[PRE REVIEW]: ewstools: A Python package for early warning signals of bifurcations in time series data #5012

editorialbot · 2022-12-14T13:05:15Z

Submitting author: @ThomasMBury (Thomas M Bury)
Repository: https://github.com/ThomasMBury/ewstools
Branch with paper.md (empty if default branch):
Version: 2.1.0
Editor: @osorensen
Reviewers: @mhu48, @mikesha2, @ranzhengcode
Managing EiC: Daniel S. Katz

Status

Status badge code:

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Markdown: [![status](https://joss.theoj.org/papers/72d1a4bf216c2a4b22edab3b8f1feae0/status.svg)](https://joss.theoj.org/papers/72d1a4bf216c2a4b22edab3b8f1feae0)

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

@ThomasMBury 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).

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The text was updated successfully, but these errors were encountered:

editorialbot · 2022-12-14T13:05:17Z

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

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

@editorialbot commands

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

@editorialbot generate pdf

editorialbot · 2022-12-14T13:05:20Z

Software report:

github.com/AlDanial/cloc v 1.88  T=0.10 s (297.4 files/s, 210492.9 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Python                           9            862           1251           1230
XML                              6              0              0            605
Markdown                         3             92              0            234
Jupyter Notebook                 4              0          17125            162
TeX                              1             25              0            148
YAML                             4             10              5             45
reStructuredText                 2             34             20             36
DOS Batch                        1              8              1             26
make                             1              4              6              9
-------------------------------------------------------------------------------
SUM:                            31           1035          18408           2495
-------------------------------------------------------------------------------


gitinspector failed to run statistical information for the repository

editorialbot · 2022-12-14T13:05:22Z

Wordcount for paper.md is 845

editorialbot · 2022-12-14T13:06:41Z

👉📄 Download article proof 📄 View article proof on GitHub 📄 👈

editorialbot · 2022-12-14T13:10:10Z

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

OK DOIs

- 10.5281/zenodo.15681 is OK

MISSING DOIs

- 10.1098/rsif.2020.0482 may be a valid DOI for title: Detecting and distinguishing tipping points using spectral early warning signals
- 10.1371/journal.pone.0041010 may be a valid DOI for title: Methods for detecting early warnings of critical transitions in time series illustrated using simulated ecological data
- 10.1111/2041-210x.13058 may be a valid DOI for title: Monitoring ecosystem degradation using spatial data and the R package spatialwarnings
- 10.25080/majora-92bf1922-00a may be a valid DOI for title: Data structures for statistical computing in Python
- 10.25080/majora-92bf1922-011 may be a valid DOI for title: statsmodels: Econometric and statistical modeling with Python
- 10.23919/mipro.2019.8757088 may be a valid DOI for title: An overview and comparison of free Python libraries for data mining and big data analysis

INVALID DOIs

- None

danielskatz · 2022-12-14T13:43:35Z

@ThomasMBury - I'm the track editor for this submission, and will now look for an editor for it. While I do so, you could work on the possibly missing DOIs that editorialbot suggests, but note that some may be incorrect. Please feel free to make changes to your .bib file, then use the command @editorialbot check references to check again, and the command @editorialbot generate pdf when the references are right to make a new PDF. editorialbot commands need to be the first entry in a new comment.

danielskatz · 2022-12-14T13:45:40Z

👋 @galessiorob - would you be able to edit this submission?

danielskatz · 2022-12-14T13:45:49Z

@editorialbot invite @galessiorob as editor

editorialbot · 2022-12-14T13:45:51Z

Invitation to edit this submission sent!

ThomasMBury · 2022-12-14T16:30:59Z

Hi @danielskatz, thanks for helping with this. I've checked the 'missing DOIs' and they are correct for the papers I wish to cite. There is just one reference that I have removed from the bib file as I don't cite it in the paper.

Potential reviewers from the JOSS list could be
[email protected]
[email protected]
[email protected]
[email protected]

ThomasMBury · 2022-12-14T16:31:25Z

@editorialbot check references

editorialbot · 2022-12-14T16:35:50Z

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

OK DOIs

- 10.5281/zenodo.15681 is OK

MISSING DOIs

- 10.1098/rsif.2020.0482 may be a valid DOI for title: Detecting and distinguishing tipping points using spectral early warning signals
- 10.1371/journal.pone.0041010 may be a valid DOI for title: Methods for detecting early warnings of critical transitions in time series illustrated using simulated ecological data
- 10.1111/2041-210x.13058 may be a valid DOI for title: Monitoring ecosystem degradation using spatial data and the R package spatialwarnings
- 10.25080/majora-92bf1922-00a may be a valid DOI for title: Data structures for statistical computing in Python
- 10.25080/majora-92bf1922-011 may be a valid DOI for title: statsmodels: Econometric and statistical modeling with Python

INVALID DOIs

- None

ThomasMBury · 2022-12-14T16:39:12Z

@editorialbot generate pdf

editorialbot · 2022-12-14T16:40:44Z

👉📄 Download article proof 📄 View article proof on GitHub 📄 👈

danielskatz · 2022-12-14T17:11:07Z

@ThomasMBury - there are still 5 possible DOIs that @editorialbot thinks should be added to bibtex records - are you saying that none of these are correct?

ThomasMBury · 2022-12-14T17:17:14Z

@danielskatz - the DOIs suggested by the bot are actually all correct. My .bib file does not contain any DOI entries - should I include the DOIs for each paper?

danielskatz · 2022-12-14T17:17:54Z

yes

ThomasMBury · 2022-12-14T17:35:22Z

@editorialbot check references

editorialbot · 2022-12-14T17:36:33Z

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

OK DOIs

- 10.1038/nature08227 is OK
- 10.1111/ele.12948 is OK
- 10.1098/rsif.2020.0482 is OK
- 10.1073/pnas.2106140118 is OK
- 10.1371/journal.pone.0041010 is OK
- 10.1111/2041-210X.13058 is OK
- 10.1038/s41586-020-2649-2 is OK
- 10.25080/Majora-92bf1922-00a is OK
- 10.5281/zenodo.15681 is OK
- 10.25080/Majora-92bf1922-011 is OK
- 10.1038/s41592-020-0772-5 is OK
- 10.48550/arXiv.1605.08695 is OK

MISSING DOIs

- None

INVALID DOIs

- None

ThomasMBury · 2022-12-14T17:42:12Z

@editorialbot check references

editorialbot · 2022-12-14T17:43:27Z

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

OK DOIs

- 10.1038/nature08227 is OK
- 10.1111/ele.12948 is OK
- 10.1098/rsif.2020.0482 is OK
- 10.1073/pnas.2106140118 is OK
- 10.1371/journal.pone.0041010 is OK
- 10.1111/2041-210X.13058 is OK
- 10.1038/s41586-020-2649-2 is OK
- 10.25080/Majora-92bf1922-00a is OK
- 10.5281/zenodo.15681 is OK
- 10.25080/Majora-92bf1922-011 is OK
- 10.1038/s41592-020-0772-5 is OK
- 10.48550/arXiv.1605.08695 is OK

MISSING DOIs

- 10.1163/1574-9347_bnp_e612900 may be a valid DOI for title: Keras

INVALID DOIs

- None

ThomasMBury · 2022-12-14T17:49:55Z

@editorialbot check references

editorialbot · 2022-12-14T17:50:59Z

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

OK DOIs

- 10.1038/nature08227 is OK
- 10.1111/ele.12948 is OK
- 10.1098/rsif.2020.0482 is OK
- 10.1073/pnas.2106140118 is OK
- 10.1371/journal.pone.0041010 is OK
- 10.1111/2041-210X.13058 is OK
- 10.1038/s41586-020-2649-2 is OK
- 10.25080/Majora-92bf1922-00a is OK
- 10.5281/zenodo.15681 is OK
- 10.25080/Majora-92bf1922-011 is OK
- 10.1038/s41592-020-0772-5 is OK
- 10.48550/arXiv.1605.08695 is OK

MISSING DOIs

- 10.1163/1574-9347_bnp_e612900 may be a valid DOI for title: Keras

INVALID DOIs

- None

ThomasMBury · 2022-12-14T17:54:03Z

@editorialbot check references

editorialbot · 2022-12-14T17:55:09Z

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

OK DOIs

- 10.1038/nature08227 is OK
- 10.1111/ele.12948 is OK
- 10.1098/rsif.2020.0482 is OK
- 10.1073/pnas.2106140118 is OK
- 10.1371/journal.pone.0041010 is OK
- 10.1111/2041-210X.13058 is OK
- 10.1038/s41586-020-2649-2 is OK
- 10.25080/Majora-92bf1922-00a is OK
- 10.5281/zenodo.15681 is OK
- 10.25080/Majora-92bf1922-011 is OK
- 10.1038/s41592-020-0772-5 is OK
- 10.48550/arXiv.1605.08695 is OK

MISSING DOIs

- 10.1163/1574-9347_bnp_e612900 may be a valid DOI for title: Keras

INVALID DOIs

- None

ThomasMBury · 2022-12-14T17:58:31Z

@danielskatz, I'm not able to find a DOI for the Keras software - I don't think it has one. Any suggestions?

The current bibtex entry for it is
@software{chollet2015keras,
title={Keras},
author={Chollet, Fran\c{c}ois and others},
year={2015},
publisher={GitHub},
howpublished={\url{https://github.com/fchollet/keras}},
}

danielskatz · 2022-12-14T19:01:56Z

that's fine - this is an example where editorialbot is wrong, so you don't need to add a DOI. JOSS does want DOIs where they exist, as they can be used as an index that leads to better citation tracking.

ThomasMBury · 2022-12-19T18:27:29Z

Ok sounds good, thank you.

danielskatz · 2022-12-21T00:47:48Z

👋 @galessiorob - do you think you will be able to edit this submission?

#5012 (comment)

danielskatz · 2023-01-03T14:32:41Z

👋 @galessiorob - would you be able to edit this submission? (re-asking after the holiday break)

galessiorob · 2023-01-04T18:03:24Z

Hi @danielskatz! Unfortunately, I can't take this paper on due to tight bandwidth. Thanks for the invite, though!

danielskatz · 2023-01-04T18:09:31Z

👋 @osorensen - would you be able to edit this submission?

danielskatz · 2023-01-04T18:09:39Z

@editorialbot invite @osorensen as editor

editorialbot · 2023-01-04T18:09:41Z

Invitation to edit this submission sent!

osorensen · 2023-01-04T20:28:45Z

@editorialbot add @osorensen as editor

editorialbot · 2023-01-04T20:28:47Z

Assigned! @osorensen is now the editor

osorensen · 2023-01-04T20:32:08Z

@editorialbot generate pdf

editorialbot · 2023-01-04T20:33:57Z

👉📄 Download article proof 📄 View article proof on GitHub 📄 👈

osorensen · 2023-01-04T20:37:33Z

👋 @ranzhengcode @vipinagrawal25 @mikesha2 @mhu48, would any of you be willing to review this submission for JOSS? We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/review_criteria.html

mhu48 · 2023-01-04T21:02:55Z

Hi, I would be happy to help with the review of the submission! Thank you for the opportunity. Please provide me with the link. Sincerely, Ming

…

On Wed, Jan 4, 2023 at 12:37 PM Øystein Sørensen ***@***.***> wrote: 👋 @ranzhengcode <https://github.com/ranzhengcode> @vipinagrawal25 <https://github.com/vipinagrawal25> @mikesha2 <https://github.com/mikesha2> @mhu48 <https://github.com/mhu48>, would any of you be willing to review this submission for JOSS? We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/review_criteria.html — Reply to this email directly, view it on GitHub <#5012 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AKGGVY6H6ZZDUUMIWFGDX6LWQXNRRANCNFSM6AAAAAAS6OW32E> . You are receiving this because you were mentioned.Message ID: ***@***.***>

-- Mingzhao Hu Phone: (608) 338-2571 Dept of Statistics & Applied Probability Univ of California ***@***.*** ***@***.***> Santa Barbara, CA 93106

mikesha2 · 2023-01-04T21:31:04Z

👋 @ranzhengcode @vipinagrawal25 @mikesha2 @mhu48, would any of you be willing to review this submission for JOSS? We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/review_criteria.html

I would be happy to review this submission!

Mike

osorensen · 2023-01-04T21:38:15Z

Thanks @mhu48! Once I start the review issue you will be notified and get a link. It might take a day or two.

osorensen · 2023-01-04T21:38:29Z

@editorialbot add @mhu48 as reviewer

editorialbot · 2023-01-04T21:38:31Z

@mhu48 added to the reviewers list!

osorensen · 2023-01-04T21:38:49Z

@editorialbot add @mikesha2 as reviewer

editorialbot · 2023-01-04T21:38:50Z

@mikesha2 added to the reviewers list!

ranzhengcode · 2023-01-04T23:50:45Z

I would be happy to review this submission! Ran 获取Outlook for Android<https://aka.ms/AAb9ysg>

…

________________________________ From: The Open Journals editorial robot ***@***.***> Sent: Thursday, January 5, 2023 5:39:02 AM To: openjournals/joss-reviews ***@***.***> Cc: Zheng Ran ***@***.***>; Mention ***@***.***> Subject: Re: [openjournals/joss-reviews] [PRE REVIEW]: ewstools: A Python package for early warning signals of bifurcations in time series data (Issue #5012) @mikesha2<https://github.com/mikesha2> added to the reviewers list! ― Reply to this email directly, view it on GitHub<#5012 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/ARMXINW642ET5IPYKYGEYWTWQXUXNANCNFSM6AAAAAAS6OW32E>. You are receiving this because you were mentioned.Message ID: ***@***.***>

osorensen · 2023-01-05T06:10:40Z

@editorialbot add @ranzhengcode as reviewer

editorialbot · 2023-01-05T06:10:43Z

@ranzhengcode added to the reviewers list!

osorensen · 2023-01-05T06:10:58Z

@editorialbot start review

editorialbot · 2023-01-05T06:11:01Z

OK, I've started the review over in #5038.

editorialbot added pre-review Track: 7 (CSISM) Computer science, Information Science, and Mathematics labels Dec 14, 2022

editorialbot added Python TeX labels Dec 14, 2022

editorialbot assigned osorensen Jan 4, 2023

editorialbot assigned mhu48 Jan 4, 2023

editorialbot assigned mikesha2 Jan 4, 2023

editorialbot assigned ranzhengcode Jan 5, 2023

editorialbot closed this as completed Jan 5, 2023

[PRE REVIEW]: ewstools: A Python package for early warning signals of bifurcations in time series data #5012

[PRE REVIEW]: ewstools: A Python package for early warning signals of bifurcations in time series data #5012

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