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<p class="MsoNormal">I’m not sure I’m 100% the right person, but I could be involved at some level. Keep me posted.
<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Best,<o:p></o:p></p>
<p class="MsoNormal">~~~~~~~~~~~~~~~~<o:p></o:p></p>
<p class="MsoNormal">Michael Shirts<o:p></o:p></p>
<p class="MsoNormal">Associate Professor<o:p></o:p></p>
<p class="MsoNormal">michael.shirts@colorado.edu<o:p></o:p></p>
<p class="MsoNormal"><a href="http://www.colorado.edu/lab/shirtsgroup/"><span style="color:#0563C1">http://www.colorado.edu/lab/shirtsgroup/</span></a><o:p></o:p></p>
<p class="MsoNormal">Phone: (303) 735-7860<o:p></o:p></p>
<p class="MsoNormal">Office: JSCBB C123<o:p></o:p></p>
<p class="MsoNormal">Department of Chemical and Biological Engineering<o:p></o:p></p>
<p class="MsoNormal">University of Colorado Boulder<o:p></o:p></p>
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<p class="MsoNormal"><b><span style="font-size:12.0pt;color:black">From: </span></b><span style="font-size:12.0pt;color:black"><gromacs.org_gmx-developers-bounces@maillist.sys.kth.se> on behalf of Oliver Beckstein <obeckste@asu.edu><br>
<b>Reply-To: </b>"gmx-developers@gromacs.org" <gmx-developers@gromacs.org><br>
<b>Date: </b>Wednesday, March 18, 2020 at 12:20 PM<br>
<b>To: </b>GROMACS Developer List <gromacs.org_gmx-developers@maillist.sys.kth.se><br>
<b>Cc: </b>Max Linke <max.linke88@gmail.com>, Richard Gowers <richardjgowers@gmail.com><br>
<b>Subject: </b>[gmx-developers] looking for co-mentor for GSoC 2020: TNG format<o:p></o:p></span></p>
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<p class="MsoNormal">Hello Gromacs Developers, <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">As part of <a href="https://secure-web.cisco.com/1k3k6ClP2T8HoZmsCuxa4t_WSUMfGp-LzKHUuqt0Wkb6SxdKWPo-pbmOBh40x2w80eUbrX16NqCo6AYekG7o1sFNJamogMRZS8W2Gd-R11OM1YRK5uhwhSERo5xcBI1bchkU15xw5sEKmlCYsEqZpSb2lUrrzNrKe8Vk2AofjmlU-w_QUMH1iJiVzN_7nUDz6WHfPFi_lvqqL-cW-P38ZDihGe2egL-V0fU0A9vpmNkmgTyrE5gwcEoDX3_OBodBNMGbHSkjzQ1pL2gh7u9jW3KaIGCnKewKRQh-0lUOVZBWG5xEXIgPoN42Rw0ILCk7K8DwzPly3zHqycWhGHG33yc-GCrC2gs-YpqJoFvM-XTgSN0thduzTwF0m-XKoq-chTl_QdrxY4DD87IR6KENoIWNPyNvDBVj4bwdN7NPANnNd1eZfILokdkFa-Y4QTAlSKYmlM4ISE1GLJO6K-HJXjg/https%3A%2F%2Fwww.mdanalysis.org%2F2020%2F02%2F22%2Fgsoc2020%2F%23google-summer-of-code-2020">Google
Summer of Code 2020 with MDAnalysis</a> we proposed a project to work on the TNG format. Originally the plan was to just make sure that MDAnalysis can work with TNG but after a chat with Erik at BPS (and in the spirit of the last MolSSI interoperability workshop)
we thought that it would be more useful to take a step back and possibly work towards <a href="https://github.com/MDAnalysis/mdanalysis/wiki/Project-Ideas-2020#project-6-implement-tng-support">finalizing the TNG format</a> with the goal to make it usable in
any MD analysis code (including MDAnalysis). The preliminary objectives would be:<o:p></o:p></p>
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Fully define the API and capabilities of TNG.<o:p></o:p></li><li class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto;mso-list:l0 level1 lfo1">
Write documentation.<o:p></o:p></li><li class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto;mso-list:l0 level1 lfo1">
Write a reference library implementation (C or C++).<o:p></o:p></li><li class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto;mso-list:l0 level1 lfo1">
Write tests.<o:p></o:p></li><li class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto;mso-list:l0 level1 lfo1">
Bonus: Write Python bindings (see start in our <a href="https://github.com/MDAnalysis/pytng">
pytng</a> library) and integrate with MDAnalysis<o:p></o:p></li></ol>
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<p class="MsoNormal">This project outline is not set in stone and we would be more than happy to adapt it according to your expert input.<o:p></o:p></p>
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<p class="MsoNormal">We have at least one promising candidate student who is interested in working on this project during 10 weeks this summer. <o:p></o:p></p>
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<p class="MsoNormal">We would need at least one knowledgable co-mentor from the GROMACS developer community who could commit to mentoring. See <a href="https://google.github.io/gsocguides/mentor/">https://google.github.io/gsocguides/mentor/</a> what is expected
of mentors. In short, you would be involved in selecting students, communicating with the student (primarily using mailing lists and issue trackers) on a near-daily basis, help with keeping the project on track, and evaluating the student for GSoC (midterm
and final evaluation at pass/fail level). About 5h/week is a realistic minimum.<o:p></o:p></p>
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<p class="MsoNormal">We completely understand that in the current global crisis, you might have more urgent things to do. But if you think that you could be a co-mentor for this project, please let us know soon because students have to write their applications;
their deadline is March 31 but they can submit applications now and unless we have a GROMACS co-mentor we will not be offering the TNG project so students. <o:p></o:p></p>
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<p class="MsoNormal">Thank you!<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Oliver (for the MDAnalysis GSoC 2020 Mentors)<o:p></o:p></p>
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<p class="MsoNormal"><br>
--<br>
Oliver Beckstein, DPhil * <a href="mailto:oliver.beckstein@asu.edu">oliver.beckstein@asu.edu</a><br>
<a href="https://becksteinlab.physics.asu.edu/">https://becksteinlab.physics.asu.edu/</a><br>
<br>
Associate Professor of Physics<br>
Arizona State University<br>
Center for Biological Physics and Department of Physics<br>
Tempe, AZ 85287-1504<br>
USA<br>
<br>
Office: PSF 348<br>
Phone: +1 (480) 727-9765<br>
FAX: +1 (480) 965-4669<br>
<br>
Department of Physics: https://physics.asu.edu/content/oliver-beckstein<br>
Center for Biological Physics: https://cbp.asu.edu/content/oliver-beckstein<o:p></o:p></p>
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