[REVIEW]: romain paper

[med-oc]

Submitting author: !--author-handle-->@max-anu<!--end-author-handle-- (Max Proft) Repository: https://github.com/rbeucher/med-portal-intake-tutorial Branch with paper.md (empty if default branch): max Version: v1.0 Editor: !--editor-->@max-anu<!--end-editor-- Reviewers: !--reviewers-list-->@max-anu<!--end-reviewers-list-- Archive: 10.21105/medportal.00111

Status

Status badge code:

HTML: <a href="https://medportal-dev-6a745f452687.herokuapp.com/papers/51dc15b9e1e52d903afbda1689dce72e"><img src="https://medportal-dev-6a745f452687.herokuapp.com/papers/51dc15b9e1e52d903afbda1689dce72e/status.svg"></a>
Markdown: [![status](https://medportal-dev-6a745f452687.herokuapp.com/papers/51dc15b9e1e52d903afbda1689dce72e/status.svg)](https://medportal-dev-6a745f452687.herokuapp.com/papers/51dc15b9e1e52d903afbda1689dce72e)

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

@max-anu, 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 @max-anu 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

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

[med-oc]

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]

@med-oc set 10.21105/medportal.00111 as archive

[med-oc]

Done! archive is now 10.21105/medportal.00111

[max-anu]

@med-oc accept

[med-oc]

Doing it live! Attempting automated processing of paper acceptance...

[med-oc]

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

IDREFS attribute rid references an unknown ID "figU003Afig_catalog_flow"

[max-anu]

@med-oc accept

[med-oc]

Doing it live! Attempting automated processing of paper acceptance...

[med-oc]

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

IDREFS attribute rid references an unknown ID "figU003Afig-catalog-flow"

[max-anu]

@med-oc accept

[med-oc]

Doing it live! Attempting automated processing of paper acceptance...

[med-oc]

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

IDREFS attribute rid references an unknown ID "figU003Afig-catalog-flow"

[max-anu]

@med-oc accept

[med-oc]

Doing it live! Attempting automated processing of paper acceptance...

[med-oc]

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

IDREFS attribute rid references an unknown ID "figU003Aabc"
IDREFS attribute rid references an unknown ID "figU003Ablah"

[max-anu]

@med-oc accept

[med-oc]

Doing it live! Attempting automated processing of paper acceptance...

[med-oc]

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

IDREFS attribute rid references an unknown ID "figU003Ablah"
IDREFS attribute rid references an unknown ID "figU003Aabc"

[max-anu]

@med-oc accept

[med-oc]

Doing it live! Attempting automated processing of paper acceptance...

[med-oc]

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

IDREFS attribute rid references an unknown ID "figU003Aabc"

[max-anu]

@med-oc accept

[med-oc]

Doing it live! Attempting automated processing of paper acceptance...

[med-oc]

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.

replacing image with description

[med-oc]

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.00111 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.00111 issn: 2475-9066 issue: 5 journal: ACCESS-NRI MED Portal publisher: name: Open Journals start: 111 title: Introduction to the ACCESS-NRI Intake catalog type: article url: "https://joss.theoj.org//papers/10.21105/medportal.00111" 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]

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

Here's what you must now do:

0. Check final PDF and Crossref metadata that was deposited :point_right: https://github.com/ACCESS-NRI/med-recipes/pull/60
1. Wait a couple of minutes, then verify that the paper DOI resolves https://doi.org/10.21105/medportal.00111
2. If everything looks good, then close this review issue.
3. Party like you just published a paper! 🎉🌈🦄💃👻🤘

Any issues? Notify your editorial technical team...

[med-oc]

:tada::tada::tada: Congratulations on your paper acceptance! :tada::tada::tada:

If you would like to include a link to your paper from your README use the following code snippets:

Markdown:
[![DOI](https://joss.theoj.org/papers/10.21105/joss.0111/status.svg)](https://doi.org/10.21105/joss.0111)

HTML:
<a style="border-width:0" href="https://doi.org/10.21105/joss.0111">
  <img src="https://joss.theoj.org/papers/10.21105/joss.0111/status.svg" alt="DOI badge" >
</a>

reStructuredText:
.. image:: https://joss.theoj.org/papers/10.21105/joss.0111/status.svg
   :target: https://doi.org/10.21105/joss.0111

This is how it will look in your documentation:

We need your help!

The Journal of Open Source Software is a community-run journal and relies upon volunteer effort. If you'd like to support us please consider doing either one (or both) of the the following:

• Volunteering to review for us sometime in the future. You can add your name to the reviewer list here: https://reviewers.joss.theoj.org/join
• Making a small donation to support our running costs here: https://numfocus.org/donate-to-joss