Hi Everyone<div><br></div><div>Is there a library out there to extract this kind of information out of cp2k output? Or does everyone have to roll their own regex?</div><div><br></div><div>Thanks</div><div>Sam<br><div><br></div></div><div class="gmail_quote"><div dir="auto" class="gmail_attr">On Thursday, June 16, 2022 at 7:14:54 AM UTC+2 Matthias Krack wrote:<br/></div><blockquote class="gmail_quote" style="margin: 0 0 0 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
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<p class="MsoNormal"><span lang="DE-CH">Hi Branislav<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="DE-CH"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">You are setting ANGVEL_TOL and COMVEL_TOL explicitly to zero and you &CENTER_COORDINATES in each MD step. All these options impact the energy conservation. Try to remove/comment all
these options for an unbiased NVT MD run.<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">Matthias<u></u><u></u></span></p></div></div><div lang="en-CH" link="blue" vlink="purple" style="word-wrap:break-word"><div>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
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<p class="MsoNormal" style="margin-left:36.0pt"><b><span style="font-size:12.0pt;color:black">From:
</span></b><span style="font-size:12.0pt;color:black">"<a href data-email-masked rel="nofollow">cp...@googlegroups.com</a>" <<a href data-email-masked rel="nofollow">cp...@googlegroups.com</a>> on behalf of Бранислав Миловановић <<a href data-email-masked rel="nofollow">dr.bra...@gmail.com</a>><br>
<b>Reply to: </b>"<a href data-email-masked rel="nofollow">cp...@googlegroups.com</a>" <<a href data-email-masked rel="nofollow">cp...@googlegroups.com</a>><br>
<b>Date: </b>Wednesday, 15 June 2022 at 20:19<br>
<b>To: </b>"<a href data-email-masked rel="nofollow">cp...@googlegroups.com</a>" <<a href data-email-masked rel="nofollow">cp...@googlegroups.com</a>><br>
<b>Subject: </b>[CP2K:17176] DFT(M062X)-MD energy conservation problem<u></u><u></u></span></p>
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<p class="MsoNormal" style="margin-left:36.0pt"><u></u> <u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">Dear cp2k users/developers,<u></u><u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt"><u></u> <u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">I want to perform NVT dynamics of the compound from the picture in the attachment.<u></u><u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt"><u></u> <u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">However, when I try to run M062X DFT-MD calculation under present setup (input files in the attachment) I get a constant shift of the Cons Qty during my run for NVT runs (graph from my last attempt is in the attachment
- last 2ps).<u></u><u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt"><u></u> <u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">I've tested the DFT (M062X) part of the input file with the different geometry optimization protocols to match Gaussian09 results. I found excelent aggrement between the geometries so I think that M062X setup
should not be a problem.<u></u><u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">Could CSVR thermostat be a problem? Or something else in the MD section?<u></u><u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt"><u></u> <u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">Also, I used this kind of input file earlier and encountered no problems.<u></u><u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">Now I'm using cp2k 9.1 version.<u></u><u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt"><u></u> <u></u></p>
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<p class="MsoNormal" style="margin-left:36.0pt">Can anybody help me with this?<br>
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Best,<br>
Branislav<u></u><u></u></p>
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