Joss-reviews: [PRE REVIEW]: DrWatson: the perfect sidekick for your scientific inquiries

[whedon]

Submitting author: @tamasgal (Tamás Gál)
Repository: https://github.com/JuliaDynamics/DrWatson.jl
Version: v1.13.2
Editor: @dpsanders
Reviewers: @jpfairbanks, @kescobo
Managing EiC: Kyle Niemeyer

:warning: JOSS reduced service mode :warning:

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.

Author instructions

Thanks for submitting your paper to JOSS @tamasgal. Currently, there isn't an JOSS editor assigned to your paper.

@tamasgal 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 have already agreed to review for JOSS and may be suitable for this submission (please start at the bottom of the list).

Editor instructions

The JOSS submission bot @whedon is here to help you find and assign reviewers and start the main review. To find out what @whedon can do for you type:

@whedon commands

[whedon]

Hello human, I'm @whedon, a robot that can help you with some common editorial tasks.

:warning: JOSS reduced service mode :warning:

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.

For a list of things I can do to help you, just type:

@whedon commands

For example, to regenerate the paper pdf after making changes in the paper's md or bib files, type:

@whedon generate pdf

[whedon]

Failed to discover a Statement of need section in paper

[whedon]

Software report (experimental):

github.com/AlDanial/cloc v 1.84  T=0.18 s (192.0 files/s, 23362.6 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Julia                           19            412            320           2091
Markdown                         9            223              0            913
Lisp                             1             26              0             93
TeX                              1              0              0             70
YAML                             3              5              1             59
TOML                             2              5              0             41
-------------------------------------------------------------------------------
SUM:                            35            671            321           3267
-------------------------------------------------------------------------------


Statistical information for the repository '2456' was gathered on 2020/07/09.
No commited files with the specified extensions were found.

[whedon]

Reference check summary:

OK DOIs

- 10.6084/m9.figshare.3115156.v2 is OK

MISSING DOIs

- None

INVALID DOIs

- https://doi.org/10.1016/j.jsc.2003.04.002 is INVALID because of 'https://doi.org/' prefix

[whedon]

:point_right: Check article proof :page_facing_up: :point_left:

[kyleniemeyer]

Hi @tamasgal, as we are getting started here, could you please add a Statement of Need section? This is now required for articles, as described in our documentation.

Also, it looks like there is a problem with a DOI ☝️

[kyleniemeyer]

Hi @melissawm and @dpsanders, as our resident Julia experts I'm wondering if either of you has the bandwidth to edit this submission? Thanks!

[dpsanders]

Yes, I would like to edit this.

[kyleniemeyer]

@whedon assign @dpsanders as editor

[whedon]

OK, the editor is @dpsanders

[tamasgal]

Thanks for both of you! We will add the statement of need section tomorrow and also fix the DOI.

[tamasgal]

@whedon generate pdf

[whedon]

:point_right: Check article proof :page_facing_up: :point_left:

[tamasgal]

The DOI is fixed and the "Statement of need" section is now there.

[tamasgal]

@whedon commands

[whedon]

Here are some things you can ask me to do:

# List Whedon's capabilities
@whedon commands

# List of editor GitHub usernames
@whedon list editors

# List of reviewers together with programming language preferences and domain expertise
@whedon list reviewers

EDITORIAL TASKS

# Compile the paper
@whedon generate pdf

# Compile the paper from alternative branch
@whedon generate pdf from branch custom-branch-name

# Ask Whedon to check the references for missing DOIs
@whedon check references

# Ask Whedon to check repository statistics for the submitted software
@whedon check repository

[tamasgal]

@whedon check references

[whedon]

Reference check summary:

OK DOIs

- 10.1016/j.jsc.2003.04.002 is OK
- 10.6084/m9.figshare.3115156.v2 is OK

MISSING DOIs

- None

INVALID DOIs

- None

[dpsanders]

:wave @tamasgal Sorry for the delay.

Could you please check for each piece of software that you cite whether there is a related published paper. For example, sumatra has an associated paper.

Software also often has a preferred means of citing the software listed in the repository.

Are there any other non-software references, i.e. published papers, that are relevant?

[tamasgal]

No worries, thanks for the feedback! Yes I’ll check again and go through the list of refs.

I think the list is complete but we will check that too.

[tamasgal]

Alright, improved a bit but for the remaining packages I could not find better citations or papers. Those are mostly R packages...

Thanks for the hint with the Sumatra paper, I totally overlooked that.

[tamasgal]

@whedon check references

[whedon]

Reference check summary:

OK DOIs

- 10.1016/j.jsc.2003.04.002 is OK
- doi:10.5063/F1GF0RF6 is OK
- 10.6084/m9.figshare.3115156.v2 is OK

MISSING DOIs

- https://doi.org/10.1201/9781315373461-3 may be missing for title: Sumatra: A Toolkit for Reproducible Research

INVALID DOIs

- None

[tamasgal]

The missing DOI is now added.

@whedon check references

[tamasgal]

@whedon check references

[whedon]

Reference check summary:

OK DOIs

- 10.1016/j.jsc.2003.04.002 is OK
- doi:10.1201/9781315373461-3 is OK
- doi:10.5063/F1GF0RF6 is OK
- 10.6084/m9.figshare.3115156.v2 is OK

MISSING DOIs

- None

INVALID DOIs

- None

[tamasgal]

This issue probably got a bit lost due to JuliaCon 😅

[dpsanders]

@whedon generate pdf

[whedon]

:point_right: Check article proof :page_facing_up: :point_left:

[Datseris]

Hello,

I'd like to suggest a reviewer for our paper: James Fairbanks, PhD ( @jpfairbanks ) is familiar with the Julia language, is already familiar with various software for scientific assistanship, and is unaffiliated with DrWatson.

@dpsanders could you please consider him as a reviewer and possibly start the review process? I am meanwhile searching for a second reviewer as well.

best,
George

[Datseris]

Hi @dpsanders , I'd like to suggest a second reviewer, Kevin Bonham, PhD @kescobo

[kescobo]

:wave: I'm willing to review if appropriate. Haven't used the package before, but it could be relevant. Would be a good excuse to kick the tires.

[dpsanders]

👋 @tamasgal and @Datseris: Apologies for the delay and thanks for the help with reviewers.

Thanks to @jpfairbanks and @kescobo for volunteering!

[dpsanders]

@whedon add @jpfairbanks as reviewer

[whedon]

OK, @jpfairbanks is now a reviewer

[dpsanders]

@whedon add @kescobo as reviewer

[whedon]

OK, @kescobo is now a reviewer

[dpsanders]

@whedon start review

[whedon]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/2673.

[tamasgal]

Thanks for all of you so far! No worries David, I appreciate your comments and feedback!