[PRE REVIEW]: simcardems: A FEniCS-based cardiac electro-mechanics solver

[editorialbot]

Submitting author: !--author-handle-->@finsberg<!--end-author-handle-- (Henrik Nicolay Topnes Finsberg) Repository: https://github.com/ComputationalPhysiology/simcardems Branch with paper.md (empty if default branch): master Version: v2022.3.0 Editor: !--editor-->@AoifeHughes<!--end-editor-- Reviewers: @mbarzegary, @sdelandtsheer Managing EiC: Kristen Thyng

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[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.88  T=0.08 s (815.7 files/s, 122101.7 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Python                          36           1100            573           5870
Markdown                        13            472              0           1527
YAML                             5             33              5            182
TeX                              2             11              0            120
make                             3             34              7             95
JSON                             5              0              0             47
reStructuredText                 3             27             28             37
Dockerfile                       1              3              1              7
-------------------------------------------------------------------------------
SUM:                            68           1680            614           7885
-------------------------------------------------------------------------------

gitinspector failed to run statistical information for the repository

[editorialbot]

Wordcount for paper.md is 509

[editorialbot]

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

[editorialbot]

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

OK DOIs

- 10.21105/joss.01848 is OK

MISSING DOIs

- 10.21105/joss.01539 may be a valid DOI for title: pulse: A python package based on FEniCS for solving problems in cardiac mechanics
- 10.21105/joss.00224 may be a valid DOI for title: cbcbeat: an adjoint-enabled framework for computational cardiac electrophysiology
- 10.3389/fphys.2018.01431 may be a valid DOI for title: GEMS: A fully integrated PETSc-based solver for coupled cardiac electromechanics and bidomain simulations
- 10.1016/j.yjmcc.2017.03.008 may be a valid DOI for title: A model of cardiac contraction based on novel measurements of tension development in human cardiomyocytes

INVALID DOIs

- None

[finsberg]

@whedon check references

[editorialbot]

My name is now @editorialbot

[finsberg]

@editorialbot check references

[editorialbot]

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

OK DOIs

- 10.21105/joss.01539 is OK
- 10.21105/joss.00224 is OK
- 10.3389/fphys.2018.01431 is OK
- 10.21105/joss.01848 is OK
- 10.1016/j.yjmcc.2017.03.008 is OK

MISSING DOIs

- None

INVALID DOIs

- None

[finsberg]

cmorris2945 mbarzegary storyetfall sdelandtsheer

[kthyng]

Hi @AoifeHughes! Is this anywhere near your area of expertise?

[kthyng]

@editorialbot invite @AoifeHughes as editor

[editorialbot]

Invitation to edit this submission sent!

[AoifeHughes]

Sure, I'd be glad to handle as editor!

[kthyng]

@editorialbot assign @AoifeHughes as editor

[editorialbot]

Assigned! @AoifeHughes is now the editor

[AoifeHughes]

Hi @cmorris2945, @mbarzegary, @storyetfall, @sdelandtsheer, as per the submitting author's suggestions would any of you like to / feel able to review this?

[cmorris2945]

Sorry, what's the issue here? I don't know what a "DOI" is? This has to do with something about tagging electro-cardiac data or something?

[mbarzegary]

hi, sure, will be a pleasure to help reviewing this submission.

[cmorris2945]

Ok, what's the submission about?

[finsberg]

Ok, what's the submission about?

@cmorris2945 You can read more about the submission here: https://github.com/ComputationalPhysiology/simcardems but in short it is a library for performing cardiac electro-mechanics simulations

[sdelandtsheer]

Sure, I have time to review this submission later this week

[AoifeHughes]

@editorialbot add @mbarzegary as reviewer

[editorialbot]

@mbarzegary added to the reviewers list!

[AoifeHughes]

@editorialbot add @sdelandtsheer as reviewer

[editorialbot]

@sdelandtsheer added to the reviewers list!

[AoifeHughes]

@editorialbot start review

[editorialbot]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/4753.

[AoifeHughes]

Fantastic @mbarzegary and @sdelandtsheer thanks for agreeing! We can get this show on the road :)

[cmorris2945]

Ok, what's the submission about?

@cmorris2945 You can read more about the submission here: https://github.com/ComputationalPhysiology/simcardems but in short it is a library for performing cardiac electro-mechanics simulations

Ok, what's the submission about?

@cmorris2945 You can read more about the submission here: https://github.com/ComputationalPhysiology/simcardems but in short it is a library for performing cardiac electro-mechanics simulations

ok thanks

[kthyng]

@cmorris2945 Sorry there must have been some confusion with the text in this issue — DOI is about references in the paper associated with this submission (Digital Object Identifier), not about the submission software itself. Looks like the submission has two reviewers so the review has begun, but thank you for your interest!