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editorialbot opened this issue Aug 28, 2024 · 57 comments
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[PRE REVIEW]: SLAP2 Utils: Tools for Processing SLAP2 Data #7152

editorialbot opened this issue Aug 28, 2024 · 57 comments
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@jrkerns @Kevin-Mattheus-Moerman @larsenkg
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pre-review Track: 2 (BCM) Biomedical Engineering, Biosciences, Chemistry, and Materials

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editorialbot commented Aug 28, 2024 •
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Submitting author: @Peter-Hogg (Peter William Hogg)
Repository: https://github.com/Peter-Hogg/SLAP2_Utils
Branch with paper.md (empty if default branch):
Version: 0.3.0
Editor: @Kevin-Mattheus-Moerman
Reviewers: @larsenkg, @jrkerns
Managing EiC: Kevin M. Moerman

Status

status

Status badge code:

HTML: <a href="https://joss.theoj.org/papers/d5ec64eed4cadc4ae9f39a8b8614b9c6"><img src="https://joss.theoj.org/papers/d5ec64eed4cadc4ae9f39a8b8614b9c6/status.svg"></a>
Markdown: [![status](https://joss.theoj.org/papers/d5ec64eed4cadc4ae9f39a8b8614b9c6/status.svg)](https://joss.theoj.org/papers/d5ec64eed4cadc4ae9f39a8b8614b9c6)

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

@Peter-Hogg if you have any suggestions for potential reviewers then please mention them here in this thread (without tagging them with an @). You can search the list of people that have already agreed to review and may be suitable for this submission.

Editor instructions

The JOSS submission bot @editorialbot is here to help you find and assign reviewers and start the main review. To find out what @editorialbot can do for you type:

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@editorialbot editorialbot added pre-review Track: 2 (BCM) Biomedical Engineering, Biosciences, Chemistry, and Materials labels Aug 28, 2024
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Hello human, 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:

@editorialbot commands

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

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Software report:

github.com/AlDanial/cloc v 1.90  T=0.09 s (1363.6 files/s, 198583.7 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
SVG                              2              0              0           3153
Python                          35            980           1335           2354
OpenCL                           1              0             12           1727
HTML                             8            217             24           1350
MATLAB                          23            613            546           1301
JavaScript                      12            138            228            911
CSS                              4            190             35            780
YAML                             4             19              4            120
TeX                              1              9              0             98
CSV                              4              0              0             97
reStructuredText                17             52             70             84
Markdown                         3             30              0             73
Jupyter Notebook                 1              0            494             49
TOML                             1              4              0             33
DOS Batch                        1              8              1             26
make                             1              4              7              9
-------------------------------------------------------------------------------
SUM:                           118           2264           2756          12165
-------------------------------------------------------------------------------

Commit count by author:

   209	Jerry Tong
   116	peter-hogg
    50	Peter
    16	Peter Hogg
     4	unknown
     2	praiseful

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Paper file info:

📄 Wordcount for paper.md is 1457

✅ The paper includes a Statement of need section

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

✅ OK DOIs

- 10.1038/s41592-019-0493-9 is OK
- 10.7717/peerj.453 is OK
- 10.1038/s41586-020-2649-2 is OK
- 10.1038/s41592-019-0686-2 is OK

🟡 SKIP DOIs

- No DOI given, and none found for title: SLAP2 – Two Photon Microscope Kit
- No DOI given, and none found for title: The phase correlation image alignment method
- No DOI given, and none found for title: CuPy: A NumPy-Compatible Library for NVIDIA GPU Ca...
- No DOI given, and none found for title: PyTorch: An Imperative Style, High-Performance Dee...
- No DOI given, and none found for title: Python and HDF5

❌ MISSING DOIs

- None

❌ INVALID DOIs

- None

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License info:

✅ License found: Mozilla Public License 2.0 (Valid open source OSI approved license)

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👉📄 Download article proof 📄 View article proof on GitHub 📄 👈

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Five most similar historical JOSS papers:

Bidsme: expandable BIDS-ifier of brain imagery datasets
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⚠️ Note to editors: If these papers look like they might be a good match, click through to the review issue for that paper and invite one or more of the authors before considering asking the reviewers of these papers to review again for JOSS.

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List of Potential Reviewers:

  • Ian Hunt-Isaak
  • James Kerns
  • Haykel Snoussi
  • Dani Bodor
  • Ajinkya Kadu

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@editorialbot invite @sneakers-the-rat as editor

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Invitation to edit this submission sent!

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@sneakers-the-rat 👋 do you think you can help edit this one? Thanks

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@sneakers-the-rat 👋

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@editorialbot invite @mooniean as editor

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@editorialbot assign me as editor

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Assigned! @mooniean is now the editor

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mooniean commented Oct 15, 2024 •
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Hi 👋 @ianhi @jrkerns @H-Snoussi - would you be available and interested in reviewing this submission for the Journal of Open Source Software?

SLAP2 Utils: Tools for Processing SLAP2 Data
#7152

Thanks in advance!

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H-Snoussi commented Oct 15, 2024 via email

@jrkerns
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jrkerns commented Oct 15, 2024

Yes, I can review this.

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ianhi commented Oct 17, 2024

I could potentially review this - but only on the caveat that I may have very slow response times. I'm both attempting to finish grad school in the next few months as well as have a wedding in December. So in sum, if someone else is available please go with them, but I'm happy to serve as a (potentially slow to review) backup

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@ianhi thank you! I'll ask the next names on the list @Peter-Hogg suggested, but I'll keep you in mind and thank you for being upfront!

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Hi 👋 @ajinkyakadu - would you be available and interested in reviewing this submission for the Journal of Open Source Software?

#7152
#7152

Thanks in advance!

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Kevin-Mattheus-Moerman commented Oct 20, 2024 •
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@openjournals/dev an editor has been assigned here but this one is still showing up on the dashboard as unassigned. Can you check what is happening? Thanks. Side note, the invitation to @mooniean did not give me the normal confirm message.

@mooniean this does not influence anything here.

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xuanxu commented Oct 22, 2024

an editor has been assigned here but this one is still showing up on the dashboard as unassigned.

fixed!

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H-Snoussi commented Oct 22, 2024 via email

@ajinkyakadu
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Hi @mooniean, the work looks really interesting; but I currently don't have a bandwidth.

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Hi @ThFriedrich ! Would you be available and interested in reviewing this submission for the Journal of Open Source Software?

SLAP2 Utils: Tools for Processing SLAP2 Data

#7152

Thanks in advance!

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H-Snoussi commented Oct 28, 2024 via email

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Hi @mooniean, thanks for the consideration, but I unfortunately do not have time currently to review this, as there is way too much on my plate in the near future. Sorry for this, and I am still happy to be considered for future review processes.

@Kevin-Mattheus-Moerman Kevin-Mattheus-Moerman added the waitlisted Submissions in the JOSS backlog due to reduced service mode. label Mar 17, 2025
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@editorialbot assign @samhforbes as editor

@editorialbot editorialbot assigned samhforbes and unassigned mooniean Mar 17, 2025
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Assigned! @samhforbes is now the editor

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@Peter-Hogg the handling editor has just been switched to @samhforbes pleas address all communication to him now.

@Kevin-Mattheus-Moerman Kevin-Mattheus-Moerman removed the waitlisted Submissions in the JOSS backlog due to reduced service mode. label Mar 17, 2025
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@editorialbot assign me as editor

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Assigned! @Kevin-Mattheus-Moerman is now the editor

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@Peter-Hogg actually, to help (hopefully) speed things along, I've assigned myself as editor just now. It has been tricky to find reviewers here though. Hopefully we can find some folks shortly.

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@editorialbot generate pdf

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👉📄 Download article proof 📄 View article proof on GitHub 📄 👈

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Five most similar historical JOSS papers:

MRdataset : A unified and user-friendly interface to medical imaging datasets
Submitting author: @sinhaharsh
Handling editor: @mstimberg (Active)
Reviewers: @htwangtw, @djmannion
Similarity score: 0.6273

Bidsme: expandable BIDS-ifier of brain imagery datasets
Submitting author: @nbeliy
Handling editor: @emdupre (Active)
Reviewers: @PeerHerholz, @TheChymera
Similarity score: 0.6253

WrightTools: a Python package for multidimensional spectroscopy
Submitting author: @untzag
Handling editor: @yochannah (Retired)
Reviewers: @daissi, @ivergara
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Your: Your Unified Reader
Submitting author: @KshitijAggarwal
Handling editor: @dfm (Active)
Reviewers: @pravirkr, @paulray
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⚠️ Note to editors: If these papers look like they might be a good match, click through to the review issue for that paper and invite one or more of the authors before considering asking the reviewers of these papers to review again for JOSS.

@Kevin-Mattheus-Moerman
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@peterhys, @Armavica,, @ianhi, @untzag would you be interested in reviewing this submission for JOSS (the Journal of Open Source Software? The work is titled SLAP2 Utils: Tools for Processing SLAP2 Data and features Python for processing of a custom microscopy file format.

JOSS reviews take place on GitHub and focus on the software 💾 as well as a short paper 📜 . We typically aim for a 2-3 week review but we can be more flexible if needed. You can find more about our review process in our review guidelines. Here is an example of an ongoing review if you want to see what it is like: #7564.

If you are interested you can let me know by responding here.

Thanks!

@Kevin-Mattheus-Moerman
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@editorialbot add @larsenkg as reviewer

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@larsenkg added to the reviewers list!

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@editorialbot add @jrkerns as reviewer

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@jrkerns added to the reviewers list!

@Kevin-Mattheus-Moerman
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@larsenkg @jrkerns thanks for agreeing to review. You agreed a long time ago however, so I would just like to check if you remain able to help with this review? Thanks!

@larsenkg
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Yes, I am still available to review.

@Kevin-Mattheus-Moerman
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@jrkerns let us know if you can still help too. Thanks

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jrkerns commented Apr 15, 2025

Sure

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@editorialbot start review

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OK, I've started the review over in #8054.

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