<div dir="ltr"><div>Greetings to all collaborative paper authors,</div><div><br></div><div>Following modifications after review, the revised version of the paper was submitted to SummerSim. </div><div><br></div><div>You can find the revised version in the following link: </div><div><a href="https://simtk.org/docman/view.php/962/4649/PopulationModelingByExamples3_Submit_2017_05_08.docx">https://simtk.org/docman/view.php/962/4649/PopulationModelingByExamples3_Submit_2017_05_08.docx</a></div><div><br></div><div>Below you will find the response to the reviewers. </div><div><br></div><div>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.</div><div><br></div><div>Hopefully you will all find it in good shape. </div><div><br></div><div><br></div><div> Jacob</div><div><br></div><div><br></div><div>#################################################################<br></div><div><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">Response to Review for SummerSim 2017 paper
#13 – Population Modeling by Examples III</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">The response is embedded within the review
text below.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">############################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">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</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">RESPONSE: </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">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.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"><br>
<br>
Second review:<br>
<br>
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.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">RESPONSE: </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">The reviewer is interested. This is
encouraging.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"><br>
<br>
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.<br>
<br>
</span><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">RESPONSE: </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">The paper was revised to include a
description sentence for each entry. This is a good idea.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">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.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">RESPONSE: </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">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.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">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.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">RESPONSE: </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">This is a good idea and the paper was
rewritten to reflect this.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"><br>
<br>
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.<br>
<br>
Jane Heffernan York University</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">RESPONSE: </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">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.</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"><br>
<br>
Third review:<br>
<br>
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.<br>
<br>
Robert Smith? The University of Ottawa</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(34,34,34);line-height:115%;font-family:"arial","sans-serif";font-size:9pt"> </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">RESPONSE: </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">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. </span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><span style="color:rgb(112,48,160);line-height:115%;font-family:"arial","sans-serif";font-size:9pt">####################</span></p><font color="#000000" face="Times New Roman" size="3">
</font><p style="margin:0in 0in 10pt"><font color="#000000" face="Calibri" size="3"> </font></p><font color="#000000" face="Times New Roman" size="3">
</font></div><div><span><br></span></div><div><br></div><div><br></div><div><br></div><div><br></div><div><br></div><div><br></div><div><br></div><div><br></div><div><br></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Fri, Apr 28, 2017 at 9:58 AM, Jacob Barhak <span dir="ltr"><<a href="mailto:jacob.barhak@gmail.com" target="_blank">jacob.barhak@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="auto">Greetings to all collaborative paper authors,<div dir="auto"><br></div><div dir="auto">The review for our paper came back and is available on: <br><div dir="auto"><br></div><div dir="auto"><a href="https://groups.google.com/forum/#!topic/public-scientific-reviews/7lr3pCUgZv4" target="_blank">https://groups.google.com/<wbr>forum/#!topic/public-<wbr>scientific-reviews/7lr3pCUgZv4</a><br></div><div dir="auto"><br></div><div dir="auto">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. </div><div dir="auto"><br></div><div dir="auto">Also, I am interested in the response of the first reviewer <span style="color:rgb(34,34,34);line-height:normal;font-family:arial,helvetica,sans-serif;font-size:18px;background-color:rgb(255,255,255)">Thomas Woolly</span>. 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? </div><div dir="auto"><br></div><div dir="auto">The reviewer has a good idea. Hopefully we can at least partially accommodate it. </div><span class="HOEnZb"><font color="#888888"><div dir="auto"><br></div><div dir="auto"> Jacob</div><div dir="auto"><br></div></font></span></div></div><div class="HOEnZb"><div class="h5"><div class="gmail_extra"><br><div class="gmail_quote">On Apr 18, 2017 12:27 AM, "Jacob Barhak" <<a href="mailto:jacob.barhak@gmail.com" target="_blank">jacob.barhak@gmail.com</a>> wrote:<br type="attribution"><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;padding-left:1ex;border-left-color:rgb(204,204,204);border-left-width:1px;border-left-style:solid"><div dir="ltr"><div>Greeting to all collaborative paper authors,</div><div><br></div><div>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:</div><div><a href="https://simtk.org/docman/view.php/962/4645/PopulationModelingByExamples3_Submit_2017_04_17.docx" target="_blank">https://simtk.org/docman/view.<wbr>php/962/4645/PopulationModelin<wbr>gByExamples3_Submit_2017_04_17<wbr>.docx</a></div><div><br></div><div>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.</div><div><br></div><div> Jacob<br></div><div><br></div><div><br></div><div><br></div><div><br></div><div><br></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Sun, Apr 16, 2017 at 6:33 AM, Jacob Barhak <span dir="ltr"><<a href="mailto:jacob.barhak@gmail.com" target="_blank">jacob.barhak@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;padding-left:1ex;border-left-color:rgb(204,204,204);border-left-width:1px;border-left-style:solid"><div dir="ltr"><div>Greetings population modelers,</div><div><br></div><div>With many of you submitting introductions about their work, it was possible to assemble a third review paper that originated from this group.</div><div><br></div><div>The paper was edited from introductions by the following contributors. <br></div><div><br></div><div>Bishal Paudel <br>Carl Asche<br>Vivek Balaraman <br>Michael Thomas<br>Nathan Geffen<br>Pawel Topa<br>Katherine Ogurtsova<br>Jeff Shrager<br>Christopher Fonnesbeck<br>Resit Akcakaya<br>Matthias Templ <br>Amit Huppert<br>Marco Ajelli<br>Dan Yamin<br>Leandro Watanabe<br>Ram Pendyala </div><div><br></div><div>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. </div><div><br></div><div>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.</div><div><br></div><div>The draft paper can be located at the following link: </div><div><a href="https://simtk.org/docman/view.php/962/4644/PopulationModelingByExamples3_Upload_2017_04_16.docx" target="_blank">https://simtk.org/docman/view.<wbr>php/962/4644/PopulationModelin<wbr>gByExamples3_Upload_2017_04_16<wbr>.docx</a></div><div><br></div><div>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.</div><div><br></div><div>Again, thanks for all those who took the time to contribute.</div><span class="m_-4110830359521800004m_2845051603681834093HOEnZb"><font color="#888888"><div><br></div><div> Jacob</div><div><br></div></font></span></div>
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