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[REVIEW]: Introduction to the ACCESS-NRI Intake catalog #92

Open med-oc opened 11 months ago

med-oc commented 11 months ago

Submitting author: !--author-handle-->@rbeucher<!--end-author-handle-- (Romain Beucher) Repository: https://github.com/rbeucher/med-portal-intake-tutorial.git Branch with paper.md (empty if default branch): Version: v0.0.1 Editor: !--editor-->@rbeucher<!--end-editor-- Reviewers: !--reviewers-list-->@rbeucher<!--end-reviewers-list-- Archive: 10.21105/medportal.00092

Status

status

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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

@rbeucher, 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:

@med-oc generate my checklist

The reviewer guidelines are available here: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html. Any questions/concerns please let @rbeucher 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

@rbeucher, please create your checklist typing: @med-oc generate my checklist

med-oc commented 11 months ago

Hello humans, I'm @med-oc, a robot that can help you with some common editorial tasks.

For a list of things I can do to help you, just type:

@med-oc help

For example, to regenerate the paper pdf after making changes in the paper's md or bib files, type:

@med-oc generate pdf
max-anu commented 11 months ago

@med-oc set 10.21105/medportal.00092 as archive

med-oc commented 11 months ago

Done! archive is now 10.21105/medportal.00092

max-anu commented 11 months ago

@med-oc accept

med-oc commented 11 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 11 months ago

The paper's PDF and metadata files generation produced some warnings that could prevent the final paper from being published. Please fix them before the end of the review process.

citation fidgit not found
med-oc commented 11 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "ref-fidgit"
IDREFS attribute rid references an unknown ID "figU003Acatalog_flow"
max-anu commented 11 months ago

@med-oc accept

med-oc commented 11 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 11 months ago

The paper's PDF and metadata files generation produced some warnings that could prevent the final paper from being published. Please fix them before the end of the review process.

citation fidgit not found
med-oc commented 11 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "ref-fidgit"
IDREFS attribute rid references an unknown ID "figU003Acatalog_flow"
rbeucher commented 11 months ago

@med-oc accept

max-anu commented 11 months ago

Can you try this again? I added a line to the TrackAeic table which might be enough to get this to work? @rbeucher

rbeucher commented 11 months ago

@med-oc accept

med-oc commented 11 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 11 months ago

The paper's PDF and metadata files generation produced some warnings that could prevent the final paper from being published. Please fix them before the end of the review process.

citation fidgit not found
med-oc commented 11 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "figU003Acatalog_flow"
IDREFS attribute rid references an unknown ID "ref-fidgit"
max-anu commented 11 months ago

@med-oc accept

med-oc commented 11 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 11 months ago

The paper's PDF and metadata files generation produced some warnings that could prevent the final paper from being published. Please fix them before the end of the review process.

citation fidgit not found
med-oc commented 11 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "figU003Acatalog_flow"
IDREFS attribute rid references an unknown ID "ref-fidgit"
rbeucher commented 9 months ago

@max-anu can you try again? I have removed the reference.

max-anu commented 9 months ago

@med-oc accept

max-anu commented 9 months ago

@med-oc hello

rbeucher commented 9 months ago

Still dead?

rbeucher commented 8 months ago

@med-oc accept

med-oc commented 8 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 8 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "figU003Acatalog_flow"
rbeucher commented 8 months ago

@med-oc accept

med-oc commented 8 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 8 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "figU003Acatalog_flow"
rbeucher commented 8 months ago

@med-oc accept

med-oc commented 8 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 8 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "figU003Acatalog_flow"
rbeucher commented 8 months ago

@med-oc accept

rbeucher commented 8 months ago

@med-oc accept

med-oc commented 8 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 8 months ago

:warning: Couldn't acccept/publish paper. An error happened. The generated XML metadata file is invalid. 

IDREFS attribute rid references an unknown ID "fig_catalog_flow"
rbeucher commented 8 months ago

Can you have a look @max-anu ?

max-anu commented 8 months ago

@rbeucher Can you try run this again? It works for me and I want to make sure it also works for you. (Note: It's not displaying PDFs on the website but you can download it).

rbeucher commented 8 months ago

@med-oc accept

med-oc commented 8 months ago 
Doing it live! Attempting automated processing of paper acceptance...
med-oc commented 8 months ago

Ensure proper citation by uploading a plain text CITATION.cff file to the default branch of your repository.

If using GitHub, a Cite this repository menu will appear in the About section, containing both APA and BibTeX formats. When exported to Zotero using a browser plugin, Zotero will automatically create an entry using the information contained in the .cff file.

You can copy the contents for your CITATION.cff file here:

CITATION.cff

``` cff-version: "1.2.0" authors: - family-names: Squire given-names: Dougal orcid: "https://orcid.org/0000-0003-3271-6874" - family-names: Beucher given-names: Romain orcid: "https://orcid.org/0000-0002-2207-6837" doi: 10.21105/medportal.00092 message: If you use this software, please cite our article in the Journal of Open Source Software. preferred-citation: authors: - family-names: Squire given-names: Dougal orcid: "https://orcid.org/0000-0003-3271-6874" - family-names: Beucher given-names: Romain orcid: "https://orcid.org/0000-0002-2207-6837" date-published: 2023-12-12 doi: 10.21105/medportal.00092 issn: 2475-9066 issue: 5 journal: ACCESS-NRI MED Portal publisher: name: Open Journals start: 92 title: Introduction to the ACCESS-NRI Intake catalog type: article url: "https://joss.theoj.org//papers/10.21105/medportal.00092" volume: 1 title: Introduction to the ACCESS-NRI Intake catalog ```

If the repository is not hosted on GitHub, a .cff file can still be uploaded to set your preferred citation. Users will be able to manually copy and paste the citation.

Find more information on .cff files here and here.

med-oc commented 8 months ago

🚨🚨🚨 THIS IS NOT A DRILL, YOU HAVE JUST ACCEPTED A PAPER INTO ACCESS-NRI MED PORTAL! 🚨🚨🚨

Here's what you must now do:

  1. Check final PDF and Crossref metadata that was deposited :point_right: https://github.com/ACCESS-NRI/med-recipes/pull/62
  2. Wait a couple of minutes, then verify that the paper DOI resolves https://doi.org/10.21105/medportal.00092
  3. If everything looks good, then close this review issue.
  4. Party like you just published a paper! 🎉🌈🦄💃👻🤘

Any issues? Notify your editorial technical team...