[PRE REVIEW]: SODA: Software to Support the Curation and Sharing of FAIR Autonomic Nervous System Data

[editorialbot]

Submitting author: !--author-handle-->@bvhpatel<!--end-author-handle-- (Bhavesh Patel) Repository: https://github.com/fairdataihub/SODA-for-SPARC Branch with paper.md (empty if default branch): paper Version: v12.3.1 Editor: !--editor-->@AJQuinn<!--end-editor-- Reviewers: @mattsouth, @yarikoptic, @abhishektiwari Managing EiC: Kevin M. Moerman

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Thanks for submitting your paper to JOSS @bvhpatel. Currently, there isn't a JOSS editor assigned to your paper.

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[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.88  T=0.72 s (358.1 files/s, 369609.0 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
JavaScript                      73           5206           4766         141225
JSON                             8              0              0          38595
HTML                            23            641            276          25454
CSS                             27           3360            376          22457
Python                          81           2873           1970           9478
SVG                             13              4              4           3095
Jupyter Notebook                 2              0           1607           1656
Markdown                         8            429              0           1068
YAML                            13             67             47            414
TeX                              1             10              0             95
XML                              4              0              0             55
Bourne Shell                     4              4              0             12
-------------------------------------------------------------------------------
SUM:                           257          12594           9046         243604
-------------------------------------------------------------------------------

gitinspector failed to run statistical information for the repository

[editorialbot]

Wordcount for paper.md is 1435

[editorialbot]

Reference check summary (note 'MISSING' DOIs are suggestions that need verification):

OK DOIs

- None

MISSING DOIs

- 10.1101/2021.04.01.438136 may be a valid DOI for title: The SPARC DRC: building a resource for the autonomic nervous system community
- 10.1101/2022.04.18.488694 may be a valid DOI for title: Making Biomedical Research Software FAIR: Actionable Step-by-step Guidelines with a User-support Tool
- 10.1101/2021.08.08.455581 may be a valid DOI for title: KnowMore: an automated knowledge discovery tool for the FAIR SPARC datasets
- 10.1101/2021.02.10.430563 may be a valid DOI for title: Sparc data structure: Rationale and design of a fair standard for biomedical research data
- 10.1096/fasebj.2020.34.s1.02483 may be a valid DOI for title: SPARC: SODA, an interactive software for curating SPARC datasets
- 10.1101/2021.10.22.465507 may be a valid DOI for title: SPARClink: an interactive tool to visualize the impact of the SPARC program

INVALID DOIs

- None

[editorialbot]

:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:

[editorialbot]

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[Kevin-Mattheus-Moerman]

@editorialbot invite @AJQuinn as editor

[editorialbot]

Invitation to edit this submission sent!

[AJQuinn]

Hello @Kevin-Mattheus-Moerman - happy to take this one. Thanks

[Kevin-Mattheus-Moerman]

@editorialbot assign @AJQuinn as editor

[editorialbot]

Assigned! @AJQuinn is now the editor

[AJQuinn]

Hi @bvhpatel - apologies for the delay getting started on this. Will start finding reviewers over the next few days.

In the meantime, could you double check the DOIs in your paper draft. You have valid bibtex on your branch https://github.com/fairdataihub/SODA-for-SPARC/blob/paper/paper/paper.bib but it looks like the entries don't have a doi key or a url. For example - from a quick glance, the Wilkinson et al 2016 ref should include the following lines

  doi = {10.1038/sdata.2016.18},
  url = {https://doi.org/10.1038/sdata.2016.18},

Could you review the bibtex and let me know when you have an update?

[AJQuinn]

@editorialbot add @mattsouth as reviewer

[editorialbot]

@mattsouth added to the reviewers list!

[bvhpatel]

@AJQuinn Thanks! I have added the DOIs.

[AJQuinn]

@editorialbot check references

[editorialbot]

Reference check summary (note 'MISSING' DOIs are suggestions that need verification):

OK DOIs

- 10.1038/sdata.2016.18 is OK
- 10.3389/fphys.2021.693735 is OK
- 10.1038/s41597-023-02463-x is OK
- 10.12688/f1000research.73492.1 is OK
- 10.1101/2021.02.10.430563 is OK
- 10.1096/fasebj.2020.34.s1.02483 is OK

MISSING DOIs

- None

INVALID DOIs

- 10.12688/f1000research.75071.1) is INVALID

[AJQuinn]

Thank you @bvhpatel - looking good though one final tweak is needed, details in the issue linked above.

[AJQuinn]

👋 Hello - @yarikoptic would you be willing to review this submission for JOSS? The code repository and paper details are further up in this thread.

We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/review_criteria.html - please check them out for more information and please feel free to ask questions in this thread.

[yarikoptic]

cool, will do. Looking forward to familiarize myself with SODA more!

[AJQuinn]

Thanks @yarikoptic - much appreciated

[AJQuinn]

@editorialbot add @yarikoptic as reviewer

[editorialbot]

@yarikoptic added to the reviewers list!

[AJQuinn]

👋 Hello - @ixjlyons would you be willing to review this submission for JOSS? The code repository and paper details are further up in this thread.

We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/review_criteria.html - please check them out for more information and please feel free to ask questions in this thread.

Cheers!

[AJQuinn]

Hi @bvhpatel - Given the size of your code base I'll try to find one additional reviewer, there is a lot to cover for two. Hopefully we can get started in the next few days.

[ixjlyons]

@AJQuinn my web app experience is rather limited - I think I should decline this one.

[abhishektiwari]

@AJQuinn I will be happy to assist with review of this paper.

[Kevin-Mattheus-Moerman]

@AJQuinn please pick up the reviewer searching/assigning process and proceed to review when possible.

[yarikoptic]

sorry for the delay - was traveling/sick/traveling. Will provide review within 2-3 days.

[Kevin-Mattheus-Moerman]

@yarikoptic no worries, the review actually has not started yet, since this is the pre-review issue. Once @AJQuinn has assigned the right amount of reviewers they'll trigger the actually review issue.

[AJQuinn]

Hi @bvhpatel @Kevin-Mattheus-Moerman - sincere apologies for letting this drift. I'm back in normal business this week.

[AJQuinn]

@editorialbot add @abhishektiwari as reviewer

[editorialbot]

@abhishektiwari added to the reviewers list!

[AJQuinn]

Thanks @abhishektiwari - much appreciated!

[AJQuinn]

@editorialbot start review

[editorialbot]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/6140.