Nipype 0.10.0 release

[Chris Filo Gorgolewski]

Dear all,

I'm delighted to announce a brand new release of Nipype - a pipelining and interfacing framework bringing together a variety of neuroimaging software and making your workflows easier to design and more efficient to compute. Nipype is also an important component of many other neuroimaging tools (see: http://nipy.org/nipype/devel/software_using_nipype.html).

You can download Nipype from http://nipy.org/nipype/users/install.html

This release brings a series of improvements and bugfixes:

* ENH: New miscellaneous interfaces: SplitROIs (mapper), MergeROIs (reducer)

to enable parallel processing of very large images.

* ENH: Updated FSL interfaces: BEDPOSTX and XFibres, former interfaces are still

available with the version suffix: BEDPOSTX4 and XFibres4. Added gpu versions of BEDPOSTX: BEDPOSTXGPU, BEDPOSTX5GPU, and BEDPOSTX4GPU

* ENH: Added experimental support for MIPAV algorithms thorugh JIST plugins

* ENH: New dipy interfaces: Denoise, Resample

* ENH: New Freesurfer interfaces: Tkregister2 (for conversion of FSL style matrices to freesurfer format), MRIPretess

* ENH: New FSL interfaces: WarpPoints, WarpPointsToStd, EpiReg, ProbTrackX2, WarpUtils, ConvertWarp

* ENH: New miscellaneous interfaces: AddCSVRow, NormalizeProbabilityMapSet, AddNoise

* ENH: New AFNI interfaces: Eval, Means, SVMTest, SVMTrain

* ENH: FUGUE interface has been refactored to use the name_template system, 3 examples

added to doctests, some bugs solved.

* API: Interfaces to external packages are no longer available in the top-level

nipype namespace, and must be imported directly (e.g. from nipype.interfaces import fsl).

* ENH: Support for elastix via a set of new interfaces: Registration, ApplyWarp,

AnalyzeWarp, PointsWarp, and EditTransform

* ENH: New ANTs interface: ApplyTransformsToPoints, LaplacianThickness

* ENH: New Diffusion Toolkit interface: TrackMerge

* ENH: New MRtrix interface: FilterTracks

* ENH: New metrics group in algorithms. Now Distance, Overlap, and FuzzyOverlap

are found in nipype.algorithms.metrics instead of misc. Overlap interface extended to allow files containing multiple ROIs and volume physical units.

* ENH: New interface in algorithms.metrics: ErrorMap (a voxel-wise diff map).

* ENH: New FreeSurfer workflow: create_skullstripped_recon_flow()

* ENH: Deep revision of workflows for correction of dMRI artifacts. New dmri_preprocessing

example.

* ENH: New data grabbing interface that works over SSH connections, SSHDataGrabber

* ENH: New color mode for write_graph

* ENH: You can now force MapNodes to be run serially

* ENH: Added ANTS based openfmri workflow

* ENH: MapNode now supports flattening of nested lists

* ENH: Support for headless mode using Xvfb

* ENH: nipype_display_crash has a debugging mode

* FIX: MRTrix tracking algorithms were ignoring mask parameters.

* FIX: FNIRT registration pathway and associated OpenFMRI example script

* FIX: spm12b compatibility for Model estimate

* FIX: Batch scheduler controls the number of maximum jobs properly

* FIX: Update for FSL 5.0.7 which deprecated Contrast Manager

On behalf of the Nipype team,

Chris Gorgolewski