Tags: DentonGentry/nipype
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1.4.1 (January 27, 2020) Full changelog: https://github.com/nipy/nipype/milestone/1.4.1?closed=1 * FIX: DataSink to S3 buckets (nipy#3130) * FIX: improve version checking for nodes of workflows (nipy#3152) * FIX: mapnode to generate result file when crashes in single node mode (nipy#3143) * FIX: Can't seem to import workflows from niflows in CircleCI (nipy#3134) * FIX: Repair aftermath of docs refactor (nipy#3133) * FIX: change ANTS number_of_time_steps from Float to Int (nipy#3118) * DOC: Revise generation of examples to work in RTD (nipy#3132) * DOC: Bring examples generation back to ``doc/conf.py`` (nipy#3131) * DOC: Documentation overhaul (nipy#3124) * DOC: Deep revision of documentation building (nipy#3120) * DOC: Deduplicate code for Sphinx's APIdoc generation (nipy#3119) * MNT: Update requirements.txt post-1.4 (nipy#3153)
1.4.0 (December 20, 2019) Full changelog: https://github.com/nipy/nipype/milestone/37?closed=1 * FIX: Mark strings containing regex escapes as raw (nipy#3106) * ENH: Pacify DeprecationWarnings caused by nibabel 3 pre-release (nipy#3099) * ENH: Allow Nipype configuration directory to be specified with NIPYPE_CONFIG_DIR environment variable (nipy#3073) * ENH: Add options and outputs to ``fsl.Eddy`` interface (nipy#3034) * ENH: Add skull_file output to fsl.BET interface (nipy#3095) * RF: Drop various remaining compatibilities for Python < 3.5 (nipy#2831) * DOC: Add Python 2 statement to README, reference maintenance branch in CONTRIBUTING (nipy#3115) * DOC: Miss underline before cmd in example code (nipy#3107) * STY: Black (nipy#3096) * MNT: Set junit_family to suppress pytest warning (nipy#3111) * MNT: Fix Dorota Jarecka ORCID (nipy#3100) * MNT: Drop Python 2 support (nipy#2654)
1.3.0 (November 11, 2019) Full changelog: https://github.com/nipy/nipype/milestone/34?closed=1 * FIX: Fixed typo in QwarpInputSpec Trait description (nipy#3079) * FIX: Restore ``AFNICommand._get_fname``, required by some interfaces (nipy#3071) * FIX: Remove asynchronous chdir callback (nipy#3060) * FIX: Minimize scope for directory changes while loading results file (nipy#3061) * ENH: Minimize the number of calls to ``_load_results`` when populating inputs (nipy#3075) * ENH: Refactor savepkl/loadpkl - add a window for loadpkl to wait for the file (nipy#3089) * ENH: Add "ExportFile" interface as simple alternative to "DataSink" (nipy#3054) * ENH: Allow nipype.cfg in cwd to be read even if ~/.nipype does not exist (nipy#3072) * ENH: Add precommit information for contributors and pre-commit style (nipy#3063) * ENH: Delay etelemetry for non-interactive sessions, report bad versions (nipy#3049) * ENH: Run memoized check_version at REPL import, Node/Workflow/Interface init (nipy#30) * RF: Provide functions to augment old Path.mkdir, Path.resolve methods (nipy#3050) * RF: Redirect nipype.workflows to niflow.nipype1.workflows (nipy#3067) * TST: Skip dcm2niix test if data fails to download (nipy#3059) * TST: dcm2niix test fix (nipy#3058) * MAINT: Drop Python 3.4 support (nipy#3062) * CI: ``make specs`` on Travis (nipy#3066)
1.3.0-rc1 Release candidate for Nipype 1.3.0, released off-schedule to enable testing and allow downstream projects to move off of 1.2.3. Final release scheduled for Monday, October 28. Full changelog: https://github.com/nipy/nipype/milestone/34?closed=1 * FIX: Restore ``AFNICommand._get_fname``, required by some interfaces (nipy#3071) * FIX: Remove asynchronous chdir callback (nipy#3060) * FIX: Minimize scope for directory changes while loading results file (nipy#3061) * ENH: Add precommit information for contributors and pre-commit style (nipy#3063) * ENH: Delay etelemetry for non-interactive sessions, report bad versions (nipy#3049) * ENH: Run memoized check_version at REPL import, Node/Workflow/Interface init (nipy#30) * RF: Provide functions to augment old Path.mkdir, Path.resolve methods (nipy#3050) * RF: Redirect nipype.workflows to niflow.nipype1.workflows (nipy#3067) * TST: Skip dcm2niix test if data fails to download (nipy#3059) * TST: dcm2niix test fix (nipy#3058) * MAINT: Drop Python 3.4 support (nipy#3062) * CI: ``make specs`` on Travis (nipy#3066)
1.2.3 (September 23, 2019) Python 1.2.3 will be the last version to support Python 3.4. Full changelog: https://github.com/nipy/nipype/milestone/35?closed=1 * FIX: Patch Path.mkdir for Python 2 (nipy#3037) * FIX: Drop deprecated message argument to ``FileNotFoundError`` (nipy#3035) * FIX: Handle NIFTI extensions in ``afni.Qwarp`` (nipy#3028) * FIX: Disallow returning ``None`` in ``pipeline.utils.load_resultfile`` (nipy#3023) * ENH: Allow afni.CatMatvec to accept empty string opkeys (nipy#2943) * ENH: Add ``mrrtrix3.MRResize`` interface (nipy#3031) * ENH: Add version check / telemetry to Nipype (nipy#3027) * ENH: Update MCFLIRT outputs for FSL 6+ (nipy#3029) * ENH: Lightweight node cache checking (nipy#3026) * ENH: Avoid loading result from file when writing reports (nipy#3024) * ENH: replace portalocker with filelock (nipy#3025) * MAINT: Set minimum yapf for `checkspecs` to 0.27 (nipy#3033)
1.2.2 (September 07, 2019) Full changelog: https://github.com/nipy/nipype/milestone/33?closed=1 * FIX: Ensure ``loadpkl`` returns a not None value (nipy#3020) * FIX: ``loadpkl`` failed when pklz file contained versioning info (nipy#3017) * FIX: Update mne.WatershedBEM command line (nipy#3007) * FIX: Specify correct stop criterion flag in PETPVC (nipy#3010) * ENH: add interface for AFNI 3dTsmooth (nipy#2948) * ENH: Additional arguments to ANTs N4BiasFieldCorrection (nipy#3012) * ENH: Add ``--rescale-intensities`` and name_source to N4BiasFieldCorrection (nipy#3011) * ENH: Add index_mask_file input to ImageStats (nipy#3005) * RF: Remove versioning from loadpkl (nipy#3019) * MAINT: Add ``python_requires`` to package metadata (nipy#3006)
1.2.1 (August 19, 2019) Full changelog: https://github.com/nipy/nipype/milestone/32?closed=1 * FIX: Resolve/rebase paths from/to results files (nipy#2971) * FIX: Use ``load_resultfile`` when loading a results pickle (nipy#2985) * FIX: Incorrect extension identified when checking ``File`` traits (nipy#2987) * FIX: Correctly pickle ``OuputMultiObject`` traits (nipy#2983) * FIX: Improve output handling in DWIDenoise and DWIBiasCorrect (nipy#2978) * FIX: Docker build (nipy#2963) * FIX: Remove '=' signs from EddyQuad argument specifications (nipy#2941) * FIX: Set input model to bedpostx for camino.TrackBedpostxProba (nipy#2947) * FIX: Allow ``max_sh``not to be set (auto mode) (nipy#2940) * ENH: Update mrtrix reconst.py EstimateFOD max_sh to be able to accept list (nipy#2990) * ENH: Let ``indirectory`` handle ``nipype.utils.filemanip.Path`` (nipy#2989) * ENH: Add resolve/rebase ``BasePath`` traits methods & tests (nipy#2970) * ENH: Modify ``Directory`` and ``File`` traits to get along with pathlib (nipy#2962) * REF: Update nipype2boutiques script (nipy#2894) * TST: Parametrize JoinNode expansion tests over config ``needed_outputs`` (nipy#2981) * MAINT: Pin lxml<4.4.0 for Python 3.4 (nipy#2980) * MAINT: Refactor ``aggregate_outputs`` for readability (nipy#2969) * MAINT: Bump neurodocker version (nipy#2965) * MAINT: Various minor improvements to complement previous PR (nipy#2964) * MAINT: Sort dependencies alphabetically (nipy#2961)
1.2.0 (May 09, 2019) Full changelog: https://github.com/nipy/nipype/milestone/31?closed=1 * FIX: Parsing of filename in AlignEpiAnatPy when filename does not have + (nipy#2909) * FIX: Import nibabel reorientation bug fix (nipy#2912) * FIX: Update FNIRT outputs for warped_file log_file to include cwd (nipy#2900) * FIX: Sort conditions in bids_gen_info to ensure consistent order (nipy#2867) * FIX: Some traits-5.0.0 don't work with Python 2.7 (nipy#1) * ENH: CompCor enhancement (nipy#2878) * ENH: Do not override caught exceptions with FileNotFoundError from unfinished hashfile (nipy#2919) * ENH: More verbose description when a faulty results file is loaded (nipy#2920) * ENH: Add all DIPY workflows dynamically (nipy#2905) * ENH: Add mrdegibbs and dwibiascorrect from mrtrix3 (nipy#2904) * TEST: Fix CI builds (nipy#2927) * MAINT: Reduce deprecation warnings (nipy#2903)
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