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[REVIEW]: Koverage: Read-coverage analysis for massive (meta)genomics datasets #6235
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Hello humans, I'm @editorialbot, a robot that can help you with some common editorial tasks. For a list of things I can do to help you, just type:
For example, to regenerate the paper pdf after making changes in the paper's md or bib files, type:
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Wordcount for |
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👋🏼 @beardymcjohnface, @lparsons, @telatin - this is the review thread for the submission. All of our communications will happen here from now on. Please check the post at the top of the issue for instructions on how to generate your own review checklist. As you go over the submission, please check any items that you feel have been satisfied. There are also links to the JOSS reviewer guidelines. The JOSS review is different from most other journals. Our goal is to work with the authors to help them meet our criteria instead of merely passing judgment on the submission. As such, the reviewers are encouraged to submit issues directly in the software repository. If you do so, please mention this thread so that a link is created (and I can keep an eye on what is happening). Please also feel free to comment and ask questions in this thread. It is often easier to post comments/questions/suggestions as you come across them instead of waiting until you've reviewed the entire package. Please feel free to ping me (@csoneson) if you have any questions or concerns. Thanks! |
Review checklist for @lparsonsConflict of interest
Code of Conduct
General checks
Functionality
Documentation
Software paper
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Howdy, Great package, I think this can be very useful. I started testing the package, but I cannot see the checklist here. |
@telatin You have to generate your own review checklist; see the first post in this issue for instructions. |
Review checklist for @telatinConflict of interest
Code of Conduct
General checks
Functionality
Documentation
Software paper
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LGTM! |
Same, LGTM. |
Ok, thanks both for your reviews! |
@editorialbot check references |
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@editorialbot generate pdf |
👋🏻 @beardymcjohnface - I have gone through your submission and overall it looks good. I made a PR here with some small suggestions for the paper. In addition to that, note that your paper is currently significantly longer than the recommendations in the JOSS guidelines (250-1,000 words, yours is over 2,000). If you could look into trimming the manuscript a bit to get closer to the recommended length, that would be great. Once that is done, you can generate a new proof here with I will make another post below with the other remaining steps (some for you, some for me). |
Post-Review Checklist for Editor and AuthorsAdditional Author Tasks After Review is Complete
Editor Tasks Prior to Acceptance
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Wordcount for |
@editorialbot set 0.1.11 as version |
Done! version is now 0.1.11 |
@editorialbot check references |
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Thanks @beardymcjohnface - could you please fix the title of the Zenodo archive so that it's the same as the paper title? |
Done! |
@editorialbot set 10.5281/zenodo.10633263 as archive |
Done! archive is now 10.5281/zenodo.10633263 |
Great, thank you @beardymcjohnface - I will hand off to the track AEiC for the last steps. Thank you for submitting to JOSS! |
@editorialbot recommend-accept |
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👋 @openjournals/bcm-eics, this paper is ready to be accepted and published. Check final proof 👉📄 Download article If the paper PDF and the deposit XML files look good in openjournals/joss-papers#5054, then you can now move forward with accepting the submission by compiling again with the command |
@beardymcjohnface as AEiC will now process final steps for acceptance in JOSS. I have just checked the paper, the archive link, your repository, and this review. All seems in order so I will now proceed to accept this paper in JOSS. |
@editorialbot accept |
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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
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. |
🐘🐘🐘 👉 Toot for this paper 👈 🐘🐘🐘 |
🚨🚨🚨 THIS IS NOT A DRILL, YOU HAVE JUST ACCEPTED A PAPER INTO JOSS! 🚨🚨🚨 Here's what you must now do:
Any issues? Notify your editorial technical team... |
@beardymcjohnface congratulations on this JOSS publication! Thanks for the flawless editing @csoneson! And a special thanks to the reviewers: @lparsons, @telatin !! |
🎉🎉🎉 Congratulations on your paper acceptance! 🎉🎉🎉 If you would like to include a link to your paper from your README use the following code snippets:
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:
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Submitting author: @beardymcjohnface (Michael J. Roach)
Repository: https://github.com/beardymcjohnface/Koverage
Branch with paper.md (empty if default branch): JOSS
Version: 0.1.11
Editor: @csoneson
Reviewers: @lparsons, @telatin
Archive: 10.5281/zenodo.10633263
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
@lparsons & @telatin, 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 @csoneson 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
📝 Checklist for @lparsons
📝 Checklist for @telatin
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