Closed roboneuro closed 1 year ago
@roboneuro build extended pdf
🟢 Successfully built
Status: Success 4b6fab97
Last updated: 2023-10-31 14:52:55 PDT
Roboneuro will post a new comment to share the results and provide an explanation of the next steps.
📑 Extended PDF has been compiled!
👀 Please review the extended PDF and verify that all references are accurately included. If everything is correct, please proceed to the next steps. If not, please make the necessary adjustments in the source documents.
ℹ️ Please read and confirm the following:
[!IMPORTANT]
We have added a note in the extended PDF to inform the readers that the narrative content from your notebook content has been automatically added to credit the referenced sources. This note includes citations to the articles explaining the NeuroLibre workflow, integrated research objects, and the Canadian Open Neuroscience Platform (CONP). If you prefer not to include them, please remove the respective citation directives in the updatedpaper.md
before pushing the file to your repository.
♻️ Update the respective files in your source repository with the files you just downloaded and inform the screener.
Once the submitting author has updated the repository with the paper.md
and paper.bib
, please confirm that the PDF successfully builds using the @roboneuro generate pdf
.
:warning: However, DO NOT issue @roboneuro build extended pdf
command after the submitting author has updated the paper.md
and paper.bib
.
@roboneuro build extended pdf
🟢 Successfully built
Status: Success d17b6b2e
Last updated: 2023-11-01 13:44:37 PDT
Roboneuro will post a new comment to share the results and provide an explanation of the next steps.
📑 Extended PDF has been compiled!
👀 Please review the extended PDF and verify that all references are accurately included. If everything is correct, please proceed to the next steps. If not, please make the necessary adjustments in the source documents.
ℹ️ Please read and confirm the following:
[!IMPORTANT]
We have added a note in the extended PDF to inform the readers that the narrative content from your notebook content has been automatically added to credit the referenced sources. This note includes citations to the articles explaining the NeuroLibre workflow, integrated research objects, and the Canadian Open Neuroscience Platform (CONP). If you prefer not to include them, please remove the respective citation directives in the updatedpaper.md
before pushing the file to your repository.
♻️ Update the respective files in your source repository with the files you just downloaded and inform the screener.
Once the submitting author has updated the repository with the paper.md
and paper.bib
, please confirm that the PDF successfully builds using the @roboneuro generate pdf
.
:warning: However, DO NOT issue @roboneuro build extended pdf
command after the submitting author has updated the paper.md
and paper.bib
.
@roboneuro build extended pdf
🟢 Successfully built
Status: Success 11e97987
Last updated: 2023-11-01 13:57:36 PDT
Roboneuro will post a new comment to share the results and provide an explanation of the next steps.
📑 Extended PDF has been compiled!
👀 Please review the extended PDF and verify that all references are accurately included. If everything is correct, please proceed to the next steps. If not, please make the necessary adjustments in the source documents.
ℹ️ Please read and confirm the following:
[!IMPORTANT]
We have added a note in the extended PDF to inform the readers that the narrative content from your notebook content has been automatically added to credit the referenced sources. This note includes citations to the articles explaining the NeuroLibre workflow, integrated research objects, and the Canadian Open Neuroscience Platform (CONP). If you prefer not to include them, please remove the respective citation directives in the updatedpaper.md
before pushing the file to your repository.
♻️ Update the respective files in your source repository with the files you just downloaded and inform the screener.
Once the submitting author has updated the repository with the paper.md
and paper.bib
, please confirm that the PDF successfully builds using the @roboneuro generate pdf
.
:warning: However, DO NOT issue @roboneuro build extended pdf
command after the submitting author has updated the paper.md
and paper.bib
.
@roboneuro build book
🟠 Book Build (Preview)
Status: In progress 1d5bd8a8
Last updated: 2023-11-01 14:06:35 PDT
Running for: https://test.conp.cloud/build/gh/qMRLab/t1-book-neurolibre.git/f52ce83b8baa984b907a82818a0dcbb1a690949d
@roboneuro build book
⚪ Book Build (Preview)
Status: Assigned to task 71727aa3
Last updated: 2023-11-01 14:33:51 PDT
@roboneuro build book
🟢 Successfully built
Status: Success 47ad34a4
Last updated: 2023-11-01 14:45:22 PDT
:confetti_ball: Roboneuro will send you the book URL.
:robot::speech_balloon::confetti_ball::rocket: Congratulations to the authors on the successful creation of their neurolibre reproducible preprint! With their Quantitative T1 MRI, they've taken "reproducible" to a whole new level, leaving no room for relaxation in the world of neuroimaging research.
:hibiscus: Take a loot at the latest version of your NRP! :hibiscus:
[!IMPORTANT] Please make sure the figures are displayed correctly, code cells are collapsible, and that BinderHub execution is successful.
@roboneuro build extended pdf
🟢 Successfully built
Status: Success 04f29e72
Last updated: 2023-11-02 11:28:07 PDT
Roboneuro will post a new comment to share the results and provide an explanation of the next steps.
@roboneuro build book
🟢 Successfully built
Status: Success f5420ecc
Last updated: 2023-11-02 11:32:29 PDT
:confetti_ball: Roboneuro will send you the book URL.
📑 Extended PDF has been compiled!
👀 Please review the extended PDF and verify that all references are accurately included. If everything is correct, please proceed to the next steps. If not, please make the necessary adjustments in the source documents.
ℹ️ Please read and confirm the following:
[!IMPORTANT]
We have added a note in the extended PDF to inform the readers that the narrative content from your notebook content has been automatically added to credit the referenced sources. This note includes citations to the articles explaining the NeuroLibre workflow, integrated research objects, and the Canadian Open Neuroscience Platform (CONP). If you prefer not to include them, please remove the respective citation directives in the updatedpaper.md
before pushing the file to your repository.
♻️ Update the respective files in your source repository with the files you just downloaded and inform the screener.
Once the submitting author has updated the repository with the paper.md
and paper.bib
, please confirm that the PDF successfully builds using the @roboneuro generate pdf
.
:warning: However, DO NOT issue @roboneuro build extended pdf
command after the submitting author has updated the paper.md
and paper.bib
.
:robot::speech_balloon::confetti_ball::rocket: Congratulations to the authors for creating a neurolibre reproducible preprint (NRP) that's as sharp and well-defined as a T1-weighted MRI image, showcasing their expertise in quantitative MRI and raising the relaxation time of reproducibility in neuroscience to a whole new level!
:hibiscus: Take a loot at the latest version of your NRP! :hibiscus:
[!IMPORTANT] Please make sure the figures are displayed correctly, code cells are collapsible, and that BinderHub execution is successful.
@roboneuro generate pdf
@roboneuro build book
🟢 Successfully built
Status: Success 510a3411
Last updated: 2023-11-02 13:21:00 PDT
:confetti_ball: Roboneuro will send you the book URL.
@roboneuro production sync data
🟢 DATA TRANSFER (Preview --> Preprint)
Status: Success bf71a504
Last updated: 2023-11-02 13:15:44 PDT
Success.
:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:
:robot::speech_balloon::confetti_ball::rocket: Congratulations to the authors on creating a neurolibre preprint that's as sharp and well-calibrated as a precise T1 measurement! Your quantitative mastery is truly magnetic.
:hibiscus: Take a loot at the latest version of your NRP! :hibiscus:
[!IMPORTANT] Please make sure the figures are displayed correctly, code cells are collapsible, and that BinderHub execution is successful.
@roboneuro production start
🟢 INITIATE PRODUCTION (Fork and Configure)
Status: Success 16a67291
Last updated: 2023-11-02 13:22:50 PDT
Please confirm that the forked repository is available and (_toc.yml
and _config.ymlk
) properly configured.
@roboneuro production build book
🟢 Successfully built
Status: Success bae413d0
Last updated: 2023-11-02 13:27:35 PDT
:confetti_ball: Roboneuro will send you the book URL.
:robot::speech_balloon::confetti_ball::rocket: Congratulations to the authors for constructing a neurolibre reproducible preprint (NRP) as rock-solid as a quantitative T1 MRI scan—their work has truly mastered the art of relaxation (measurement)!
:hibiscus: Take a loot at the latest version of your NRP! :hibiscus:
[!IMPORTANT] Please make sure the figures are displayed correctly, code cells are collapsible, and that BinderHub execution is successful.
@roboneuro production sync book
🟢 REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)
Status: Success 3169d5f4
Last updated: 2023-11-02 13:31:51 PDT
Reproducible Preprint URL (DOI formatted)
@roboneuro set book uri
Done, set the URI for the reproducible preprint: https://preprint.neurolibre.org/10.55458/neurolibre.00019
:page_with_curl: Looks like the summary PDF is not available on the NeuroLibre servers yet.
@roboneuro zenodo create buckets
🟢 Reproducibility Assets - Create Zenodo buckets
Status: Success 54ba2666
Last updated: 2023-11-02 13:33:51 PDT
Zenodo records have been created successfully:
{'book': {'created': '2023-11-02T20:33:24.966954+00:00', 'modified': '2023-11-02T20:33:25.535777+00:00', 'id': 10067637, 'conceptrecid': '10067636', 'metadata': {'title': 'Quantitative T1 MRI', 'publication_date': '2023-11-02', 'description': 'NeuroLibre JupyterBook built at this reference repository/commit by roboneuro, based on the latest change by the author. For details, please visit the corresponding NeuroLibre technical screening.
\n', 'access_right': 'open', 'creators': [{'name': 'Mathieu Boudreau', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-7726-4456'}, {'name': 'Kathryn E. Keenan', 'affiliation': 'Physical Measurement Laboratory, National Institute of Standards and Technology, Boulder, Colorado', 'orcid': '0000-0001-9070-5255'}, {'name': 'Nikola Stikov', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-8480-5230'}], 'contributors': [{'name': 'NeuroLibre, Admin', 'affiliation': 'NeuroLibre', 'type': 'ContactPerson'}], 'keywords': ['canadian-open-neuroscience-platform', 'neurolibre'], 'related_identifiers': [{'identifier': '10.55458/neurolibre.00019', 'relation': 'isPartOf', 'resource_type': 'publication-preprint', 'scheme': 'doi'}], 'license': 'cc-by-4.0', 'imprint_publisher': 'Zenodo', 'upload_type': 'other', 'prereserve_doi': {'doi': '10.5281/zenodo.10067637', 'recid': 10067637}}, 'title': 'Quantitative T1 MRI', 'links': {'self': 'https://zenodo.org/api/deposit/depositions/10067637', 'html': 'https://zenodo.org/deposit/10067637', 'badge': 'https://zenodo.org/badge/doi/.svg', 'files': 'https://zenodo.org/api/deposit/depositions/10067637/files', 'bucket': 'https://zenodo.org/api/files/73820fd8-00c7-44f0-b3ad-927313b2ee2b', 'latest_draft': 'https://zenodo.org/api/deposit/depositions/10067637', 'latest_draft_html': 'https://zenodo.org/deposit/10067637', 'publish': 'https://zenodo.org/api/deposit/depositions/10067637/actions/publish', 'edit': 'https://zenodo.org/api/deposit/depositions/10067637/actions/edit', 'discard': 'https://zenodo.org/api/deposit/depositions/10067637/actions/discard', 'newversion': 'https://zenodo.org/api/deposit/depositions/10067637/actions/newversion', 'registerconceptdoi': 'https://zenodo.org/api/deposit/depositions/10067637/actions/registerconceptdoi'}, 'record_id': 10067637, 'owner': 262806, 'files': [], 'state': 'unsubmitted', 'submitted': False}, 'repository': {'created': '2023-11-02T20:33:31.248095+00:00', 'modified': '2023-11-02T20:33:31.717722+00:00', 'id': 10067639, 'conceptrecid': '10067638', 'metadata': {'title': 'Quantitative T1 MRI', 'publication_date': '2023-11-02', 'description': 'GitHub archive of the reference repository/commit by roboneuro, based on the latest change by the author. For details, please visit the corresponding NeuroLibre technical screening.
\n', 'access_right': 'open', 'creators': [{'name': 'Mathieu Boudreau', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-7726-4456'}, {'name': 'Kathryn E. Keenan', 'affiliation': 'Physical Measurement Laboratory, National Institute of Standards and Technology, Boulder, Colorado', 'orcid': '0000-0001-9070-5255'}, {'name': 'Nikola Stikov', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-8480-5230'}], 'contributors': [{'name': 'NeuroLibre, Admin', 'affiliation': 'NeuroLibre', 'type': 'ContactPerson'}], 'keywords': ['canadian-open-neuroscience-platform', 'neurolibre'], 'related_identifiers': [{'identifier': '10.55458/neurolibre.00019', 'relation': 'isPartOf', 'resource_type': 'publication-preprint', 'scheme': 'doi'}], 'license': 'cc-by-4.0', 'imprint_publisher': 'Zenodo', 'upload_type': 'software', 'prereserve_doi': {'doi': '10.5281/zenodo.10067639', 'recid': 10067639}}, 'title': 'Quantitative T1 MRI', 'links': {'self': 'https://zenodo.org/api/deposit/depositions/10067639', 'html': 'https://zenodo.org/deposit/10067639', 'badge': 'https://zenodo.org/badge/doi/.svg', 'files': 'https://zenodo.org/api/deposit/depositions/10067639/files', 'bucket': 'https://zenodo.org/api/files/0f9a0e4c-27b6-4031-82a9-b967072f53c2', 'latest_draft': 'https://zenodo.org/api/deposit/depositions/10067639', 'latest_draft_html': 'https://zenodo.org/deposit/10067639', 'publish': 'https://zenodo.org/api/deposit/depositions/10067639/actions/publish', 'edit': 'https://zenodo.org/api/deposit/depositions/10067639/actions/edit', 'discard': 'https://zenodo.org/api/deposit/depositions/10067639/actions/discard', 'newversion': 'https://zenodo.org/api/deposit/depositions/10067639/actions/newversion', 'registerconceptdoi': 'https://zenodo.org/api/deposit/depositions/10067639/actions/registerconceptdoi'}, 'record_id': 10067639, 'owner': 262806, 'files': [], 'state': 'unsubmitted', 'submitted': False}, 'data': {'created': '2023-11-02T20:33:42.352545+00:00', 'modified': '2023-11-02T20:33:42.919797+00:00', 'id': 10067641, 'conceptrecid': '10067640', 'metadata': {'title': 'Quantitative T1 MRI', 'publication_date': '2023-11-02', 'description': 'Dataset provided for NeuroLibre preprint.\n Author repo: https://github.com/qMRLab/t1-book-neurolibre \nNeuroLibre fork:https://github.com/roboneurolibre/t1-book-neurolibre For details, please visit the corresponding NeuroLibre technical screening.
\n', 'access_right': 'open', 'creators': [{'name': 'Mathieu Boudreau', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-7726-4456'}, {'name': 'Kathryn E. Keenan', 'affiliation': 'Physical Measurement Laboratory, National Institute of Standards and Technology, Boulder, Colorado', 'orcid': '0000-0001-9070-5255'}, {'name': 'Nikola Stikov', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-8480-5230'}], 'contributors': [{'name': 'NeuroLibre, Admin', 'affiliation': 'NeuroLibre', 'type': 'ContactPerson'}], 'keywords': ['canadian-open-neuroscience-platform', 'neurolibre'], 'related_identifiers': [{'identifier': '10.55458/neurolibre.00019', 'relation': 'isPartOf', 'resource_type': 'publication-preprint', 'scheme': 'doi'}], 'license': 'cc-zero', 'imprint_publisher': 'Zenodo', 'upload_type': 'dataset', 'prereserve_doi': {'doi': '10.5281/zenodo.10067641', 'recid': 10067641}}, 'title': 'Quantitative T1 MRI', 'links': {'self': 'https://zenodo.org/api/deposit/depositions/10067641', 'html': 'https://zenodo.org/deposit/10067641', 'badge': 'https://zenodo.org/badge/doi/.svg', 'files': 'https://zenodo.org/api/deposit/depositions/10067641/files', 'bucket': 'https://zenodo.org/api/files/c57bb4f7-803f-44b9-8439-f0bc3958aef4', 'latest_draft': 'https://zenodo.org/api/deposit/depositions/10067641', 'latest_draft_html': 'https://zenodo.org/deposit/10067641', 'publish': 'https://zenodo.org/api/deposit/depositions/10067641/actions/publish', 'edit': 'https://zenodo.org/api/deposit/depositions/10067641/actions/edit', 'discard': 'https://zenodo.org/api/deposit/depositions/10067641/actions/discard', 'newversion': 'https://zenodo.org/api/deposit/depositions/10067641/actions/newversion', 'registerconceptdoi': 'https://zenodo.org/api/deposit/depositions/10067641/actions/registerconceptdoi'}, 'record_id': 10067641, 'owner': 262806, 'files': [], 'state': 'unsubmitted', 'submitted': False}, 'docker': {'created': '2023-11-02T20:33:48.321342+00:00', 'modified': '2023-11-02T20:33:49.012224+00:00', 'id': 10067643, 'conceptrecid': '10067642', 'metadata': {'title': 'Quantitative T1 MRI', 'publication_date': '2023-11-02', 'description': 'Docker image built from the reference repository/commit by roboneuro, based on the latest change by the author, using repo2docker (through BinderHub).
To run locally: docker load < DockerImage_10.55458_NeuroLibre_00019_0f9c84.tar.gz
docker run -it --rm -p 8888:8888 DOCKER_IMAGE_ID jupyter lab --ip 0.0.0.0
by replacing DOCKER_IMAGE_ID
above with the respective ID of the Docker image loaded from the zip file.
For details, please visit the corresponding NeuroLibre technical screening.
\n', 'access_right': 'open', 'creators': [{'name': 'Mathieu Boudreau', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-7726-4456'}, {'name': 'Kathryn E. Keenan', 'affiliation': 'Physical Measurement Laboratory, National Institute of Standards and Technology, Boulder, Colorado', 'orcid': '0000-0001-9070-5255'}, {'name': 'Nikola Stikov', 'affiliation': 'Montreal Heart Institute, Montreal, Quebec, Canada', 'orcid': '0000-0002-8480-5230'}], 'contributors': [{'name': 'NeuroLibre, Admin', 'affiliation': 'NeuroLibre', 'type': 'ContactPerson'}], 'keywords': ['canadian-open-neuroscience-platform', 'neurolibre'], 'related_identifiers': [{'identifier': '10.55458/neurolibre.00019', 'relation': 'isPartOf', 'resource_type': 'publication-preprint', 'scheme': 'doi'}], 'license': 'cc-by-4.0', 'imprint_publisher': 'Zenodo', 'upload_type': 'software', 'prereserve_doi': {'doi': '10.5281/zenodo.10067643', 'recid': 10067643}}, 'title': 'Quantitative T1 MRI', 'links': {'self': 'https://zenodo.org/api/deposit/depositions/10067643', 'html': 'https://zenodo.org/deposit/10067643', 'badge': 'https://zenodo.org/badge/doi/.svg', 'files': 'https://zenodo.org/api/deposit/depositions/10067643/files', 'bucket': 'https://zenodo.org/api/files/ba716ccf-b653-4554-93c6-95acfa1b45d9', 'latest_draft': 'https://zenodo.org/api/deposit/depositions/10067643', 'latest_draft_html': 'https://zenodo.org/deposit/10067643', 'publish': 'https://zenodo.org/api/deposit/depositions/10067643/actions/publish', 'edit': 'https://zenodo.org/api/deposit/depositions/10067643/actions/edit', 'discard': 'https://zenodo.org/api/deposit/depositions/10067643/actions/discard', 'newversion': 'https://zenodo.org/api/deposit/depositions/10067643/actions/newversion', 'registerconceptdoi': 'https://zenodo.org/api/deposit/depositions/10067643/actions/registerconceptdoi'}, 'record_id': 10067643, 'owner': 262806, 'files': [], 'state': 'unsubmitted', 'submitted': False}}
@roboneuro zenodo archive data
I'm sorry human, I don't understand that. You can see what commands I support by typing:
@roboneuro commands
@roboneuro zenodo upload data
🟢 Reproducibility Assets - Archive Data
Status: Success b026fe2c
Last updated: 2023-11-02 13:36:09 PDT
Successful /DATA/zenodo/00019/Dataset_10.55458_NeuroLibre_00019_0f9c84.zip to https://zenodo.org/api/files/c57bb4f7-803f-44b9-8439-f0bc3958aef4
@roboneuro zenodo upload repository
🟢 Reproducibility Assets - Archive GitHub Repository
Status: Success daa1cd52
Last updated: 2023-11-02 13:36:34 PDT
Successful /DATA/zenodo/00019/GitHubRepo_10.55458_NeuroLibre_00019_0f9c84.zip to https://zenodo.org/api/files/0f9a0e4c-27b6-4031-82a9-b967072f53c2
@roboneuro zenodo upload book
🟢 Reproducibility Assets - Archive Jupyter Book
Status: Success 77afbeda
Last updated: 2023-11-02 13:40:53 PDT
Successful /DATA/zenodo/00019/JupyterBook_10.55458_NeuroLibre_00019_0f9c84.zip to https://zenodo.org/api/files/73820fd8-00c7-44f0-b3ad-927313b2ee2b
@roboneuro zenodo upload docker
Submitting author: !--author-handle-->@mathieuboudreau<!--end-author-handle-- (Mathieu Boudreau) Repository: https://github.com/qMRLab/t1-book-neurolibre Branch with paper.md (empty if default branch): main Version: v1.0.0 Editor: !--editor-->@agahkarakuzu<!--end-editor-- Reviewers: !--reviewers-list-->@agahkarakuzu<!--end-reviewers-list-- Reproducible preprint: https://preprint.neurolibre.org/10.55458/neurolibre.00019 Repository archive: 10.5281/zenodo.10067639 Data archive: 10.5281/zenodo.10067641 Book archive: 10.5281/zenodo.10067637 Docker archive: 10.5281/zenodo.10067643
Status
Status badge code:
Reviewers and authors:
Please avoid lengthy details of difficulties in the review thread. Instead, please create a new issue in the target repository and link to those issues (especially acceptance-blockers) by leaving comments in the review thread below. (For completists: if the target issue tracker is also on GitHub, linking the review thread in the issue or vice versa will create corresponding breadcrumb trails in the link target.)
Reviewer instructions & questions
@agahkarakuzu, your review will be checklist based. Each of you will have a separate checklist that you should update when carrying out your review. First of all you need to run this command in a separate comment to create the checklist:
The reviewer guidelines are available here: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html. Any questions/concerns please let @agahkarakuzu know.
✨ Please start on your review when you are able, and be sure to complete your review in the next six weeks, at the very latest ✨
Checklists
@agahkarakuzu, please create your checklist typing:
@roboneuro generate my checklist