Joss-reviews: [PRE REVIEW]: UQit: A Python package for uncertainty quantification (UQ) in computational fluid dynamics (CFD)

[whedon]

Submitting author: @salrm8 (Saleh Rezaeiravesh)
Repository: https://github.com/KTH-Nek5000/UQit
Version: v1.0.2
Editor: @drvinceknight
Reviewer: Pending
Managing EiC: Kristen Thyng

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Author instructions

Thanks for submitting your paper to JOSS @salrm8. Currently, there isn't an JOSS editor assigned to your paper.

The author's suggestion for the handling editor is @kyleniemeyer.

@salrm8 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]

Software report (experimental):

github.com/AlDanial/cloc v 1.84  T=0.22 s (202.7 files/s, 45183.5 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Python                          24            266           1739           2892
Jupyter Notebook                 5              0           3192            880
reStructuredText                10            220            167            323
Markdown                         3             42              0            144
TeX                              1             11              0            102
DOS Batch                        1              8              1             26
make                             1              4              7              9
-------------------------------------------------------------------------------
SUM:                            45            551           5106           4376
-------------------------------------------------------------------------------


Statistical information for the repository 'd38d75959b8a09f5b3ef4c8c' was
gathered on 2020/11/10.
The following historical commit information, by author, was found:

Author                     Commits    Insertions      Deletions    % of changes
Saleh                          230         27550          21794          100.00

Below are the number of rows from each author that have survived and are still
intact in the current revision:

Author                     Rows      Stability          Age       % in comments
Saleh                      4897           17.8          2.6               17.54

[whedon]

PDF failed to compile for issue #2833 with the following error:

/app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon/author.rb:72:in block in build_affiliation_string': Problem with affiliations for Saleh Rezaeiravesh, perhaps the affiliations index need quoting? (RuntimeError) from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon/author.rb:71:ineach'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon/author.rb:71:in build_affiliation_string' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon/author.rb:17:ininitialize'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon.rb:205:in new' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon.rb:205:inblock in parse_authors'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon.rb:202:in each' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon.rb:202:inparse_authors'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon.rb:93:in initialize' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon/processor.rb:38:innew'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/lib/whedon/processor.rb:38:in set_paper' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/bin/whedon:58:inprepare'
from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor/command.rb:27:in run' from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor/invocation.rb:126:ininvoke_command'
from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor.rb:387:in dispatch' from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor/base.rb:466:instart'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-8db9f43069bd/bin/whedon:131:in <top (required)>' from /app/vendor/bundle/ruby/2.4.0/bin/whedon:23:inload'
from /app/vendor/bundle/ruby/2.4.0/bin/whedon:23:in `

'

[whedon]

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

OK DOIs

- 10.1007/978-1-4757-3799-8 is OK
- 10.1007/978-3-319-12385-1 is OK
- 10.2307/j.ctv7h0skv is OK

MISSING DOIs

- 10.21236/ada460654 may be a valid DOI for title: The Wiener–Askey Polynomial Chaos for Stochastic Differential Equations

INVALID DOIs

- https://doi.org/10.1016/S0378-4754(00)00270-6 is INVALID because of 'https://doi.org/' prefix
- arXiv:2007.07071 is INVALID

[kthyng]

Hi @salrm8! Can you look through and address the DOI problems above and look through the errors with building your paper to try to fix them?

[kthyng]

@drvinceknight do you have bandwidth to take on this submission?

[kthyng]

@whedon invite @drvinceknight as editor

[whedon]

@drvinceknight has been invited to edit this submission.

[salrm8]

Hi @salrm8! Can you look through and address the DOI problems above and look through the errors with building your paper to try to fix them?

Hi @kthyng! I fixed the issues with the DOIs and affiliations index quoting.
Thank you

[danielskatz]

👋 @drvinceknight - note that you have been requested to edit this submission...

[danielskatz]

@whedon invite @drvinceknight as editor

[whedon]

@drvinceknight has been invited to edit this submission.

[drvinceknight]

Sorry for missing the first notification!

[drvinceknight]

@whedon assign @drvinceknight as editor

[whedon]

OK, the editor is @drvinceknight