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| 14 January 2010: Version 0.9.7 is being prepared for
release. Changes and new features, already available in the
SVN version, include:
- General improvements:
-
- now supports Python 2.6
- significantly reduced memory consumption (35% less for lissom.ty)
- minor bugfixes
- now available as .deb package for Debian and
Ubuntu, in addition to .zip and .tar.gz versions, and via
'easy_install topographica'
- optional
PyFlakes package for detecting common Python problems - optional
mpi4py package using OpenMPI for writing parallel applications - instructions
available for checking out Git version of repository
- Command-line and batch:
-
- -G: dock windows by default
- run_batch:
name_time_format and dirname_prefix parameters
- GUI:
-
- moved progress bars, messages, warnings, and
errors into the status bar for each window, to make it clear where
the error or status issue arose
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- Plotting:
-
- more joint normalization options
("JointProjections", "AllTogether", "Individually"), to show
relative differences in weight strength and activity
- PhaseDisparity plot
- Component library:
-
- SpiralGrating, HyperbolicGrating, RadialGrating,
ConcentricRings, and ArcCentered pattern families are temporarily in
contrib/hegdeessen.py; to move
to topo.pattern - minor changes to PatternGenerator parameter
passing to allow better nesting and composition
|
12 February 2009: Version 0.9.6 released, including:
- General improvements:
-
- significant performance improvements in
simulations (nearly 2X overall), plotting (2X), and startup time
- minor bugfixes
- optional
Cython package for writing fast components
- Command-line and batch:
-
- -v and -d options to print verbose and debugging messages
- new options to
run_batch and better progress messages - replaced most commands with
ParameterizedFunctions,
which have documented, type and bound-checked arguments and allow
inheritance of shared functionality - replaced map measurement commands in
topo.command
with simpler, general-purpose, easily .ty-file controllable versions (see
lissom_oo_or.ty and lissom.ty for examples) - save_plotgroup:
more useful default values; results can be cached to avoid recomputation - measure_sine_pref:
general purpose measurement for any preference that can be tested
with a sine grating - Changed locals to script-level parameters using
GlobalParams;
see examples/lissom.ty
- GUI:
-
- model editor supports non-Sheet EventProcessors
and non-CFProjection EPConnections
- right-click option for plotting tuning curves
- plot windows can be arranged in 2D, not just a row
(see Sheet.row_precedence)
|
- Example scripts:
-
- removed outdated or in-progress examples
- greatly simplified remaining example scripts
- now use GlobalParams to support consistent option setting using -p - allowed saving of local functions and instance
method calls in snapshots
- Component library:
-
- PatternGenerators:
Translator;
mask_shape parameter also now makes it easy to specify a mask
for any pattern, e.g. in the GUI - Changed names and definitions of various similar
concepts (OutputFn, before_presentation, update_command,
plot_command, etc.) to reflect shared concept of Hooks and
HookLists (lists of callables to run at specific spots in the
code).
- Parameters: bounds can now be exclusive, optional support for None in most
types
|
| We also provide a utility to simplify the
process of updating scripts
that were written for version 0.9.5. |
05 September 2008: Version 0.9.5
released, including:
- General improvements:
-
- numerous bugfixes and performance improvements
- simulation can now be locked to real time
- simpler and more complete support for dynamic parameters
- updated to Python 2.5 and numpy 1.1.1.
- source code moved from CVS to Subversion ( SVN) - contrib dir
- divisive and multiplicative connections
- simulation time is now a rational number for precision
- PyTables HDF5 interface
- Command-line and batch:
-
- simplified example file syntax
(see examples/lissom_oo_or.ty and som_retinotopy.py)
- command prompt uses IPython for better debugging, help - simulation name set automatically from .ty script name by default
- command-line options can be called explicitly
- GUI:
-
- model editor fully supports dynamic parameters
(described in the lissom_oo_or tutorial)
- plot windows can be docked into main window
- uses tk8.5 for anti-aliased fonts
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- Plotting:
-
- new preference map types (Hue, Direction, Speed)
- combined (joint) plots using contour and arrow overlays
- example of generating activity movies
(examples/lissom_or_movie.ty)
- Example scripts:
-
- simulation, plots, and analysis for modelling of any combination of position, orientation, ocular dominance, stereoscopic disparity, motion direction, speed, spatial frequency, and color (examples/lissom.ty).
- Component library:
-
- PatternGenerator: CameraImage (for real-time camera inputs) - command:
decode_feature (for estimating perceived values)
(e.g. for calculating aftereffects) - functions for analyzing V1 complex cells
- PipelineOF OutputFns can now be constructed easily using +
|
| We also provide a utility to update scripts
that were written for version 0.9.4. |
26 October 2007: Version 0.9.4
released, including:
- General improvements:
-
numerous bugfixes
set up automatic daily builds
- Example scripts:
-
new whisker barrel cortex simulation
(using transparent Matlab wrapper)
new elastic net ocular dominance simulation
new spiking example; still needs generalizing
- Command-line and batch:
-
batch
mode for running multiple similar simulations
saving
bitmaps from script/command-line (for batch runs)
script/command-line control over GUI
added auto-import option (-a and -g) to save typing
|
- GUI:
-
greatly simplified adding GUI code
added progress bars, scroll bars, window icons
new Step button on console
- Plotting:
-
reverse-correlation RF mapping
3D
wireframe plotting (in right-click menu)
gradient plots, histogram plots (in right-click menu)
simplified
bitmap plotting (removed template classes)
GUI plots can be saved as PNG or EPS (right-click menu)
automatic collection of plots for animations (see ./topographica examples/lissom_or_movie.ty)
- Component library:
-
new
coordmappers (Grid, Pipeline, Polar/Cartesian)
|
Screenshots:
plotting 1,
plotting 2,
model editor.
23 April 2007: Version 0.9.3
released, including:
- General improvements:
-
numerous bugfixes
significant optimizations (~5 times faster)
compressed snapshots (1/3 as large)
much-improved reference manual
- Component library:
-
adding noise to any calculation
lesioning units and non-rectangular sheet shapes (see PatternCombine)
basic auditory pattern generation
greatly simplified SOM support
more dynamic parameters (such as ExponentialDecay)
flexible mapping of ConnectionField centers between sheets
- Example scripts:
-
examples that more closely match published simulations
new simulations for face processing and for
self-organization from natural images
|
- GUI:
-
Better OS X and Windows support
progress reporting for map measurement
dynamic display of coordinates in plots
stop button to interrupt training safely
ability to plot and analyze during training
right-click menu for analysis of bitmap plots
saving current simulation as an editable .ty script
- Command-line and batch:
-
site-specific commands in ~/.topographicarc
simple functions for doing optimization
- Plotting:
-
spatial frequency map plots
tuning curve plots
FFT transforms (in right-click menu)
|
Screenshots:
Plotting,
Model editor.
29 November 2006: There will be a short talk on Topographica
at the PyCon 2007
convention, February 23-25, 2007.
22 November 2006: Version 0.9.2
released, including
numerous bugfixes (e.g. to support GCC 4.1.x compilers),
much more complete user manual,
more useful reference manual,
more sample models,
flexible joint normalization across Projections,
arbitrary control of mapping CF centers (see CoordinateMapperFn),
Composite and Selector patterns to allow flexible combinations of input patterns,
homeostatic learning and output functions,
sigmoid and generalized logistic output functions,
and a new disparity map example (including a
random dot stereogram input pattern).
02 November 2006: Some users have reported problems when using
optimized code on systems with the most recent GCC 4.1.x C/C++
compilers. We have added a patch to the included weave
inline-compilation package that should fix the problem, currently
available only on the most recent CVS version of Topographica.
Affected users may need to do a CVS update, then "make -C external
weave-uninstall ; make". These changes will be included in the next
official release.
23 July 2006: Version 0.9.1
released.
This is a bugfix release only, upgrading the included Tcl/Tk package
to correct a syntax error in its configure script, which had
been preventing compilation on platforms using bash 3.1 (such as
Ubuntu 6.06). There is no benefit to updating if 0.9.0 already runs
on your platform.
07 June 2006: Version 0.9.0
released, including
numerous bugfixes,
context-sensitive (balloon) help for nearly every parameter and control,
full Windows support (screenshot),
full Mac OS X support,
downloadable installation files,
significant performance increases (7X faster on the main example scripts, with more
speedups to come),
faster startup,
better memory management,
simpler programming interface,
improved state saving (e.g. no longer requiring the original script),
independently controllable random number streams,
plot window histories,
more library components (e.g. Oja rule, CPCA, covariance),
prototype spiking neuron support, and
much-improved model editor.
15 May 2006: New book Computational Maps in the
Visual Cortex available, including background on modeling
computational maps, a review of visual cortex models, and an
extended set of examples of the types of models supported by
Topographica.
20 February 2006: Version 0.8.2 released, including numerous
bugfixes,
circular receptive fields,
shared-weight projections,
tutorial with ON/OFF LGN model,
SOM retinotopy tutorial,
Euclidean-distance-based response and learning functions,
density-independent SOM parameters,
Mac OS X instructions,
developer manual,
partial user manual,
much-improved
model editor,
generic Matlab-style plotting,
topographic grid plotting,
RGB plots,
user-controllable plot sorting,
plot color keys,
and progress reports during learning. See the
Linux screenshot.
22 December 2005: Version 0.8.1 released, including numerous
bugfixes, more flexible plotting (including weight colorization),
user-controllable optimization, properties panels, more-useful
reference manual,
image input patterns, and a prototype graphical
model editor.
8 November 2005: New site launched with Topographica version
0.8.0, including a new
LISSOM tutorial.
(Linux screenshot).
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