[Population Modeling] PopModWkGrpIMAG-news Digest, Vol 31, Issue 1

Mon May 8 21:20:32 PDT 2017

Thanks for all the work Jacob and all.

If the idea of publishing softwares on a website moves forward, I would be
happy to share information about our tool.

Leandro

On Mon, May 8, 2017 at 7:44 PM, John Rice <john.rice at noboxes.org> wrote:

> Nice work Jacob and all!   It does remain and interesting way to
> communicate to the work of a community which may not yet be ready to box
> itself into a textual definition of its approach to modeling.
>
> John
>
> Typed with two thumbs on my iPhone.  (757) 318-0671
>
> “The biggest risk you run in life is having fifteen people sitting around
> a table all agreeing with everything you say.  If that’s the environment
> you work in, you’re going to blow up one day.”
>
>     - Ken Langone, Founder of Home Depot
>
>
>
>
>
> On May 8, 2017, at 21:19, popmodwkgrpimag-news-request at simtk.org wrote:
>
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>
> Today's Topics:
>
>   1. Re: Population modeling by examples III    collaborative paper
>      (Jacob Barhak)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 8 May 2017 20:19:22 -0500
> From: Jacob Barhak <jacob.barhak at gmail.com>
> To: "popmodwkgrpimag-news at simtk.org" <popmodwkgrpimag-news at simtk.org>
> Subject: Re: [Population Modeling] Population modeling by examples III
>    collaborative paper
> Message-ID:
>    <CAM_y+3Rj3wxL_M0MOV8JgXav8=GDOVPw9wD+ttpkHpi_idmggA at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Greetings to all collaborative paper authors,
>
> Following modifications after review, the revised version of the paper was
> submitted to SummerSim.
>
> You can find the revised version in the following link:
> https://simtk.org/docman/view.php/962/4649/PopulationModelingByExamples3_
> Submit_2017_05_08.docx
>
> Below you will find the response to the reviewers.
>
> Since many changes were made, including many deletions, I will ask all
> contributors to look again at their section and let me know if there is any
> error introduced by mistake. There is still little time to fix small
> things, yet no time for any additions or major modifications.
>
> Hopefully you will all find it in good shape.
>
>
>              Jacob
>
>
> #################################################################
>
>
>
> Response to Review for SummerSim 2017 paper #13 ? Population Modeling by
> Examples III
>
> The response is embedded within the review text below.
>
> ############################
>
>
>
> This paper is hard to review and I'm not really sure it should be a paper
> at all. The paper is an introduction to the work of multiple people, at
> different institutions, around the world. I've no doubt this is very
> important as it provides a one stop location for someone to pick the right
> contact for their questions, problems and collaborations. However, wouldn't
> this better suited to being an updateable webpage? Surely, people's
> institutions, interests and email addresses will evolve over time, whereas
> this article tries to cement the work in time. Equally, having such a
> website would allow people to update their own blurbs, which would ensure
> accuracy. Stemming from this fact is the problem that I can't review the
> science as I am not an expert in the diverse range of subjects that appear.
> Thus, all I am left with is discussing the qualities of the written
> language. Here the paper falters, with troubling prose throughout. For
> example "the Inter Agency Modeling and Analysis Group (IMAG) (IMAG,
> Online), that Is composed of government officers, created working group
> that can be composed of researches worldwide." However, all of the textual
> errors can be fixed after a good proof read. Critically, such errors should
> be the responsibility of the journal's copy editor and not the scientific
> reviewer. In summary: a useful idea, which is presented in the wrong
> medium. Yours, Thomas Woolly
>
>
>
> ####################
>
> RESPONSE:
>
> Tomas is absolutely correct. It would be great if all modelers will
> centralize in one location and create living web pages with links to
> possible web pages. However, it is not straightforward possibly because of
> academic culture that is still rewarded by publications. Even collecting
> this amount of contributions every year takes a lot of effort. So although
> not ideal, it may be the best that can be done to help a group with
> overlapping interests come together. And I thank the reviewer for
> recognizing the importance of bringing this group together. If you check
> the previous papers this group produces you will see some evolution. The
> first paper just brought a bunch of modelers together. The second paper
> actually added a classification, due to a request by a reviewer. After this
> review, the folk in the mailing list were asked if they are willing to join
> a web portal and create projects. So in the long run the review may
> influence researcher to go in that direction. And following this response a
> suggestion was posted to our mailing list for folk to join the SimTk model
> repository. However, for the mean time I request that the reviewer accepts
> the importance of mapping the field and accepts the revised version.
>
>
>
> ####################
>
>
>
> Second review:
>
> 1) It is interesting to read about the multiple areas of population
> modeling - microscopic and macroscopic scales, theory and computer
> simulation, implications of the modeling results to mathematical modelling
> and computer simulation and the areas of biology that are under study.
>
> ####################
>
> RESPONSE:
>
> The reviewer is interested. This is encouraging.
>
> ####################
>
>
>
>
>
> 2) I suggest that each section start with one clear sentence that states
> how their contributors work is related to population modelling. This was
> not always clear from the outset.
>
> ####################
>
> RESPONSE:
>
> The paper was revised to include a description sentence for each entry.
> This is a good idea.
>
> ####################
>
>
>
> 3) There are several grammar issues. In particular, the tense of the first
> sentence is not always the same. The result is that the document doesn't
> flow very well.
>
> ####################
>
> RESPONSE:
>
> Yes, the reviewer is correct. This was improved. The text was originally
> adapted from multiple contributions that the authors sent to the mailing
> list ? there was no binding format with regards to the text and the editor
> tried to change only what is absolutely needed change to avoid planting
> wrong intention during modifications ? sometimes authors choose certain
> format on purpose. Several correction passes were made and hopefully the
> reviewer will be content with the result.
>
> ####################
>
>
>
> 4) I like the table. I suggest that the table be introduced before the
> descriptions, providing a Table of Contents type map of the material that
> follows.
>
> ####################
>
> RESPONSE:
>
> This is a good idea and the paper was rewritten to reflect this.
>
> ####################
>
>
>
> 5) Perhaps the order of the contributors could be modified to a more
> logical sequence. For example, by main area of research focus. If this is
> not possible to do, then perhaps alphabetical order would be okay.
>
> Jane Heffernan York University
>
>
>
> ####################
>
> RESPONSE:
>
> This change was made to make the map show clusters ? the order now is such
> that the map is visually pleasing with the most prevalent category of
> public health first. Thanks for the suggestion.
>
> ####################
>
>
>
> Third review:
>
> Although this is an overview of the field, it should still strive to have
> academic depth. Publicising the work of contributors is nice, but the
> entries should also be informative. This is not always true. In particular,
> I suggest either deleting or significantly expanding the entry from Carl
> Asche, which adds almost nothing. Overall, it should be streamlined and
> sentences written out in full.
>
> Robert Smith? The University of Ottawa
>
>
>
> ####################
>
> RESPONSE:
>
> Carl Asche sent some more text that was added, yet adding more text was a
> challenge since the paper size limit is 12 pages. So multiple changes were
> made to accommodate the reviews ? hopefully the revised version is found in
> better shape.
>
> ####################
>
>
>
>
>
>
>
>
>
>
>
>
>
> On Fri, Apr 28, 2017 at 9:58 AM, Jacob Barhak <jacob.barhak at gmail.com>
> wrote:
>
> Greetings to all collaborative paper authors,
>
>
> The review for our paper came back and is available on:
>
>
> https://groups.google.com/forum/#!topic/public-
>
> scientific-reviews/7lr3pCUgZv4
>
>
> Generally the comments were editorial and grammar related. I will prepare
>
> a response. Yet I will suggest that all authors take a look.  If you want
>
> to make changes in your text, please send me your revised text in the next
>
> week until May 6th. I will appreciate help with reviewing grammar of the
>
> final version if anyone can volunteer time in a week.
>
>
> Also, I am interested in the response of the first reviewer Thomas Woolly.
>
> How many of you are open to creating a free SimTK user account and adding
>
> your project there so we can create a live paper as requested?
>
>
> The reviewer has a good idea.  Hopefully we can at least partially
>
> accommodate it.
>
>
>           Jacob
>
>
>
> On Apr 18, 2017 12:27 AM, "Jacob Barhak" <jacob.barhak at gmail.com> wrote:
>
>
> Greeting to all collaborative paper authors,
>
>
> Some of you sent some comments and we had one more entry, so I was able
>
> to revised the version before submission. You can find the submitted
>
> version in:
>
> https://simtk.org/docman/view.php/962/4645/PopulationModelin
>
> gByExamples3_Submit_2017_04_17.docx
>
>
> The paper will now go to review and I will get back to you once it is
>
> received. - again many thanks for those who contributed.
>
>
>             Jacob
>
>
>
>
>
>
>
> On Sun, Apr 16, 2017 at 6:33 AM, Jacob Barhak <jacob.barhak at gmail.com>
>
> wrote:
>
>
> Greetings population modelers,
>
>
> With many of you submitting introductions about their work, it was
>
> possible to assemble a third review paper that originated from this group.
>
>
> The paper was edited from introductions by the following contributors.
>
>
> Bishal Paudel
>
> Carl Asche
>
> Vivek Balaraman
>
> Michael Thomas
>
> Nathan Geffen
>
> Pawel Topa
>
> Katherine Ogurtsova
>
> Jeff Shrager
>
> Christopher Fonnesbeck
>
> Resit Akcakaya
>
> Matthias Templ
>
> Amit Huppert
>
> Marco Ajelli
>
> Dan Yamin
>
> Leandro Watanabe
>
> Ram Pendyala
>
>
> If your name is not on the list and you contributed an introduction,
>
> please contact me - I did my best to assemble all those who contributed
>
> introductions publicly, yet if any changes are needed, now is the time to
>
> correct me.
>
>
> For those listed above, please have a look at the paper and if any fixes
>
> are needed, please let me know. I had to cut text and references to fit
>
> space and maintain format - so please double check me. Especially check
>
> your own section and your line in the table that maps the work. Do check I
>
> spelled your name correctly and affiliation is correct.
>
>
> The draft paper can be located at the following link:
>
> https://simtk.org/docman/view.php/962/4644/PopulationModelin
>
> gByExamples3_Upload_2017_04_16.docx
>
>
> I plan to submit the paper to SummerSim tomorrow April 17th for review.
>
> If anyone sees anything critical before then, let me know in the next day -
>
> otherwise there will be time to make changes as reviews come back.
>
>
> Again, thanks for all those who took the time to contribute.
>
>
>               Jacob
>
>
>
>
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