[PRE REVIEW]: A Python Library for Pre- and Post-Processing of DAMASK Simulations

[editorialbot]

Submitting author: !--author-handle-->@MarDiehl<!--end-author-handle-- (Martin Diehl) Repository: https://github.com/damask-multiphysics/DAMASK Branch with paper.md (empty if default branch): JOSS-paper Version: v3.0.0-beta2 Editor: !--editor-->@zhubonan<!--end-editor-- Reviewers: @hakonanes, @mkuehbach Managing EiC: Kevin M. Moerman

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[editorialbot]

Checking the BibTeX entries failed with the following error:

Failed to parse BibTeX on value "-731" (NAME) [#<BibTeX::Bibliography data=[11]>, "@", #<BibTeX::Entry >, {:author=>["James Ahrens and Berk Geveci and Charles Law"], :booktitle=>["Visualization Handbook"], :editor=>["Charles D. Hansen and Chris R. Johnson"], :publisher=>["Elsevier"], :title=>["{ParaView}: An End-User Tool for Large Data Visualization"], :year=>["2005"], :pages=>"717"}]

[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=0.89 s (454.1 files/s, 359120.6 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
XML                             53              0              8         169681
YAML                           127            459             45          70221
Fortran 90                      87           7838           3833          23904
diff                            76            553           8711          11980
Python                          42           3485           5518          11001
JSON                             2              0              0           2054
TeX                              1             24              0            260
CMake                            6             86            209            248
SVG                              2              0              0            212
C                                1             26              2             95
Markdown                         2             35              0             88
Bourne Shell                     1             13             10             62
zsh                              1             11              9             55
MATLAB                           1              7              2             29
make                             1              6              3             18
Jupyter Notebook                 1              0            259             17
INI                              1              0              0             16
TOML                             1              1              0              5
-------------------------------------------------------------------------------
SUM:                           406          12544          18609         289946
-------------------------------------------------------------------------------

Commit count by author:

  6837  Martin Diehl
  1327  Martin  Diehl
  1185  Test User
   924  Philip  Eisenlohr
   782  Philip Eisenlohr
   495  Christoph   Kords
   325  Sharan Roongta
   290  Pratheek    Shanthraj
   263  Franz   Roters
   139  Vitesh Shah
   128  Franz Roters
   105  Luc Hantcherli
    92  Daniel Otto de Mentock
    82  Luv Sharma
    69  Haiming Zhang
    64  zhangc43
    57  chen
    56  Tias    Maiti
    53  f.basile
    52  Claudio Zambaldi
    52  Su  Leen    Wong
    43  Denny   Tjahjanto
    31  Chen    Zhang
    28  Zhuowen Zhao
    26  Mahesh  Balasubramaniam
    20  Chen Zhang
    19  Alankar Alankar
    18  Abisheik Panneerselvam
    18  Jaeyong Jung
    17  Fengbo Han
    17  Krishna Komerla
    17  Sharan
    14  Chen
    14  Pratheek Shanthraj
    14  William Counts
    14  Yi-Chin Yang
    13  Aritra  Chakraborty
    13  Aritra Chakraborty
    13  Yun Jo  Ro
    12  Samad Vakili
    11  Nan Jia
    11  Taymor  El  Achkar
    10  Eureka Pai
    10  d.mentock
     9  Harsha  Phukan
     9  Onur    Guevenc
     8  Nader   Zaafarani
     7  Yi Hu
     6  David   Mercier
     6  Eralp   Demir
     6  Nikhil Prabhu
     6  Ruxin Zhang
     6  Yannick Naunheim
     5  Chuanlai Liu
     5  Noriki  Fujita
     5  Tias Maiti
     4  Eureka Pai Kulyadi
     4  navyanthkusam
     3  Arka Lahiri
     3  Cathy Bing
     3  Ding    Wang
     3  Duancheng   Ma
     3  Jennifer Nastola
     3  Yang Su
     3  brendanvk
     2  Brendan Vande Kieft
     2  Bret    Dunlap
     2  David   Cereceda    Senas
     2  Henry   Hutasoit
     2  Satyapriya Gupta
     2  Shah Vitesh
     2  Shaokang    Zhang
     2  Sheng Zhang
     2  Yang    Su
     2  tiasmaiti
     1  1a2a34v
     1  Amrit Jena
     1  Arko Jyoti Bhattacharjee
     1  Brendan Robert Vande Kieft
     1  ChuanlaiLiu
     1  Hongmei Li
     1  Javier Velo
     1  Kieran David Nehil-Puleo
     1  Mingxuan Lin
     1  Ricardo Lebensohn
     1  Satya Gupta
     1  Sehar   Abbas
     1  Tobias  Binder
     1  Unknown
     1  Vitesh
     1  Yannick Naunheim
     1  yi_work

[editorialbot]

Paper file info:

📄 Wordcount for paper.md is 916

✅ The paper includes a Statement of need section

[editorialbot]

License info:

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

[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:

scikit-fem: A Python package for finite element assembly Submitting author: @kinnala Handling editor: @meg-simula (Retired) Reviewers: @thelfer, @AnjaliSandip Similarity score: 0.7497

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$hp\mathrm{3D}$: A Scalable MPI/OpenMP $hp$-Adaptive Finite Element Software Library for Complex Multiphysics Applications Submitting author: @stefanhenneking Handling editor: @jedbrown (Active) Reviewers: @peterrum, @likask Similarity score: 0.7294

⚠️ 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.

[MarDiehl]

License info:

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

The license is AGPL-3.0-or-later, GitHub does not detect it properly

[MarDiehl]

For the software report: Since this paper is only about the python code, only the python subfolder should be considered for statistics.

[Kevin-Mattheus-Moerman]

@editorialbot invite @zhubonan as editor

[editorialbot]

Invitation to edit this submission sent!

[Kevin-Mattheus-Moerman]

@editorialbot check references

[editorialbot]

Checking the BibTeX entries failed with the following error:

Failed to parse BibTeX on value "-731" (NAME) [#<BibTeX::Bibliography data=[11]>, "@", #<BibTeX::Entry >, {:author=>["James Ahrens and Berk Geveci and Charles Law"], :booktitle=>["Visualization Handbook"], :editor=>["Charles D. Hansen and Chris R. Johnson"], :publisher=>["Elsevier"], :title=>["{ParaView}: An End-User Tool for Large Data Visualization"], :year=>["2005"], :pages=>"717"}]

[Kevin-Mattheus-Moerman]

@MarDiehl can you try to resolve this error? :point_up:

If you make any updates to the .bib file, you can call @editorialbot check references here again, to check the references again. You can also call @editorialbot generate pdf to update the paper once the check is passing.

[MarDiehl]

@editorialbot check references

[editorialbot]

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

OK DOIs

- 10.1016/j.commatsci.2018.04.030 is OK
- 10.1186/2193-9772-3-5 is OK
- 10.1107/S1600576720011103 is OK
- 10.1088/0965-0393/23/8/083501 is OK
- 10.1038/s41586-020-2649-2 is OK
- 10.1038/sdata.2016.18 is OK
- 10.1016/B978-012387582-2/50038-1 is OK
- 10.1109/MCSE.2007.55 is OK
- 10.1016/j.cma.2011.01.002 is OK
- 10.1002/nme.2579 is OK
- 10.1145/1966895.1966900 is OK
- 10.1007/s40192-017-0084-5 is OK
- 10.1038/s41592-019-0686-2 is OK
- 10.25080/Majora-92bf1922-00a is OK
- 10.21105/joss.01450 is OK
- 10.1016/j.msea.2022.143471 is OK
- 10.4028/www.scientific.net/SSP.160.63 is OK

MISSING DOIs

- 10.1107/s1600576716012942 may be a valid DOI for title: Orientations–perfectly colored
- No DOI given, and none found for title: Hierarchical Data Format, version 5
- No DOI given, and none found for title: The Visualization Toolkit (4th ed.)
- No DOI given, and none found for title: YAML
- 10.1016/j.cma.2011.01.002 may be a valid DOI for title: Large-scale 3D random polycrystals for the finite ...
- No DOI given, and none found for title: pytest x.y
- No DOI given, and none found for title: Python and HDF5

INVALID DOIs

- None

[MarDiehl]

@editorialbot generate pdf

[zhubonan]

@Kevin-Mattheus-Moerman happy to take this one!

[Kevin-Mattheus-Moerman]

@editorialbot assign @zhubonan as editor

[editorialbot]

Assigned! @zhubonan is now the editor

[zhubonan]

Hello @SunilAnandatheertha @kinnala @alizma Would you be able to review this submission? According to your profiles in the reviewer information system, this work seems to fit your area of expertise.

Thanks in advance.

[zhubonan]

Hi @MarDiehl, could you please suggest some reviewers? You can comment with their github handles here. But please don't directly '@' them. Thanks in advance.

[MarDiehl]

• sergiolucarini
• hakonanes
• rquey
• MHenrich1990
• s5409693 (recent publication on different topic)
• mkuehbach (former colleague, joint publication in 2020)

[zhubonan]

Hello @sergiolucarini @hakonanes @mkuehbach Would you be able to review this submission? The process of reviewing for JOSS is unique and takes place on GitHub. This involves reviewing the manuscript and installing/testing/reading the underlying code. You can learn more about it here: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html#reviewing-for-joss

Please let me know if you are able/unable to review. Your response is greatly appreciated. Thanks in advance.

[mkuehbach]

@zhubonan that work is something I can imagine myself reviewing

[hakonanes]

I'd be happy to review.

[zhubonan]

@editorialbot add @hakonanes as reviewer

[editorialbot]

@hakonanes added to the reviewers list!

[zhubonan]

@editorialbot add @mkuehbach as reviewer

[editorialbot]

@mkuehbach added to the reviewers list!

[zhubonan]

@hakonanes and @mkuehbach Thanks for agreeing to review!

[zhubonan]

@editorialbot start review

[editorialbot]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/7164.