[PRE REVIEW]: HOHQMesh: An All Quadrilateral/Hexahedral Unstructured Mesh Generator for High Order Elements

[editorialbot]

Submitting author: @andrewwinters5000 (Andrew Winters)
Repository: https://github.com/trixi-framework/HOHQMesh
Branch with paper.md (empty if default branch): paper-2024-joss
Version: v1.5.2
Editor: @xuanxu
Reviewers: @fhindenlang, @anderslogg
Managing EiC: Daniel S. Katz

Status

Status badge code:

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Markdown: [![status](https://joss.theoj.org/papers/bb9bb324fccf69238a2d690c9125044b/status.svg)](https://joss.theoj.org/papers/bb9bb324fccf69238a2d690c9125044b)

Author instructions

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[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=0.10 s (1120.2 files/s, 389970.7 lines/s)
--------------------------------------------------------------------------------
Language                      files          blank        comment           code
--------------------------------------------------------------------------------
Fortran 90                       70           2863          14514          18379
Markdown                         25            539              0           1824
make                              1             92             14            637
TeX                               1             41              4            422
YAML                              7             17             24            325
Bourne Again Shell                6             37             29            167
JSON                              1              0              0             34
CMake                             2             17              3             33
JavaScript                        1              1              0             15
TOML                              1              0              0              3
--------------------------------------------------------------------------------
SUM:                            115           3607          14588          21839
--------------------------------------------------------------------------------

Commit count by author:

   236	David Kopriva
    50	Andrew Winters
    43	Michael Schlottke-Lakemper
    24	dependabot[bot]
    18	DavidAKopriva
    13	Joe Schoonover
     6	Hendrik Ranocha
     1	Arpit Babbar
     1	Joseph Schoonover

[editorialbot]

Paper file info:

📄 Wordcount for paper.md is 1225

✅ The paper includes a Statement of need section

[editorialbot]

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

✅ OK DOIs

- 10.5281/zenodo.13959058 is OK
- 10.5281/zenodo.13959071 is OK
- 10.1093/gji/ggab308 is OK
- 10.1007/978-3-319-12886-3_8 is OK
- 10.1111/cgf.12014 is OK
- 10.1016/j.jcp.2021.110467 is OK
- 10.21105/jcon.00077 is OK
- 10.1137/120876034 is OK
- 10.1093/acprof:oso/9780198528692.001.0001 is OK
- 10.1007/978-0-387-72067-8 is OK
- 10.1007/978-90-481-2261-5 is OK
- 10.1016/j.jcp.2004.01.004 is OK
- 10.1137/141000671 is OK
- 10.1088/1742-6596/1671/1/012015 is OK
- 10.1007/s10915-024-02451-2 is OK
- 10.1016/j.jcp.2024.113471 is OK
- 10.1007/s10915-013-9730-z is OK
- 10.1016/j.amc.2015.08.047 is OK
- 10.1016/j.jcp.2020.109363 is OK
- 10.48550/arXiv.2404.09050 is OK
- 10.1103/PhysRevFluids.9.053901 is OK

🟡 SKIP DOIs

- No DOI given, and none found for title: NEK fast high-order scalable CFD NEK: Fast high-or...
- No DOI given, and none found for title: A Spectral Element Method tool for 2D wave propaga...
- No DOI given, and none found for title: Algorithms for quadrilateral and hexahedral mesh g...
- No DOI given, and none found for title: The Malpasset dam failure. An overview and test ca...
- No DOI given, and none found for title: Spectral-element and adjoint methods in seismology
- No DOI given, and none found for title: DGSEM for General Advection-Diffusion Equations
- No DOI given, and none found for title: High Order Methods for Incompressible Fluid Flow
- No DOI given, and none found for title: Shallow water simulations with Trixi.jl
- No DOI given, and none found for title: A novel entropy stable discontinuous Galerkin spec...

❌ MISSING DOIs

- None

❌ INVALID DOIs

- https://doi.org/10.1002/nme.397 is INVALID because of 'https://doi.org/' prefix
- 0.1080/00221689909498511 is INVALID
- https://doi.org/10.1016/j.cpc.2015.02.008 is INVALID because of 'https://doi.org/' prefix
- https://doi.org/10.1016/j.cpc.2019.05.015 is INVALID because of 'https://doi.org/' prefix
- https://doi.org/10.1016/j.camwa.2020.05.004 is INVALID because of 'https://doi.org/' prefix
- https://doi.org/10.1016/j.cpc.2023.108700 is INVALID because of 'https://doi.org/' prefix

[editorialbot]

License info:

🟡 License found: Other (Check here for OSI approval)

[editorialbot]

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

[editorialbot]

Five most similar historical JOSS papers:

FEM_2D: A Rust Package for 2D Finite Element Method Computations with Extensive Support for hp-refinement
Submitting author: @jeremiah-corrado
Handling editor: @jedbrown (Active)
Reviewers: @jeremylt, @YohannDudouit
Similarity score: 0.7336

DTCC Builder: A mesh generator for automatic, efficient, and robust mesh generation for large-scale city modeling and simulation
Submitting author: @anderslogg
Handling editor: @crvernon (Active)
Reviewers: @ifthompson, @ipadjen
Similarity score: 0.7270

scikit-fem: A Python package for finite element assembly
Submitting author: @kinnala
Handling editor: @meg-simula (Retired)
Reviewers: @thelfer, @AnjaliSandip
Similarity score: 0.7222

MTEX2Gmsh: a tool for generating 2D meshes from EBSD data
Submitting author: @DorianDepriester
Handling editor: @meg-simula (Retired)
Reviewers: @streeve, @ralfHielscher
Similarity score: 0.7218

OpenCMP: An Open-Source Computational Multiphysics Package
Submitting author: @nasserma
Handling editor: @lucydot (Active)
Reviewers: @bonh, @WilkAndy
Similarity score: 0.7181

⚠️ 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.

[danielskatz]

👋 @andrewwinters5000 - Thanks for your submission. I'll try to find an editor next, though I may be delayed a bit over next week.

While I do so, you could work on the invalid DOIs that editorialbot found. One seems to be missing a "1" at the start, and the others have prefixes that should be deleted. Please feel free to make changes to your .bib file, then use the command @editorialbot check references to check again, and the command @editorialbot generate pdf when the references are right to make a new PDF. editorialbot commands need to be the first entry in a new comment.

[danielskatz]

👋 @HaoZeke - I see that one of your active editing submissions is almost complete. Would you be able to take this one on next?

[danielskatz]

@editorialbot invite @HaoZeke as editor

[editorialbot]

Invitation to edit this submission sent!

[andrewwinters5000]

@editorialbot check references

[editorialbot]

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

✅ OK DOIs

- 10.5281/zenodo.13959058 is OK
- 10.5281/zenodo.13959071 is OK
- 10.1093/gji/ggab308 is OK
- 10.1002/nme.397 is OK
- 10.1007/978-3-319-12886-3_8 is OK
- 10.1080/00221689909498511 is OK
- 10.1111/cgf.12014 is OK
- 10.1016/j.cpc.2015.02.008 is OK
- 10.1016/j.cpc.2019.05.015 is OK
- 10.1016/j.camwa.2020.05.004 is OK
- 10.1016/j.jcp.2021.110467 is OK
- 10.21105/jcon.00077 is OK
- 10.1016/j.cpc.2023.108700 is OK
- 10.1137/120876034 is OK
- 10.1093/acprof:oso/9780198528692.001.0001 is OK
- 10.1007/978-0-387-72067-8 is OK
- 10.1007/978-90-481-2261-5 is OK
- 10.1016/j.jcp.2004.01.004 is OK
- 10.1137/141000671 is OK
- 10.1088/1742-6596/1671/1/012015 is OK
- 10.1007/s10915-024-02451-2 is OK
- 10.1016/j.jcp.2024.113471 is OK
- 10.1007/s10915-013-9730-z is OK
- 10.1016/j.amc.2015.08.047 is OK
- 10.1016/j.jcp.2020.109363 is OK
- 10.48550/arXiv.2404.09050 is OK
- 10.1103/PhysRevFluids.9.053901 is OK

🟡 SKIP DOIs

- No DOI given, and none found for title: NEK fast high-order scalable CFD NEK: Fast high-or...
- No DOI given, and none found for title: A Spectral Element Method tool for 2D wave propaga...
- No DOI given, and none found for title: Algorithms for quadrilateral and hexahedral mesh g...
- No DOI given, and none found for title: The Malpasset dam failure. An overview and test ca...
- No DOI given, and none found for title: Spectral-element and adjoint methods in seismology
- No DOI given, and none found for title: DGSEM for General Advection-Diffusion Equations
- No DOI given, and none found for title: High Order Methods for Incompressible Fluid Flow
- No DOI given, and none found for title: Shallow water simulations with Trixi.jl
- No DOI given, and none found for title: A novel entropy stable discontinuous Galerkin spec...

❌ MISSING DOIs

- None

❌ INVALID DOIs

- None

[andrewwinters5000]

@editorialbot generate pdf

[editorialbot]

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

[andrewwinters5000]

👋 @andrewwinters5000 - Thanks for your submission. I'll try to find an editor next, though I may be delayed a bit over next week.

While I do so, you could work on the invalid DOIs that editorialbot found. One seems to be missing a "1" at the start, and the others have prefixes that should be deleted. Please feel free to make changes to your .bib file, then use the command @editorialbot check references to check again, and the command @editorialbot generate pdf when the references are right to make a new PDF. editorialbot commands need to be the first entry in a new comment.

Thanks! I have fixed the broken DOIs and will suggest reviewers as instructed above.

[editorialbot]

Five most similar historical JOSS papers:

FEM_2D: A Rust Package for 2D Finite Element Method Computations with Extensive Support for hp-refinement
Submitting author: @jeremiah-corrado
Handling editor: @jedbrown (Active)
Reviewers: @jeremylt, @YohannDudouit
Similarity score: 0.7334

DTCC Builder: A mesh generator for automatic, efficient, and robust mesh generation for large-scale city modeling and simulation
Submitting author: @anderslogg
Handling editor: @crvernon (Active)
Reviewers: @ifthompson, @ipadjen
Similarity score: 0.7268

scikit-fem: A Python package for finite element assembly
Submitting author: @kinnala
Handling editor: @meg-simula (Retired)
Reviewers: @thelfer, @AnjaliSandip
Similarity score: 0.7217

MTEX2Gmsh: a tool for generating 2D meshes from EBSD data
Submitting author: @DorianDepriester
Handling editor: @meg-simula (Retired)
Reviewers: @streeve, @ralfHielscher
Similarity score: 0.7215

OpenCMP: An Open-Source Computational Multiphysics Package
Submitting author: @nasserma
Handling editor: @lucydot (Active)
Reviewers: @bonh, @WilkAndy
Similarity score: 0.7179

⚠️ 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.

[andrewwinters5000]

Suggested reviewers:

• Florian Hindenlang; fhindenlang
• Frank Giraldo; fxgiraldo
• Anders Logg; alogg

[andrewwinters5000]

Another possible reviewer:

• Julian Marcon; j-marcon

[danielskatz]

👋 @HaoZeke - As mentioned in #7418 (comment), would you be able to edit this submission?

[danielskatz]

👋 @xuanxu - Would you perhaps be able to edit this submission?

[danielskatz]

@editorialbot invite @xuanxu as editor

[editorialbot]

Invitation to edit this submission sent!

[xuanxu]

Yes, I can edit this submission

[xuanxu]

@editorialbot assign me as editor

[editorialbot]

Assigned! @xuanxu is now the editor

[xuanxu]

👋 @anderslogg @fhindenlang Would you be willing to review this paper? You have been suggested by the author as a good fit as reviewers for this submission.

[fhindenlang]

In principle yes... how much time do I have to review the paper?

[xuanxu]

@fhindenlang Great, thanks! We try to have the review completed in 6 weeks
I'll add you now and as soon as I have a second reviewer I'll start the review issue.

[xuanxu]

@editorialbot add @fhindenlang to reviewers

[editorialbot]

@fhindenlang added to the reviewers list!

[fhindenlang]

allright!

[anderslogg]

👋 @anderslogg @fhindenlang Would you be willing to review this paper? You have been suggested by the author as a good fit as reviewers for this submission.

Yes

[xuanxu]

@anderslogg Great, thanks! I'll add you and start the review issue now.

[xuanxu]

@editorialbot add @anderslogg to reviewers

[editorialbot]

@anderslogg added to the reviewers list!

[xuanxu]

@editorialbot start review

[editorialbot]

OK, I've started the review over in #7476.