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RELEASE_NOTES
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======================================================================================================================================
The Virtual Brain (TVB) tvb-library
Version: 1.5.9 - build 8865
Release Date: 4 July 2019
Description: New TVB models.
======================================================================================================================================
* Add Zerlaut model
* Add model Reduced Wong-Wang with Excitatory and Inhibitory Coupled Populations
* Replace ipython with jupyter command
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.5.8 - build 8852
Release Date: 19 May 2019
Description: Bug fix in Windows and Linux Distributions.
======================================================================================================================================
* Fix Windows distribution: was not having the paths correctly set to load DLLs correctly
* Fix ipython notebook in Linux distribution: kernel would not start for running notebooks
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.5.6 - build 8850
Release Date: 16 May 2019
Description: Bug fixing and dependencies upgrade.
======================================================================================================================================
* Upgrade to allenSDK 0.16
* Upgrade to SqlAlchemy 1.1.14 and sql-migrate 0.11
* Bug fixes in: FFT visualizer, FCD analyzer, Brain Surface visualizer, Volumetric viewer on Safari, PSE Discreet, Phase Plane
* Publish on conda-forge (tvb-data, tvb-gdist, tvb-library)
* Bug fixes in tvb-framework flow (start/stop/show correct version) when used from Pypi package
* 2 new Epileptor model variants ([Saggioetal_2017] Fast–Slow Bursters in the Unfolding of a High Codimension Singularity and the Ultra-slow Transitions of Classes
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.5.4 - build 8430
Release Date: 16 Oct 2017
Description: Improvements in Visualizers.
======================================================================================================================================
* Add Structural Connectivity and Pearson Correlation Edge Bundle Viewers (circular viewers)
* Replace MPLH5 Visualizers(PSE Continous, Wavelet, Fourier, Topographic, Pearson, Complex Coherence) with new ones based on D3.JS
* Packages distributed with Pypi (tvb-data, tvb-gdist, tvb-library and tvb-framework)
* Bug Fixes
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.5.3 - build 8255
Release Date: 12 May 2017
Description: Bug fixing.
======================================================================================================================================
* Fix Windows and Linux distribution of iPython Notebook
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.5.2 - build 8247
Release Date: 11 May 2017
Description: Bug fixing.
======================================================================================================================================
* Fix bug when launching PSE
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.5.1 - build 8240
Release Date: 9 May 2017
Description: License change from GPL v2 into GPL v3, integration of Allen Connectivity Creator.
======================================================================================================================================
* Update license of TVB from GPL v2 into GPL v3
* Expose in TVB_Distribution the Allen Connectivity creator
* New and improved PSE discreet viewer
* Bug fixes
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.5 - build 8020
Release Date: 22 June 2016
Description: New functionality related to simulation and visualizers
======================================================================================================================================
* New: export simulation configuration as JSON and reuse in web or console
* Volumetric Viewers extended and improved (more datatypes can be visualized in volume - e.g. TimeSeriesRegion; better performance)
* Color Scheme: allow to trim near-mean values in a color scheme
* New: tracts visualizer, FCD analyzer
* Refactored internal API for Adapters, with the purpose of simplifying console usage
* Allen SDK Creator added
* Reduced Wong-Wang default parameters updated to reflect usage in Hansen et al 2015
* Coefficients for the Stefanescu-Jirsa 3D model have been corrected
* ~5x accelerations for several models (Epileptor, Generic 2D Oscillator, Jansen-Rit, Reduced Wong-Wang)
* Epileptor state variables names updated to those used publications, (y0->x1, y1->y1, y2->z, y3->x2, y4->y2, y5->g)
* Models: new variables of interest for monitoring physiological signals e.g. LFP.
* Variable order integrators now available which can improve accuracy and execution speed for many cases.
* Conduction delays and coupling are now more efficient, especially for large and/or sparse connectivities.
* Comprehensive review to library logging, turn on useful debug info with log_debug(True).
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.4.1 - build 7595
Release Date: 22 September 2015
Description: Fixes for importing old projects and new Connectivity Annotations Viewer
======================================================================================================================================
* New: Connectivity Ontology Annotations Importer and Viewer
* Replace PIL library with Pillow inside the distribution
* Fix bug on importing Default Project on Windows
* Fix bug with left & right hemisphere labels switch in default dataset
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.4 - build 7417
Release Date: 16 July 2015
Description: Improved default dataset and monitors; IPython Notebook included.
======================================================================================================================================
* Default Project changed
* S/M/EEG Monitors are making use of precomputed surface gain matrix
* IPython Notebook is now distributed with TVB, and can be used to visualise and run demo scripts
* Windows x64 distribution is available (based on Anaconda)
* Speedups in running simulations and in some viewers
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.3 - build 6850
Release Date: 10 Nov 2014
Description: Reviewed and improved usability
======================================================================================================================================
* About 40 tasks on usability, 34 improvement issues and 30 bugs fixed
* Surface level simulations are between 2 and 8 times faster. Speedup dependent on model and simulation length.
Longer simulations and the Generic2dOscillator have improved the most.
* A new Phase-Plane page
* Changed mechanism to upload tvb-default data
* New importers for NetworkX and MAT format
* Allow import of Surfaces with problems (holes, pinched edges) but filter them out from simulations
* TimeSeries Volume visualizer completed
* Improved channel selection in visualizers
* Static surface viewers can now display parcellation as well
* Updates in documentation
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.2 - build 6200
Release Date: 4 June 2014
Description: New Documentation Site
======================================================================================================================================
* New set of EEG sensors
* Selection component reused on several pages in TVB
* Improve speed on load-time for some visualizers
* Topographic viewer - same color scheme
* Several bug-fixes (branching a running simulation, PSE discrete refresh)
* New scripts for the console interface
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.1.3 - build 5810
Release Date: 9 April 2014
Description: Epileptor Model
======================================================================================================================================
* New visualizer for Pearson Correlation Coefficient results
* Improvements in the TimeSeries visualizer (scaling control added)
* Non-zeo metadata exposed for the Connectivity DataTypes
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.1.2 - build 5746
Release Date: 1 April 2014
Description: Usability Improvements
======================================================================================================================================
* Improved images exported from TVB
* Added whitish color schemes for exporting TVB images with better beamer compatibility.
* Matjax issue fixed
* New Model and Integration scheme for the Simulator
* New static visualizers (Surface, RegionMapping)
* New importers (OBJ - surfaces)
* Improved existing visualizers (Brain, TimeSeries EEG)
* New default transparent Face (for orientation)
* New TimeSeriesMetric: Proxy Metastability
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.1 - build 5250
Release Date: 9 November 2013
Description: New plugged algorithms and a new interface.
======================================================================================================================================
* TVB deployed on MacOS stays as an icon in dock.
* New Analyzer and viewer: Pearson Correlation Coefficients
* New simulation model: LarterBreakspear
* Add interface over HTTP using JSON, to be used from Matlab
* Review and improvements in API documentation
* Small bug-fixing
Known problem:
=======================
Chrome 30 is having a problem with MatJax, and it might happen at times that your simulator labels are not correctly rendered.
https://groups.google.com/forum/#!topic/mathjax-users/CWGx1koV3SU
Please ignore the gray labels; they should have this fixed soon (Chrome / MatJax)
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.0.7 - build 5090
Release Date: 2 September 2013
Description: Fixes and improvements.
======================================================================================================================================
IMPORTANT: Github contributors should update their TVB distribution package and after that do a pull from github repo.
* Added high resolution image export with TVB logo.
* Fixed bug that caused IDLE based interface to crash on Windows based machines.
* New visualisers available for various datatypes (TimeSeriesMEG, TimeSeriesSEEG, Connectivity).
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.0.4 - build 4765
Release Date: 15 April 2013
Description: Bug Fix in TVB-Simulator.
======================================================================================================================================
* Add new monitor Stereo-EEG.
* Fix a bug in Simulator, related to Stefanescu-Jirsa Models.
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.0.3 - build 4730
Release Date: 30 Mar 2013
Description: Change TVB License. Branch a Simulation.
======================================================================================================================================
Important changes:
- TVB license is now GPL v2
- Saving a Simulation State is possible now.
"Branching" a previous executed simulation, will let you avoid having transient signal.
- TVB Scientific Library package is published on GitHub
- BCT is available from the Large Scale Connectivity page as well
- A new Connectivity importer has been added (accepting DTI Pipeline results)
- Simulator Input Parameters "Variables Watched by Monitor" is not displayed as a multi-select component, instead of an array.
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.0.2 - build 4480
Release Date: 08 Feb 2013
Description: Stable console interface. Bug fixing. Small performance and usability improvements
======================================================================================================================================
The main addition of this release is a stable console interface. Aside from this there have been a number of improvements and fixes:
- the fact that a Matlab installation makes BCT algorithms available in TVB is made more obvious in settings page
- possibility to change between state-variable/modes in brain and time-series visualizers
- two new models available: Deco-Jirsa(Mean-Field Brunel Wang) and Kuramoto Oscillator
- operations are now transactional so invalid db states should not be generated
- new DataTypes available: PsiTable, NerfTable, FaceSurface and CapEEG
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.0.1 - build 4280
Release Date: 18 Dec 2012
Description: Performance improvement. Bug fixing
======================================================================================================================================
This is a minor release but with important achievements on performance and code-cleanness:
- improve performance for running a simulation on regions level with Raw monitor with a factor of 10;
- improve performance on loading web pages, by making sure no duplicate JS/CSS files are loaded and some asynchronous work is done, where possible;
- fix HDF5 concurrency problems by replacing the library used behind (from pyTables to H5PY);
- fix MPLH5 portlets concurrency problem (when multiple of them are selected on the same page);
- include IDLE python module, for preparing console-users.
When running TVB 1.0.1 after you previously had TVB version 1.0 installed be advised that on the first login, all your datatypes
will be upgraded from TVB 1.0 pyTables format to H5PY. This might take a while depending on the amount of data you have generated.
Please be patient and don't shut down TVB during this process. You also have the option to execute the tvb_clean command and drop
previous data in which case the above step is skipped.
======================================================================================================================================
The Virtual Brain (TVB)
Version: 1.0 - build 3970
Release Date: 13 Oct 2012
Description: SFN 2012 release
======================================================================================================================================
This is a full-features release for TVB software.
- You can install TVB on Mac OS (x32 or x64 architecture), Linux (x32 or x64) or Windows (x32)
- TVB can be installed in 3 different configurations:
* on a personal computer for single-user usage;
* on a server and made accessible to an unlimited number of users through browser.
The server is expected to have a decent hardware, based on the expected number of clients.
Each client will need to have a compatible graphic card, and WebGL compatible browser.
* or on a cluster (similar with server installation, but with parallelization support).
When installed on a cluster, OAR is expected to be configured separately of TVB.
- Default user is the same: admin/pass , but you can change it when TVB settings page is first displayed.
- At startup, a default project will be created, containing demo-data as well (Connectivity, Cortical Surface, Projection Matrices, Sensors)
- Default data is automatically filled, with every new project you create.
- When filling parameters for the simulations, you can consult the manual about their meaning and the tooltips for each parameter.
Known issues:
- on Linux systems, Chrome browser has a bug when displaying select tags inside an overlay.
We have one situations for this, when displaying a visualizer's top-right call-out.
As this is a known bug in Chrome, we will wait for the next release to fix it. Until then we advise you to use FireFox while under Linux.
======================================================================================================================================
The Virtual Brain (TVB)
Version: 0.9T1 - build 1883
Release Date: 6 March 2012
Description: First TVB Teaser Release.
======================================================================================================================================
This is a Teaser package.
- Default user is admin/pass
- At startup a default project is created and a default set of input-data will exist in that project.
- Simulations can be launched, with any of the models/monitors in the system.
- If you have Octave or Matlab in the path, Brain Connectivity analyzers will be visible and ready for execution.
- Once you have some data in your project, you should go to the visualizers area and see them in multiple formats,
or use context-menu (right-click menu) on a specific DataType (pages Project-Operations or Project-Data Structure) to see available visualizers/analyzers.
Some of the capabilities that are currently in work are disabled from this version:
- import / upload /export buttons are visible but disabled
- input fields for the simulation are fixed, except for monitor, model and surface/region.
======================================================================================================================================
Our Technical Team is currently composed of: Lia Domide, Jochen Mersmann, Bogdan Neacsa, Paula Sanz Leon and Marmaduke Woodman.
For contact, please use [email protected]