From 1fa560075a02cb4e81970a235be1b0eb8bb8106f Mon Sep 17 00:00:00 2001 From: Chris Markiewicz Date: Wed, 16 Sep 2020 12:18:14 -0400 Subject: [PATCH 1/4] MNT: Update mailmap --- .mailmap | 11 +++++++++-- 1 file changed, 9 insertions(+), 2 deletions(-) diff --git a/.mailmap b/.mailmap index b193b57fd2..d7f7b6f4f3 100644 --- a/.mailmap +++ b/.mailmap @@ -36,9 +36,13 @@ Gael Varoquaux GaelVaroquaux Gregory R. Lee Ian Nimmo-Smith Ian Nimmo-Smith Jaakko Leppäkangas jaeilepp +Jakub Kaczmarzyk +Jakub Kaczmarzyk Jasper J.F. van den Bosch Jasper Jean-Baptiste Poline jbpoline Jon Haitz Legarreta Jon Haitz Legarreta Gorroño +Jonathan Daniel +Jonathan Daniel <36337649+jond01@users.noreply.github.com> Kesshi Jordan kesshijordan Kevin S. Hahn Kevin S. Hahn Konstantinos Raktivan constracti @@ -46,11 +50,14 @@ Krish Subramaniam Krish Subramaniam Krzysztof J. Gorgolewski Marc-Alexandre Côté Marc-Alexandre Cote -Mathias Goncalves mathiasg +Mathias Goncalves +Mathias Goncalves Matthew Cieslak Matt Cieslak Michael Hanke Michael Hanke -Michiel Cottaar Michiel Cottaar +Michiel Cottaar +Michiel Cottaar +Michiel Cottaar Ly Nguyen lxn2 Oliver P. Hinds ohinds Or Duek From 7da8b8945ea69239f4a2a35680385006110c5a7e Mon Sep 17 00:00:00 2001 From: Chris Markiewicz Date: Fri, 16 Oct 2020 15:38:34 -0400 Subject: [PATCH 2/4] DOC: Note new minimum Numpy --- doc/source/installation.rst | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/doc/source/installation.rst b/doc/source/installation.rst index 4fb01ba5ab..22eb22e872 100644 --- a/doc/source/installation.rst +++ b/doc/source/installation.rst @@ -84,7 +84,7 @@ Requirements .. check these against setup.cfg * Python_ 3.6 or greater -* NumPy_ 1.13 or greater +* NumPy_ 1.14 or greater * Packaging_ 14.3 or greater * SciPy_ (optional, for full SPM-ANALYZE support) * h5py_ (optional, for MINC2 support) From 76a9cfd7411d648e5a23270c4d72a7b25c5168fc Mon Sep 17 00:00:00 2001 From: Chris Markiewicz Date: Tue, 20 Oct 2020 08:00:00 -0400 Subject: [PATCH 3/4] MNT: Update author list, zenodo ordering --- .zenodo.json | 36 ++++++++++++++++++++++++------------ doc/source/index.rst | 4 ++++ 2 files changed, 28 insertions(+), 12 deletions(-) diff --git a/.zenodo.json b/.zenodo.json index af3344634a..c385c61efa 100644 --- a/.zenodo.json +++ b/.zenodo.json @@ -48,16 +48,16 @@ "name": "Cottaar, Michiel", "orcid": "0000-0003-4679-7724" }, - { - "affiliation": "MIT, HMS", - "name": "Ghosh, Satrajit", - "orcid": "0000-0002-5312-6729" - }, { "affiliation": "University of Washington: Seattle, WA, United States", "name": "Larson, Eric", "orcid": "0000-0003-4782-5360" }, + { + "affiliation": "MIT, HMS", + "name": "Ghosh, Satrajit", + "orcid": "0000-0002-5312-6729" + }, { "affiliation": "Athena EPI, Inria Sophia-Antipolis", "name": "Wassermann, Demian", @@ -95,6 +95,9 @@ { "name": "Duek, Or" }, + { + "name": "Daniel, Jonathan" + }, { "affiliation": "The University of Washington eScience Institute", "name": "Rokem, Ariel", @@ -104,10 +107,10 @@ "name": "Madison, Cindee" }, { - "name": "Morency, F\u00e9lix C." + "name": "Moloney, Brendan" }, { - "name": "Moloney, Brendan" + "name": "Morency, F\u00e9lix C." }, { "affiliation": "MIT", @@ -167,6 +170,9 @@ "name": "Raamana, Pradeep Reddy", "orcid": "0000-0003-4662-0558" }, + { + "name": "Klug, Julian" + }, { "affiliation": "SRI International", "name": "Nichols, B. Nolan", @@ -195,6 +201,11 @@ { "name": "Koudoro, Serge" }, + { + "affiliation": "University College London", + "name": "P\u00e9rez-Garc\u00eda, Fernando", + "orcid": "0000-0001-9090-3024" + }, { "name": "Oosterhof, Nikolaas N." }, @@ -282,16 +293,14 @@ "name": "Thirion, Bertrand", "orcid": "0000-0001-5018-7895" }, + { + "name": "Gauthier, Carl" + }, { "affiliation": "CEA", "name": "Papadopoulos Orfanos, Dimitri", "orcid": "0000-0002-1242-8990" }, - { - "affiliation": "University College London", - "name": "P\u00e9rez-Garc\u00eda, Fernando", - "orcid": "0000-0001-9090-3024" - }, { "name": "Solovey, Igor" }, @@ -315,6 +324,9 @@ "affiliation": "National Technical University of Athens, Greece", "name": "Raktivan, Konstantinos" }, + { + "name": "Cal\u00e1bkov\u00e1, Mark\u00e9ta" + }, { "affiliation": "Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg, Erlangen, Germany", "name": "Fischer, Peter", diff --git a/doc/source/index.rst b/doc/source/index.rst index c7c9c2aec2..1bbc0baf15 100644 --- a/doc/source/index.rst +++ b/doc/source/index.rst @@ -110,6 +110,10 @@ contributed code and discussion (in rough order of appearance): * Roberto Guidotti * Or Duek * Anibal Sólon +* Jonathan Daniel +* Markéta Calábková +* Carl Gauthier +* Julian Klug License reprise =============== From 0469d5a259211a92daa1d999fa208f0268c27d7b Mon Sep 17 00:00:00 2001 From: Chris Markiewicz Date: Tue, 20 Oct 2020 08:03:42 -0400 Subject: [PATCH 4/4] DOC: Changelog --- Changelog | 54 ++++++++++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 54 insertions(+) diff --git a/Changelog b/Changelog index 055a20f6ac..7f77e123b9 100644 --- a/Changelog +++ b/Changelog @@ -25,6 +25,60 @@ Eric Larson (EL), Demian Wassermann, Stephan Gerhard and Ross Markello (RM). References like "pr/298" refer to github pull request numbers. +3.2.0 (Tuesday 20 October 2020) +============================== + +New feature release in the 3.2.x series. + +New features +------------ +* ``nib-stats`` CLI tool to expose new ``nibabel.imagestats`` API. Initial + implementation of volume calculations, a la ``fslstats -V``. (Julian Klug, + reviewed by CM and GitHub user 0rC0) +* ``nib-roi`` CLI tool to crop images and/or flip axes (pr/947) (CM, reviewed + by Chris Cheng and Mathias Goncalves) +* Parser for Siemens "ASCCONV" text format (pr/896) (Brendan Moloney and MB, + reviewed by CM) + +Enhancements +------------ +* Drop confusing mention of ``img.to_filename()`` in getting started guide + (pr/946) (Fernando Pérez-Garcia, reviewed by MB, CM) +* Implement ``to_bytes()``/``from_bytes()`` methods for ``Cifti2Image`` + (pr/938) (CM, reviewed by Mathias Goncalves) +* Clean up of DICOM documentation (pr/910) (Jonathan Daniel, reviewed by MB) + +Bug fixes +--------- +* Use canvas manager API to set title in ``OrthoSlicer3D`` (pr/958) (EL, + reviewed by CM) +* Record units as seconds parrec2nii; previously set TR to seconds but + retained msec units (pr/931) (CM, reviewed by MB) +* Reflect on-disk dimensions in NIfTI-2 view of CIFTI-2 images (pr/930) + (Mathias Goncalves and CM) +* Fix outdated Python 2 and Sympy code in DICOM derivations (pr/911) (MB, + reviewed by CM) +* Change string with invalid escape to raw string (pr/909) (EL, reviewed + by MB) + +Maintenance +----------- +* Fix typo in docs (pr/955) (Carl Gauthier, reviewed by CM) +* Purge nose from nisext tests (pr/934) (Markéta Calábková, reviewed by CM) +* Suppress expected warnings in tests (pr/949) (CM, reviewed by Dorota + Jarecka) +* Various cleanups and modernizations (pr/916, pr/917, pr/918, pr/919) + (Jonathan Daniel, reviewed by CM) +* SVG logo for improved appearance in with zooming (pr/914) (Jonathan Daniel, + reviewed by CM) + +API changes and deprecations +---------------------------- +* Drop support for Numpy < 1.13 (pr/922) (CM) +* Warn on use of ``onetime.setattr_on_read``, which has been a deprecated + alias of ``auto_attr`` (pr/948) (CM, reviewed by Ariel Rokem) + + 3.1.1 (Friday 26 June 2020) ===========================