@@ -652,8 +652,8 @@ Enhancements
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Bug fixes
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---------
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- * Preserve first point of ` LazyTractogram ` (pr/588) (MC, reviewed by Nil
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- Goyette, CM, MB)
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+ * Preserve first point of :py:class: ` ~nibabel.streamlines. LazyTractogram `
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+ (pr/588) (MC, reviewed by Nil Goyette, CM, MB)
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* Stop adding extraneous metadata padding (pr/593) (Jon Stutters, reviewed by
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CM, MB)
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* Accept lower-case orientation codes in TRK files (pr/600) (Kesshi Jordan,
@@ -727,7 +727,7 @@ Enhancements
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* Support for alternative header field name variants in .PAR files
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(pr/507) (Gregory R. Lee)
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* Various enhancements to streamlines API by MC: support for reading TRK
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- version 1 (pr/512); concatenation of tractograms using `+ `/` += ` operators
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+ version 1 (pr/512); concatenation of tractograms using `` + ``/`` += ` ` operators
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(pr/495); function to concatenate multiple ArraySequence objects (pr/494)
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* Support for numpy 1.12 (pr/500, pr/502) (MC, MB)
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* Allow dtype specifiers as fileslice input (pr/485) (MB)
@@ -807,7 +807,7 @@ Enhancements
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(Brendan Moloney);
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* More explicit error when trying to read image from non-existent file
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(pr/455) (Ariel Rokem);
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- * Extension to `nib-ls ` command to show image statistics (pr/437) and other
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+ * Extension to `` nib-ls ` ` command to show image statistics (pr/437) and other
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header files (pr/348) (Yarik Halchenko).
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Bug fixes
@@ -1100,7 +1100,7 @@ Special thanks to Chris Burns, Jarrod Millman and Yaroslav Halchenko.
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* ``parrec2nii `` script to convert PAR/REC images to NIfTI format (MH)
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* Very preliminary, limited and highly experimental DICOM reading support (MB,
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Ian Nimmo Smith).
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- * Some functions (`nibabel.funcs `) for basic image shape changes, including
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+ * Some functions (:py:mod: `nibabel.funcs `) for basic image shape changes, including
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the ability to transform to the image with data closest to the cononical
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image orientation (first axis left-to-right, second back-to-front, third
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down-to-up) (MB, Jonathan Taylor)
@@ -1143,7 +1143,7 @@ visiting the URL::
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* Bugfix: Removed left-over print statement in extension code.
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* Bugfix: Prevent saving of bogus 'None.nii' images when the filename
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was previously assign, before calling NiftiImage.save() (Closes: #517920).
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- * Bugfix: Extension length was to short for all `edata ` whose length matches
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+ * Bugfix: Extension length was to short for all `` edata ` ` whose length matches
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n*16-8, for all integer n.
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0.20090205.1 (Thu, 5 Feb 2009)
@@ -1152,13 +1152,13 @@ visiting the URL::
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* This release is the first in a series that aims stabilize the API and
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finally result in PyNIfTI 1.0 with full support of the NIfTI1 standard.
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* The whole package was restructured. The included renaming
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- `nifti.nifti(image,format,clibs) ` to `nifti.(image,format,clibs) `. Redirect
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+ `` nifti.nifti(image,format,clibs) `` to `` nifti.(image,format,clibs) ` `. Redirect
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modules make sure that existing user code will not break, but they will
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issue a DeprecationWarning and will be removed with the release of PyNIfTI
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1.0.
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* Added a special extension that can embed any serializable Python object
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into the NIfTI file header. The contents of this extension is
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- automatically expanded upon request into the `.meta ` attribute of each
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+ automatically expanded upon request into the `` .meta ` ` attribute of each
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NiftiImage. When saving files to disk the content of the dictionary is also
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automatically dumped into this extension.
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Embedded meta data is not loaded automatically, since this has security
@@ -1173,11 +1173,11 @@ visiting the URL::
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* Added methods :meth: `~nifti.format.NiftiFormat.vx2q ` and
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:meth: `~nifti.format.NiftiFormat.vx2s ` to convert voxel indices into
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coordinates defined by qform or sform respectively.
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- * Updating the `cal_min ` and `cal_max ` values in the NIfTI header when
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+ * Updating the `` cal_min `` and `` cal_max ` ` values in the NIfTI header when
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saving a file is now conditional, but remains enabled by default.
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* Full set of methods to query and modify axis units. This includes
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- expanding the previous `xyzt_units ` field in the header dictionary into
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- editable `xyz_unit ` and `time_unit ` fields. The former `xyzt_units ` field
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+ expanding the previous `` xyzt_units ` ` field in the header dictionary into
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+ editable `` xyz_unit `` and `` time_unit `` fields. The former `` xyzt_units ` ` field
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is no longer available. See:
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:meth: `~nifti.format.NiftiFormat.getXYZUnit `,
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:meth: `~nifti.format.NiftiFormat.setXYZUnit `,
@@ -1193,19 +1193,19 @@ visiting the URL::
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:attr: `~nifti.format.NiftiFormat.qform_code `,
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:attr: `~nifti.format.NiftiFormat.sform_code `
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* Each image instance is now able to generate a human-readable dump of its
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- most important header information via `__str__() `.
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+ most important header information via `` __str__() ` `.
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* :class: `~nifti.image.NiftiImage ` objects can now be pickled.
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* Switched to NumPy's distutils for building the package. Cleaned and
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simplified the build procedure. Added optimization flags to SWIG call.
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* :attr: `nifti.image.NiftiImage.filename ` can now also be used to assign a
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filename.
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* Introduced :data: `nifti.__version__ ` as canonical version string.
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- * Removed `updateQFormFromQuarternion() ` from the list of public methods of
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+ * Removed `` updateQFormFromQuarternion() ` ` from the list of public methods of
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:class: `~nifti.format.NiftiFormat `. This is an internal method that
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should not be used in user code. However, a redirect to the new method
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will remain in-place until PyNIfTI 1.0.
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* Bugfix: :meth: `~nifti.image.NiftiImage.getScaledData ` returns a
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- unmodified data array if `slope ` is set to zero (as required by the NIfTI
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+ unmodified data array if `` slope ` ` is set to zero (as required by the NIfTI
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standard). Thanks to Thomas Ross for reporting.
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* Bugfix: Unicode filenames are now handled properly, as long as they do not
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contain pure-unicode characters (since the NIfTI library does not support
@@ -1259,9 +1259,9 @@ visiting the URL::
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Thyreau for reporting.
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* Bugfix: setPixDims() stored meaningless values.
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* Use new NumPy API and replace deprecated function calls
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- (`PyArray_FromDimsAndData `).
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+ (`` PyArray_FromDimsAndData ` `).
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* Initial support for memory mapped access to uncompressed NIfTI files
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- (`MemMappedNiftiImage `).
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+ (`` MemMappedNiftiImage ` `).
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* Add a proper Makefile and setup.cfg for compiling PyNIfTI under Windows
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with MinGW.
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* Include a minimal copy of the most recent nifticlibs (just libniftiio and
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