<div dir="ltr"><div dir="ltr">On Wed, Feb 13, 2019 at 11:53 AM Offermans Willem <<a href="mailto:willem.offermans@vito.be">willem.offermans@vito.be</a>> wrote:</div><div class="gmail_quote"><br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div style="overflow-wrap: break-word;"><div>If I try to start a calculation, based on the xml input file, I got following error</div></div></blockquote><div><br></div><div>
<div>It's a long story. A first xml input was implemented years ago but it never took off. The new xml input is more or less ready but the transition from "more or less ready" to "done" has still a sizable activation energy. You can start a calculation from the files <a href="http://pw_1.in">pw_1.in</a>, <a href="http://pw_2.in">pw_2.in</a>, etc., that the NEB code creates in the current execution directory. They contain input data for the starting points on the NEB chain. I did that and got no symmetry, by the way.<br></div></div><div> </div><div>Paolo<br></div><br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div style="overflow-wrap: break-word;"><div><div>
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<div>$ pw.x -in pd.xml </div>
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</div>
<div> Program PWSCF v.6.3 starts on 13Feb2019 at 11:49:38 </div>
<div><br>
</div>
<div> This program is part of the open-source Quantum ESPRESSO suite</div>
<div> for quantum simulation of materials; please cite</div>
<div> "P. Giannozzi et al., J. Phys.:Condens. Matter 21 395502 (2009);</div>
<div> "P. Giannozzi et al., J. Phys.:Condens. Matter 29 465901 (2017);</div>
<div> URL <a href="http://www.quantum-espresso.org" target="_blank">http://www.quantum-espresso.org</a>", </div>
<div> in publications or presentations arising from this work. More details at</div>
<div> <a href="http://www.quantum-espresso.org/quote" target="_blank">http://www.quantum-espresso.org/quote</a></div>
<div><br>
</div>
<div> Parallel version (MPI & OpenMP), running on 20 processor cores</div>
<div> Number of MPI processes: 1</div>
<div> Threads/MPI process: 20</div>
<div><br>
</div>
<div> MPI processes distributed on 1 nodes</div>
<div> Reading xml input from pd.xml</div>
<div><br>
</div>
<div> %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%</div>
<div> Error in routine read_input (1):</div>
<div> xml input disabled</div>
<div> %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%</div>
<div><br>
</div>
<div> stopping ...</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 1) - process 0</div>
<div>[unset]: write_line error; fd=-1 buf=:cmd=abort exitcode=1</div>
<div>:</div>
<div>system msg for write_line failure : Bad file descriptor</div>
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<div>So I cannot easily play with the settings.</div>
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<div>On 13 Feb 2019, at 11:24, Offermans Willem <<a href="mailto:willem.offermans@vito.be" target="_blank">willem.offermans@vito.be</a>> wrote:</div>
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Dear Stefano,
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<div>No, point symmetry doesn’t depend on units, i.e. squeezing or expanding the system equally in all directions doesn’t change symmetry. I agree!</div>
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<div>The presence of the inversion symmetry is not to save computational time, but to correct for possible dipole interactions.</div>
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<div>Anyway, the point is that neb.x is not able to detect and to use the symmetry of the involved images. This is weird, since the task of optimising/calculating the images</div>
<div>will be delegated to pw.x, I suppose. And I showed that pw.x detects and uses the symmetry. Maybe the keyword ``use_all_frac = .true.`` is not considered for a NEB calculation.</div>
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Met vriendelijke groeten,</div>
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Mit freundlichen Grüßen,</div>
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With kind regards,</div>
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Willem Offermans</div>
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<div>On 13 Feb 2019, at 10:04, Stefano Baroni <<a href="mailto:baroni@sissa.it" target="_blank">baroni@sissa.it</a>> wrote:</div>
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<div>On 13 Feb 2019, at 09:50, Offermans Willem <<a href="mailto:willem.offermans@vito.be" target="_blank">willem.offermans@vito.be</a>> wrote:</div>
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<div>Dear Quantum Espresso friends,</div>
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Dear Wilem:</div>
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<div>I made a mistake in my previous e-mail.</div>
<div>The atom coordinates are not in Angstrom but in Bohr.</div>
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<div>I have corrected this in my calculations, but still no symmetry found.</div>
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I would be surprised if you found the contrary. I cannot imagine that the point symmetry of any system could depend on units: do you?</div>
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<div>$ grep "ymmetr" pd_?/PW.out </div>
<div>pd_1/PW.out: No symmetry found</div>
<div>pd_2/PW.out: No symmetry found</div>
<div>pd_3/PW.out: No symmetry found</div>
<div>pd_4/PW.out: No symmetry found</div>
<div>pd_5/PW.out: No symmetry found</div>
<div>pd_6/PW.out: No symmetry found</div>
<div>pd_7/PW.out: No symmetry found</div>
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<div>So the question remains. What is the reason that the symmetry cannot be detected?</div>
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<div>As an extra check I have made a scf calculation on the last image.</div>
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<div>$ grep "Sym. Ops." pd.out </div>
<div> 2 Sym. Ops., with inversion, found ( 1 have fractional translation)</div>
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<div>So pw.x can find the symmetry whereas neb.x cannot!</div>
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Just guessing: maybe for some reasons neb restricts its search to pure rotations (no fractional translations involved). Also, I have the impression that inversion symmetry does not help save any computer time, because in practice it has the same effects as
time-reversal symmetry, which always holds.</div>
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Just my worthless 5 cents …</div>
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SB</div>
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<div style="margin:0px"><font class="gmail-m_2551177787507231359Apple-style-span"><span style="font-size:12px">Stefano Baroni - Trieste — </span><a href="http://stefano.baroni.me/" style="font-family:Helvetica;font-size:12px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-transform:none;white-space:normal;word-spacing:0px" target="_blank">http://stefano.baroni.me</a><span style="font-size:12px"> </span></font></div>
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<font size="-2" face="Arial, Helvetica, sans-serif" color="#999999">Indien u VITO Mol bezoekt, hou aub er dan rekening mee dat de hoofdingang voortaan enkel bereikbaar is vanuit de richting Dessel-Retie, niet vanuit richting Mol, zie
<a href="http://www.vito.be/route" target="_blank">vito.be/route.</a><br>
If you plan to visit VITO at Mol, then please note that the main entrance can only be reached coming from Dessel-Retie and no longer coming from Mol, see
<a href="http://www.vito.be/en/contact/locations" target="_blank">vito.be/en/contact/locations.</a><br>
</font><font size="-2" face="Arial, Helvetica, sans-serif" color="#999999">VITO Disclaimer:
<a href="http://www.vito.be/e-maildisclaimer" target="_blank"><font color="#999999">http://www.vito.be/e-maildisclaimer</font></a></font>
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_______________________________________________<br>
users mailing list<br>
<a href="mailto:users@lists.quantum-espresso.org" target="_blank">users@lists.quantum-espresso.org</a><br>
<a href="https://lists.quantum-espresso.org/mailman/listinfo/users" rel="noreferrer" target="_blank">https://lists.quantum-espresso.org/mailman/listinfo/users</a></blockquote></div><br clear="all"><br>-- <br><div dir="ltr" class="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div>Paolo Giannozzi, Dip. Scienze Matematiche Informatiche e Fisiche,<br>Univ. Udine, via delle Scienze 208, 33100 Udine, Italy<br>Phone +39-0432-558216, fax +39-0432-558222<br><br></div></div></div></div></div></div>