Joss-reviews: [PRE REVIEW]: Reorient: A Web tool for reorienting and cropping MRI data.

[whedon]

Submitting author: @katjaq (Katja Heuer)
Repository: https://github.com/neuroanatomy/reorient
Version: v1.0.0
Editor: @oliviaguest
Reviewers: @sneakers-the-rat, @pauldmccarthy
Managing EiC: Daniel S. Katz

:warning: JOSS reduced service mode :warning:

Due to the challenges of the COVID-19 pandemic, JOSS is currently operating in a "reduced service mode". You can read more about what that means in our blog post.

Author instructions

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

@katjaq if you have any suggestions for potential reviewers then please mention them here in this thread (without tagging them with an @). In addition, this list of people have already agreed to review for JOSS and may be suitable for this submission (please start at the bottom of the list).

Editor instructions

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

@whedon commands

[whedon]

Hello human, I'm @whedon, a robot that can help you with some common editorial tasks.

:warning: JOSS reduced service mode :warning:

Due to the challenges of the COVID-19 pandemic, JOSS is currently operating in a "reduced service mode". You can read more about what that means in our blog post.

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

@whedon commands

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

@whedon generate pdf

[whedon]

Software report (experimental):

github.com/AlDanial/cloc v 1.84  T=0.30 s (82.2 files/s, 63536.5 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
JavaScript                      12           2372           4155          11325
SVG                              5              4              4            513
JSON                             2              0              0            488
HTML                             3             31             12            345
CSS                              1              1              0             46
YAML                             1              0              0             17
Markdown                         1             12              0              8
-------------------------------------------------------------------------------
SUM:                            25           2420           4171          12742
-------------------------------------------------------------------------------


Statistical information for the repository '2667' was gathered on 2020/09/11.
The following historical commit information, by author, was found:

Author                     Commits    Insertions      Deletions    % of changes
Roberto Toro                     4         17746             42           95.16
katja heuer                      4             8              7            0.08
katjaq                           3           215            204            2.24
r03ert0                          3           237            233            2.51

Below are the number of rows from each author that have survived and are still
intact in the current revision:

Author                     Rows      Stability          Age       % in comments
Roberto Toro              17344           97.7          0.6               27.69
katja heuer                 143         1787.5          4.3                4.20
r03ert0                     233           98.3          0.4               45.49

[whedon]

PDF failed to compile for issue #2667 with the following error:

Can't find any papers to compile :-(

[danielskatz]

@whedon generate pdf from branch joss-paper-branch

[whedon]

Attempting PDF compilation from custom branch joss-paper-branch. Reticulating splines etc...

[whedon]

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

[danielskatz]

@whedon check references from branch joss-paper-branch

[whedon]

Attempting to check references... from custom branch joss-paper-branch

[whedon]

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

OK DOIs

- 10.1016/j.cortex.2019.04.011 is OK
- 10.1016/j.neuron.2018.08.039 is OK
- 10.5281/ZENODO.3402456 is OK
- 10.5281/ZENODO.3937147 is OK

MISSING DOIs

- None

INVALID DOIs

- None

[danielskatz]

👋 @cMadan - Is there any chance you can take on one more submission to edit?

[danielskatz]

@whedon invite @cMadan as editor

[whedon]

@cMadan has been invited to edit this submission.

[cMadan]

@danielskatz, unfortunately, I'm at capacity right now.

[danielskatz]

👋 @oliviaguest - any chance you could take even one more submission to edit?

[danielskatz]

@whedon invite @oliviaguest as editor

[whedon]

@oliviaguest has been invited to edit this submission.

[oliviaguest]

@danielskatz There is a non-zero chance I can take this on. By which I mean, yes.

[oliviaguest]

@whedon assign @oliviaguest as editor

[whedon]

OK, the editor is @oliviaguest

[oliviaguest]

@katjaq when you get a moment can you drop some names for potential reviewers, please? 😊

[oliviaguest]

@whedon add @sneakers-the-rat as reviewer

[whedon]

OK, @sneakers-the-rat is now a reviewer

[katjaq]

Hello @oliviaguest ! Thank you so much for being editor for our paper.
As reviewers, we would like to suggest Anibal Solon (anibalsolon), Katie Bottenhorn (62442katieb), Felix Henninger (felixhenninger). Finally, Paul McCarthy (pauldmccarthy): he's the developer of FSLeyes, however, he's not in the reviewer pool for JOSS yet...

[oliviaguest]

@katjaq thanks. I tried to find contact info (like email) for Paul McCarthy (@pauldmccarthy) but can't so I'll tag the username you gave me: let us know if you are available, Paul! ☺️

[katjaq]

@whedon generate pdf

[whedon]

PDF failed to compile for issue #2667 with the following error:

Can't find any papers to compile :-(

[katjaq]

@whedon generate pdf from branch joss-paper-branch

[whedon]

Attempting PDF compilation from custom branch joss-paper-branch. Reticulating splines etc...

[whedon]

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

[katjaq]

I have a question regarding the indication of corresponding authors: Is there a way to simply have an asterisk twice, for Roberto and me to indicate corresponding authors instead of star and cross and twice the footnote?

I would like to just have
Katja Heuer* and Roberto Toro*.

What it does though is
Katja Heuer* and Roberto Toro†

The syntax I use is
Katja Heuer^[Corresponding author] and same later for Roberto Toro^[Corresponding author]. I am sorry I cannot figure it out :(

Thank you in case you can help. :)

(Or maybe in case of 2 authors both corresponding author you don't indicate a corresponding author at all? ) 👀 Happy to follow your advice 🙃

[r03ert0]

hello! Thank you @oliviaguest for your help!

[pauldmccarthy]

More than happy to review, will reply to your email @oliviaguest :)

[oliviaguest]

I'm hoping @danielskatz can give his opinion on the above (https://github.com/openjournals/joss-reviews/issues/2667#issuecomment-691519629), as I have no idea — sorry!

[oliviaguest]

@whedon add @pauldmccarthy as reviewer

[whedon]

OK, @pauldmccarthy is now a reviewer

[danielskatz]

I know we've had this issue before and @arfon provided an answer

[oliviaguest]

@whedon start review

[whedon]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/2670.

[arfon]

(Or maybe in case of 2 authors both corresponding author you don't indicate a corresponding author at all? ) 👀 Happy to follow your advice 🙃

I'm afraid our LaTeX template doesn't support denoting more than one author as a corresponding author so I'd suggest not using the footnotes like this for this case.

[katjaq]

(Or maybe in case of 2 authors both corresponding author you don't indicate a corresponding author at all? ) 👀 Happy to follow your advice 🙃

I'm afraid our LaTeX template doesn't support denoting more than one author as a corresponding author so I'd suggest not using the footnotes like this for this case.

Thank you for the quick reply, Arfon.

@oliviaguest : I deleted the corresponding author part from the paper.md file (nothing in the paper changed)--> Do I ask the whedon bot here in this thread to recompile the paper, or over in the review thread? Or do you ask for recompilation as it is already under review? Thank you :)

[arfon]

@whedon generate pdf from branch joss-paper-branch

@katjaq - anyone can ask Whedon to compile a paper whenever needed like this ☝️

[whedon]

Attempting PDF compilation from custom branch joss-paper-branch. Reticulating splines etc...

[whedon]

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

[katjaq]

@whedon generate pdf from branch joss-paper-branch

I just adapted one reference

[arfon]

@whedon generate pdf from branch joss-paper-branch

[whedon]

Attempting PDF compilation from custom branch joss-paper-branch. Reticulating splines etc...

[whedon]

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