[PRE REVIEW]: hp3D: A Scalable MPI/OpenMP hp-Adaptive Finite Element Software Library for Complex Multiphysics Applications

[editorialbot]

Submitting author: !--author-handle-->@stefanhenneking<!--end-author-handle-- (Stefan Henneking) Repository: https://github.com/Oden-EAG/hp3d Branch with paper.md (empty if default branch): joss-paper Version: v1.0-beta Editor: !--editor-->@jedbrown<!--end-editor-- Reviewers: @peterrum, @likask Managing EiC: Kyle Niemeyer

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[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.88  T=0.50 s (1496.0 files/s, 368367.4 lines/s)
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Fortran 90                      481           1349          47417          68317
Fortran 77                      153            341          19916          23983
TeX                              22           1227           3511           8987
Python                            4             11             92           1686
make                             54            306            143           1430
Bourne Shell                     14            161            426            653
C                                 1            177            227            537
Perl                              2            144            292            500
Bourne Again Shell               11            156           1079            372
Markdown                          2             31              0            164
Pascal                            1              2              0             44
C/C++ Header                      1              2              0             10
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SUM:                            746           3907          73103         106683
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gitinspector failed to run statistical information for the repository

[editorialbot]

Wordcount for paper.md is 767

[editorialbot]

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

OK DOIs

- None

MISSING DOIs

- 10.1016/j.camwa.2021.01.006 may be a valid DOI for title: Model and computational advancements to full vectorial Maxwell model for studying fiber amplifiers
- 10.1016/j.camwa.2020.03.024 may be a valid DOI for title: A numerical study of the pollution error and DPG adaptivity for long waveguide simulations
- 10.1016/j.camwa.2023.07.006 may be a valid DOI for title: Scalable DPG Multigrid Solver for Helmholtz Problems: A Study on Convergence
- 10.2139/ssrn.4589638 may be a valid DOI for title: An anisotropic hp-adaptation framework for ultraweak discontinuous Petrov–Galerkin formulations
- 10.1016/j.camwa.2021.01.017 may be a valid DOI for title: An adaptive multigrid solver for DPG methods with applications in linear acoustics and electromagnetics
- 10.1137/s0895479899358194 may be a valid DOI for title: A fully asynchronous multifrontal solver using distributed dynamic scheduling
- 10.1016/j.parco.2007.12.001 may be a valid DOI for title: PT-Scotch: a tool for efficient parallel graph ordering
- 10.1137/s1064827595287997 may be a valid DOI for title: A fast and high quality multilevel scheme for partitioning irregular graphs
- 10.1007/978-3-540-78319-0_3 may be a valid DOI for title: Polynomial exact sequences and projection-based interpolation with application to Maxwell equations
- 10.1016/j.cma.2017.07.012 may be a valid DOI for title: Using a DPG method to validate DMA experimental calibration of viscoelastic materials
- 10.1016/j.camwa.2020.06.009 may be a valid DOI for title: MFEM: A modular finite element methods library
- 10.1109/5992.988653 may be a valid DOI for title: Zoltan data management services for parallel dynamic applications
- 10.1016/b978-012387582-2/50038-1 may be a valid DOI for title: Paraview: an end-user tool for large data visualization
- 10.1016/j.camwa.2015.04.027 may be a valid DOI for title: Orientation embedded high order shape functions for the exact sequence elements of all shapes
- 10.1016/j.camwa.2017.06.044 may be a valid DOI for title: An adaptive DPG method for high frequency time-harmonic wave propagation problems
- 10.1016/j.jcp.2017.07.051 may be a valid DOI for title: Coupled variational formulations of linear elasticity and the DPG methodology
- 10.1016/j.jcpx.2019.100002 may be a valid DOI for title: A 3D DPG Maxwell approach to nonlinear Raman gain in fiber laser amplifiers

INVALID DOIs

- None

[editorialbot]

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

[kyleniemeyer]

Hi @stefanhenneking, thanks for your submission. Unfortunately, we don't have an available editor in this area, so I have to put this on our waitlist until someone becomes available to handle it.

In the meantime, could you address the missing DOI messages in the paper? Also, any reviewer suggestions would be welcome.

[editorialbot]

Five most similar historical JOSS papers:

MoFEM: An open source, parallel finite element library Submitting author: @likask Handling editor: @jedbrown (Active) Reviewers: @tjhei, @chrisrichardson, @Kevin-Mattheus-Moerman, @vijaysm, @chennachaos Similarity score: 0.8511

scikit-fem: A Python package for finite element assembly Submitting author: @kinnala Handling editor: @meg-simula (Retired) Reviewers: @thelfer, @AnjaliSandip Similarity score: 0.8450

libCEED: Fast algebra for high-order element-based discretizations Submitting author: @jedbrown Handling editor: @diehlpk (Active) Reviewers: @thelfer, @FreddieWitherden, Similarity score: 0.8398

GridapDistributed: a massively parallel finite element toolbox in Julia Submitting author: @amartinhuertas Handling editor: @Kevin-Mattheus-Moerman (Active) Reviewers: @PetrKryslUCSD, @Leticia-maria, @jedbrown Similarity score: 0.8396

OpenCMP: An Open-Source Computational Multiphysics Package Submitting author: @nasserma Handling editor: @lucydot (Active) Reviewers: @bonh, @WilkAndy Similarity score: 0.8368

⚠️ 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 before considering asking the reviewers of these papers to review again for JOSS.

[stefanhenneking]

Hi @kyleniemeyer, thank you for getting the pre-review started and for considering our paper at JOSS. Perhaps, @jedbrown is interested as an editor if available -- he'd suggested submitting to JOSS in the first place.

Yes, I will take care of the missing DOIs. For reviewers, are former contributors/collaborators of the software who are not co-authors of the paper eligible for reviewing?

[stefanhenneking]

@editorialbot commands

[editorialbot]

Hello @stefanhenneking, here are the things you can ask me to do:

# List all available commands
@editorialbot commands

# Get a list of all editors's GitHub handles
@editorialbot list editors

# Check the references of the paper for missing DOIs
@editorialbot check references

# Perform checks on the repository
@editorialbot check repository

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@editorialbot generate my checklist

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[stefanhenneking]

@editorialbot generate pdf

[editorialbot]

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

[editorialbot]

Five most similar historical JOSS papers:

MoFEM: An open source, parallel finite element library Submitting author: @likask Handling editor: @jedbrown (Active) Reviewers: @tjhei, @chrisrichardson, @Kevin-Mattheus-Moerman, @vijaysm, @chennachaos Similarity score: 0.8550

scikit-fem: A Python package for finite element assembly Submitting author: @kinnala Handling editor: @meg-simula (Retired) Reviewers: @thelfer, @AnjaliSandip Similarity score: 0.8465

libCEED: Fast algebra for high-order element-based discretizations Submitting author: @jedbrown Handling editor: @diehlpk (Active) Reviewers: @thelfer, @FreddieWitherden, Similarity score: 0.8418

GridapDistributed: a massively parallel finite element toolbox in Julia Submitting author: @amartinhuertas Handling editor: @Kevin-Mattheus-Moerman (Active) Reviewers: @PetrKryslUCSD, @Leticia-maria, @jedbrown Similarity score: 0.8395

OpenCMP: An Open-Source Computational Multiphysics Package Submitting author: @nasserma Handling editor: @lucydot (Active) Reviewers: @bonh, @WilkAndy Similarity score: 0.8386

⚠️ 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 before considering asking the reviewers of these papers to review again for JOSS.

[stefanhenneking]

@editorialbot check references

[editorialbot]

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

OK DOIs

- 10.1016/j.camwa.2021.01.006 is OK
- 10.1016/j.camwa.2020.03.024 is OK
- 10.26153/tsw/13716 is OK
- 10.1007/978-3-031-20432-6_22 is OK
- 10.1016/j.camwa.2023.07.006 is OK
- 10.48550/arXiv.2309.00726 is OK
- 10.48550/arXiv.2207.12211 is OK
- 10.1201/9781420011692 is OK
- 10.1201/9781420011685 is OK
- 10.1016/j.camwa.2021.01.017 is OK
- 10.1137/s0895479899358194 is OK
- 10.1016/j.parco.2007.12.001 is OK
- 10.1137/s1064827595287997 is OK
- 10.1137/1.9781611977738 is OK
- 10.1007/978-3-540-78319-0_3 is OK
- 10.1016/0045-7825(89)90129-1 is OK
- 10.1016/0045-7825(89)90130-8 is OK
- 10.1016/0045-7825(89)90131-X is OK
- 10.1002/9781119176817.ecm2105 is OK
- 10.1016/j.cma.2017.07.012 is OK
- 10.1145/1268776.1268779 is OK
- 10.1016/j.camwa.2020.06.009 is OK
- 10.1109/5992.988653 is OK
- 10.1016/b978-012387582-2/50038-1 is OK
- 10.1016/j.camwa.2015.04.027 is OK
- 10.1016/j.camwa.2017.06.044 is OK
- 10.26153/tsw/2153 is OK
- 10.1016/j.jcp.2017.07.051 is OK
- 10.1016/j.jcpx.2019.100002 is OK

MISSING DOIs

- None

INVALID DOIs

- None

[kyleniemeyer]

@editorialbot invite @jedbrown as editor

Hey @jedbrown, could you edit this?

[editorialbot]

Invitation to edit this submission sent!

[jedbrown]

@editorialbot assign @jedbrown as editor

[editorialbot]

Assigned! @jedbrown is now the editor

[jedbrown]

@likask @jeremiah-corrado @peterrum @kinnala @amartinhuertas :wave: Hi, would any of you be available to review this submission for JOSS?

[peterrum]

@jedbrown Sure :+1:

[likask]

@jedbrown hi, I will be happy to do a review.

[jedbrown]

Wonderful, thanks!

[jedbrown]

@editorialbot add @peterrum as reviewer

[editorialbot]

@peterrum added to the reviewers list!

[jedbrown]

@editorialbot add @likask as reviewer

[editorialbot]

@likask added to the reviewers list!

[jedbrown]

@editorialbot start review

[editorialbot]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/5946.