diff --git a/.mailmap b/.mailmap new file mode 100644 index 00000000..7f5f05bc --- /dev/null +++ b/.mailmap @@ -0,0 +1,62 @@ +Aaron Piccirilli +Adam Huffman +Adam Huffman verdurin +Ariel Rokem +Asier Erramuzpe +Asier Erramuzpe erramuzpe +Bennet Fauber +Bennet Fauber justbennet +Céline Provins +Céline Provins cprovins +Céline Provins celprov +Céline Provins <77437752+celprov@users.noreply.github.com> +Christopher J. Markiewicz +Christopher J. Markiewicz +Christopher J. Markiewicz +Conrad Ma +Conrad Ma Conrad +Conrad Ma 394822740 +Conrad Ma <394822740@qq.com> +Conrad Ma +Dylan Nielson +Dylan Nielson Dylan +Elodie Savary +Elodie Savary esavary +James D. Kent +James D. Kent +James D. Kent jdkent +James D. Kent Fred Mertz +Johannes Achtzehn +Johannes Achtzehn jAchtzehn +John A. Lee +John A. Lee john anthony lee +John A. Lee leej3 +Krzysztof J. Gorgolewski +Krzysztof J. Gorgolewski +Krzysztof J. Gorgolewski +Krzysztof J. Gorgolewski +Krzysztof J. Gorgolewski +Krzysztof J. Gorgolewski +Krzysztof J. Gorgolewski +Mathias Goncalves +Mathias Goncalves mathiasg +Mathias Goncalves +Mathias Goncalves +McKenzie P. Hagen +McKenzie P. Hagen mckenziephagen +Michael G. Clark +Michael G. Clark mgclark +Michael G. Clark Michael Clark +Michael Krause +Michael Krause octomike +NiPreps Bot +NiPreps Bot nipreps-bot +Pablo Velasco +Pablo Velasco pvelasco +Patrick Sadil +Patrick Sadil psadil +Oscar Esteban +Oscar Esteban +Ross Blair +Ross Blair +William Triplett diff --git a/.maint/CONTRIBUTORS.md b/.maint/CONTRIBUTORS.md index 5de07c8d..ef20a7cc 100644 --- a/.maint/CONTRIBUTORS.md +++ b/.maint/CONTRIBUTORS.md @@ -7,4 +7,9 @@ If you are new to the project, don't forget to add your name and affiliation to Before every release, unlisted contributors will be invited again to add their names to this file (just in case they missed the automated message from our Welcome Bot). | **Lastname** | **Name** | **Handle** | **ORCID** | **Affiliation** | -| --- | --- | --- | --- | --- | \ No newline at end of file +| --- | --- | --- | --- | --- | +| Baratz | Zvi | @ZviBaratz | 0000-0001-7159-1387 | Sagol School of Neuroscience, Tel Aviv University, Tel Aviv, Israel | +| Blair | Ross W. | @rwblair | 0000-0003-3007-1056 | Department of Psychology, Stanford University, CA, USA | +| Goncalves | Mathias | @mgxd | 0000-0002-7252-7771 | Department of Psychology, Stanford University, CA, USA | +| Markiewicz | Christopher J. | @effigies | 0000-0002-6533-164X | Department of Psychology, Stanford University, CA, USA | +| Nielson | Dylan | @Shotgunosine | 0000-0003-4613-6643 | Section on Clinical and Computational Psychiatry, National Institute of Mental Health, Bethesda, MD, USA | diff --git a/.maint/FORMER.md b/.maint/FORMER.md index 0e29197a..bd0ccd8b 100644 --- a/.maint/FORMER.md +++ b/.maint/FORMER.md @@ -5,4 +5,7 @@ By adding your name to this list you are giving up on all your responsibilities Should you desire to be considered back as a contributor or maintainer, please remove your name from this list and proceed as prescribed in the governance documents. | **Lastname** | **Name** | **Handle** | -| --- | --- | --- | \ No newline at end of file +| --- | --- | --- | +| Berleant | Shoshana | @shosber | +| Bot | NiPreps | @nipreps-bot | +| Gorgolewski | Krzysztof J. | @chrisgorgo | diff --git a/.maint/MAINTAINERS.md b/.maint/MAINTAINERS.md index f897bd53..35aaa1a8 100644 --- a/.maint/MAINTAINERS.md +++ b/.maint/MAINTAINERS.md @@ -7,8 +7,9 @@ If you are participating because of your affiliation with another organization ( -| **Lastname** | **Name** | **Handle** | **ORCID** | **Affiliation** | **Role** | -|--------------|----------|------------|---------------------|---------------------------------------------------------------------------------| --- | -| Provins | Céline | @celprov | 0000-0002-1668-9629 | Department of Radiology, Lausanne University Hospital and University of Lausanne, Switzerland | | -| Savary | Elodie | @esavary | 0000-0002-3896-6906 | Department of Radiology, Lausanne University Hospital and University of Lausanne, Switzerland | | - +| **Lastname** | **Name** | **Handle** | **ORCID** | **Affiliation** | **Role** | +| --- | --- | --- | --- | --- | --- | +| Provins | Céline | @celprov | 0000-0002-1668-9629 | Department of Radiology, Lausanne University Hospital and University of Lausanne, Switzerland | | +| Savary | Elodie | @esavary | 0000-0002-3896-6906 | Department of Radiology, Lausanne University Hospital and University of Lausanne, Switzerland | | +| MacNicol | Eilidh | @eilidhmacnicol | 0000-0003-3715-7012 | Department of Neuroimaging, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK | AM (Advisory Member) | +| Esteban | Oscar | @oesteban | 0000-0001-8435-6191 | Lausanne University Hospital and University of Lausanne, Lausanne, Switzerland | | diff --git a/.maint/PIs.md b/.maint/PIs.md index 0c8fe945..5e56633a 100644 --- a/.maint/PIs.md +++ b/.maint/PIs.md @@ -10,5 +10,5 @@ If you are participating because of your affiliation with another organization ( | **Lastname** | **Name** | **Handle** | **ORCID** | **Affiliation** | **Position** | | --- | --- | --- | --- | --- | --- | -| Esteban | Oscar | @oesteban | 0000-0001-8435-6191 | Department of Radiology, Lausanne University Hospital and University of Lausanne | | -| Poldrack | Russell A. | @poldrack | 0000-0001-6755-0259 | Department of Psychology, Stanford University, CA, USA | -1 | \ No newline at end of file +| Esteban | Oscar | @oesteban | 0000-0001-8435-6191 | Department of Radiology, Lausanne University Hospital and University of Lausanne | -1 | +| Poldrack | Russell A. | @poldrack | 0000-0001-6755-0259 | Department of Psychology, Stanford University, CA, USA | -2 | \ No newline at end of file diff --git a/.zenodo.json b/.zenodo.json new file mode 100644 index 00000000..8c66a9ad --- /dev/null +++ b/.zenodo.json @@ -0,0 +1,77 @@ +{ + "title": "NiReports: the NiPreps' reporting and visualization tools", + "description": "

The visual report system (VRS) of NiPreps.

", + "creators": [ + { + "orcid": "0000-0001-8435-6191", + "affiliation": "Lausanne University Hospital and University of Lausanne, Lausanne, Switzerland", + "name": "Oscar Esteban" + }, + { + "orcid": "0000-0002-3896-6906", + "affiliation": "Department of Radiology, Lausanne University Hospital and University of Lausanne, Switzerland", + "name": "Elodie Savary" + }, + { + "orcid": "0000-0003-3715-7012", + "affiliation": "Department of Neuroimaging, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK", + "name": "Eilidh MacNicol" + }, + { + "orcid": "0000-0002-1668-9629", + "affiliation": "Department of Radiology, Lausanne University Hospital and University of Lausanne, Switzerland", + "name": "C\u00e9line Provins" + } + ], + "contributors": [ + { + "orcid": "0000-0002-6533-164X", + "affiliation": "Department of Psychology, Stanford University, CA, USA", + "name": "Christopher J. Markiewicz", + "type": "Researcher" + }, + { + "orcid": "0000-0001-7159-1387", + "affiliation": "Sagol School of Neuroscience, Tel Aviv University, Tel Aviv, Israel", + "name": "Zvi Baratz", + "type": "Researcher" + }, + { + "orcid": "0000-0002-7252-7771", + "affiliation": "Department of Psychology, Stanford University, CA, USA", + "name": "Mathias Goncalves", + "type": "Researcher" + }, + { + "orcid": "0000-0003-3007-1056", + "affiliation": "Department of Psychology, Stanford University, CA, USA", + "name": "Ross W. Blair", + "type": "Researcher" + }, + { + "orcid": "0000-0003-4613-6643", + "affiliation": "Section on Clinical and Computational Psychiatry, National Institute of Mental Health, Bethesda, MD, USA", + "name": "Dylan Nielson", + "type": "Researcher" + }, + { + "orcid": "0000-0001-8435-6191", + "affiliation": "Department of Radiology, Lausanne University Hospital and University of Lausanne", + "name": "Oscar Esteban", + "type": "Researcher" + }, + { + "orcid": "0000-0001-6755-0259", + "affiliation": "Department of Psychology, Stanford University, CA, USA", + "name": "Russell A. Poldrack", + "type": "Researcher" + } + ], + "keywords": [ + "neuroimaging", + "visualization", + "nipreps" + ], + "license": "Apache-2.0", + "upload_type": "software" +} diff --git a/CHANGES.rst b/CHANGES.rst new file mode 100644 index 00000000..16c14189 --- /dev/null +++ b/CHANGES.rst @@ -0,0 +1,39 @@ +23.0.0 (March 10, 2023) +======================= +The first OFFICIAL RELEASE of *NiReports* is out! +This first version of the package ports the visualization tools from *MRIQC* and *NiWorkflows* into a common API. +In addition, the plotting of mosaic views (*MRIQC*) is flexibilized so that rodent imaging can conveniently be also visualized. + +CHANGES +------- +**Full Changelog**: https://github.com/nipreps/nireports/compare/0.2.0...23.0.0 + +* ENH: Flexibilize views of ``plot_mosaic`` to render nonhuman imaging by @oesteban in https://github.com/nipreps/nireports/pull/52 +* ENH: Set up CI on CircleCI for artifact visualization by @esavary in https://github.com/nipreps/nireports/pull/50 +* ENH: API refactor of *NiPype* interfaces by @oesteban in https://github.com/nipreps/nireports/pull/51 +* MAINT: Updated ``MAINTAINERS.md`` by @esavary in https://github.com/nipreps/nireports/pull/49 +* MAINT: Add Governance files (#48) + + +.. admonition:: Author list for papers based on *NiReports* 23.0 series + + As described in the `Contributor Guidelines + `__, + anyone listed as developer or contributor may write and submit manuscripts + about *NiReports*. + To do so, please move the author(s) name(s) to the front of the following list: + + Christopher J. Markiewicz \ :sup:`1`\ ; Zvi Baratz \ :sup:`2`\ ; Elodie Savary \ :sup:`3`\ ; Mathias Goncalves \ :sup:`1`\ ; Ross W. Blair \ :sup:`1`\ ; Eilidh MacNicol \ :sup:`4`\ ; Céline Provins \ :sup:`3`\ ; Dylan Nielson \ :sup:`5`\ ; Russell A. Poldrack \ :sup:`1`\ ; Oscar Esteban \ :sup:`6`\ . + + Affiliations: + + 1. Department of Psychology, Stanford University, CA, USA + 2. Sagol School of Neuroscience, Tel Aviv University, Tel Aviv, Israel + 3. Department of Radiology, Lausanne University Hospital and University of Lausanne, Switzerland + 4. Department of Neuroimaging, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK + 5. Section on Clinical and Computational Psychiatry, National Institute of Mental Health, Bethesda, MD, USA + 6. Department of Radiology, Lausanne University Hospital and University of Lausanne + +Pre 23.0.0 +========== +A number of pre-releases were launched before 23.0.0 to test the deployment and the integration tests.