Release Notes
About this release
For version information, please refer to About in Preferences.
Release 2.6.0
Date 24th March 2025
New Features:
Mosaic Support
Device detection (Mosaic)
Automatic detection of Mosaic device from Device Hub & Display information device in Device Hub
Detection and control of mosaic diode laser
Control of mosaic illumination area includes full area and bit map
Calibration
Fully automated 'one click' calibration of Mosaic device
Automatically detect the usable illumination area of the Mosaic and visualise to user using photostimulation bounds and toggle on/off
Regions that fall partially or wholly outside the Mosaic illumination area will be clipped to only illuminate the portion within the field
Calibration applies at the Mosaic device level and may be used for both: 1) camera used for the calibration and 2) the other camera in the system.
Regions and region management
Photostimulation region management
o Regions can be tagged as either photostimulation or analysis.
o New Overlay manager, which includes possibility to 1) save load and export regions, 2) rename regions
o Photostimulated overlays appear as recorded regions on the acquired image. These can be cloned as Analysis and/or Photostimulation overlay types for reuse
o Recorded Regions are shown for each associated photostimulation event so it is clear where and when photostimulation took place during the acquisition of image data ,and can be toggled on/off for visualisation.
o Support for saving the acquired time point / frame position to .roi files for use in Fiji
Photo Stimulation protocols
Trigger
Mosaic illumination time can be configured in channel settings
Mosaic device can be illuminated as part of a protocol trigger
Trigger can be configured to 1) fire at equally spaced time points after the initial trigger time point of the protocol, 2) add delay in the protocol.
BOB Output 6 can be used as a trigger in the protocol. (The spare output on the Bob device can be configured to pulse at the start of a specified timepoint during a protocol)
Manual Triggering
All protocol triggers can be manually fired with one click if desired
Each trigger that is configured in the active protocol can be triggered manually on demand
Allow Automatically move (skip) a running protocol to the next time point if the user manually fires one of its triggers
Regions within protocols
Phostimulation protocols with mosaic are possible and require the use of phostimulation regions and triggers.
Review photostimulation protocol
The timepoints at which photo stimulation occurred is displayed on the image navigation bar
Region manager panel added this lists all current regions with name and type
Analysis
Through series analysis supports overlays.
Through series analysis has a progress bar on the start/stop button.
Through series analysis will automatically switch to Time Series or Z Scan where applicable.
Drift Stabilisation
Ability to automatically remove drift stabilisation dichroic mirror during a protocol for supported devices
Move Dichroic Mirror Out when Drift Disabled for Leica DMi8
Move Dichroic Mirror Out when Drift Disabled for Nikon Ti2
New protocol setting to control whether dichroic moves out when drift is disabled
Support removing drift stabilisation dichroic mirror in time series for Leica DMi8
Support removing drift stabilisation dichroic mirror in time series for Nikon Ti2
Updated drift stabilisation tooltips to be more informative
Other Improvements
Adds the ability to play sounds at key events during Fusions runtime
Added some 3rd party libraries to the Acknowledgements dialog
Bug Fixes
Fixed a crash related to trying to validate devices that have not finished connecting
Fixed crash when running a quick montage if the Montage bounds were not set.
Fixed Snap Live to ignore different channel settings.
Fixed Updating Z range using slider does to update start/end values properly
Fixed issue where clicking on a deconvolved image would cause the live images to overwrite the previous images.
Fixed deconvolution parameters reset on acquisition.
Fixed Image zoom on the mouse location when using the scroll wheel.
Fixed issue where Position and Intensity were not updated on Zoom in/out event when mouse not moved.
Fixed issue when position and intensity was not updated on zoom in/out on image display.
Scroll bars are now enabled when Fusion is Acquiring or Live
Fixed "save image" dialog appearing when going Live, if user double clicked during a previous acquisition
Limitations to Photostimulation Protocols
Different illumination sources cannot be assigned to specific regions in this release
Sequential illumination of regions is not possible in this release.
Release 2.4.0.22 (Patch 1)
30th July 2024
Bug Fixes:
Fixed issue where settings were grouped and moved to incorrect locations.
Fixed issue where empty filters displayed as magenta instead of grey.
Fixed issue for incorrect reporting of voxel size.
Fixed issue causing software slowdown/freeze when "Show full dynamic range of camera" is on.
Fix for active iXon shutter when using HLE shutter.
Fix for dual ILE laser engines connection.
Fix for BTIRF Optical Feedback not in sync with BTIRF Fine Adjust slider.
Fix to allow 384 well plate configuration as part of sample holders.
Release 2.4
23rd January 2023
New Features:
Control of High Power Laser (Super Resolution functionality) & B-TIRF functionality
Ability to control High Power Laser (HLE) with power level multipliers.
Support of/for HLE Burst Shutter functionality for high power laser.
Added Z-Scan option to 'Finite Burst' Protocol type (with static Z-Scan Acquisition Order).
Option added to save each 'Finite Burst' time series at each specified Z-Scan position to its own separate file (with an '_Z' suffix).
Added drift stabilisation to 'Finite Burst' protocol type with Leica AFC and Nikon Ti2 PFS systems.
Acquisition & control for Borealis-TIRF (B-TIRF) functionality.
Acquisition improvements
Piezo z position is displayed in the multi-field table.
Option added to the drift stabilisation protocol settings: enable drift stabilisation when recording a field in the multi-field table
Option to add a post-trigger delay to triggers.
SRRF-Stream+ algorithm improvement: removal of 'donut' shaped artefact on spot-like features.
Visualization improvements
Easier moving and resizing of small regions.
Image frame timestamp resolution increased to microseconds.
Taskbar icon reflects protocol status and state now including Deconvolution and Stitching.
Contrast level is stored per image.
Other improvements
Saving Z calibration information for all acquisition types using the information from microscope and Piezo position.
Disk Rotation On/Off option to allow alignment of dual cameras. Dual camera alignment Instructions now included in Dragonlfy hardware manual.
Prevent Windows Update and User logout from shutting down Fusion while an acquisition is in progress.
HLE burst shutter timing threshold can be set by customer support.
Bug Fixes:
Acquisition bug fixes
Fix Fusion crash when running Finite Burst with Frame Average.
Fix for crash when editing the imaging mode.
Fixed crash when loading an image file from the root folder.
Fix to prevent crash of Fusion during long protocols with multiple channels
Fix ASI stage communication timeouts caused by transient errors.
Fix acquisition failing to resume after being paused.
Fix Fusion freeze when attempting a second run of a 3 channels montage.
Fix added to prevent images not being deleted when stopping a protocol before completion
Error message is now displayed if the image file path length exceeds the Windows maximum limit. Protocol won´t run until file path name is corrected (shortened).
Fix for Z scan size not updating correctly after maximum and minimum values are set for Analogue Piezo Z.
Fix for multi position acquisition slow down or hang.
Fix erroneous report of Zyla camera acquisition mode (finite burst protocol). Previously Fusion reported the acquisition was in external mode, while acquisition was running in internal mode.
Fix incorrect calculation of Finite Burst duration.
Fix for readout time not updating when acquisition settings changed.
Fix for slow acquisition start time when drift stabilisation is enabled on an IX83 microscope.
Fix for wells that have been added appearing as red in the multifield table with an iX83 stage
Deconvolution & stitching bug fixes
Fix for Fusion crashes when opening deconvolved image in split-channel MIP
Fix for deconvolution crashing when trying to load images where the first file in the dataset is missing
Fusion now prevents Windows OS shutdown while deconvolution and/or stitching processing are active
Fix for deconvolution slow down.
Fix deconvolution estimated time updates. When deconvolution is activated through the estimated time is now updated.
Fix for deconvolution preview window closing when clicked.
Fix stitching error when commas used as decimal separators.
Other bug fixes
Device Features for different devices of the same type are now grouped under the particular device they correspond to.
Fix to ensure all compatible channels can be merged or linked in dual camera simultaneous acquisition.
Fix for null control Unicode character in channel config files.
Fix for features being updated by other devices of the same type.
Changed the default device alias of laser controllers from "Light Source" to "Laser"
Improved the text error message displayed when all the fields in a table are deleted.
Fix for reading incorrect Objective Numerical Aperture value.
Fix to prevent invalid configuration files causing unsuccessful initialisation of Fusion
Fix for Calibration Warning not disappearing when Optical Magnification is equal for all Channels
Improve synchronisation of dual camera externally triggered finite burst protocols by removing delays introduced at the start of the protocol.
During a fast finite burst (faster than 10 Hz), leave the mechanical shutter open on laser.
Laser power management improved: when switching channels, lasers not in use are turned off, and then new lasers are turned on.
The number of log files retained has been increased to 20.
Release 2.3.0.44 (Patch 1)
Date 11th October 2021
Enhancements
Added Simulated Global Shutter Clear feature for Sona cameras, to simplify synchronising the camera fire output with the confocal disk rotation.
Faster Tiff Export with upgrade of Imaris Library.
Default temperature for Sona camera changed to 0C.
Support for Silicone objectives with a Ti-E microscope.
Bug Fixes
Fix for crash on application start-up or when changing channel due to very large exposure times being stored in the configuration files.
Fix for hang of application when importing a protocol from an image.
Fix for "Collection was Modified" error message and crash when running acquisitions.
Fix for Dragonfly 200 Filter Mode not being shown.
Fix for 384 well plate not displaying properly. (384 well plate configuration is available on request)
Smooth Auto-Map Enable preference tool tip fixed.
Fix for crash after importing a protocol that contains a Bone or other predefined lookup table.
Fix for cache folder getting corrupted when 'Write directly to file' is switched off.
Deconvolution does not begin until a protocol is complete (to avoid acquisition data loss if any issues arise during deconvolution). This option can be overridden in preferences.
Release 2.3.0.36
26th April 2021
Multidimensional / Multi-well acquisition
Support for Multiwell plates in Multifield protocol
Graphical drag-to-select in Multiwell Scan setup
Montage enabled in multifield and Multiwell scanning
Stitcher now supports multifield datasets.
New Sample Holder menu in the remote panel to allow Multiwell plate selection.
Stitch each montage of a multifield protocol into a single dataset.
New manual calibration for Multiwell plates
Montage at each field position now saves each Montage into a separate folder
AutoFocous / PSF improvemnts
Improved reliability of Leica AFC over long protocol runs – requires DMi8 firmware update.
Visualization improvements
Improved histogram analysis for default Automap
Progressive multi-click Max-Min settings for Automap.
Multi image display with automatic mode switching when performing preview montages
New navigation slider to review Montage per Field
Enhancements:
Update to SDK3 libraries to address issues when acquiring over 1000 fps
Recover and continue the acquisition if a fault occurs on a sCMOS camera.
Upgrade of Imaris Rendering Engine to 9.6
Upgrade of Imaris Stitching to 9.6 to fix shadowing in stitched output.
Event Tags can now be visualised in Imaris
Update Multifield rendering to handle overlapping frames better
Automatic dump when user interface hang detected
New problem notification when incorrect NUMA settings detected
Problem notification to alert user when camera port is unassigned.
Control of DEBUG logging level output
Deconvolution – enable/disable auto-populate option for PSF Settings (user request)
Bug Fixes
Incorrect loop interval unit of measure.
Z step too slow for PIFOC 2000um in Fusion.
Fix for zeros in preview stitch causing bad mapping.
Crash on Fusion start up if speech recognition fails to initialise.
Fusion crash when ILE exceeds power limit while started in low power mode.
Delay in protocol starting due to username lookups.
Finalizer error while running live with manual mapping window open.
Crash and disappearance of the application while running an acquisition.
Nvidia error causing Fusion to close on long time lapse.
Incorrect scan range used when using piezo-z in a multi field protocol.
Unable to overwrite stitched image.
Release 2.2.0.50 (patch)
15th October 2020
Enhancements
Support for control of Dragonfly 3D Single Molecule feature in all imaging modes.
Added support for setting a manual settle time for PIFOC z movements.
Bug Fixes
Fix for TIRF feature merge problem notifications appearing when merged channels are using a non-TIRF imaging mode.
Fix for crash when acquiring with frame averaging set above 1.
Release 2.2.0.49 (patch)
5th August 2020
Enhancements
Advanced Deconvolution Options: re-added 'Minimum Intensity Removal' and 'Initial Denoising'.
Problem Notification warnings: Nyquist Sampling Criterion added option to remove the warning.
Dragonfly Magnification Correction feature can be modified while in customer support mode.
Bug Fixes
Fix slowdown in z movement and in z scan protocols when using the Leica DMi8 Reference Z.
Fix for application freeze when running at short exposure times and improve general responsiveness.
Fix for duplicate channel names with different capitalisation crashing Fusion on start up.
Fix for application hang when aborting an acquisition while a stage move or other long running hardware setting update is in progress.
Release 2.2.0.38
20th May 2020
Enhancements
SRRF Stream
Users with the SRRF license will benefit from algorithm improvements.
Significant reduction in star artefact, especially on spot features.
Improved default settings require less user adjustment.
Optional fixed pattern noise (FPN) correction reduces background structure.
Improvements in Specimen Navigation
Redesign of the Navigation Panel.
Introduction of 3x3 Quick Tile Preview Montage.
Multi-field table double-click takes user to selected field position.
Next and Previous navigation buttons added to multi-field setup.
Offset All Fields added, with options for XY and XYZ values – helpful for removing/replacing slides on stage.
Iterate through all fields with delay, supports easy checking of fields.
Focus Drift Correction improvements
Nikon PFS4 improvements for focus tracking during montage and multi-field.
Control of Nikon Ti2 Z Drive Modes – closed-loop and precision settings.
Olympus - Options for loss of lock: “Use last known good position”, “request user intervention”, “stop protocol”.
Image annotation and overlays for analysis
Scale bar overlay for 2D image display modes.
Through Series Chart now plots counts against time stamp or z depth depending on the chart mode i.e. Time-Series/Z-Stack.
Through-Series Chart displays chart point details when mouse hovers over line plot.
File Management
Change filename on inactive datasets.
Option to discard the acquired data when stopping a protocol early.
Improvements relating to “Favourite” tools for file management and sorting.
Improvements to image data handling for robustness and performance.
Improvements in Stitching
Allow selection of image channel for alignment during stitching.
New Stitcher library updates for more robust performance.
Fix to Stitching when overlap regions doubled.
Deconvolution
Simplified Deconvolution Preview Interface.
Visualise and save the model 'PSF' generated in ClearView Deconvolution.
Improvements in block-wise management of very large datasets.
Improvement of synchronization during Protocol acquisition.
Addition of Nyquist Sampling Criterion check for current Protocol settings.
Addition of Nyquist Sampling Criterion check for Deconvolution.
Removal of 'GPU Processing Memory Limit' Preference – now automatic.
Acquisition and Device Control
Added support for the new Physik Instrumente digital PIFOC-2000 device.
"For each Channel, Acquire Z Stack" support for linked channels.
Support 7th Objective on Dummy/manual Scope.
Support 30x Objective on Dummy/manual Scope.
Auto-switch External mode on ASI Stage when selecting Analog Piezo control.
Allow manual triggering of protocol triggers from the Acquisition panel.
Faster Finite Burst performance for Zyla and iXon cameras.
Support of additional Olympus IX83 Microscope functionality.
Support for Olympus scope filters.
Support for Olympus z-escape.
Support for ZDC dichroic mirror.
Simplified Drift Stabilisation Feature Control.
Remote Control API (REST)
Extend and customize the capabilities of your system in an open framework.
Remotely control Fusion to execute protocols, set device features and more.
Synchronize and sequence external hardware e.g. microfluidics.
Supported by examples in Python, MatLab, LabView.
REST (REpresentational State Transfer) a is communication standard widely used on the world wide web.
Instructions and example code is available on request.
Service Page
We added a Service page into Fusion with local service telephone and email account contact details.
In future we will populate this page with useful tools for gathering system, licensing and debug information.
Bug Fixes
iXon EMGain Limited to 188 on restart.
Resolution of device communication issue leading to random dark frames.
Cannot open Fusion generated ims files in Fiji.
Crash reading dataset gallery configuration file.
Fusion installer is overwriting Imaris .ims file association.
Fix to possible corrupted configs.
Out of range drift offset values added to Multi field table.
Dataset channels get out of sync when a failure occurs in protocol.
Deconvolution during protocol not working when running a negative z scan.
Advanced Color picker not showing.
"Go To field" doesn't always work first time when drift stabilisation enabled.
Montage/Multifield table Goto button not re-enabling after bounds unlocked.
Finite burst slow down for non admin user.
Fusion crash during “Live”.
Explain external trigger time out so easy for user to understand.
Crash when adding a channel.
Timestamps in deconvolved dataset are incorrectly displaying time of deconvolution.
Fusion crash if expected buffer address not return when reading SDK3 acquisition device buffers.
Connected Sona "Metadata Enabled" feature becoming de-activated if searching for other SDK3 devices.
Recover and continue with protocol if iXon communication error occurs.
Release 2.1.0.80 (Hotfix)
28th March 2019
Enhancements
Offset XY or XYZ for multifield points.
Removal of the "Use Ref Z as" options from the multifield positions section (this is now implied by the scan mode in the Z scan settings).
Update all multifield Ref Z positions based on offset between current field hold position and ref z position.
Bug Fixes
Olympus IX83 stability improvements.
Z Scan scan size calculation correction for microscopes whose depth does not begin at 0μm.
Optical Magnification calculation corrected on startup for use with manual turrets.
Fix Nikon Ti2 crash when shutting down in Analysis mode.
Fix to use the active channel name instead of the protocol channel names in the file name of the image when performing a snap with 'Active Channel' selected.
Z stack range not tracking drift stabilization hold position when doing multi field z or single z protocols with drift stabilization enabled.
Fix for datasets with numerous channels not being able to be opened in ImageJ.
Fix for datasets with a large number of frames not being able to be opened in ImageJ.
Fix SDK3 camera crash when Metadata Timestamp feature is disabled.
Release 2.1
20th November 2018
Enhancements
Support of Manual MicroPoint
Number of Pulses Feature
Time Between Pulses Feature
Support of triggering at a specified time point
Support of Olympus IX83 Microscope
Objective control and awareness of objective magnification to allow measurements on the image
Support for 3D image acquisition using the Z drive and support for ClearView-GPU™ deconvolution processing
Support of montage and multi field protocols using the XY Stage.
Support for switching the light path between camera port and eye piece.
Support of ZDC to maintain focus during acquisitions.
Support of Sona back-illuminated sCMOS camera
including SRRF-Stream™ support
Fixed-Pattern Noise correction in SRRF-Stream™
Support for HF-Boost Image Processing.
Improved ClearView-GPU™ deconvolution processing performance (up to twice as fast as previous release)
Note that this may require Nvidia Display Drivers to be updated. See Performing Deconvolution for further details.
Simplified ClearView GPU™ deconvolution settings
Support for drift stabilisation during time series protocols with montage.
Support favourite images
Support for overwriting existing channels when importing a protocol
Improved file naming – support for protocol & channel names
Support for negative Z scans
Bug Fixes
Fix for incorrect emission filter in some default channels.
When performing background correction, the ALC Coherence setting is now the same as is used in the protocol.
Fix for crash on application start up when an image in the recent images list is not accessible to the current user.
Fix for crash on start-up of application when an imaging mode associated with a channel is missing.
Fix for error when renaming a protocol to a name that was a sub set of 'protocol'.
Fix for crash when exporting an image to a drive with insufficient space available.
Fix for crash on start-up of application when time repeat frequency is zero.
Fix for Acquire button being disabled when Drift stabilisation offset is invalid (-1) in a multi field protocol.
When Multi field positions are outside the bounds a problem notification will now be shown.
Fix for montage fields being overwritten by subsequent fields when only the prefix save option was enabled.
Fix for crash when importing a protocol by drag and drop.
Leica AFC will now find focus correctly when using water objectives.
Fix for application freeze during deconvolution when a ClearView library error occurs.
Dragonfly ports are now no longer visible when the Dragonfly is removed.
Fix for crash when attempting to stitch montage images created in a previous version of Fusion.
Fix for error when merging channels due to incompatible Tirf mode parameters when Tirf is not selected.
Fix for crash when deconvolution window is closed while a protocol with montage is running.
Fix for application freeze after changing the selected AOI of a sCMOS camera.
Fix for error message that was displayed when a montage was outside the bounds, but the stage bounds were unlocked.
Simulation beads of dummy camera now reflect the correct z plane when using Reference Z.
When a protocol is stopped the XY and Z stages will now return to their starting position.
Improved responsiveness when browsing the recent images list, when many images are present.
Do not allow the z scan centre position to move further once the min or max reaches the extents of the z device when setting up the scan range.
Fix for problem notification remaining when a camera is removed and re-added when using a multi-channel montage protocol.
Fix for multi field selection indicator disappearing when the selected multi field position is replaced with the current position.
Fix for crash when double click the remove device button on an active device in the device hub.
Fix for intermittent crash when aborting a protocol with montage, stitching and deconvolution enabled.
If the default camera can't be found on startup, pick the first camera as default.
Release 2.0.0.15 (hotfix)
14th August 2018
Bug Fixes
Fix for crash while saving TIFF files
Prevent configuration file corruption under some circumstances
Prevent failures related to invalid characters in channel/imaging mode names
Fix for issue that prevented ASI stage connection when only axis available.
Release 2.0
26th June 2018
Enhancements
SRRF-Stream™ Support
Dual Camera Support
Frame Count
Radiality Magnification
Temporal Analysis Type
Ring Radius
Montage Stitching using Imaris Stitcher
Phase Correlation Stitching Method when in High Quality Mode
Background subtraction
Gaussian filter width
Run both Stitching & Deconvolution during acquisition
Preview Montage Scans
Imaris Engine 9.0.3
Support for the Bitflow Axion camera card
Support for Nikon Ti2 XY Stage
Support for On/Off control of the Nikon Ti2 Dia Lamp
iXon default temperature set point updated to -50˚C
Improved auto-mapping functionality
New "optimise Blend Mapping" preference added
Bug Fixes
Delay at start of acquisition when large number of channels are present
Occasional crash when changing between confocal modes
No explanation was shown if the protocol was disabled due to not having any channels
Filename preferences were not remembered across restarts
Release 1.5
22nd December 2017
Enhancements
Leica DM6 Support
The Software Shuttering Mode feature on the Andor BOB device has been renamed to Brightfield Trigger Mode
Support for improved TIRF calibration, to better facilitate multi wavelength operation. Penetration Depth is now limited to a usable limit of 350nm
Image display waits for full texture rendering during playback
Bug Fixes
Fix for long delays occurring when switching display modes or starting acquisitions that occurred some time after viewing or acquiring a montage or multi field acquisition
Ensure that a temporary camera communication error will not cause a running protocol to abort
Fix for crash when running a Multi-field protocol with no
Time stamps are now being stored in the Image file correctly when a protocol is aborted early
Fix for repeated communication errors with an ASI Stage after an initial communication error
Improved ILE operation when changing imaging modes on the Dragonfly
Fix for Leica DMi8 connection when another FTDI device plugged in
Fix for several resource leaks which may cause a slow down with prolonged use
Release 1.4
26th September 2017
Enhancements
Condensed Logging and Caching
Load, Write and Save Speed Improvements
Auto Save Improvements and Progress Updates
Tooltip Updates
Support Nikon Ti 2 Custom Objective
TIRF penetration limit changed to 100nm
Support iXon Life
3-fold ClearView-GPUTM Deconvolution speed up
Bug Fixes
Mapping changes not saved for images loaded from disk
Speed improvement when starting/stopping a merge channel protocol
Notification added when Dragonfly is initialising and shutting down
Camera ports selection re-added for dragonfly
Stopped montage problem notification appearing during a non montage protocol
Defaulted file open type to "all supported"
Time Series interval now remembered if set to 0
XY missing problem notification removed when XY is connected
Colour of image channel now updates without changing the display mode
“Go To” on the XY scan panel no longer causes Fusion to hang when no scope or auto focus device is present
Release 1.3
16th August 2017
Enhancements
Inversion of separate stage axis
Nikon Ti2 Support
Nosepiece
Z
Z Escape
Port
PFS
Filter Turret
Bug Fixes
Slowdown in Time and Finite Burst Protocols
Leica Light Path Sync Issue
Release 1.2
19th May 2017
Enhancements
Montage stitching using TeraStitcher
Andor BOB Device including:-
Support of Brightfield
Support of Analogue Piezo Z
About this release
For version information, please refer to About in Preferences.