v0.1.18 -- Minor updates for CRAN

v0.1.18

• Change some minor docstring issues in internal functions (requested by CRAN team)

Mostly CRAN fixes

Version 0.1.17

• Introduce 'default_label_name' parameter to read.fs.annot, better doc string for the same function.
• Add function fs.surface.to.tmesh3d to transform an fs.surface mesh datastructure into an RGL tmesh datastructure. This method does not require rgl.
• Replace all 'donttest' in examples with 'dontrun' so CRAN does not run them.

Small fixes and improvements, support Palm output files

Version 0.1.16

• Add experimental support for reading and writing Brainvoyager SMP files in format versions 4 and 5
• Add and export vertexdists.to.point function
• Allow MGH reading function to work with broken MGH files that contain no valid RAS header values but still claim so by setting the ras_valid flag in the header to 1. Allows to work with files written by palm.
• Add some new example usage scripts in the GitHub repository
• Fix bug #25
• Add 2 extra params to read.fs.surface.asc to make it more flexible

CRAN maintenance and some new helper functions

Version 0.1.15

• disable all unit tests that require downloaded data on CRAN
• add Euclidean distance util functions for surface vertices, like vertexdists.to.point and closest.vert.to.point
• add doapply.transform.mtx function (it's just matrix multiplication with some input checks that are annoying to repeat)

DTI track format support: TCK and TRK

This release adds support for 2 different Diffusion Tensor Imaging file formats:

• the MRtrix TCK format (in function read.dti.tck) and
• the trk format used by the Diffusion Toolkit and TrackVis in (function read.dti.trk).

I would have waited longer, but a release was needed for technical reasons related to CRAN.

The Nifti Release

Version 0.1.13

• support reading and writing Wavefront object files with non-standard vertex colors
• support reading NIFTI v1 files with FreeSurfer hack through our own, new NIFTI v1 reader. See read.nifti1.header() and read.nifti1.data() functions.
• support reading NIFTI v2 files through our own, new NIFTI v2 reader. See read.nifti2.header() and read.nifti2.data() functions.
• support writing NIFTI v1 files, see write.nifti1() and ni1header.for.data() functions.
• support writing NIFTI v2 files, see write.nifti2() and ni2header.for.data() functions.
• add function to check whether a file is in NIFTI v1 or NIFTI v2 format, see nifti.file.version() function.
• the read.fs.morph() function can now handle morphometry data files in NIFTI v1 format, including files with the FreeSurfer hack.
• the read.fs.morph() function can now handle morphometry data files in NIFTI v2 format.

More mesh formats, Brainvoyager support, transforms

Version 0.1.12

• add support for reading meshes in GEO format
• add support for reading meshes in TRI format (also known as ICO mesh format)
• add support for reading meshes in OFF format, the Object File Format
• add support for reading meshes in OBJ format, the Wavefront object format
• add support for writing FreeSurfer patch files in the ASCII format version
• add support for reading and writing meshes in Brainvoyager SRF format
• add support for reading and writing morphometry data maps in Brainvoyager SMP format
• add many unit tests and test files, use covr
• deprecate (imo) useless parameter 'empty_label_name' to read.fs.annot. using it will show a deprecation notice. (Please open issue if you feel you need it.)
• add experimental support for CIFTI v2 morphometry data files (.dscalar.nii), based on the 'cifti' package by J. Muschelli
• add support for reading transformation matrices from files in LTA and register.dat formats

Transforms, more mesh formats and better GIFTI support

Version 0.1.11

• export readable.files function
• support reading and writing meshes in mz3 format
• support writing PLY2 ASCII mesh format
• support reading mesh in BYU format
• support automatic conversion of quadrangular BYU meshes to triangular upon import
• add support for reading GIFTI format labels
• add support for reading GIFTI format annotations
• add support for writing GIFTI format labels
• add support for writing GIFTI format annotations
• export rotate2D and flip2D to namespace
• add support for reading transformation matrices from xfm files: read.fs.transform
• rename all optional data functions: replace optional_data with opt_data in function names to prevent clash with fsbrain names

NIFTI, GIFTI, mesh exports!

Version 0.1.10

• read.fs.label improvement: do not increment indices for volume labels, better print support for them
• support exporting surface meshes in Stanford triangle format (.ply)
• support reading surface meshes in Stanford triangle format (.ply)
• support exporting surface meshes in Wavefront object format (.obj)
• support exporting surface meshes in Object File Format (.off)
• support reading surface meshes in PLY format, including Blender exports with vertex colors and normals
• add general GIFTI writer (requires xml2)
• add support for writing surfaces in GIFTI format
• add read.fs.volume() function that support MGH, MGZ and NIFTI formats
• add experimental support for reading NIFTI volumes as fs.volume instances (via oro.nifti package), including header computation

More surface formats

• Add support for reading and writing VTK meshes
• support a simple txt morphometry data format

see CHANGES file for more details