0.14.0-rc1

0.14.0rc1 (November 21, 2017)

• ENH: Generate Dockerfiles with neurodocker (#2202)
• ENH: FLAIR options for recon-all (#2279)
• ENH: Config option for setting maxtasksperchild when multiprocessing (#2284)
• FIX: Testing maintainance and improvements (#2252)
• ENH: Add elapsed_time and final metric_value to ants.Registration (#1985)
• ENH: Improve terminal_output feature (#2209)
• ENH: Simple interface to FSL std2imgcoords (#2209, prev #1398)
• ENH: Centralize virtual/physical $DISPLAYs (#2203, #2211)
• ENH: New ResourceMonitor - replaces resource profiler (#2200)
• ENH: Quickshear interface (#2047)
• MAINT: updated deprecated HasTraits method (#2048)
• ENH: CLI versioning (#2054)
• ENH: Dual Regression interface (#2057)
• ENH: Additional args to ANTs registration (#2062, #2078)
• FIX: Mp2rage interfaces updated for new parameter names in cbstools 3 (#2065)
• MAINT: Removed automatic nipype folder creation in HOME (#2076)
• MAINT: Additional Windows support (#2085)
• ENH: Output realignment matrices from TOPUP (#2084)
• ENH: Additional AFNI interfaces: 3dZcat, 3dZeropad, 3dedge3, 3dDeconvolve, 3dQwarp, 1dCat, 3dNwarpApply, 3daxialize,
  3dREMLfit, 3dUndump, 3dCM, 3dSynthesize + more (#2087, #2090,
  #2095, #2099, #2103,
  #2114, #2135, #2186,
  #2201, #2210)
• MAINT: cleanup and update AFNI's Allineate (#2098)
• ENH: Add cosine-basis high-pass-filter to CompCor, allow skip of initial volumes (#2107, https://github.com/nipy/nipype/pull/#2122)
• FIX: Catch more dcm2niix DTI conversions (#2110)
• FIX: Retrieve aseg + wmparc stats properly (#2117)
• ENH: ANTs MeasureImageSimilarity Inteface (#2128)
• FIX: CompCor filter_basis of correct size, pre-filter column headers (#2136, #2138)
• ENH: FreeSurfer lta_convert and mri_coreg interfaces (#2140, #2172)
• ENH: Speed up S3DataGrabber (#2143)
• FIX: Allow S3DataGrabber to grab single file (#2147)
• FIX: Allow 4D images as inputs to buildtemplateparallel.sh and N4BiasFieldCorrection (#2151)
• MAINT: Detect and warn unconnected duplicate nodes (#2163)
• ENH: Calcmedian Interface (#2167)
• FIX: probtrackx2 outputs (#2169)
• ENH: Improve FreeSurfer registration (#2172)
• ENH: BIDSDataGrabber interface (#2174)
• MAINT: Set minimum numpy version to 1.9.0 (#2182)
• ENH: Support for multiple intial-moving-transforms (#2187)
• MAINT: Fixes for networkx and afni (#2196, #2171)
• TST: Update C3D version in Docker build (#2199)
• ENH: SimpleInterface interface (#2220)
• ENH: Add LTA to Tkregister2 (#2217)

Release 0.13.1

0.13.1 (May 20, 2017)

• FIX: Make release compatible with conda-forge build process (#2017)
• ENH: Update some minimum versions in compliance with Debian Jessie (#2017)
• ENH: Circle builds use cached docker layers (#2017)
• ENH: Base docker to use FS6 and ANTS 2.2.0 (#2024)
• FIX: Mailmap and contributor acknowledgment (#2017)
• FIX: Preserve node properties in sub nodes of MapNode (#2019)
• FIX: Fix interfaces 3DUnifize, ICA_AROMA, BinaryMaths, RegAverage, BBRegister,
  AffineInitializer (#2025, #2027,
  #2036, #2037,
  #2031, #2010)
• ENH: Add Anisotropic Power interface (#2039)
• FIX: Bayesian estimation in SPM (#2030)

0.13.0 (May 11, 2017)

• ENH: Multi-stage recon-all directives (#1991)
• FIX: FEAT "folder does not exist" error (#2000)
• ENH: Niftyfit interfaces (#1910)
• FIX: Define ANTSPATH for BrainExtraction automatically (#1986)
• ENH: New trait for imaging files (#1949)
• ENH: Niftyseg interfaces (#1911)
• ENH: Niftyreg interfaces (#1913)
• MRG: Allow more support for CLI (#1908)
• ENH: 3dQwarpPlusMinus interface (#1974)
• FIX: PY3.6 support (#1977)
• FIX: PY3 and stream fixes for MRTrix2TrackVis (#1804)
• ENH: More mask options for CompCor interfaces (#1968 + #1992)
• ENH: Additional TOPUP outputs (#1976)
• ENH: Additional Eddy flags (#1967)
• ENH: ReconAll handlers for less common cases (#1966)
• ENH: FreeSurferSource now finds graymid/midthickness surfs (#1972)
• ENH: Additional fslmaths dimensional reduction operations (#1956)
• ENH: More options for RobustFOV interface (#1923)
• ENH: Add MRIsCombine to FreeSurfer utils (#1948)
• FIX: Level1Design EV parameter substitution (#1953)
• FIX: Dcm2niix outputs can be uncompressed (#1951)
• FIX: Ensure build fails in Circle when tests fail (#1981)
• ENH: Add interface to antsAffineInitializer (#1980)
• ENH: AFNI motion parameter support for FrameWiseDisplacement (#1840)
• ENH: Add ANTs KellyKapowski interface (#1845)
• FIX: AFNI interface bug setting OMP_NUM_THREADS to 1 (#1728)
• FIX: Select Eddy run command at runtime (#1871)
• FIX: Increase FLIRT's flexibility with apply_xfm (#1875)
• DOC: Update FSL preprocess docstrings (#1881)
• ENH: Support GIFTI outputs in SampleToSurface (#1886)
• FIX: Configparser differences between PY2 and PY3 (#1890)
• ENH: Add mris_expand interface (#1893)
• FIX: Split over-eager globs in FreeSurferSource (#1894)
• FIX: Store undefined by default so that xor checks don't trip (#1903)
• FIX: Gantt chart generator PY3 compatibility (#1907)
• FIX: Add DOF and --fsl-dof options to BBRegister (#1917)
• ENH: Auto-derive input_names in Function (#1918)
• FIX: Minor fixes for NonSteadyStateDetector (#1926)
• DOC: Add duecredit references for AFNI and FSL (#1930)
• ENH: Added zenodo (https://zenodo.org/) file (#1924)
• ENH: Disable symlinks on CIFS filesystems (#1941)
• ENH: Sphinx extension to plot workflows (#1896)
• ENH: Added non-steady state detector for EPI data (#1839)
• ENH: Enable new BBRegister init options for FSv6+ (#1811)
• REF: Splits nipype.interfaces.utility into base, csv, and wrappers (#1828)
• FIX: Makespec now runs with nipype in current directory (#1813)
• FIX: Flexible nifti opening with mmap if Numpy < 1.12.0 (#1796 + #1831)
• ENH: DVARS includes intensity normalization feature - turned on by default (#1827)
• FIX: DVARS is correctly using sum of squares instead of standard deviation (#1827)
• ENH: Refactoring of nipype.interfaces.utility (#1828)
• FIX: CircleCI were failing silently. Some fixes to tests (#1833)
• FIX: Issues in Docker image permissions, and docker documentation (#1825)
• ENH: Revised all Dockerfiles and automated deployment to Docker Hub
  from CircleCI (#1815)
• ENH: Update ReconAll interface for FreeSurfer v6.0.0 (#1790)
• FIX: Cast DVARS float outputs to avoid memmap error (#1777)
• FIX: FSL FNIRT intensity mapping files (#1799)
• ENH: Additional outputs generated by FSL EDDY (#1793)
• TST: Parallelize CircleCI build across 4 containers (#1769)

0.13.0-rc1 (January 4, 2017)

• FIX: Compatibility with traits 4.6 (#1770)
• FIX: Multiproc deadlock (#1756)
• TST: Replace nose and unittest with pytest (#1722, #1751)
• FIX: Semaphore capture using MultiProc plugin (#1689)
• REF: Refactor AFNI interfaces (#1678, #1680)
• ENH: Move nipype commands to group command using click (#1608)
• FIX: AFNI Retroicor interface fixes (#1669)
• FIX: Minor errors after migration to setuptools (#1671)
• ENH: Add AFNI 3dNote interface (#1637)
• ENH: Abandon distutils, only use setuptools (#1627)
• FIX: Minor bugfixes related to unicode literals (#1656)
• TST: Automatic retries in travis (https://github.com/nipy/nipype/pull/1659/files)
• ENH: Add signal extraction interface (#1647)
• ENH: Add a DVARS calculation interface (#1606)
• ENH: New interface to b0calc of FSL-POSSUM (#1399)
• ENH: Add CompCor (#1599)
• ENH: Add duecredit entries (#1466)
• FIX: Python 3 compatibility fixes (#1572)
• REF: Improved PEP8 compliance for fsl interfaces (#1597)
• REF: Improved PEP8 compliance for spm interfaces (#1593)
• TST: Replaced coveralls with codecov (#1609)
• ENH: More BrainSuite interfaces (#1554)
• ENH: Convenient load/save of interface inputs (#1591)
• ENH: Add a Framewise Displacement calculation interface (#1604)
• FIX: Use builtins open and unicode literals for py3 compatibility (#1572)
• TST: reduce the size of docker images & use tags for images (#1564)
• ENH: Implement missing inputs/outputs in FSL AvScale (#1563)
• FIX: Fix symlink test in copyfile (#1570, #1586)
• ENH: Added support for custom job submission check in SLURM (#1582)
• ENH: Added ANTs interface CreateJacobianDeterminantImage; replaces deprecated JacobianDeterminant
  (#1654)

Release 0.13.0

Release 0.13.0 (May 11, 2017)

• ENH: Multi-stage recon-all directives (#1991)
• FIX: FEAT "folder does not exist" error (#2000)
• ENH: Niftyfit interfaces (#1910)
• FIX: Define ANTSPATH for BrainExtraction automatically (#1986)
• ENH: New trait for imaging files (#1949)
• ENH: Niftyseg interfaces (#1911)
• ENH: Niftyreg interfaces (#1913)
• MRG: Allow more support for CLI (#1908)
• ENH: 3dQwarpPlusMinus interface (#1974)
• FIX: PY3.6 support (#1977)
• FIX: PY3 and stream fixes for MRTrix2TrackVis (#1804)
• ENH: More mask options for CompCor interfaces (#1968 + #1992)
• ENH: Additional TOPUP outputs (#1976)
• ENH: Additional Eddy flags (#1967)
• ENH: ReconAll handlers for less common cases (#1966)
• ENH: FreeSurferSource now finds graymid/midthickness surfs (#1972)
• ENH: Additional fslmaths dimensional reduction operations (#1956)
• ENH: More options for RobustFOV interface (#1923)
• ENH: Add MRIsCombine to FreeSurfer utils (#1948)
• FIX: Level1Design EV parameter substitution (#1953)
• FIX: Dcm2niix outputs can be uncompressed (#1951)
• FIX: Ensure build fails in Circle when tests fail (#1981)
• ENH: Add interface to antsAffineInitializer (#1980)
• ENH: AFNI motion parameter support for FrameWiseDisplacement (#1840)
• ENH: Add ANTs KellyKapowski interface (#1845)
• FIX: AFNI interface bug setting OMP_NUM_THREADS to 1 (#1728)
• FIX: Select Eddy run command at runtime (#1871)
• FIX: Increase FLIRT's flexibility with apply_xfm (#1875)
• DOC: Update FSL preprocess docstrings (#1881)
• ENH: Support GIFTI outputs in SampleToSurface (#1886)
• FIX: Configparser differences between PY2 and PY3 (#1890)
• ENH: Add mris_expand interface (#1893)
• FIX: Split over-eager globs in FreeSurferSource (#1894)
• FIX: Store undefined by default so that xor checks don't trip (#1903)
• FIX: Gantt chart generator PY3 compatibility (#1907)
• FIX: Add DOF and --fsl-dof options to BBRegister (#1917)
• ENH: Auto-derive input_names in Function (#1918)
• FIX: Minor fixes for NonSteadyStateDetector (#1926)
• DOC: Add duecredit references for AFNI and FSL (#1930)
• ENH: Added zenodo (https://zenodo.org/) file (#1924)
• ENH: Disable symlinks on CIFS filesystems (#1941)
• ENH: Sphinx extension to plot workflows (#1896)
• ENH: Added non-steady state detector for EPI data (#1839)
• ENH: Enable new BBRegister init options for FSv6+ (#1811)
• REF: Splits nipype.interfaces.utility into base, csv, and wrappers (#1828)
• FIX: Makespec now runs with nipype in current directory (#1813)
• FIX: Flexible nifti opening with mmap if Numpy < 1.12.0 (#1796 + #1831)
• ENH: DVARS includes intensity normalization feature - turned on by default (#1827)
• FIX: DVARS is correctly using sum of squares instead of standard deviation (#1827)
• ENH: Refactoring of nipype.interfaces.utility (#1828)
• FIX: CircleCI were failing silently. Some fixes to tests (#1833)
• FIX: Issues in Docker image permissions, and docker documentation (#1825)
• ENH: Revised all Dockerfiles and automated deployment to Docker Hub
  from CircleCI (#1815)
• ENH: Update ReconAll interface for FreeSurfer v6.0.0 (#1790)
• FIX: Cast DVARS float outputs to avoid memmap error (#1777)
• FIX: FSL FNIRT intensity mapping files (#1799)
• ENH: Additional outputs generated by FSL EDDY (#1793)
• TST: Parallelize CircleCI build across 4 containers (#1769)
• FIX: Compatibility with traits 4.6 (#1770)
• FIX: Multiproc deadlock (#1756)
• TST: Replace nose and unittest with pytest (#1722, #1751)
• FIX: Semaphore capture using MultiProc plugin (#1689)
• REF: Refactor AFNI interfaces (#1678, #1680)
• ENH: Move nipype commands to group command using click (#1608)
• FIX: AFNI Retroicor interface fixes (#1669)
• FIX: Minor errors after migration to setuptools (#1671)
• ENH: Add AFNI 3dNote interface (#1637)
• ENH: Abandon distutils, only use setuptools (#1627)
• FIX: Minor bugfixes related to unicode literals (#1656)
• TST: Automatic retries in travis (https://github.com/nipy/nipype/pull/1659/files)
• ENH: Add signal extraction interface (#1647)
• ENH: Add a DVARS calculation interface (#1606)
• ENH: New interface to b0calc of FSL-POSSUM (#1399)
• ENH: Add CompCor (#1599)
• ENH: Add duecredit entries (#1466)
• FIX: Python 3 compatibility fixes (#1572)
• REF: Improved PEP8 compliance for fsl interfaces (#1597)
• REF: Improved PEP8 compliance for spm interfaces (#1593)
• TST: Replaced coveralls with codecov (#1609)
• ENH: More BrainSuite interfaces (#1554)
• ENH: Convenient load/save of interface inputs (#1591)
• ENH: Add a Framewise Displacement calculation interface (#1604)
• FIX: Use builtins open and unicode literals for py3 compatibility (#1572)
• TST: reduce the size of docker images & use tags for images (#1564)
• ENH: Implement missing inputs/outputs in FSL AvScale (#1563)
• FIX: Fix symlink test in copyfile (#1570, #1586)
• ENH: Added support for custom job submission check in SLURM (#1582)
• ENH: Added ANTs interface CreateJacobianDeterminantImage; replaces deprecated JacobianDeterminant
  (#1654)

0.13.0 Release candidate 1

Merge pull request #1772 from satra/rel/0.13.0-rc1

Rel/0.13.0 rc1

Patch to disable psutils by default

Release 0.12.1 (August 3, 2016)

• FIX: runtime profiling is optional and off by default (#1561)
• TST: circle CI tests run with docker (#1541)
• FIX: workflow export functions without import error (#1552)

0.12.0

Release 0.12.0 (July 12, 2016)

• ENH: New interface for Bruker to Nifti converter (#1523)
• FIX: output file naming for FIRST outputs (#1524)
• ENH: Adds fslmaths -Tstd to maths interfaces (#1518)
• FIX: Selecting "gamma" in FSL Level1Design now does what the name says (#1500)
• ENH: Added grad_dev input to fsl.dti.bedpostx5 interface(#1493)
• ENH: ResourceMultiProc plugin to support resource allocation (#1372)
• ENH: Added dcm2niix interface (#1435)
• ENH: Add nipype_crash_search command (#1422)
• ENH: Created interface for BrainSuite Cortical Surface Extraction command line tools (#1305)
• FIX: job execution on systems/approaches where locale is undefined (#1401)
• FIX: Clean up byte/unicode issues using subprocess (#1394)
• FIX: Prevent crash when tvtk is loaded - ETS_TOOLKIT=null (#973)
• ENH: New interfaces in dipy: RESTORE, EstimateResponseSH, CSD and StreamlineTractography
  (#1090)
• ENH: Added interfaces of AFNI (#1360,
  #1361, #1382)
• ENH: Provides a Nipype wrapper for antsJointFusion (#1351)
• ENH: Added support for PETPVC (#1335)
• ENH: Merge S3DataSink into DataSink, added AWS documentation (#1316)
• TST: Cache APT in CircleCI (#1333)
• ENH: Add new flags to the BRAINSABC for new features (#1322)
• ENH: Provides a Nipype wrapper for ANTs DenoiseImage (#1291)
• FIX: Minor bugfix logging hash differences (#1298)
• FIX: Use released Prov python library (#1279)
• ENH: Support for Python 3 (#1221)
• FIX: VTK version check missing when using tvtk (#1219)
• ENH: Added an OAR scheduler plugin (#1259)
• ENH: New ANTs interface: antsBrainExtraction (#1231)
• API: Default model level for the bedpostx workflow has been set to "2" following FSL 5.0.9 lead
• ENH: New interfaces for interacting with AWS S3: S3DataSink and S3DataGrabber (#1201)
• ENH: Interfaces for MINC tools (#1304)
• FIX: Use realpath to determine hard link source (#1388)
• FIX: Correct linking/copying fallback behavior (#1391)
• ENH: Nipype workflow and interfaces for FreeSurfer's recon-all (#1326)
• FIX: Permit relative path for concatenated_file input to Concatenate() (#1411)
• ENH: Makes ReconAll workflow backwards compatible with FreeSurfer 5.3.0 (#1434)
• ENH: Added interfaces for AFNI 3dDegreeCentrality, 3dECM, 3dLFCD, 3dClipLevel, 3dmask_tool, and 3dSeg
  (#1460)

0.12.0 - Release Candidate 2

Release 0.12.0-rc2 (June 19, 2016)

• ENH: Adds fslmaths -Tstd to maths interfaces (#1518)
• FIX: Selecting "gamma" in FSL Level1Design now does what the name says (#1500)
• ENH: Added grad_dev input to fsl.dti.bedpostx5 interface(#1493)
• ENH: ResourceMultiProc plugin to support resource allocation (#1372)
• ENH: Added dcm2niix interface (#1435)
• ENH: Add nipype_crash_search command (#1422)
• ENH: Created interface for BrainSuite Cortical Surface Extraction command line tools (#1305)
• FIX: job execution on systems/approaches where locale is undefined (#1401)
• FIX: Clean up byte/unicode issues using subprocess (#1394)
• FIX: Prevent crash when tvtk is loaded - ETS_TOOLKIT=null (#973)
• ENH: New interfaces in dipy: RESTORE, EstimateResponseSH, CSD and StreamlineTractography
  (#1090)
• ENH: Added interfaces of AFNI (#1360,
  #1361, #1382)
• ENH: Provides a Nipype wrapper for antsJointFusion (#1351)
• ENH: Added support for PETPVC (#1335)
• ENH: Merge S3DataSink into DataSink, added AWS documentation (#1316)
• TST: Cache APT in CircleCI (#1333)
• ENH: Add new flags to the BRAINSABC for new features (#1322)
• ENH: Provides a Nipype wrapper for ANTs DenoiseImage (#1291)
• FIX: Minor bugfix logging hash differences (#1298)
• FIX: Use released Prov python library (#1279)
• ENH: Support for Python 3 (#1221)
• FIX: VTK version check missing when using tvtk (#1219)
• ENH: Added an OAR scheduler plugin (#1259)
• ENH: New ANTs interface: antsBrainExtraction (#1231)
• API: Default model level for the bedpostx workflow has been set to "2" following FSL 5.0.9 lead
• ENH: New interfaces for interacting with AWS S3: S3DataSink and S3DataGrabber (#1201)
• ENH: Interfaces for MINC tools (#1304)
• FIX: Use realpath to determine hard link source (#1388)
• FIX: Correct linking/copying fallback behavior (#1391)
• ENH: Nipype workflow and interfaces for FreeSurfer's recon-all (#1326)
• FIX: Permit relative path for concatenated_file input to Concatenate() (#1411)
• ENH: Makes ReconAll workflow backwards compatible with FreeSurfer 5.3.0 (#1434)
• ENH: Added interfaces for AFNI 3dDegreeCentrality, 3dECM, 3dLFCD, 3dClipLevel, 3dmask_tool, and 3dSeg
  (#1460)

Release candidate 1 for version 0.12.0

Release 0.12.0-rc1 (April 20, 2016)

• ENH: Add nipype_crash_search command (#1422)
• ENH: Created interface for BrainSuite Cortical Surface Extraction command line tools (#1305)
• FIX: job execution on systems/approaches where locale is undefined (#1401)
• FIX: Clean up byte/unicode issues using subprocess (#1394)
• FIX: Prevent crash when tvtk is loaded - ETS_TOOLKIT=null (#973)
• ENH: New interfaces in dipy: RESTORE, EstimateResponseSH, CSD and StreamlineTractography
  (#1090)
• ENH: Added interfaces of AFNI (#1360,
  #1361, #1382)
• ENH: Provides a Nipype wrapper for antsJointFusion (#1351)
• ENH: Added support for PETPVC (#1335)
• ENH: Merge S3DataSink into DataSink, added AWS documentation (#1316)
• TST: Cache APT in CircleCI (#1333)
• ENH: Add new flags to the BRAINSABC for new features (#1322)
• ENH: Provides a Nipype wrapper for ANTs DenoiseImage (#1291)
• FIX: Minor bugfix logging hash differences (#1298)
• FIX: Use released Prov python library (#1279)
• ENH: Support for Python 3 (#1221)
• FIX: VTK version check missing when using tvtk (#1219)
• ENH: Added an OAR scheduler plugin (#1259)
• ENH: New ANTs interface: antsBrainExtraction (#1231)
• API: Default model level for the bedpostx workflow has been set to "2" following FSL 5.0.9 lead
• ENH: New interfaces for interacting with AWS S3: S3DataSink and S3DataGrabber (#1201)
• ENH: Interfaces for MINC tools (#1304)
• FIX: Use realpath to determine hard link source (#1388)
• FIX: Correct linking/copying fallback behavior (#1391)
• ENH: Nipype workflow and interfaces for FreeSurfer's recon-all (#1326)
• FIX: Permit relative path for concatenated_file input to Concatenate() (#1411)
• ENH: Makes ReconAll workflow backwards compatible with FreeSurfer 5.3.0 (#1434)

Release 0.11.0

• API: Change how hash values are computed (#1174)
• ENH: New algorithm: mesh.WarpPoints applies displacements fields to point sets
  (#889).
• ENH: New interfaces for MRTrix3 (#1126)
• ENH: New option in afni.3dRefit - zdel, ydel, zdel etc. (#1079)
• FIX: ants.Registration composite transform outputs are no longer returned as lists (#1183)
• BUG: ANTs Registration interface failed with multi-modal inputs
  (#1176) (#1175)
• ENH: dipy.TrackDensityMap interface now accepts a reference image (#1091)
• FIX: Bug in XFibres5 (#1168)
• ENH: Attempt to use hard links for data sink.
  (#1161)
• FIX: Updates to SGE Plugins
  (#1129)
• ENH: Add ants JointFusion() node with testing
  (#1160)
• ENH: Add --float option for antsRegistration calls
  (#1159)
• ENH: Added interface to simulate DWIs using the multi-tensor model
  (#1085)
• ENH: New interface for FSL fslcpgeom utility (#1152)
• ENH: Added SLURMGraph plugin for submitting jobs to SLURM with dependencies (#1136)
• FIX: Enable absolute path definitions in DCMStack (#1089,
  replaced by #1093)
• ENH: New mesh.MeshWarpMaths to operate on surface-defined warpings
  (#1016)
• FIX: Refactor P2PDistance, change name to ComputeMeshWarp, add regression tests,
  fix bug in area weighted distance, and added optimizations
  (#1016)
• ENH: Add an option not to resubmit Nodes that finished running when using SGEGraph (#1002)
• FIX: FUGUE is now properly listing outputs. (#978)
• ENH: Improved FieldMap-Based (FMB) workflow for correction of susceptibility distortions in EPI seqs.
  (#1019)
• FIX: In the FSLXcommand _list_outputs function fixed for loop range (#1071)
• ENH: Dropped support for now 7 years old Python 2.6 (#1069)
• FIX: terminal_output is not mandatory anymore (#1070)
• ENH: Added "nipype_cmd" tool for running interfaces from the command line (#795)
• FIX: Fixed Camino output naming (#1061)
• ENH: Add the average distance to ErrorMap (#1039)
• ENH: Inputs with name_source can be now chained in cascade (#938)
• ENH: Improve JSON interfaces: default settings when reading and consistent output creation
  when writing (#1047)
• FIX: AddCSVRow problems when using infields (#1028)
• FIX: Removed unused ANTS registration flag (#999)
• FIX: Amend create_tbss_non_fa() workflow to match FSL's tbss_non_fa command. (#1033)
• FIX: remove unused mandatory flag from spm normalize (#1048)
• ENH: Update ANTSCorticalThickness interface (#1013)
• FIX: Edge case with sparsemodels and PEP8 cleanup (#1046)
• ENH: New io interfaces for JSON files reading/writing (#1020)
• ENH: Enhanced openfmri script to support freesurfer linkage (#1037)
• BUG: matplotlib is supposed to be optional (#1003)
• FIX: Fix split_filename behaviour when path has no file component (#1035)
• ENH: Updated FSL dtifit to include option for grad non-linearities (#1032)
• ENH: Updated Camino tracking interfaces, which can now use FSL bedpostx output.
  New options also include choice of tracker, interpolator, stepsize and
  curveinterval for angle threshold (#1029)
• FIX: Interfaces redirecting X crashed if $DISPLAY not defined (#1027)
• FIX: Bug crashed 'make api' (#1026)
• ENH: Updated antsIntroduction to handle RA and RI registrations (#1009)
• ENH: Updated N4BiasCorrection input spec to include weight image and spline order. Made
  argument formatting consistent. Cleaned ants.segmentation according to PEP8.
  (https://github.com/nipy/nipype/pull/990/files)
• ENH: SPM12 Normalize interface (#986)
• FIX: Utility interface test dir (#986)
• FIX: IPython engine directory reset after crash (#987)
• ENH: Resting state fMRI example with NiPy realignment and no SPM (#992)
• FIX: Corrected Freesurfer SegStats _list_outputs to avoid error if summary_file is
  undefined (issue #994)(https://https://github.com/nipy/nipype/pull/996)
• FIX: OpenfMRI support and FSL 5.0.7 changes (#1006)
• FIX: Output prefix in SPM Normalize with modulation (#1023)
• ENH: Usability improvements in cluster environments (#1025)
• ENH: ANTs JointFusion() (#1042)
• ENH: Added csvReader() utility (#1044)
• FIX: typo in nipype.interfaces.freesurfer.utils.py Tkregister2 (#1083)
• FIX: SSHDataGrabber outputs now return full path to the grabbed/downloaded files. (#1086)
• FIX: Add QA output for TSNR to resting workflow (#1088)
• FIX: Change N4BiasFieldCorrection to use short tag for dimensionality (backward compatible) (#1096)
• ENH: Added -newgrid input to Warp in AFNI (3dWarp wrapper) (#1128)
• FIX: Fixed AFNI Copy interface to use positional inputs as required (#1131)
• ENH: Added a check in Dcm2nii to check if nipype created the config.ini file and remove if true (#1132)
• ENH: Use a while loop to wait for Xvfb (up to a max wait time "xvfb_max_wait" in config file, default 10)
  (#1142)