[PRE REVIEW]: Ecological Forecasting and Dynamics: A graduate course on the fundamentals of time series and forecasting in ecology

[whedon]

Submitting author: @ethanwhite (Ethan P. White) Repository: https://github.com/weecology/forecasting-course Version: v2.1.0 Editor: @acocac Reviewers: @arokem, @gvdr Managing EiC: Jordan Gorzalski

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Markdown: [![status](https://jose.theoj.org/papers/05268bf72723410e76e9d991ad956db8/status.svg)](https://jose.theoj.org/papers/05268bf72723410e76e9d991ad956db8)

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[whedon]

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:warning: JOSE reduced service mode :warning:

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[whedon]

PDF failed to compile for issue #190 with the following error:

 /app/vendor/bundle/ruby/2.6.0/bundler/gems/whedon-c5c16aedb3d6/lib/whedon.rb:147:in `check_fields': Paper YAML header is missing expected fields: date (RuntimeError)
    from /app/vendor/bundle/ruby/2.6.0/bundler/gems/whedon-c5c16aedb3d6/lib/whedon.rb:89:in `initialize'
    from /app/vendor/bundle/ruby/2.6.0/bundler/gems/whedon-c5c16aedb3d6/lib/whedon/processor.rb:38:in `new'
    from /app/vendor/bundle/ruby/2.6.0/bundler/gems/whedon-c5c16aedb3d6/lib/whedon/processor.rb:38:in `set_paper'
    from /app/vendor/bundle/ruby/2.6.0/bundler/gems/whedon-c5c16aedb3d6/bin/whedon:58:in `prepare'
    from /app/vendor/bundle/ruby/2.6.0/gems/thor-0.20.3/lib/thor/command.rb:27:in `run'
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    from /app/vendor/bundle/ruby/2.6.0/bin/whedon:23:in `<main>'

[whedon]

Wordcount for paper.md is 1570

[whedon]

Software report (experimental):

github.com/AlDanial/cloc v 1.88  T=0.09 s (1515.9 files/s, 91577.0 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Markdown                       112           1371              0           4127
JSON                             2              0              0            977
HTML                             3             33              0            194
TeX                              1             17              0            180
YAML                             5             25             52            161
Rmd                              3            123            263            118
TOML                             2             37             65            100
R                                1             11              2             39
Bourne Shell                     1              0             14              3
SVG                              1              0              0              2
-------------------------------------------------------------------------------
SUM:                           131           1617            396           5901
-------------------------------------------------------------------------------

Statistical information for the repository '07778cdbbe81d385e6459b71' was
gathered on 2023/01/04.
No commited files with the specified extensions were found.

[whedon]

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

OK DOIs

- 10.1002/ecy.3709 is OK
- 10.1002/ecy.2373 is OK
- 10.1073/pnas.1710231115 is OK
- 10.1101/332783 is OK
- 10.1093/biosci/bix025 is OK
- 10.7717/peerj.4278 is OK
- 10.1111/oik.03726 is OK
- 10.1177/002248718703800308 is OK
- 10.1002/ecy.3431 is OK
- 10.2218/ijdc.v10i1.351 is OK
- 10.1111/2041-210X.13104 is OK
- 10.21105/jose.00139 is OK
- 10.12688/f1000research.3-62.v2 is OK
- 10.1111/ele.12353 is OK
- 10.1371/journal.pbio.3000125 is OK

MISSING DOIs

- None

INVALID DOIs

- 10.9790/7388-05616670 is INVALID
- 10.1890/0012-9658(2003)084[1412:TETTWU]2.0.CO;2 is INVALID

[ethanwhite]

@whedon generate pdf

[whedon]

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

[ethanwhite]

I added the missing metadata for date (note that not having this doesn't produce an error using GH Actions) and released as v2.1.1.

The DOIs that are flagged are the correct DOIs:

• The first one does not resolve but is the [DOI given in the paper]()

• The second one resolves correctly via the url https://doi.org/10.1890/0012-9658(2003)084[1412:TETTWU]2.0.CO;2.

[labarba]

The DOI checker is imperfect and can give false warnings.

[labarba]

For the paper by Bada and Olusegun, you may want to add the full URL to the PDF (it is an open access journal). This is locator hard to find, in fact, because strangely Google Scholar lands on the Academia.edu deposit, not the journal landing page.

Note that the full journal name is IOSR Journal of Research & Method in Education (IOSR-JRME) (https://iosrjournals.org/iosr-jrme.html). There is another journal with the name "International Journal of Research & Method in Education," (https://www.tandfonline.com/journals/cwse20) so one has to be careful. I was a bit suspicious of this at first (is it a copy cat journal?), but the article itself is highly cited...

[labarba]

@whedon invite @acocac as editor

[whedon]

@acocac has been invited to edit this submission.

[labarba]

it appears that IOSR Journals are considered predatory by several sources 😬

[acocac]

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[ethanwhite]

it appears that IOSR Journals are considered predatory by several sources grimacing

We are citing the paper based on its content not the journal or publisher reputation. This is a well regarded paper, which, as you note, is very well cited. It's also actively referenced as a source for broad educational initiatives (e.g., https://showcase.ems.psu.edu/node/106, https://www.buffalo.edu/catt/develop/theory/constructivism.html). This high usage rate is because it is an effective introduction and review. I think that makes it the best citation here since anyone engaging with the citation in this context will likely be looking for an understandable summary and review and this is the best one I've found. That said, if citing journals by this publisher is a concern let me know and we can either supplement or replace the citation with other sources.

[labarba]

Did not mean it as a concern for citing the paper... but a possible explanation for the broken DOI deposit.

[acocac]

👋 @ethanwhite, happy to moderate and find reviewers for your submission. Feel free to provide recommendations of potential reviewers from @whedon list reviewers.

[acocac]

@whedon list reviewers

[whedon]

Here's the current list of reviewers: https://bit.ly/jose-reviewers

[ethanwhite]

Did not mean it as a concern for citing the paper... but a possible explanation for the broken DOI deposit.

Ah, that makes sense. And yes their DOI infrastructure definitely seems sloppy at best.

[ethanwhite]

:wave: @ethanwhite, happy to moderate and find reviewers for your submission. Feel free to provide recommendations of potential reviewers from @whedon list reviewers.

Good folks (github handles without @) to review this submission on the provided list include:

• jhollist (ecology + R)
• arokem (time-series +R) ✅
• ~~jgvdr (ecology + R) ✅ ~~j
• jsta (ecology + R) ✔️
• fmichonneau (ecology + R) ✔️
• jwagemann (environmental science + R)
• andrewmaclachlan (environmental science + R) ✔️

[acocac]

Hi @AoifeHughes — you've expressed interest to review for JOSE (The Journal of Open Source Education). Could you take a look at this submission and let us know if you might be able to volunteer a review for us? We aim for reviews to be completed within about 2-4 weeks. Please let me know if any of you require some more time. Thanks! 🙏 Title: "Ecological Forecasting and Dynamics: A graduate course on the fundamentals of time series and forecasting in ecology" View article proof on GitHub 📄 👈

[acocac]

@whedon assign @acocac as editor

[whedon]

OK, the editor is @acocac

[acocac]

Hi @gvdr — you've expressed interest to review for JOSE (The Journal of Open Source Education). Could you take a look at this submission and let us know if you might be able to volunteer a review for us? We aim for reviews to be completed within about 2-4 weeks. Please let me know if any of you require some more time. Thanks! 🙏 Title: "Ecological Forecasting and Dynamics: A graduate course on the fundamentals of time series and forecasting in ecology" View article proof on GitHub 📄 👈

[gvdr]

Hi @acocac I'm on it now. :-D

[acocac]

Hi @acocac I'm on it now. :-D

Giulio - Cool! Thank you

[acocac]

@whedon assign @gvdr as reviewer

[whedon]

OK, @gvdr is now a reviewer

[acocac]

@whedon assign @arokem as reviewer

[whedon]

OK, @arokem is now a reviewer

[acocac]

@whedon add @gvdr as reviewer

[whedon]

OK, @gvdr is now a reviewer

[acocac]

@whedon start review

[whedon]

OK, I've started the review over in https://github.com/openjournals/jose-reviews/issues/198.