[PRE REVIEW]: ESVM : An Electrostatic 1D-1V Vlasov-Maxwell code for educational purpose

[whedon]

Submitting author: @michaeltouati (Michael Touati) Repository: https://github.com/michaeltouati/ESVM Version: v1.0.0 Editor: Pending Reviewer: Pending Managing EiC: Arfon Smith

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

OK DOIs

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[whedon]

Wordcount for paper.md is 942

[whedon]

Software report (experimental):

github.com/AlDanial/cloc v 1.88  T=3.46 s (3.5 files/s, 595.8 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Fortran 90                       7             89            183            946
Python                           2             41             30            573
Markdown                         1             15              0             85
make                             1             31             31             37
TeX                              1              1              0              0
-------------------------------------------------------------------------------
SUM:                            12            177            244           1641
-------------------------------------------------------------------------------

Statistical information for the repository '822805d3b6571daeb7c60a6f' was
gathered on 2021/08/06.
The following historical commit information, by author, was found:

Author                     Commits    Insertions      Deletions    % of changes
michaeltouati                    3          1288            644          100.00

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
Michael Touati              644          100.0          0.0                4.66

[whedon]

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

[arfon]

@michaeltouati – due to the small size of this code, the editors will now discuss if it meets the substantial scholarly effort criterion for review by JOSS.

Additionally, this submission may be considered out of scope for JOSS due to its focus on educational use cases. Regardless, the scope review will likely take a couple of weeks, thanks for your patience!

[arfon]

@whedon query scope

[whedon]

Submission flagged for editorial review.

[michaeltouati]

joglekara Python C++ C FORTRAN MATLAB Mathematica Noble.AI http://noble.ai/ @.*** Plasma Physics Kinetic Physics Numerical Methods Electromagnetics

On 6 Aug 2021, at 17:57, whedon @.***> wrote:

Submitting author: @michaeltouati https://github.com/michaeltouati (Michael Touati http://orcid.org/0000-0001-7590-0941) Repository: https://github.com/michaeltouati/ESVMhttps://github.com/michaeltouati/ESVM https://github.com/michaeltouati/ESVM Version: v1.0.0 Editor: Pending Reviewer: Pending Managing EiC: Arfon Smith

⚠️ JOSS reduced service mode ⚠️

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 https://blog.joss.theoj.org/2020/05/reopening-joss.

Status

https://joss.theoj.org/papers/6e1e5dcfe9e60d02bf4ba6c6f981fd98 Status badge code:

HTML: Markdown: Author instructions

Thanks for submitting your paper to JOSS @michaeltouati https://github.com/michaeltouati. Currently, there isn't an JOSS editor assigned to your paper.

@michaeltouati https://github.com/michaeltouati 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 https://bit.ly/joss-reviewers have already agreed to review for JOSS and may be suitable for this submission (please start at the bottom of the list).

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[michaeltouati]

Potential reviewers :

StanczakDominik Python Julia University of Warsaw @.*** Numerical simulation Physics (plasmas, especially)

rogeriojorge Python, C++, Mathematica, Matlab Fortran Max-Planck Institute for Plasma Physics, Greifswald, Germany @.*** Physics, Plasma Physics, Nuclear Fusion

sigvaldm Python C C++ Fortran Haskell University of Oslo @.*** Computational Physics Plasma Physics Numerical Methods Finite Element Method Particle-In-Cell

CFGrote python C/C++ Fortran R Ada Java awk perl Max-Planck-Institute for Evolutionary Biology @.*** Physics:

• Plasma physics
• X-ray optics
• X-ray plasma diagnostics
• Many Body physics
• Quantum Electrodynamics
• Atomic Physics
• Extreme Fields Biology:
• Evolutionary models
• Stochastic simulations
• Genetic analysis pipelines
• RNASeq
• Sequence alignment

joglekara Python C++ C FORTRAN MATLAB Mathematica Noble.AI http://noble.ai/ @.*** Plasma Physics Kinetic Physics Numerical Methods Electromagnetics

TomGoffrey Fortran, Python C, C++ University of Warwick @.*** Astrophysics (my main area of expertise is in stellar physics, but I also have some background in planetary physics), plasma physics, hydrodynamics (shock capturing and modelling in particular), magnetohydrodynamics (I have worked a lot on non-ideal MHD in particular), radiation transport, (large )linear systems, time-integration methods, finite volume methods, arbitrary/Lagrangian meshes, multi-material flow.

StanczakDominik Python Julia University of Warsaw @.*** Numerical simulation Physics (plasmas, especially)

On 6 Aug 2021, at 18:50, Michaël Touati @.***> wrote:

joglekara Python C++ C FORTRAN MATLAB Mathematica Noble.AI http://noble.ai/ @. @.> Plasma Physics Kinetic Physics Numerical Methods Electromagnetics

On 6 Aug 2021, at 17:57, whedon @. @.>> wrote:

Submitting author: @michaeltouati https://github.com/michaeltouati (Michael Touati http://orcid.org/0000-0001-7590-0941) Repository: https://github.com/michaeltouati/ESVMhttps://github.com/michaeltouati/ESVM https://github.com/michaeltouati/ESVM Version: v1.0.0 Editor: Pending Reviewer: Pending Managing EiC: Arfon Smith

⚠️ JOSS reduced service mode ⚠️

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 https://blog.joss.theoj.org/2020/05/reopening-joss.

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Thanks for submitting your paper to JOSS @michaeltouati https://github.com/michaeltouati. Currently, there isn't an JOSS editor assigned to your paper.

@michaeltouati https://github.com/michaeltouati 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 https://bit.ly/joss-reviewers have already agreed to review for JOSS and may be suitable for this submission (please start at the bottom of the list).

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[michaeltouati]

Dear Arfon,

I indeed specified that this code ESVM that I’ve written was for educational purpose. However, since it is available on GitHub, it has already been used by teams of Researchers to investigate new Plasma Physics problems.

Additionally, in Plasma Physics, people tend to only use the Particle-In-Cell (PIC) method for their investigations. Easily extendable to 2D-2V or 2D-3V, this code, that I wrote initially to teach my students about the limitations of the PIC method, has consequently a non-negligible potential. Therefore, the way I see it, it deserves to be published in JOSS.

I’m surprised by the critics of the small amount of lines of code. I’ve seen papers already published in JOSS that computes the exact same Physical problem with Python and with only one available numerical scheme. ESVM allows the user to choose one of 9 different numerical scheme for the advection of particles in the phase-space and two different numerical schemes for the coupled Maxwell equations. I indeed try to minimize the number of lines of codes when developing it. I didn’t know it was a bad thing.

Finally, I’ve proposed some potential reviewers for my paper. Can you tell me if the way I’ve proposed them is correct? I’m not sure.

Thanking you and wishing you a nice week-end, Best regards, Dr Michaël TOUATI

On 6 Aug 2021, at 17:59, Arfon Smith @.***> wrote:

@michaeltouati https://github.com/michaeltouati – due to the small size of this code, the editors will now discuss if it meets the substantial scholarly effort https://joss.readthedocs.io/en/latest/submitting.html#substantial-scholarly-effort criterion for review by JOSS.

Additionally, this submission may be considered out of scope for JOSS due to its focus on educational use cases. Regardless, the scope review will likely take a couple of weeks, thanks for your patience!

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/openjournals/joss-reviews/issues/3581#issuecomment-894357086, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADREQJH7PN3UEJEU2EQVJDLT3QBHXANCNFSM5BWFQ7WA.

[jedbrown]

Have you considered submitting to JOSE: the Journal of Open Source Education? It's very similar to JOSS, but for educational materials/software rather than JOSS's focus on research software.

[michaeltouati]

 Dear Jed,

I think I’ve made a mistake by chosing such a title. This is just because I’ve developped and used this code to teach Plasma Physics to graduate students.

It can clearly be used for Plasma Physics Research investigations as it is already the case by two teams who cloned it from GitHub (and myself).

If needed, I can submit it to JOSE but I think it will be better to change the title and consider the submission to JOSS that is more adapted.

Best regards, Michaël

On Mon, 9 Aug 2021 at 19:04, Jed Brown @.***> wrote:

Have you considered submitting to JOSE: the Journal of Open Source Education https://jose.theoj.org/? It's very similar to JOSS, but for educational materials/software rather than JOSS's focus on research software.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/openjournals/joss-reviews/issues/3581#issuecomment-895388215, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADREQJFR6V5MEVTP3NCWPKTT4ADCLANCNFSM5BWFQ7WA .

[arfon]

@michaeltouati – this submission does currently feel more appropriate for JOSE rather than JOSS, both because of the title of the submission but also because of the focus of the paper.

Could I ask that you resubmit with an update title and research focus in the paper?

[arfon]

@whedon reject

[whedon]

Paper rejected.

[arfon]

@whedon reject

(But we're expecting a re-submission)