From edb68d7e00a78f719baf5bbd8f06bab68199187d Mon Sep 17 00:00:00 2001 From: Stephan Heunis Date: Fri, 19 Apr 2024 13:48:05 +0200 Subject: [PATCH] Add dataverse example adhering to the scientific dataset distribution schema This includes removing the outdated dataverse example data in the 'tests' directory. --- .../Distribution-dataverse-rtmefmri.yaml | 15769 ++++++++++++++++ .../validation/SddDataverse.valid.cfg.yaml | 9 + ...tasetVersionObject-dataverse-rtmefmri.yaml | 13988 -------------- .../DatasetVersionObject.valid.cfg.yaml | 22 - 4 files changed, 15778 insertions(+), 14010 deletions(-) create mode 100644 src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml create mode 100644 src/sdd/unreleased/validation/SddDataverse.valid.cfg.yaml delete mode 100644 tests/dataset-version-schema/validation/DatasetVersionObject-dataverse-rtmefmri.yaml delete mode 100644 tests/dataset-version-schema/validation/DatasetVersionObject.valid.cfg.yaml diff --git a/src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml b/src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml new file mode 100644 index 0000000..230a854 --- /dev/null +++ b/src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml @@ -0,0 +1,15769 @@ +id: exthisdsver:. +conforms_to: + - https://bids-specification.readthedocs.io/en/v1.6.0 +license: exthisds:#humanhealthdatalicense +is_distribution_of: exthisdsver:# +was_attributed_to: + - exthisds:#StephanHeunis + - exthisds:#EindhovenUniversityofTechnology +relation: + - id: exthisdsver:# + meta_type: dldist:Resource + date_modified: '2023-11-13' + description: rt-me-fMRI is a multi-echo functional magnetic resonance imaging + dataset (N=28 healthy volunteers) with four task-based and two resting state + runs. Its main purpose is to advance the development of methods for real-time + multi-echo fMRI analysis with applications in neurofeedback, real-time quality + control, and adaptive paradigms, although the variety of experimental task paradigms + can support multiple use cases. Tasks include finger tapping, emotional face + and shape matching, imagined finger tapping and imagined emotion processing. + Further information is available at https://github.com/jsheunis/rt-me-fMRI + is_version_of: exthisds:# + keyword: + - Engineering + - Medicine, Health and Life Sciences + - Physics + landing_page: https://doi.org/10.34894/R1TNL8 + name: dataverse-rtmefmri + title: 'rt-me-fMRI: A task and resting state dataset for real-time, multi-echo + fMRI methods development and validation' + version: '1.4' + same_as: + - https://doi.org/10.34894/R1TNL8 + identifier: + - schema_agency: https://doi.org + notation: 10.34894/R1TNL8 + qualified_attribution: + - agent: exthisds:#StephanHeunis + had_role: + - marcrel:aut + - marcrel:col + - marcrel:cre + - agent: exthisds:#EindhovenUniversityofTechnology + had_role: + - marcrel:sht + qualified_relation: + - had_role: + - CiTO:isDocumentedBy + - CiTO:citesAsAuthority + entity: + - exthisds:#data_paper + - had_role: + - CiTO:isCitedAsDataSourceBy + entity: + - exthisds:#methods_paper + - id: exthisds:#StephanHeunis + meta_type: dldist:Person + name: Stephan Heunis + identifier: + - schema_agency: https://orcid.org + notation: 0000-0003-3503-9872 + affiliation: + - exthisds:#EindhovenUniversityofTechnology + same_as: + - https://orcid.org/0000-0003-3503-9872 + - id: exthisds:#EindhovenUniversityofTechnology + meta_type: dldist:Organization + name: Eindhoven University of Technology + identifier: + - schema_agency: https://ror.org + notation: 02c2kyt77 + - schema_agency: https://www.wikidata.org/wiki + notation: Q280824 + same_as: + - https://ror.org/02c2kyt77https://www.wikidata.org/wiki/Q280824 + - id: exthisds:#data_paper + meta_type: dlsdd:Publication + notation: 'Heunis S, Breeuwer M, Caballero-Gaudes C et al. rt-me-fMRI: a task + and resting state dataset for real-time, multi-echo fMRI methods development + and validation [version 1; peer review: 1 approved, 1 approved with reservations]. + F1000Research 2021, 10:70 (https://doi.org/10.12688/f1000research.29988.1)' + date_published: '2021-02-04' + identifier: + - schema_agency: https://doi.org + notation: 10.12688/f1000research.29988.1 + qualified_attribution: + - agent: exthisds:#StephanHeunis + had_role: + - marcrel:aut + - marcrel:col + - marcrel:cre + - id: exthisds:#methods_paper + meta_type: dlsdd:Publication + notation: S. Heunis, M. Breeuwer, C. Caballero-Gaudes, L. Hellrung, W. Huijbers, + J.F. Jansen, R. Lamerichs, S. Zinger, A.P. Aldenkamp. The effects of multi-echo + fMRI combination and rapid T*-mapping on offline and real-time BOLD sensitivity. + NeuroImage, 238 (2021), Article 118244, 10.1016/j.neuroimage.2021.118244 + date_published: '2021-06-11' + identifier: + - schema_agency: https://doi.org + notation: 10.1016/j.neuroimage.2021.118244 + qualified_attribution: + - agent: exthisds:#StephanHeunis + had_role: + - marcrel:aut + - id: exthisds:#humanhealthdatalicense + meta_type: dldist:LicenseDocument + same_as: + - https://dataverse.nl/api/datasets/:persistentId/versions/1.4/customlicense?persistentId=doi:10.34894/R1TNL8 + license_text: "

Data user agreement for accessing limited human health data

\n +
\nBy clicking \"Accept\", I agree to the terms presented below.\n +

\n

I request access to the rt-me-fMRI dataset collected + in the DataverseNL digital repository as deposited by researchers at\n (1) + the Electrical Engineering department, Eindhoven University of Technology, (2) + Kempenhaeghe, and (3) Philips\n Research, co-located at Eindhoven, The Netherlands, + and hereinafter referred to as the \"research institution\".\n

\n\n

By accepting + this agreement, I become the data\n controller (as defined under the European General Data Protection + Regulation, i.e. the GDPR) of the data\n that I process for my own purposes + and means, and am responsible that I process these data under the following\n\ + \ terms:

\n
    \n
  1. I will comply with all relevant rules and regulations + imposed by my institution and my government. This\n agreement never has + prevalence over existing general data protection regulations that are applicable + in my\n country.
    2. \n
  2. I will not attempt to establish or retrieve + the identity of the study participants. I will not link these data\n \ + \ to any other database in a way that could provide identifying information. + I shall not request the\n pseudonymisation key that would link these + data to an individual's personal information, nor will I accept any\n \ + \ additional information about individual participants under this Data Use + Agreement.
    3. \n
  3. I will not redistribute these data or share access + to these data with others, unless they have independently\n applied and + been granted access to these data, i.e., signed this Data Use Agreement. This + includes individuals\n in my institution.
    4. \n
  4. I will reference + the specific source of the accessed data when publicly presenting any results + or algorithms\n that benefited from their use:\n
      \n \ + \
    • Papers, book chapters, books, posters, oral presentations, and all + other presentations of results\n derived from the data should + acknowledge the origin of the data as follows: \"Data were provided (in\n \ + \ part) by the Electrical Engineering Department, Eindhoven University + of Technology, The Netherlands and\n Kempenhaeghe Epilepsy Center, + Heeze, The Netherlands”.
      • \n
    • Authors of publications or presentations + using the data should cite relevant publications describing the\n \ + \ methods developed and used by the research institution to acquire and + process the data. The specific\n publications that are appropriate + to cite in any given study will depend on what the data were used and\n \ + \ for what purposes. When applicable, a list of publications will + be included in the collection.
      • \n
    • Neither the entities that + constitute the research institution, nor the researchers that provide this\n\ + \ data will be liable for any results and/or derived data. They + shall not be included as an author of\n publications or presentations + without consent.
      • \n
    \n
    5. \n
  5. Failure to comply with + this agreement will result in, but not limited to, termination of my privileges + to access\n these data.
    6. \n
  6. This agreement is governed by Dutch + law.
    7. \n
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methods development and validation' -description: rt-me-fMRI is a multi-echo functional magnetic resonance imaging dataset - (N=28 healthy volunteers) with four task-based and two resting state runs. Its main - purpose is to advance the development of methods for real-time multi-echo fMRI analysis - with applications in neurofeedback, real-time quality control, and adaptive paradigms, - although the variety of experimental task paradigms can support multiple use cases. - Tasks include finger tapping, emotional face and shape matching, imagined finger - tapping and imagined emotion processing. Further information is available at https://github.com/jsheunis/rt-me-fMRI -landing_page: https://doi.org/10.34894/R1TNL8 -version: '1.4' -modified: '2023-11-13' -keyword: - - Engineering - - Medicine, Health and Life Sciences - - Physics -identifier: - https://doi.org/10.34894/R1TNL8: -custom_licenses: - customlicenses:humanhealthdata: - identifier: - https://dataverse.nl/api/datasets/:persistentId/versions/1.4/customlicense?persistentId=doi:10.34894/R1TNL8: - license_text: "

Data user agreement for accessing limited human health data

\n -
\nBy clicking \"Accept\", I agree to the terms presented below.\n -

\n

I request access to the rt-me-fMRI dataset collected - in the DataverseNL digital repository as deposited by researchers at\n (1) - the Electrical Engineering department, Eindhoven University of Technology, (2) - Kempenhaeghe, and (3) Philips\n Research, co-located at Eindhoven, The Netherlands, - and hereinafter referred to as the \"research institution\".\n

\n\n

By accepting - this agreement, I become the data\n controller (as defined under the European General Data Protection - Regulation, i.e. the GDPR) of the data\n that I process for my own purposes - and means, and am responsible that I process these data under the following\n\ - \ terms:

\n
    \n
  1. I will comply with all relevant rules and regulations - imposed by my institution and my government. This\n agreement never has - prevalence over existing general data protection regulations that are applicable - in my\n country.
    2. \n
  2. I will not attempt to establish or retrieve - the identity of the study participants. I will not link these data\n \ - \ to any other database in a way that could provide identifying information. - I shall not request the\n pseudonymisation key that would link these - data to an individual's personal information, nor will I accept any\n \ - \ additional information about individual participants under this Data Use - Agreement.
    3. \n
  3. I will not redistribute these data or share access - to these data with others, unless they have independently\n applied and - been granted access to these data, i.e., signed this Data Use Agreement. This - includes individuals\n in my institution.
    4. \n
  4. I will reference - the specific source of the accessed data when publicly presenting any results - or algorithms\n that benefited from their use:\n
      \n \ - \
    • Papers, book chapters, books, posters, oral presentations, and all - other presentations of results\n derived from the data should - acknowledge the origin of the data as follows: \"Data were provided (in\n \ - \ part) by the Electrical Engineering Department, Eindhoven University - of Technology, The Netherlands and\n Kempenhaeghe Epilepsy Center, - Heeze, The Netherlands”.
      • \n
    • Authors of publications or presentations - using the data should cite relevant publications describing the\n \ - \ methods developed and used by the research institution to acquire and - process the data. The specific\n publications that are appropriate - to cite in any given study will depend on what the data were used and\n \ - \ for what purposes. When applicable, a list of publications will - be included in the collection.
      • \n
    • Neither the entities that - constitute the research institution, nor the researchers that provide this\n\ - \ data will be liable for any results and/or derived data. They - shall not be included as an author of\n publications or presentations - without consent.
      • \n
    \n
    5. \n
  5. Failure to comply with - this agreement will result in, but not limited to, termination of my privileges - to access\n these data.
    6. \n
  6. This agreement is governed by Dutch - law.
    7. \n
" -license: customlicenses:humanhealthdata -was_attributed_to: - - meta_type: dlco:ResearchContributorObject - meta_code: StephanHeunis - name: Stephan Heunis - orcid: 0000-0003-3503-9872 - affiliation: Eindhoven University of Technology - - meta_type: dlco:OrganizationObject - meta_code: TUE - name: Eindhoven University of Technology -qualified_attribution: - - agent: StephanHeunis - had_role: - - marcrel:aut - - marcrel:col - - marcrel:cre - - agent: TUE - had_role: - - marcrel:sht -relation: - - meta_type: dlco:PublicationObject - meta_code: data_paper - notation: 'Heunis S, Breeuwer M, Caballero-Gaudes C et al. rt-me-fMRI: a task - and resting state dataset for real-time, multi-echo fMRI methods development - and validation [version 1; peer review: 1 approved, 1 approved with reservations]. - F1000Research 2021, 10:70 (https://doi.org/10.12688/f1000research.29988.1)' - doi: https://doi.org/10.12688/f1000research.29988.1 - - meta_type: dlco:PublicationObject - meta_code: methods_paper - notation: S. Heunis, M. Breeuwer, C. Caballero-Gaudes, L. Hellrung, W. Huijbers, - J.F. Jansen, R. Lamerichs, S. Zinger, A.P. Aldenkamp. The effects of multi-echo - fMRI combination and rapid T*-mapping on offline and real-time BOLD sensitivity. - NeuroImage, 238 (2021), Article 118244, 10.1016/j.neuroimage.2021.118244 - doi: https://doi.org/10.1016/j.neuroimage.2021.118244 -qualified_relation: - - had_role: - - CiTO:isDocumentedBy - - CiTO:citesAsAuthority - entity: data_paper - - had_role: - - CiTO:isCitedAsDataSourceBy - entity: methods_paper -distribution: - meta_type: dlco:FileContainerObject - meta_code: ./ - license: customlicenses:humanhealthdata - has_part: - - meta_type: dlco:DigitalDocumentObject - meta_code: 7d63a6dd379b3b81574e31240433e008 - byte_size: 1455 - checksum: - algorithm: md5 - digest: 7d63a6dd379b3b81574e31240433e008 - download_url: https://dataverse.nl/api/access/datafile/46664 - - meta_type: dlco:DigitalDocumentObject - meta_code: a88a2b8ad2cdf158c3b1ee84ecdbbbf9 - byte_size: 39 - checksum: - algorithm: md5 - digest: a88a2b8ad2cdf158c3b1ee84ecdbbbf9 - download_url: https://dataverse.nl/api/access/datafile/46709 - 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