From 76e731d935e41968596559188f4cb98416757edd Mon Sep 17 00:00:00 2001 From: Yaroslav Halchenko Date: Wed, 15 May 2024 15:59:48 -0400 Subject: [PATCH 1/4] [DATALAD RUNCMD] Produce CITATION.cff from JOSS paper === Do not change lines below === { "chain": [], "cmd": "../heudiconv-joss-paper/tools/paper-to-citationcff ../heudiconv-joss-paper/paper.md", "exit": 0, "extra_inputs": [], "inputs": [], "outputs": [], "pwd": "." } ^^^ Do not change lines above ^^^ --- CITATION.cff | 141 +++++++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 141 insertions(+) create mode 100644 CITATION.cff diff --git a/CITATION.cff b/CITATION.cff new file mode 100644 index 00000000..3c84784d --- /dev/null +++ b/CITATION.cff @@ -0,0 +1,141 @@ +authors: +- affiliation: Center for Open Neuroscience, Department of Psychological and Brain + Sciences, Dartmouth College, Hanover, NH, USA + family-names: Halchenko + given-names: Yaroslav O. + orcid: https://orcid.org/0000-0003-3456-2493 +- affiliation: Department of Psychology, Stanford University, CA, USA + family-names: Goncalves + given-names: Mathias + orcid: https://orcid.org/0000-0002-7252-7771 +- affiliation: McGovern Institute, Massachusetts Institute of Technology, Cambridge, + MA, USA + family-names: Ghosh + given-names: Satrajit + orcid: https://orcid.org/0000-0002-5312-6729 +- affiliation: Flywheel Exchange LLC, Minneapolis, MN, USA + family-names: Velasco + given-names: Pablo + orcid: https://orcid.org/0000-0002-5749-6049 +- affiliation: University of California, Berkeley, Berkeley, CA, USA + family-names: Castello + given-names: Matteo Visconti di Oleggio + orcid: https://orcid.org/0000-0001-7931-5272 +- affiliation: Perelman School of Medicine, University of Pennsylvania, Philadelphia, + PA, USA + family-names: Salo + given-names: Taylor + orcid: https://orcid.org/0000-0001-9813-3167 +- affiliation: Center for Open Neuroscience, Department of Psychological and Brain + Sciences, Dartmouth College, Hanover, NH, USA + family-names: II + given-names: John T. Wodder +- affiliation: "Institute of Neuroscience and Medicine, Brain & Behaviour (INM-7),\ + \ Research Center J\xFClich, J\xFClich, Germany & Institute of Systems Neuroscience,\ + \ Medical Faculty, Heinrich Heine University D\xFCsseldorf, D\xFCsseldorf, Germany" + family-names: Hanke + given-names: Michael + orcid: https://orcid.org/0000-0001-6398-6370 +- affiliation: Department of Biostatistics, Johns Hopkins Bloomberg School of Public + Health, Baltimore, MD, USA + family-names: Sadil + given-names: Patrick + orcid: https://orcid.org/0000-0003-4141-1343 +- affiliation: Emeritus of Department of Psychology, Stanford University, CA, USA + family-names: Gorgolewski + given-names: Krzysztof Jacek + orcid: https://orcid.org/0000-0003-3321-7583 +- affiliation: Center for Open Neuroscience, Department of Psychological and Brain + Sciences, Dartmouth College, Hanover, NH, USA + family-names: Ioanas + given-names: Horea-Ioan + orcid: https://orcid.org/0000-0001-7037-2449 +- affiliation: Department of Psychology, University of South Carolina, Columbia, SC, + USA + family-names: Rorden + given-names: Chris + orcid: https://orcid.org/0000-0002-7554-6142 +- affiliation: "Masonic Institute\_for the Developing Brain, University of Minnesota,\ + \ Minneapolis, MN, USA & Minnesota Supercomputing Institute, University of Minnesota,\ + \ Minneapolis, MN, USA" + family-names: Hendrickson + given-names: Timothy J. + orcid: https://orcid.org/0000-0001-6862-6526 +- affiliation: Human Neuroscience Platform, Fondation Campus Biotech Geneva, Geneva, + Switzerland + family-names: Dayan + given-names: Michael + orcid: https://orcid.org/0000-0002-2666-0969 +- affiliation: Center for Open Neuroscience, Department of Psychological and Brain + Sciences, Dartmouth College, Hanover, NH, USA & Department of Brain and Cognitive + Sciences, Massachusetts Institute of Technology, Cambridge, MA, USA + family-names: Houlihan + given-names: Sean Dae + orcid: https://orcid.org/0000-0001-5003-9278 +- affiliation: Department of Psychology, University of Texas at Austin, Austin, TX, + USA + family-names: Kent + given-names: James + orcid: https://orcid.org/0000-0002-4892-2659 +- affiliation: McConnell Brain Imaging Centre, McGill University, Montreal, QC, Canada + family-names: Strauss + given-names: Ted + orcid: https://orcid.org/0000-0002-1927-666X +- affiliation: Data Science and Sharing Team, National Institute of Mental Health, + Bethesda, MD, USA + family-names: Lee + given-names: John + orcid: https://orcid.org/0000-0001-5884-4247 +- affiliation: Center for Open Neuroscience, Department of Psychological and Brain + Sciences, Dartmouth College, Hanover, NH, USA + family-names: To + given-names: Isaac + orcid: https://orcid.org/0000-0002-4740-0824 +- affiliation: Department of Psychology, Stanford University, CA, USA + family-names: Markiewicz + given-names: Christopher J. + orcid: https://orcid.org/0000-0002-6533-164X +- affiliation: Institute for Glycomics, Griffith University, QLD, Australia + family-names: Lukas + given-names: Darren + orcid: https://orcid.org/0009-0003-6941-0833 +- affiliation: Department of Psychology, Northwestern University, Evanston, IL, USA + family-names: Butler + given-names: Ellyn R. + orcid: https://orcid.org/0000-0001-6316-6444 +- affiliation: Department of Brain and Cognitive Sciences, Massachusetts Institute + of Technology, Cambridge, MA, USA + family-names: Thompson + given-names: Todd +- affiliation: Biomedical Engineering Department, Faculty of Engineering, Mondragon + University, Mondragon, Spain & BCBL, Basque center on Cognition, Brain and Language, + San Sebastian, Spain + family-names: Termenon + given-names: Maite + orcid: https://orcid.org/0000-0001-8102-5135 +- affiliation: Department of Psychology and Neuroscience, Temple University, Philadelphia, + PA, USA + family-names: Smith + given-names: David V. + orcid: https://orcid.org/0000-0001-5754-9633 +- affiliation: Center for Open Neuroscience, Department of Psychological and Brain + Sciences, Dartmouth College, Hanover, NH, USA + family-names: Macdonald + given-names: Austin + orcid: https://orcid.org/0000-0002-8124-807X +- affiliation: Departments of Psychiatry and Radiology, University of Massachusetts + Chan Medical School, Worcester, MA, USA + family-names: Kennedy + given-names: David N. + orcid: https://orcid.org/0000-0002-9377-0797 +cff-version: 1.2.0 +keywords: +- Python +- neuroscience +- standardization +- DICOM +- BIDS +- open science +- FOSS +message: If you use this software, please cite it using these metadata. +title: "HeuDiConv \u2014 flexible DICOM conversion into structured directory layouts" From f8d5022167a6668654d574158e821150beab1e6a Mon Sep 17 00:00:00 2001 From: Yaroslav Halchenko Date: Wed, 15 May 2024 16:04:30 -0400 Subject: [PATCH 2/4] Improve title and add identifiers --- CITATION.cff | 10 +++++++++- 1 file changed, 9 insertions(+), 1 deletion(-) diff --git a/CITATION.cff b/CITATION.cff index 3c84784d..efdfd632 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -129,6 +129,13 @@ authors: given-names: David N. orcid: https://orcid.org/0000-0002-9377-0797 cff-version: 1.2.0 +identifiers: +- type: other + value: RRID:SCR_017427 + description: Research Resource Identifier - https://scicrunch.org/resolver/RRID:SCR_017427 +- type: doi + value: 10.5281/zenodo.1012598 + description: The concept DOI for the collection containing all versions of the HeuDiConv keywords: - Python - neuroscience @@ -138,4 +145,5 @@ keywords: - open science - FOSS message: If you use this software, please cite it using these metadata. -title: "HeuDiConv \u2014 flexible DICOM conversion into structured directory layouts" +title: >- + HeuDiConv: flexible DICOM conversion into structured directory layouts From dcff5666bd789f7b1eff1ec33a4952fdb87aa389 Mon Sep 17 00:00:00 2001 From: Yaroslav Halchenko Date: Wed, 15 May 2024 16:05:45 -0400 Subject: [PATCH 3/4] Add CITATION.cff validation to lint workflow --- .github/workflows/lint.yml | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml index 1d270e42..36fe0bab 100644 --- a/.github/workflows/lint.yml +++ b/.github/workflows/lint.yml @@ -22,6 +22,10 @@ jobs: run: | python -m pip install --upgrade pip python -m pip install --upgrade tox + python -m pip install --upgrade cffconvert pyyaml - name: Run linters run: tox -e lint + + - name: Validate CITATION.cff + run: cffconvert --validate From 75932d7cd4c9fdc4e31e2215dcff0ec4bae1e315 Mon Sep 17 00:00:00 2001 From: Yaroslav Halchenko Date: Wed, 15 May 2024 16:15:03 -0400 Subject: [PATCH 4/4] Tune up Matteo's (AFAIK) and John's names --- CITATION.cff | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/CITATION.cff b/CITATION.cff index efdfd632..5b8805a1 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -18,8 +18,8 @@ authors: given-names: Pablo orcid: https://orcid.org/0000-0002-5749-6049 - affiliation: University of California, Berkeley, Berkeley, CA, USA - family-names: Castello - given-names: Matteo Visconti di Oleggio + family-names: Visconti di Oleggio Castello + given-names: Matteo orcid: https://orcid.org/0000-0001-7931-5272 - affiliation: Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA @@ -28,8 +28,8 @@ authors: orcid: https://orcid.org/0000-0001-9813-3167 - affiliation: Center for Open Neuroscience, Department of Psychological and Brain Sciences, Dartmouth College, Hanover, NH, USA - family-names: II - given-names: John T. Wodder + family-names: Wodder II + given-names: John T. - affiliation: "Institute of Neuroscience and Medicine, Brain & Behaviour (INM-7),\ \ Research Center J\xFClich, J\xFClich, Germany & Institute of Systems Neuroscience,\ \ Medical Faculty, Heinrich Heine University D\xFCsseldorf, D\xFCsseldorf, Germany"