2.15.7

Signal views

• Starting a mapping while the "add markers" mode was active left the application half-way: the mapping docks opened and the cursor/marker toolbar was greyed out, but no view actually entered mapping mode -- and there was no way back. Mapping now takes over properly and leaves marker mode.

Mapping

• When the data set (or the BIDS subject) has no FreeSurfer folder, the 3D viewer switches to the template subject -- and only if the montage contains EEG channels, since the template has no MEG sensors. Outside BIDS, starting a mapping no longer opens a FreeSurfer folder chooser.
• MEG mapping is never sent to the 3D viewer in template mode: the generic helmet preview is not a coregistration, colouring it would be misleading.

Gain levels

• The +/- buttons of the navigation bar had no effect at all on MEG, GRAD and ICA channels. Fixed.
• The gain area of the navigation bar has been redesigned: the current gain of the dominant modality is displayed between the - and + buttons, with every modality of the view listed in the tooltip.
• The Gain Levels window no longer shows an extra, unnamed row. It came from a phantom channel type which also wrote past the end of several fixed-size arrays -- a silent memory corruption, now gone.

Updates

• The version is now compared before the file hashes for the core libraries: a 2.15.6 installation could be offered the 2.15.5 binaries, which meant downgrading the application.
• A module requiring a more recent AnyWave is now listed greyed out with the version it needs, instead of being hidden -- or, worse, installed and then unable to load.
• Plugins can be published and updated on their own, independently of the core libraries.

Head Model Tool

• Five more digitizer formats in addition to ASA/ANT (.elc): BESA/EGI/SPM (.sfp), BESA spherical (.elp), Polhemus in CTF software format (.pos), raw Polhemus from the FIL (.pol) and BIDS electrodes.tsv.

Command line

• --skip_bad_channels false had no effect on a plain --run: bad channels stayed excluded whatever the option said.

2.15.6

Distribution

• New public download site, replacing the request form and the manual sending of packages by e-mail.
• Community edition for Windows, Linux and macOS: modules under licence or under a third-party agreement are no longer part of the public packages.

Linux

• Debian package (Ubuntu 22.04) and AppImage, with the MATLAB support module embedded.
• AnyWave can now update itself on Linux.

macOS

• Unified Intel + Apple Silicon build, self-updater, GARDEL and the FreeSurfer reconstruction tool ported to the platform.

Misc

• Single update stream for all editions; the per-licence filtering happens in the application.
• Fusion style with a common light palette, shared with the standalone tools.
• The "Setup" menu becomes "Tools" and gathers the launching of the standalone tools; the "About" menu moves to the end of the menu bar.
• Deltamed, NeuroWorks and Nihon Khoden readers brought back into the main repository.

2.15.5

ICA

• New ICA dock replacing the old panel: vertical list of components, and the signal view is reordered according to the current sort.
• Brain-likeness of a component computed from the SVD subspace of the leadfield, with an adjustable threshold in the dock.

Mapping

• 2D and 3D maps unified: same colour scale computed on raw sensor values, same colorbar title, and iso-contour lines on the 3D helmet.
• Mapping no longer filters on the montage: every physical sensor is used, bad ones interpolated.
• Layout selection combo boxes removed -- the layout is detected automatically, with a context menu to override it.
• MEG helmet rendered matte during mapping, sensor size following the scale of the layout.

Source localization

• MEG single-shell (Nolte) head model.
• Goodness-of-fit map interpolated on the 2D MRI slices.

New

• FACE plugin: event clustering (GFP detection + k-means) on any set of traces, with a graphical interface and a command line mode.
• Regional source channels, BESA style.
• New application icon.

2.15.2

New tools and plugins

• AwEnvSetupWizard: provisioning assistant for WSL2, Docker, FreeSurfer, FastSurfer and Python.
• Head Model Tool: standalone BEM / leadfield pipeline, replacing the one that was embedded in the 3D viewer.
• MEG Artifact Detector: detection of suspicious MEG channels.
• AnyWave DB: database creation, subjects, import of files.
• N x N matrix view in the h2/r2 graphs; GPU port of h2/r2 (CUDA).

Misc

• The update manifest is now signed (Ed25519) and the updater hardened.
• Full macOS arm64 support (VTK 9, C++20, OpenMEEG).
• About box redesigned, documentation URLs migrated to the new site.
• 3D viewer toolbar reorganised, with a layer visibility menu.

2.15.1

• 3D viewer: manual mode (any FreeSurfer folder, outside BIDS), multi-layer atlas and annotations.
• GARDEL: DICOM import, and the coregistration direction was corrected (MRI to CT, keeping the native CT resolution).
• New FreeSurfer reconstruction tool (FastSurfer or recon-all).

2.15.0

• New offline licence system (Ed25519).
• Source localization: dipole fit, with its own dock and its own mouse mode in the signal views.
• 3D viewer, EEG: 3D amplitude map (thin-plate spline) with contour lines, headshape registration by ICP.
• 3D viewer, BEM: surface generation through WSL2, MRI fiducial picking and rigid registration.
• 3D viewer: Ctrl+click on a SEEG electrode scrolls to the matching channel in AnyWave.
• MEG: new head model object, OPM and OpenMEEG corrections.
• New DelphosViewer plugin.
• PowerPoint export: generated .pptx files are now valid, PowerPoint no longer offers to repair them.

2.14.2

Internal reorganisation: all libraries moved under src/libs, and the signal view code split into its own library.

2.14.1

• Fixed a regression in the data server / process connection introduced by the shared channel list refactoring.
• 3D viewer: the GARDEL electrode file was not read correctly.
• Micromed reader: fixed a bug introduced in a previous version.

2.14.0

• New 3D viewer: FreeSurfer T1 volume, 2D and 3D MRI slices displayed over the surfaces, base atlas (aseg), SEEG amplitude mapping and ICA mapping.
• New logging system, with tags identifying the component that emits each message.
• New Nihon Khoden reader.
• Fixed getInputMarkers(): the "skip" and "use" marker options were not honoured.

2.13.12

Recoded EventManager to handle correctly events in multiple views.
New MATLAB/Python API: - change_sig_prop()/anywave('change_sig_prop') to change properties of several channels at once.
- ica_command()/anywave('ica_command') to reject or undo rejection of several ICs at once.

EDF Plugin:
fixed a bug when writing to EDF: date and time were not correctly written.

2.13.11

Recoded 3DViewer organization.
3D widget is now in a splitter with a settings widget.
Fixed issues in VTK rendering of ScalarBarWidget.
Recoded mapping layer to handle correctly bipolar channels loaded directly from data file.
Fixed a bug in 3DViewer that was not correctly handling the mapping of bipolar channels.
ICA 3D mapping also fixed: now channels identified in the data file are correctly mapped to the 3D viewer.
MATLAB:
when using settings.json or user.json to set the default MATLAB path and MATLAB Runtime path,
the paths are now correctly added to the environment variables before launching the MATLAB process.
This is specific to Windows.
Windows : switch to VTK version 9.5

2.13.10

Python venv were not detected at startup.
Now AnyWave will look for python virtual environments in the AnyWave/Plugins/Python/venv folder.
Previously saved python venvs are now automatically detected and used.
Python plugin can now specify the virtual environment to use by adding venv=alias in desc.txt file.
Preferences for Python have been fixed and now correclty handle the options.
User can pick a default virtual environment to use.
If no venv has been specified, AnyWave will use the default python installation on the system.

2.13.9

AnyWave now creates a subfolder in AnyWave/Plugins/Python called venv.
this folder is used to store the python virtual environment used by AnyWave.
Fixed a bug in export wizard about downsampling options:
When setting to a factor of 4 on a factor 2 was applied.
Now donwsampling by 4 is really applied. Spectral plugin:
The plugin was not taking into account the time selection and/or artefact to skip when computing the PSD.
Now it does.
Added a help menu option to directly open the AnyWave documentation in the browser.
Changed the documentation URL to point to the new AnyWave documentation website in About Dialog

2.13.8

Added the possibility to add custom predefined markers when in mapping mode.

2.13.7

fixed a bug in the OPM plugin that was not reading the data correctly.
fixed a bug in Spectral plugin where rounding the number of points was not done correctly (floor instead of ceil).
added back the colorbar display in TFWavelet plugin (was removed in 2.13.6).

2.13.5

Now when saving data to MATLAB format, Epochs are considered.
If you export data based on markers of same duration, the MATLAB file will contain a tensor matrix containing the data.
If epochs differ in duration, a struct array of 1xn epochs will be created and named Epochs. If no markers is used to export data, all the data will be put in data variable.

2.13.3

macOS version are now up to date (Intel and Apple M cpus).

2.11.1

FIFF reader: Annotations are now correctly read.
New Save as Assistant, easier to use.
TF witch Wavelet plugin can now export the current display to .png file. TF data are also exported to MATLAB file.

2.10.14

fixed a bug in reader plugins that could read bad channels within the file.
Now ignore them and let the user set them as bad if they are really bad.

2.10.12

minor changes in File Properties Dialog UI.
fixed a bug added after latest modifications:
when launching anywave in command line, some connections between the process and the process manager were cut.
Register inject plugin used that connections and so failed.

2.10.11

Fixed mistaken get_data function linked to anywave('get_data').
the 2_5_10 version is now the only one supported.

2.10.10

fixed bug in anywave('init', varargin); The port and pid value were not set correctly.
add ica_file information when using anywave('debug_connect')

2.10.9

• Fixes:
  Fixed a bug when changing montage that could crash anywave.
• Adds:
  MATLAB interface function anywave('get_data', cfg);
  The function can now be called without being connected to anywave in a plugin code or in debug mode.
  You MUST however specify the cfg.data_path field with a valid path to a data file.
  AnyWave will be launched in the background using the default path.
  See MATLAB documentation on the wiki to learn more.
• Changes:
  Notch filter implementation (use an IIR implementation).
  Display of markers on signals.

2.9.9

• fixed issue with .mat files generated within MATLAB.
  MATLAB stores strings using UTF8 encoding where AnyWave uses classic ASCII encoding.
  Both encodings are now correctly handled.

2.9.8

• fixed an issue using matlab call to anywave('get_data', cfg) function in a MATLAB plugin.
  Requesting channels with bipolar reference by using cfg.labels field now works correctly.

2.9.7

• FIFF format is now better handled.
• new ica2vhdr native plugin.\ Can be used from command line therefore from BIDS Manager.\ Takes input_file and ica_file as input options and generates a .vhdr file containing independent time courses unmixed from data file.
• modified Merge Files plugin:\ Can merge more than two files at once.\ Export to any output file format supported by AnyWave.
• modified Convert files plugin:\ Easier to use, convert several files in a specific format.
• Fixes:
• When taking screen captures while in a BIDS, the png files will go to the derivatives folder now.\
• When a process must deal with chunks of data to use and/or skip there were a bug when skipping sections inside a section designed to be used.\ The computation was correct but the process was modifying the markers sent by AnyWave.\ The issue is fixed.
• command line:\ bad channels are now correctly removed from montage containing bipolar channels.
• ui:\ When the user click never ask again on the dialog prompting to retrieve trigger values, the parameter is now correctly saved.

2.8.0

• New button in Montage toolbar allowing to set a montage using the electrodes localisation template.\ If a template if available a GUI allows the user to select electrodes using the mouse and add them to the current montage.\ \ \
• Fixes:\ Command line and BMP:\ -h2, ica and future plugin can now be output files based on BIDS name.\ There is no need anymore to specify an --output_file option.

2.7.4

Overall marker management was improved.\ The signal views are more reactive.\ New:\ The marking tool changed to provide easier and more intuitive way of marking events: HED events are now available.\ Once the tool is active, click once to mark a single event.\ Click, hold and drag the mouse to mark a time selection.\ If you do what described above while holding the shift key, then you can mark event related to specific channels.\ A new tool will allow you to select exactly the channels you want to mark.

MATLAB and MATLAB runtime\ MATLAB Application and Runtime are now detected automatically when starting up.\ Open preferences to check what anywave detected and changed the default versions to use.

MATLAB Compiled plugin can now specify the required runtime version needed by adding a line in desc.txt\ runtime = version (ie runtime = v98)

When running a compiled plugin, anywave will switch to the matching runtime installed on the system.

macOS and Linux only:\ You can specify the version of MATLAB to use to run scripted plugins.

2.5.11

New:

• Trigger_Writer plugin can now be used from the command line. See here\ The purpose is to inject marker values using a marker file into a 4DNI MEG file in the trigger channel.

2.5.7

IMPORTANT:

• fixed a bug causing a crash when applying SEEG AVG reference montage.

NEWS:

• It is now possible to write plugins with the LaunchedOnClosing flag.\ When closing a file, this plugins will be automatically launched.
• a path to a bids folder can be set as argument using the command line:\ AnyWave launch anywave and open the bids.

anywave <path to bids>

2.5.6

• New marking tool allowing to easily add marker.
• BIDS: You can now do a Save As of a BIDS file. The exported file will be added to the bids subject.

2.4.7

Fixes:

• When opening a file and selecting Show Markers option on the marker bar.the markers were not been displayed over the traces.

News:

• BIDS: New options to push/pull between the user derivatives folder and the common folder:\
• New option in the View Settings to display an amplitude scale over the traces.

2.4.0

• New GUI when exporting to file.\ ICA components time series can be exported as regular channels.
• Inserting markers:\ It is now possible to undo any previous insertions using the context menu while in marking mode.

2.3.5

• Markers targeting bipolar channels are now displayed correctly on traces.
• Minor bug fixes.

2.2.1

• Fixed an issue causing some plugins to save their result files at the wrong location.
• ICA plugin can now also filter with a notch filter.
• ICA time series:\ Now the time series are ALWAYS unmixed using the filters applied when computing the unmixing matrix. Changing the filter on source channels won't affect the visualisation of ICA time series.\ Now the ICA time series can be filtered like regular channels.
• Fixed an issue with quick montages: AnyWave was not detecting local .mtg files.
• Fixed an issue when a BIDS is open that was causing AnyWave to crash when opening several files from the BIDS Inspector GUI.
• Python plugins are now supported using Python Venv or not.\ Open the preferences window and set your local python venv you want to use in AnyWave.\ This will allow running Python plugins that require the specified venv.

2.1.3

• We changed the way the versions are labeled. Now AnyWave is in version 2.1.3.
• New updating system in the application:
• Depending on your preferences settings, AnyWave can check at startup for any available updates.
• It is also now possible to get a plugin update or even get a new plugin that was not installed along with the application.
• New display option for signal views : Fixed Page Duration.\ This option allows setting a fixed page duration for signals.

July 2021 (2107.6)

• Added a kind of heat map to show SEEG ICA components This can be displayed after ICA on SEEG was computed or loaded.\ The "map" can also be shown using :\

June 2021 (2106.25)

• EEG channels are now displayed in 'EEG Mode' (polarity reversed) by default. Use the View Options to change.
• Fixed EGI reader. Now correctly reads all EGI .mff bundles
• New gain levels handling, more intuitive.
• Fixed a bug in Spectral plugin: PSD Plot had a bad x axis scale when FFT time windows were greater than 1s.

May 2021 (2105.17)

• New license: AnyWave source code and binaries are now under GPL-3 License.
• Added more command line options to be used with BIDS Manager/BIDS pipeline.
• Open a BIDS folder: the structure will be parsed and a GUI will allow the user to browse subjects and sourcedata.
• New Spectral plugin (See the related documentation)
• New Help Menu allowing to easily get help about the loaded plugins:
• The Time Frequency using wavelet plugin has been modified.

Bugs fixes

When exporting a file, you can now use a selection of markers to export related chunks of data. Data chunks will be concatenated.