[Vp-reproduce-subgroup] Recap from joint meeting regarding the white paper

[Jacob Barhak]

Greetings to the subgroups, and especially to the white paper contributors,


The first draft of the integrated white paper of the model reproducibility,
credibility and standardization subgroup and the integration subgroup is
available here:

https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit?usp=sharing


Your contributions were edited as best I could. You will find a summary of
the difficulties and solutions in Table1. However, I suggest that all
contributors read through the entire paper and answer the following.


1. Do you feel comfortable being listed as a contributor to the composed
version? I will need an OK from every contributor to release the paper for
publication. And please let me know if I forgot someone by mistake. I did
my best to go through all versions and correspondence, yet I may have
missed someone. Also, it will help if you send me your current affiliations
when you approve.


2. Is there anything wrong in the text - please do not add anything else -
we had plenty of time for additions - what I am asking is review of
accuracy - and this includes typing errors. Please no more suggestions
related to style or rephrasing - only accuracy.


3. If you have a conflict of interest, please report it so I can add it to
the paper. If you are unsure, please download the form from this link
http://icmje.org/downloads/coi_disclosure.zip and then fill in the
questions and press the generate button - it will create the COI disclosure
text for you.


Since there are many contributors, I will ask everyone to be as tolerant as
possible and limit your correspondence to answering those questions. If you
look at the edit history, and the length of the paper, you will understand
it is not trivial to make more changes, so limit your answers to what is
absolutely necessary.


If we cannot reach consensus, the paper will be reopened, yet since I tried
not to delete any contributions and just merge and blend paragraphs, I hope
you will find it in order.


      Jacob






On Sat, Feb 20, 2021 at 3:59 AM Jacob Barhak <jacob.barhak at gmail.com> wrote:

> Greetings subgroups,
>
> As promised the merging of both papers have started.
>
> Here are some technicalities:
>
> The title of the jint white paper will be:
> Model Integration in Computational Biology: the Role of Reproducibility,
> Credibility and Utility
>
> The author of the paper will be:
> Multiscale Modeling and Viral Pandemics Working Group
>
> I looked through all the edit list on the paper and found the following
> contributors:
> Jonathan Karr
> Rahuman Sheriff
> James Osborne
> Gilberto Gonzalez Parra
> Eric Forgoston
> Ruth Bowness
> Yaling Liu
> Robin Thompson
> Winston Garira
> Anonymous contributor January 25, 2:13 PM
> Jacob Barhak
> John Rice
>
> The Anonymous contributor on January 25, 2:13 PM added the words: ". There
> are also challenges in gaining testable insight. Are they truly necessary?
> ". . However, unless the contributor identifies themselves, I cannot add
> their name and may remove this sentence since it seems misplaced and not
> attributed to any person.
>
> If I missed any contributor, please let me know so I can add the person to
> the list of contributors. I just looked at the changes history on the
> document and pulled names - if anyone added text using an account by
> someone else, let me know.
>
> Also, I will wait for a couple of more days for any last minute
> contributions. I will ask for anyone who wanted to contribute and did
> not have a chance to edit the papers directly over the weekend. I will do
> my best to integrate changes done over the weekend, yet I cannot guarantee
> adding any more changes - we had enough time to make those edits and  we
> need to wrap things up at some point.
>
> I will send the link to the combined draft paper once it is in good shape
> for approval.
>
> I will try my best to harmonize all contributions and maintain flow. Yet
> there are a lot of discussions and open end issues left, so I am not sure
> how practical it is.
>
> If anyone wants to help editing, let me know.
>
> Hopefully you will find the final product in good shape.
>
>               Jacob
>
>
>
>
>
>
>
>
> On Fri, Feb 12, 2021 at 10:26 AM Jacob Barhak <jacob.barhak at gmail.com>
> wrote:
>
>> Greetings to the model reproducibility, credibility and standardization
>> and integration subgroups
>>
>> In the joint meeting of the groups we discussed the papers and ideas
>> behind the merge as well as their own contributions to the working group
>> and paper.
>>
>> It was decided unanimously to merge the two white papers together.
>>
>> The white paper drafts are in good form currently and include a lot of
>> information. You can find them in these links:
>>
>>
>> https://docs.google.com/document/d/1voUSrSpv3AZlC1T-BLa3W4wzHQ5vEdJCVrBbwMUTDiQ/edit?usp=sharing
>>
>>
>> https://docs.google.com/document/d/1cqwXAjBWEiJZ1tUBnf66QVHdHd2fKq_W0py7t4PNVLo/edit?usp=sharing
>>
>> The group did not reach a conclusion on the title of the joint paper.
>> Suggestions for the title are welcome.
>>
>> Beyond what was discussed in the meeting I would like to add the
>> following:
>>
>> Since the deadline for the white paper is Feb 26th - it is suggested that
>> all contributors who want to join the author list of the white paper will
>> make edits until Feb 19th in the respective papers. This will allow time to
>> merge the papers together and send it to both lists.
>>
>> Unless someone else volunteers to help merge, I will personally start the
>> merge on Feb 20th, so contributions to the text after that date may not be
>> merged. Individuals who wish to be in the author list should contribute
>> text before that date and preferably write their name near the contributed
>> text.
>>
>> I personally look forward to more feedback and contributions.
>>
>>              Jacob
>>
>>
>>
>>
>>
>>
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