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debian/2.4.0-1

pymvpa2 Debian release 2.4.0-1

upstream/2.4.0

* 2.4.0 (Mon, 11 May 2015)
  * New functionality

    - Support for CoSMoMVPA (http://cosmomvpa.org) in
      :mod:`~mvpa2.datasets.cosmo` providing dataset input/output
      (:meth:`~mvpa2.datasets.cosmo.cosmo_dataset` and
      :meth:`~mvpa2.datasets.cosmo.map2cosmo`) and neighborhood input
      (:class:`~mvpa2.datasets.cosmo.CosmoQueryEngine`). This allows for
      for running searchlights (:class:`mvpa2.datasets.cosmo.CosmoSearchlight`)
      on data from CoSMoMVPA (fMRI and MEEG).
    - :func:`~mvpa2.datasets.miscfx.remove_nonfinite_features` removes
      features with non-finite values, i.e. NaNs or Infs, for any sample.
    - :func:`~mvpa2.misc.stats.binomial_proportion_ci` for computing
      confidence intervals on proportions of Bernoulli trial outcomes.
    - New mapper for removing sample means from features.
    - New algorithm for statistical evaluation of clusters in accuracy maps
      of group-based searchlight classification analyses. This is essentially
      an improved implementation of Stelzer et al., NeuroImage, 2013.
    - New identity mapper. Does nothing, but goes were only mappers can go.
    - Simplified selection of samples/feature in a dataset. One can now
      specify sets of attribute values to define sample/feature subsets.
    - IO adaptor for OpenFMRI-formated datasets. Load arbitrary bits from such
      a dataset, or automatically build event-related dataset (optionally with
      NiPy-based HRF-modeling).  `tutorial_data_25mm` was converted to
      OpenFMRI layout and extended also with `1slice` flavor.
    - New command line command to generate a motion plot for an
      OpenFMRI-formated dataset.
    - New convenience functions for boxplots and outlier detection.
    - Reincarnated (similar functionality was removed for 2.0 release)
      convenience methods (
      :meth:`~mvpa2.base.collections.UniformLengthCollection.match` and
      :meth:`~mvpa2.datasets.base.Dataset.select`)
      to ease selecting parts of a dataset

  * Enhancements

    - :class:`~mvpa2.mappers.flatten.ProductFlattenMapper` accepts
      explicit names of factors in the constructor.
    - HollowSphere() can now, optionally, include the center feature.
    - :func:`~mvpa2.datasets.mri.fmri_dataset` no longer stores original copy
      of the NIfTI file header -- it converts it to `dict` representation to
      remain portable. Use :func:`~mvpa2.datasets.mri.strip_nibabel` to convert
      old datasets to new format if/when necessary.

  * Fixes

    - :class:`~mvpa2.algorithms.hyperalignment.Hyperalignment` with regularization
      (alpha != 1.0) was producing incorrect transformations because they were
      driven by offsets of the last subject.  Fixed by not "auto_train"ing
      regularization projection.
    - :func:`~mvpa2.misc.plot.lightbox.plot_lightbox` should take a
      slice index from the last dimension, not the leading one if no
      `slices` argument was provided.
    - Improved Python3k compatibility in :mod:`~mvpa2.base.state`,
      :mod:`~mvpa2.tests`, and :mod:`~mvpa2.clfs.stats` modules, and in
      libsvmlrc msvc building.
    - Partial fix for compatibility with ancient scipy on SPARC using
      :mod:`~mvpa2.datasets.cosmo`.

Read release notes

debian/2.3.1+git388-gb1bdb97-1

pymvpa2 Debian release 2.3.1+git388-gb1bdb97-1

debian/2.3.1+git387-g18196d1-1

pymvpa2 Debian release 2.3.1+git387-g18196d1-1

debian/2.3.1+git309-gbebd75f-1

pymvpa2 Debian release 2.3.1+git309-gbebd75f-1

debian/2.3.1-2

pymvpa2 Debian release 2.3.1-2

debian/2.3.1-1

pymvpa2 Debian release 2.3.1-1

upstream/2.3.1

* 2.3.1 (Tue, 20 May 2014)
  Primarily a bugfix release pushed out to avoid mvpa2.suite meltdown
  if new scipy 1.4.0 is used.

  * API changes

    - Deprecation: :class:`~mvpa2.base.param.Parameter` now uses `constraints` argument
      of type :class:`~mvpa2.base.constraints.Constraint` instead of string
      `allowedtype`.  `allowedtype` argument will be removed completely in the
      future 2.4 release.

  * New changes

    - :mod:`~mvpa2.clfs.dummies` now provides utterly useful
      :class:`~mvpa2.clfs.dummies.RandomClassifier` and others for code testing
      which could also be used to verify absent double-dipping etc.

  * Enhancements

    - :class:`~mvpa2.mappers.fx.FxMapper` now will provide consistent order
      of groups of items.  It also got a new argument `order` with available
      value of 'occurrence' to that groups would get ordered by their occurance
      in the original dataset.

  * Fixes

    - :class:`~mvpa2.mappers.corrstability.CorrStability` should be able to
      deal with other sample attributes (not only 'targets') and should divide
      by variance correctly to provide correlation coefficient as output.
    - robustify check scipy's rdist which should avoid crash upon import of
      mvpa2.suite because of stripped down scipy 1.4.0 API.
    - various typos in docstrings (we do welcome contributions ;) ).

Read release notes

debian/2.3.0-1

pymvpa2 Debian release 2.3.0-1

upstream/2.3.0

Rushed out 2.3.0 release, probably to be followed with rapid 2.3.1

Read release notes

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