trial License is available to evaluate the software

                                                        Download update

                                                        TOMO acquisition software

                                                        Applicable instruments

                                                        Description of updates

                                                        • Tomography > Session Setup:
                                                          • For the Gatan K3 camera, the following output formats are available for dose fraction images:
                                                            • Gain-normalized MRC images.
                                                            • Non-gain normalized LZW-compressed TIFF images. For non-gain normalized images, a gain reference image will be saved as well.
                                                          • After a single or batch tilt series ends, an e-mail can be sent to a list of e-mail addresses. The e-mail contains limited status information about the automated acquisition.
                                                        • Tomography > Batch Positions:
                                                          • If an Atlas image is available for the currently loaded specimen, then this Atlas image can be used to:
                                                            • Navigate to different locations on the specimen.
                                                            • Display the location and status of batch positions.
                                                          • It is possible to add batch positions with different start angles.

                                                          Availability

                                                          Free of charge for service contracts

                                                          Contact our on-site software service for update

                                                          TOMO acquisition software

                                                          Applicable instruments

                                                          Description of updates

                                                          Tomography > Automated Acquisition:

                                                          • The Switch Angle functionality is no longer disabled.
                                                            • For the Gatan K3 camera, the Automated Acquisition procedure acquires a fresh Dark Reference at the start of each Tilt Series.
                                                            • On Talos L120 systems, the Thermionic Filament can now be switched off at the end of a run.

                                                            Availability

                                                            No license is required to upgrade from Tomo 4.x to 5.x

                                                            Contact our on-site software service for update

                                                            TOMO acquisition software

                                                            Applicable instruments

                                                            Description of updates

                                                            • New user interface:
                                                              • The TEM Tomography application now features the same look & feel and the other TEM / cryo-EM applications: EPU and EPU-D
                                                            • The Optimized Position calibration is re-introduce
                                                            • The Holder Prediction calibration is re-introduced
                                                            • Tomo, R4.14 is required for STEM. (installed automatically)

                                                            Availability

                                                            No license update is required to upgrade from Tomo 4.x to 5.x

                                                            Contact our on-site software service for update

                                                            TOMO acquisition software

                                                            Applicable instruments

                                                            Description of updates

                                                            • New user interface:
                                                              • The TEM Tomography application now features the same look & feel and the other TEM / CryoEM applications: EPU and EPU-D.
                                                              • The setup of the following functionalities has been redesigned for improved ease-of-use:
                                                                • Batch Positions
                                                                • Tilt Series
                                                                • Image Filter settings
                                                              • Tomography > Data Acquisition The Dose Symmetric Tilt Scheme schedules the tilt angle sequence so that the accumulated dose at low tilt angles is minimized. On dose-sensitive specimens, the Dose Symmetric Tilt Scheme provides the highest quality images for 3D reconstruction.
                                                              • Preparation > Acquisition and Optics Presets The Gatan Quantum 1967 (with K3 camera) is now supported.
                                                            • Improvements:
                                                              • New acquisition engine The new Tomography acquisition engine provides faster and more robust automated acquisition.

                                                            Availability

                                                            Free of charge for service contracts

                                                            Contact our on-site software service for update


                                                            Other

                                                            STEM and TEM software supporting imaging and analysis

                                                            Description of updates

                                                            • Electron Dose Control for Spectra XCFEG (this is new option, please read details in the release notes and contact your account manager if you are interested)
                                                            • Key modifier is added to draw multiple shapes without need to reselect
                                                            • Custom start number for the file name
                                                            • Absorption correction enabled for Bruker 30mm2 detector
                                                            • Number of stability and performance improvements

                                                            To obtain update: Download here

                                                            Software (codecs) for viewing acquired images (via Windows explorer)

                                                            Applicable instruments

                                                            Description of updates

                                                            • Velox EMD files will not be associated with the Windows Photo Viewer anymore when Velox is installed
                                                            • The Imaging Codec Pack installer is now signed with the FEI certificate

                                                            Download update

                                                            Electron Microscope data management

                                                            Description of updates

                                                            • Export:The export panel provides the path where that data will be exported.
                                                            • Workflow and Step creation UI improvements: including “Single particle analysis with quality monitor
                                                            • Acquisition Status:From the Athena portal it is now possible to check why the micrograph has the status failed. It displays some bullets indicating which files are missing.
                                                            • Show units when measuring:When using the measuring tool, the unit can be changed if the file type has the information about the pixel size (like MRC).
                                                            • Reduce loading time when switching between volumes
                                                              When opening a volume, the 3D viewer has a loading time due to a bandwidth testing. This testing allows to adapt viewer parameters to have a good user experience for every bandwidth. When switching quickly between volumes or stack of images, this loading time is skipped to improve user experience.
                                                            • In the Single particle workflow:
                                                              Multigrid live-export:
                                                              The multigrid live-export feature allows to export during the acquisition all EPU-Run belonging to the same multigrid session in EPU. In a “Single Particle Analysis workflow with quality monitor” users can export raw and/or processed data. Users can use the dataviz panel to filter exported data based on quality metrics provided by the quality monitor. Users have to define a filter by EPU-Run, filters are not propagated to all EPU-Run.
                                                            • In Cryo-electron tomography workflow:
                                                              Tomo Live
                                                              First release of Tomo Live, a reconstruction pipeline enabling live quality monitoring of your sample by providing 3d reconstruction few minutes after the acquisition. Tomo Live is used in conjunction of Tomography 5. From Tomography 5, users must select a dataset in Athena where to store your results. During acquisition, at the end of each tilt-series, a summary of the alignment and reconstruction is provided to help users judging the quality of your data. You can filter your tilt-series based on quality metrics calculated by Tomo Live (Figure 1). Users can visualize raw and align stack and the 3d reconstruction directly in the Athena portal using a dedicated viewer (Figure 2). The dataviz panel can be used to filter your data and export only those wanted for further post-processing.

                                                            Tomography post-alignment and reconstruction module

                                                            Applicable instruments

                                                            Description of updates

                                                            • Rename "Reduce" tab to "Pre-processing Data" tab.
                                                            • Inspect3D now integrates Motion Correction support on the "Pre-processing Data" tab.
                                                            • Reconstruction preview follows the selected parameters.
                                                            • Problem with odd size images in StackAlignment tab is fixed.
                                                            • IMOD files can now be imported to Inspect 3D.
                                                            • Support for Serial EM MRC-2014 variant.
                                                            • EDS reconstructions: ability to apply alignment to “sparse” tilt series.
                                                            • Tilt axis adjustment parameters are now saved in the shift file.
                                                            • 30 day trial license support.
                                                            • Some small fixes and improvements. 

                                                            Availability

                                                            Free of charge for service contracts

                                                            Contact our on-site software service for update

                                                            Image acquisition and processing software (for TOMO) to obtain the complete visual content of a sample

                                                            Applicable instruments

                                                            Description of updates

                                                            • Amira-Avizo2D support

                                                            Contact our on-site software service for update

                                                             
                                                             

                                                            Single Particle Analysis (SPA) workflow guidance (iOS, Android)

                                                            Applicable instruments

                                                            Description of updates

                                                            • Project name is no longer mandatory
                                                            • Hide Workflow Assistant if empty
                                                            • Now support two images per step
                                                            • Added info on how to obtain a full license (login screen)
                                                            • Improved workflow text formatting

                                                            Availability

                                                            Download iOS update

                                                            Download Android update

                                                            TEM User Interface to set up data acquisition

                                                            Description of updates

                                                            • Various updates regarding automated alignments
                                                            • More flexibility in the width of the hardware control panels
                                                            • Custom manual magnification correction to system calibration
                                                            • Smartcam contrast modes (natural, linear high contrast)

                                                            To obtain update: Download here

                                                            TEM User Interface to set up data acquisition

                                                            Description of updates

                                                            • Renamed the application from Apollo to Microscope Companion, nicknamed MiCo.
                                                            • Updated cryo-cycle on supported systems.
                                                            • Stage Recovery.
                                                            • Optics page with Beam Diameter control on supported systems.

                                                            To obtain update: Download here

                                                            STEM and TEM software supporting imaging and analysis

                                                            Description of updates

                                                            • Drift compensated multi-frame acquisition is available for EDS+EELS
                                                            • EDS improvements: Msa file format spectrum load is now supported. Warning for the size of Spectrum image. Improved loading of large prefiltered Spectrum images. The performance of loading files greater than 8GB with prefiltered Spectrum images has been improved by up to 60%.
                                                            • Annotations supported in file menu export.
                                                            • Keyboard shortcut for cross-hair is added.
                                                            • Experiment files can be saved in sequential file numbering.
                                                            • Spectrum plot axis boundaries can now be set through the object properties panel.

                                                            To obtain update: Download here

                                                            STEM and TEM software supporting imaging and analysis

                                                            Description of updates

                                                            • Image rotation for TEM images in post processing.
                                                            • Keyboard shortcuts for acquisition.
                                                            • Persisting pre-filter selection with switch of quantification modes.
                                                            • Option to save data in ASCII format for compatibility with old scripts.
                                                            • EER support for Falcon 4 cameras.
                                                            • Small improvements for export, including automatically adjusted pixel size for resampled 8bit tiffs and selection persistence.

                                                            Download update

                                                            Electron Microscope data management

                                                            Applicable instruments

                                                            Description of updates

                                                            • New Features: Basic export functionality
                                                              • Manual, batch Export
                                                              • Export on type (Raw, Processed)
                                                              • Export Job Monitoring
                                                              • Disk Cleanup
                                                              • File support
                                                                • EER, Dark & Gain file support
                                                                • Dataset Manual Archiving improvements
                                                              • New EQM features: Output for D2i
                                                            • Improvements
                                                              • Improve Entity PostgreSQL databases charts management
                                                              • Core Library exceptions management
                                                              • Get project Action list
                                                            • Bug Fixes
                                                              • Deleted datasets still visible
                                                              • Swagger documentation doesn’t work for some services
                                                              • Metadata deletion message does not display the targeted metadata name
                                                              • Permission deletion message states that a “user” will be deleted
                                                              • Cannot retry a failed upload
                                                              • Metadata service times out when re-indexing a large amount of data

                                                            Software (codecs) for viewing acquired images (via Windows explorer)

                                                            Applicable instruments

                                                            Description of updates

                                                            • Improved Windows 10 stability

                                                            Availability

                                                            Free of charge for service contracts

                                                            Download update

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