Ecosyste.ms: Issues

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GitHub / nipy/nitransforms issues and pull requests

#187 - FIX: Postpone coordinate mapping on linear array transforms

Pull Request - State: closed - Opened by oesteban 8 months ago - 2 comments

#186 - FIX: Inefficient iterative reloading of reference and moving images

Pull Request - State: closed - Opened by oesteban 8 months ago - 1 comment

#185 - Mapping of displacement fields

Issue - State: open - Opened by jbanusco 8 months ago - 3 comments

#183 - Is nitransforms now a full replacement for c3d_affine_tool?

Issue - State: closed - Opened by effigies 11 months ago - 2 comments

#182 - output displacement fields

Pull Request - State: open - Opened by bpinsard 11 months ago

#181 - MNT: Drop Python 3.7 support, test through 3.11

Pull Request - State: closed - Opened by effigies 12 months ago - 3 comments

#180 - Fix: numpy deprecation errors after 1.22

Pull Request - State: closed - Opened by oesteban 12 months ago

#179 - ENH: Load ITK's ``.mat`` files with ``Affine``'s loaders

Pull Request - State: closed - Opened by oesteban 12 months ago - 1 comment

#178 - FIX: Ensure datatype of generated CIFTI2 file in ``TransformBase`` unit test

Pull Request - State: closed - Opened by oesteban about 1 year ago - 1 comment

#176 - FIX: Set x-forms on resampled images

Pull Request - State: closed - Opened by oesteban about 1 year ago - 1 comment

#175 - Resampled images do not properly set x-forms

Issue - State: closed - Opened by oesteban about 1 year ago

#174 - ENH: Read ITK's composite transforms with only affines

Pull Request - State: closed - Opened by oesteban over 1 year ago - 4 comments

#173 - Memory issues when resampling large 4D files

Issue - State: closed - Opened by oesteban over 1 year ago - 16 comments

#172 - MAINT: Rotate CircleCI secrets and setup up org-level context

Pull Request - State: closed - Opened by oesteban over 1 year ago - 1 comment

#171 - Incorrect dimension order with HDF5 warp field transforms

Issue - State: open - Opened by feilong over 1 year ago

#170 - ENH: Collapse linear and nonlinear transforms chains

Pull Request - State: open - Opened by oesteban almost 2 years ago - 2 comments

#168 - ENH: "Densify" voxel-wise nonlinear mappings with interpolation

Pull Request - State: closed - Opened by oesteban almost 2 years ago - 1 comment

#167 - Double-check ITK's `.h5` composites

Issue - State: open - Opened by oesteban almost 2 years ago

#166 - ENH: Extend the nonlinear transforms API

Pull Request - State: closed - Opened by oesteban almost 2 years ago - 9 comments

#165 - ENH: API change in ``TransformChain`` - new composition convention

Pull Request - State: closed - Opened by oesteban almost 2 years ago - 6 comments

#164 - MAINT: Loosen dependencies

Pull Request - State: closed - Opened by mgxd about 2 years ago - 10 comments

#163 - MAINT: Conclude migration ``poldracklab`` -> ``nipy``

Pull Request - State: closed - Opened by oesteban about 2 years ago - 1 comment

#161 - FIX: Wrong datatype used for offset when reading ITK's h5 fields.

Pull Request - State: closed - Opened by oesteban over 2 years ago

#160 - ENH: Guess open linear transform formats

Pull Request - State: closed - Opened by oesteban over 2 years ago - 7 comments

#159 - Add myself as a contributor

Pull Request - State: closed - Opened by HippocampusGirl over 2 years ago - 1 comment

#158 - Obliquity test does not capture rotations around only one axis

Issue - State: open - Opened by oesteban over 2 years ago
Labels: bug

#156 - Multi-level B-Spline displacements fields

Issue - State: open - Opened by oesteban over 2 years ago

#155 - Mapping off-grid points with the displacements field transform

Issue - State: closed - Opened by oesteban over 2 years ago
Labels: bug

#154 - B-Spline mapping of individual points is broken

Issue - State: open - Opened by oesteban over 2 years ago
Labels: bug

#153 - FIX: Ensure input dtype is kept after resampling

Pull Request - State: closed - Opened by oesteban over 2 years ago

#152 - ``transform.apply()`` does not keep the dtype of the input image

Issue - State: closed - Opened by oesteban over 2 years ago
Labels: bug

#151 - Fix #149 replace `_read_mat` with `scipy.io.loadmat`

Pull Request - State: closed - Opened by HippocampusGirl over 2 years ago - 3 comments

#150 - Implement AFNI's "deoblique" operation

Issue - State: closed - Opened by oesteban over 2 years ago

#149 - `DeprecationWarning` with scipy 1.8.0

Issue - State: closed - Opened by HippocampusGirl over 2 years ago - 4 comments

#148 - MAINT: Fix path to test summaries in CircleCI

Pull Request - State: closed - Opened by oesteban over 2 years ago

#146 - FIX: Add FSL-LTA-FSL regression tests

Pull Request - State: closed - Opened by oesteban over 2 years ago - 1 comment

#145 - FIX: Refactor of LTA implementation

Pull Request - State: closed - Opened by oesteban over 2 years ago - 2 comments

#144 - FIX: Increase FSL serialization precision

Pull Request - State: closed - Opened by effigies over 2 years ago

#143 - FIX: Load arrays of linear transforms from AFNI files

Pull Request - State: closed - Opened by oesteban over 2 years ago - 1 comment

#142 - FIX: Load arrays of linear transforms from FSL files

Pull Request - State: closed - Opened by oesteban over 2 years ago - 2 comments

#141 - FIX: Double-check dtypes within tests and increase RMSE tolerance

Pull Request - State: closed - Opened by oesteban over 2 years ago - 1 comment

#140 - MAINT: Move testdata on to gin.g-node.org & datalad

Pull Request - State: closed - Opened by oesteban over 2 years ago

#139 - MAINT: scipy-1.8, numpy-1.22 require python 3.8

Pull Request - State: closed - Opened by oesteban over 2 years ago

#138 - ENH: Base implementation of B-Spline transforms

Pull Request - State: closed - Opened by oesteban over 2 years ago - 3 comments

#137 - Problem applying h5-files from fmriprep outputs for reproduction of normalization

Issue - State: open - Opened by m-petersen over 2 years ago - 5 comments
Labels: bug

#136 - DOC: Add zenodo metadata record

Pull Request - State: closed - Opened by oesteban almost 3 years ago

#135 - FIX: Final edits to JOSS submission

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 1 comment

#134 - ENH: Add more comprehensive comments to notebook

Pull Request - State: closed - Opened by oesteban almost 3 years ago

#133 - DOC: Better document the ipython notebooks

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 2 comments

#132 - FIX: Add mention to potential alternatives in JOSS submission

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 1 comment

#131 - DOC: Transfer CoC from NiBabel

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 1 comment

#130 - DOC: Add contributing page to RTD

Pull Request - State: closed - Opened by mgxd almost 3 years ago - 1 comment

#129 - FIX: Misinterpretation of voxel ordering in LTAs

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 4 comments

#128 - DOC: Clarify integration plans with *NiBabel* in the README

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 1 comment

#127 - DOC: Add CONTRIBUTING.md file pointing at NiBabel

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 2 comments

#126 - DOC: Add example notebooks to sphinx documentation

Pull Request - State: closed - Opened by mgxd almost 3 years ago - 2 comments

#125 - BUG: Errors reading LTAs, especially interpreting VOX2VOX type

Issue - State: closed - Opened by oesteban almost 3 years ago - 1 comment
Labels: bug

#124 - FIX: Invalid DOI

Pull Request - State: closed - Opened by mgxd almost 3 years ago - 1 comment

#123 - JOSS review - software

Issue - State: closed - Opened by robbisg almost 3 years ago - 3 comments

#122 - DOC: Add an *Installation* section

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 3 comments

#121 - FIX: Suggested edits to the JOSS submission

Pull Request - State: closed - Opened by oesteban almost 3 years ago - 4 comments

#120 - DOC: Display API per module

Pull Request - State: closed - Opened by mgxd almost 3 years ago

#119 - JOSS review - software paper sections

Issue - State: closed - Opened by PeerHerholz almost 3 years ago

#118 - JOSS review - current state & integration to NiBabel

Issue - State: closed - Opened by PeerHerholz almost 3 years ago - 9 comments

#117 - FIX: Implement AFNI's deoblique operations

Pull Request - State: closed - Opened by oesteban about 3 years ago - 9 comments

#116 - DOC: Update sphinx to latest major (4.0)

Pull Request - State: closed - Opened by oesteban about 3 years ago

#115 - Help with installation and tutorial

Issue - State: closed - Opened by cauzzo-s5 about 3 years ago - 2 comments
Labels: documentation, question

#114 - DOC: Initial setup for sphinx-build

Pull Request - State: closed - Opened by oesteban about 3 years ago - 1 comment

#113 - Skip duplicate actions

Issue - State: closed - Opened by oesteban about 3 years ago - 1 comment
Labels: help wanted

#112 - MAINT: Move from TravisCI to GHA

Pull Request - State: closed - Opened by oesteban about 3 years ago - 3 comments

#110 - Integration into NiBabel

Issue - State: open - Opened by oesteban about 3 years ago

#109 - Identify missing formats and finalize automagic loading

Issue - State: closed - Opened by oesteban about 3 years ago

#108 - Resampling of mixed volume+surface data

Issue - State: open - Opened by oesteban about 3 years ago

#107 - Resampling of surfaces

Issue - State: closed - Opened by oesteban about 3 years ago

#106 - Bring B-Spline interpolation code from SDCFlows

Issue - State: closed - Opened by oesteban about 3 years ago

#105 - Slice-timing correction representation

Issue - State: open - Opened by effigies about 3 years ago - 4 comments

#104 - MAINT: Revise tests and Docker image dependencies

Pull Request - State: closed - Opened by oesteban about 3 years ago

#103 - CI is broken

Issue - State: closed - Opened by oesteban about 3 years ago
Labels: bug

#102 - FIX: Accept double precision when reading ANTs' ``.mat`` affines

Pull Request - State: closed - Opened by oesteban over 3 years ago - 4 comments

#100 - Integrate code from regtricks?

Issue - State: closed - Opened by tomfrankkirk almost 4 years ago - 7 comments

#99 - DRY: fslpy has some transform implementations

Issue - State: closed - Opened by effigies almost 4 years ago - 3 comments

#98 - docs: add split steps for figure 1, revise png versions [skip ci]

Pull Request - State: closed - Opened by oesteban almost 4 years ago - 1 comment

#95 - FIX: ITK .h5 transforms read in reverse order

Pull Request - State: closed - Opened by oesteban almost 4 years ago - 1 comment

#94 - Transforming streamlines

Issue - State: open - Opened by arokem about 4 years ago - 2 comments

#87 - Guess ITK-type with extension on load: ``.tfm``, ``.mat``, ``.h5``

Issue - State: closed - Opened by oesteban over 4 years ago - 1 comment

#86 - Guess transform type with extension on load: ``.lta``

Issue - State: closed - Opened by oesteban over 4 years ago
Labels: enhancement

#81 - Ordering of tranforms in TransformChain

Issue - State: closed - Opened by oesteban over 4 years ago
Labels: TBD

#76 - Mappings of nonlinear transforms

Issue - State: open - Opened by oesteban over 4 years ago

#73 - Add tests for FSL-LTA-FSL conversions

Issue - State: closed - Opened by oesteban over 4 years ago

#63 - FIX: Amend some error types

Pull Request - State: closed - Opened by oesteban over 4 years ago - 3 comments

#62 - Consider renaming `LinearTransformArray` to `FSLinearTransformArray`

Issue - State: closed - Opened by mgxd over 4 years ago - 1 comment