From owner-chemistry@ccl.net Wed Apr 6 06:42:00 2011 From: "Eugene V Horbatenko yevhen.horbatenko\a/udg.edu" To: CCL Subject: CCL: IRC for flat PES to Pierre Archirel Message-Id: <-44300-110406064119-24430-oVhRLIXxehi691cisnc4vw**server.ccl.net> X-Original-From: "Eugene V Horbatenko" Date: Wed, 6 Apr 2011 06:41:16 -0400 Sent to CCL by: "Eugene V Horbatenko" [yevhen.horbatenko-,-udg.edu] Good afternoon, In the case of asymmetric TS the values are Low frequencies --- -54.8205 -14.9971 -14.4941 -0.0016 -0.0016 -0.0015 Low frequencies --- 9.1209 17.1169 53.8438 Thus, the "TS" frequency is 3.6 times higher than "zero" frequency. In the case of symmetric TS1 these values are Low frequencies --- -49.9950 -14.9312 -5.6788 0.0005 0.0008 0.0010 Low frequencies --- 19.4508 41.1828 44.9497 "TS"/"zero"=3.3 In the case of symmetric TS2 Low frequencies --- -66.8149 -19.2198 -10.6655 -0.0006 -0.0002 0.0007 Low frequencies --- 5.9974 19.4540 42.0901 "TS"/"zero"=3.5 So, the ratio is very small in each case. Eugene Horbatenko From owner-chemistry@ccl.net Wed Apr 6 12:15:00 2011 From: "may abdelghani may01dz..yahoo.fr" To: CCL Subject: CCL: enrgy decomposition analysis EDA Message-Id: <-44301-110406115929-4263-Ptl2tobLuBvaufR1Y79Dhw*server.ccl.net> X-Original-From: may abdelghani Content-Type: multipart/alternative; boundary="0-690158038-1302105555=:93531" Date: Wed, 6 Apr 2011 16:59:15 +0100 (BST) MIME-Version: 1.0 Sent to CCL by: may abdelghani [may01dz###yahoo.fr] --0-690158038-1302105555=:93531 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: quoted-printable dear CCLers, =0A=0AIs the value of the A1, in the EDA results below, have a=0Aphysical m= eaning, and =0A=0AIs there something wrong in my results: Orbital Interactions(Kcal/mol) =A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0= =A0=A0=A0=A0=A0=A0=A0=A0=20 =A0 A1:=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0= =A0=A0=A0=A0=A0=A0=A0=A0=A0 54.93=A0=20 =A0 A2:=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0= =A0=A0=A0=A0=A0=A0=A0=A0=A0 -1.81=A0=20 =A0 B1:=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0= =A0=A0=A0=A0=A0=A0=A0 -190.80=A0=20 =A0 B2:=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0= =A0=A0=A0=A0=A0=A0=A0=A0=A0 -7.63=A0=20 =A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0= =A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0=A0 ---------=A0=20 Total Orbital Interactions:=A0=A0=A0=A0=A0 -145.32=A0=20 may abdelghani=09Laboratoire de chimie des mat=E9riaux et des vivants: Acti= vit=E9, R=E9activit=E9 --0-690158038-1302105555=:93531 Content-Type: text/html; charset=iso-8859-1 Content-Transfer-Encoding: quoted-printable
dear CCLers,
=0A=0A

Is the value of the =0A =0A =0A =0A =0A =0A =0A =0A =0A = =0A =0A =0A=0A=0A

Is th= ere something wrong= in my results:


= Orbital Interactions(Kcal/mol)             &n= bsp;         
  A1:
     =             &nb= sp;            =   54.93 
 = ; A2:           &nbs= p;            &= nbsp;       -1.81 
  B1: &= nbsp;           &nbs= p;            &= nbsp;   -190.80 
  B2:            = ;            &n= bsp;       -7.63 
   =             &nb= sp;            =           --------- 
=

Total Orbital Interactions:&n= bsp;     -145.32 


<= span class=3D"Apple-style-span" style=3D"font-style: italic; font-weight: b= old;">
may abdelgha= ni=09<= /span>
Laboratoire de chimie des = mat=E9riaux et des vivants: Activit=E9, R=E9activit=E9=


--0-690158038-1302105555=:93531-- From owner-chemistry@ccl.net Wed Apr 6 13:56:00 2011 From: "Serdar Badoglu sbadoglu,,gazi.edu.tr" To: CCL Subject: CCL: TED and PED ? Message-Id: <-44302-110406093051-25669-I0wan5JuQk9EydnR84yNPA]^[server.ccl.net> X-Original-From: "Serdar Badoglu" Date: Wed, 6 Apr 2011 09:30:48 -0400 Sent to CCL by: "Serdar Badoglu" [sbadoglu%gazi.edu.tr] Hi CCL'ers, I will present some info before a small group. I realised that some of my explanations require a certain background, and unfortunately the people in the group don't have enough background on quantum chemical calculations. So, I need a brief explanation of TED and PED. Without dull mathematical formalism, easily understandable, and meaningful. In the name of catching the main point of the discussion. Any explanations, suggestions, or references will be quite helpful. Thanks. From owner-chemistry@ccl.net Wed Apr 6 14:54:00 2011 From: "David Karhanek david.karhanek~~gmail.com" To: CCL Subject: CCL:G: [Summary] IR intensities from VASP Message-Id: <-44303-110406144451-1869-9xuoW7MS957hPHFSG31TOg,+,server.ccl.net> X-Original-From: David Karhanek Content-Type: multipart/alternative; boundary="------------020603060800050600020206" Date: Wed, 06 Apr 2011 20:44:30 +0200 MIME-Version: 1.0 Sent to CCL by: David Karhanek [david.karhanek===gmail.com] This is a multi-part message in MIME format. --------------020603060800050600020206 Content-Type: text/plain; charset=ISO-8859-15 Content-Transfer-Encoding: 7bit Dear CCL-ers! As there are more people interested on the most recent approach of calculating IR intensities in VASP code, I have decided to put a tutorial on my webpage: http://homepage.univie.ac.at/david.karhanek/downloads.html Ralf has inspired me to share in here and I hope it will be useful. The vibrational intensities using linear response are available in simply one VASP 5.* calculation and subsequent evaluation of the OUTCAR with my BASH script. Feel free to copy-paste and use it. Regards, - David - __ *Dr. David Karhanek* *Post-Doctoral Researcher -- Group Dra. Lopez Institute of Chemical Research of Catalonia (ICIQ)* Av. Paisos Catalans 16 -- 43007 Tarragona (Spain) Phone +34 977920229 -- Fax +34 977920231 dkarhanek**iciq.es - www.iciq.es ------------------------------------------------------------------------ On 05/04/11 16:09, Ralf Tonner tonner++chemie.uni-marburg.de wrote: > > Sent to CCL by: Ralf Tonner [tonner ~~ chemie.uni-marburg.de] > Dear CClers, > > after several very helpful answers to my above-mentioned post and > initial investigations, I want to summarize the results. > > In VASP, the intensities of IR-active vibrational frequencies are not > calculated directly. > CASTEP can do this - Raman activities can be calculated as well > (thanks to Phil Hasnip). > > If calculations with VASP are undertaken, two approaches can be > followed to obtain the respective IR-intensitites: > a) change of dipole moment w.r.t. normal modes > ("old" approach, also used in most molecular QC programs, e.g. > Gaussian. See e.g. Preuss, Bechstedt Phys. Rev. B 73 2006, 155413 for > an application to VASP) > b) density functional pertubation theory (a.k.a. linear response theory). > > For a), a finite difference calculation has to be carried out with > displacement of all atoms in all directions (might be reduced by > symmetry considerations). The dipole moment has to be calculated for > all displacements. > Afterwards, the dipole moment change w.r.t the normal modes has to be > calculated which is proportional to the IR intensity of the respective > mode. Several programs are available for this task (thanks to Alfred > Gil Arranz and Kacper Druzbicki). > This method is restricted to isolated molecules and slabs in VASP. > > For b), a linear response calculation has to be carried out and the > born effective charges have to be determined for all atoms. > Afterwards, the method published by Gianozzi&Baroni (see JCP, 100, > 1994, 8537 and Rev. Mod. Phys. 73, 2001, 515) can be applied to derive > IR intensities. > Many thanks to David Karhanek (ICIQ, Spain) for introducing me to this > method and providing a script implementing this scheme. > > This latter approach is also followed e.g. by CASTEP and seems to be > more reliable and more general. > > Kind regards, > Ralf. > --------------020603060800050600020206 Content-Type: text/html; charset=ISO-8859-15 Content-Transfer-Encoding: 7bit Dear CCL-ers!

As there are more people interested on the most recent approach of calculating IR intensities in VASP code, I have decided to put a tutorial on my webpage:
http://homepage.univie.ac.at/david.karhanek/downloads.html
Ralf has inspired me to share in here and I hope it will be useful.

The vibrational intensities using linear response are available in simply one VASP 5.* calculation and subsequent evaluation of the OUTCAR with my BASH script. Feel free to copy-paste and use it.

Regards,
- David -
__
Dr. David Karhanek
Post-Doctoral Researcher – Group Dra. Lopez
Institute of Chemical Research of Catalonia (ICIQ)

Av. Paisos Catalans 16 – 43007 Tarragona (Spain)
Phone +34 977920229 – Fax +34 977920231
dkarhanek**iciq.es - www.iciq.es



On 05/04/11 16:09, Ralf Tonner tonner++chemie.uni-marburg.de wrote:

Sent to CCL by: Ralf Tonner [tonner ~~ chemie.uni-marburg.de]
Dear CClers,

after several very helpful answers to my above-mentioned post and initial investigations, I want to summarize the results.

In VASP, the intensities of IR-active vibrational frequencies are not calculated directly.
CASTEP can do this - Raman activities can be calculated as well (thanks to Phil Hasnip).

If calculations with VASP are undertaken, two approaches can be followed to obtain the respective IR-intensitites:
a) change of dipole moment w.r.t. normal modes
("old" approach, also used in most molecular QC programs, e.g. Gaussian. See e.g. Preuss, Bechstedt Phys. Rev. B 73 2006, 155413 for an application to VASP)
b) density functional pertubation theory (a.k.a. linear response theory).

For a), a finite difference calculation has to be carried out with displacement of all atoms in all directions (might be reduced by symmetry considerations). The dipole moment has to be calculated for all displacements.
Afterwards, the dipole moment change w.r.t the normal modes has to be calculated which is proportional to the IR intensity of the respective mode. Several programs are available for this task (thanks to Alfred Gil Arranz and Kacper Druzbicki).
This method is restricted to isolated molecules and slabs in VASP.

For b), a linear response calculation has to be carried out and the born effective charges have to be determined for all atoms. Afterwards, the method published by Gianozzi&Baroni (see JCP, 100, 1994, 8537 and Rev. Mod. Phys. 73, 2001, 515) can be applied to derive IR intensities.
Many thanks to David Karhanek (ICIQ, Spain) for introducing me to this method and providing a script implementing this scheme.

This latter approach is also followed e.g. by CASTEP and seems to be more reliable and more general.

Kind regards,
Ralf.

--------------020603060800050600020206-- From owner-chemistry@ccl.net Wed Apr 6 16:20:00 2011 From: "Xiaofeng Frank Duan duanx:_:asc.hpc.mil" To: CCL Subject: CCL: smearing with NWChem Message-Id: <-44304-110406161220-20463-vekjfxZTWTsNR9fAMSQvwg_+_server.ccl.net> X-Original-From: "Xiaofeng Frank Duan" Date: Wed, 6 Apr 2011 16:12:17 -0400 Sent to CCL by: "Xiaofeng Frank Duan" [duanx^asc.hpc.mil] Hello, I optimized some transitional metal compounds with DFT in NWChem. For some compounds, I had to use "smear" to get SCF converged even though I decreased "smear" values gradually to the minimum. Since 'smear' adds an additional energy term, the total energy is higher than that of the "zero smear" for the same structure. My question is: How to correct or scale the "smeared" total energy to the "zero smeared" one so that I can compare energies among different compounds. Thanks, Frank From owner-chemistry@ccl.net Wed Apr 6 19:15:00 2011 From: "Van Dam, Hubertus J HubertusJJ.vanDam^pnl.gov" To: CCL Subject: CCL: smearing with NWChem Message-Id: <-44305-110406190746-25140-Y2TZGRDc95QrEoMPRGrWgA=server.ccl.net> X-Original-From: "Van Dam, Hubertus J" Content-Language: en-US Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="us-ascii" Date: Wed, 6 Apr 2011 16:07:36 -0700 MIME-Version: 1.0 Sent to CCL by: "Van Dam, Hubertus J" [HubertusJJ.vanDam^^^pnl.gov] Hi Frank, This is an interesting question. There are a few specific points here: 1. The energy that is associated with the smearing is normally supposed to be negative, so the total energies with smearing should be lower than the ones without smearing. 2. The smearing functionality may change the spin state of your system. As you are working on transition metal complexes I am guessing you might have open shell systems. I can provide some special directives to control this if needed. 3. The code will actually print the energy that it adds on as a result of the smearing. Search for "eFermi=" in the output. (see also 4.) 4. However, if you subtract the energy from 3. you will not get the energy you are looking for. The problem is that the DFT energy for a system with fractionally occupied orbitals is higher than the energy of the same system with integer occupations. So the eFermi term that is added on corrects for that difference and adds a bit more on top of that. 5. Concluding it seems to me that your best bet is to run all calculations with the same smearing parameter for the final energies and compare the resulting energies. I am sorry if this is not the answer you were looking for. If you want any more specific information please feel free to contact me. Best wishes, Huub ________________________________________ > From: owner-chemistry+hubertus.vandam==pnl.gov]_[ccl.net [owner-chemistry+hubertus.vandam==pnl.gov]_[ccl.net] On Behalf Of Xiaofeng Frank Duan duanx:_:asc.hpc.mil [owner-chemistry]_[ccl.net] Sent: Wednesday, April 06, 2011 1:12 PM To: Van Dam, Hubertus J Subject: CCL: smearing with NWChem Sent to CCL by: "Xiaofeng Frank Duan" [duanx^asc.hpc.mil] Hello, I optimized some transitional metal compounds with DFT in NWChem. For some compounds, I had to use "smear" to get SCF converged even though I decreased "smear" values gradually to the minimum. Since 'smear' adds an additional energy term, the total energy is higher than that of the "zero smear" for the same structure. My question is: How to correct or scale the "smeared" total energy to the "zero smeared" one so that I can compare energies among different compounds. Thanks, Frankhttp://www.ccl.net/cgi-bin/ccl/send_ccl_messagehttp://www.ccl.net/chemistry/sub_unsub.shtmlhttp://www.ccl.net/spammers.txt From owner-chemistry@ccl.net Wed Apr 6 19:50:01 2011 From: "Van Dam, Hubertus J HubertusJJ.vanDam.=-=.pnl.gov" To: CCL Subject: CCL: FW: smearing with NWChem Message-Id: <-44306-110406193227-32366-jHTzCSFHZ8ys4bEkCZBC+g=-=server.ccl.net> X-Original-From: "Van Dam, Hubertus J" Content-Language: en-US Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="us-ascii" Date: Wed, 6 Apr 2011 16:32:18 -0700 MIME-Version: 1.0 Sent to CCL by: "Van Dam, Hubertus J" [HubertusJJ.vanDam[-]pnl.gov] Hi Frank, In addition to my earlier post I am forwarding some additional comments from Niri Govind. Please have a look below. Best wishes, Huub -----Original Message----- > From: Govind, Niri Sent: Wednesday, April 06, 2011 4:25 PM To: Van Dam, Hubertus J; CCL Subscribers Cc: nwchem-users*_*emsl.pnl.gov Subject: RE: smearing with NWChem Hi Frank, Try the following if you want to preserve the multiplicity with smear. dft mult 3 ... ... end set dft:spinset t task dft Best regards, -Niri -----Original Message----- > From: owner-nwchem-users*_*emsl.pnl.gov [mailto:owner-nwchem-users*_*emsl.pnl.gov] On Behalf Of Van Dam, Hubertus J Sent: Wednesday, April 06, 2011 4:08 PM To: CCL Subscribers Cc: nwchem-users*_*emsl.pnl.gov Subject: [NWCHEM] RE: smearing with NWChem Hi Frank, This is an interesting question. There are a few specific points here: 1. The energy that is associated with the smearing is normally supposed to be negative, so the total energies with smearing should be lower than the ones without smearing. 2. The smearing functionality may change the spin state of your system. As you are working on transition metal complexes I am guessing you might have open shell systems. I can provide some special directives to control this if needed. 3. The code will actually print the energy that it adds on as a result of the smearing. Search for "eFermi=" in the output. (see also 4.) 4. However, if you subtract the energy from 3. you will not get the energy you are looking for. The problem is that the DFT energy for a system with fractionally occupied orbitals is higher than the energy of the same system with integer occupations. So the eFermi term that is added on corrects for that difference and adds a bit more on top of that. 5. Concluding it seems to me that your best bet is to run all calculations with the same smearing parameter for the final energies and compare the resulting energies. I am sorry if this is not the answer you were looking for. If you want any more specific information please feel free to contact me. Best wishes, Huub ________________________________________ > From: owner-chemistry+hubertus.vandam==pnl.gov*_*ccl.net [owner-chemistry+hubertus.vandam==pnl.gov*_*ccl.net] On Behalf Of Xiaofeng Frank Duan duanx:_:asc.hpc.mil [owner-chemistry*_*ccl.net] Sent: Wednesday, April 06, 2011 1:12 PM To: Van Dam, Hubertus J Subject: CCL: smearing with NWChem Sent to CCL by: "Xiaofeng Frank Duan" [duanx^asc.hpc.mil] Hello, I optimized some transitional metal compounds with DFT in NWChem. For some compounds, I had to use "smear" to get SCF converged even though I decreased "smear" values gradually to the minimum. Since 'smear' adds an additional energy term, the total energy is higher than that of the "zero smear" for the same structure. My question is: How to correct or scale the "smeared" total energy to the "zero smeared" one so that I can compare energies among different compounds. Thanks, Frankhttp://www.ccl.net/cgi-bin/ccl/send_ccl_messagehttp://www.ccl.net/chemistry/sub_unsub.shtmlhttp://www.ccl.net/spammers.txt From owner-chemistry@ccl.net Wed Apr 6 22:51:00 2011 From: "Govind, Niri niri.govind|*|pnl.gov" To: CCL Subject: CCL: smearing with NWChem Message-Id: <-44307-110406192510-29685-OCs5QiEpSqvg3bm00q65Jg^^server.ccl.net> X-Original-From: "Govind, Niri" Content-Language: en-US Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="us-ascii" Date: Wed, 6 Apr 2011 16:25:00 -0700 MIME-Version: 1.0 Sent to CCL by: "Govind, Niri" [niri.govind]^[pnl.gov] Hi Frank, Try the following if you want to preserve the multiplicity with smear. dft mult 3 ... ... end set dft:spinset t task dft Best regards, -Niri -----Original Message----- > From: owner-nwchem-users,,emsl.pnl.gov [mailto:owner-nwchem-users,,emsl.pnl.gov] On Behalf Of Van Dam, Hubertus J Sent: Wednesday, April 06, 2011 4:08 PM To: CCL Subscribers Cc: nwchem-users,,emsl.pnl.gov Subject: [NWCHEM] RE: smearing with NWChem Hi Frank, This is an interesting question. There are a few specific points here: 1. The energy that is associated with the smearing is normally supposed to be negative, so the total energies with smearing should be lower than the ones without smearing. 2. The smearing functionality may change the spin state of your system. As you are working on transition metal complexes I am guessing you might have open shell systems. I can provide some special directives to control this if needed. 3. The code will actually print the energy that it adds on as a result of the smearing. Search for "eFermi=" in the output. (see also 4.) 4. However, if you subtract the energy from 3. you will not get the energy you are looking for. The problem is that the DFT energy for a system with fractionally occupied orbitals is higher than the energy of the same system with integer occupations. So the eFermi term that is added on corrects for that difference and adds a bit more on top of that. 5. Concluding it seems to me that your best bet is to run all calculations with the same smearing parameter for the final energies and compare the resulting energies. I am sorry if this is not the answer you were looking for. If you want any more specific information please feel free to contact me. Best wishes, Huub ________________________________________ > From: owner-chemistry+hubertus.vandam==pnl.gov,,ccl.net [owner-chemistry+hubertus.vandam==pnl.gov,,ccl.net] On Behalf Of Xiaofeng Frank Duan duanx:_:asc.hpc.mil [owner-chemistry,,ccl.net] Sent: Wednesday, April 06, 2011 1:12 PM To: Van Dam, Hubertus J Subject: CCL: smearing with NWChem Sent to CCL by: "Xiaofeng Frank Duan" [duanx^asc.hpc.mil] Hello, I optimized some transitional metal compounds with DFT in NWChem. For some compounds, I had to use "smear" to get SCF converged even though I decreased "smear" values gradually to the minimum. Since 'smear' adds an additional energy term, the total energy is higher than that of the "zero smear" for the same structure. My question is: How to correct or scale the "smeared" total energy to the "zero smeared" one so that I can compare energies among different compounds. Thanks, Frankhttp://www.ccl.net/cgi-bin/ccl/send_ccl_messagehttp://www.ccl.net/chemistry/sub_unsub.shtmlhttp://www.ccl.net/spammers.txt From owner-chemistry@ccl.net Wed Apr 6 23:26:00 2011 From: "Van Dam, Hubertus J HubertusJJ.vanDam^^pnl.gov" To: CCL Subject: CCL: [NWCHEM] RE: smearing with NWChem Message-Id: <-44308-110406204549-20063-Su6PSnpgL+44fomx1Q5LfQ*o*server.ccl.net> X-Original-From: "Van Dam, Hubertus J" Content-Language: en-US Content-Type: multipart/alternative; boundary="_000_FDD09CBD8676AE40957DCDAD24E9627A01890D4AA131EMAIL04pnlg_" Date: Wed, 6 Apr 2011 17:45:40 -0700 MIME-Version: 1.0 Sent to CCL by: "Van Dam, Hubertus J" [HubertusJJ.vanDam(0)pnl.gov] --_000_FDD09CBD8676AE40957DCDAD24E9627A01890D4AA131EMAIL04pnlg_ Content-Type: text/plain; charset="us-ascii" Content-Transfer-Encoding: quoted-printable Hi Adam, I agree that your observations are not what you would expect to get. I have= noticed looking at the code that the presence of fractional occupations in= terferes with a number of things (the fractional occupations may be negligi= bly small). The things it interacts with include: Level shifters and DIIS. = So there is potential that this may mess up the optimization of solution yo= u are after. If you still happen to have examples of calculations that demo= nstrate these issues I am happy to have a look and see if I can figure out = what is going on. Best wishes, Huub > From: Adam Pelzer [mailto:adampelzer2010===u.northwestern.edu] Sent: Wednesday, April 06, 2011 4:46 PM To: Govind, Niri Cc: Van Dam, Hubertus J; CCL Subscribers; nwchem-users===emsl.pnl.gov Subject: Re: [NWCHEM] RE: smearing with NWChem Hello all. I asked a similar question a few months back. We found that: a) some calculations performed with smearing did not converge to the same s= tate as calculations with no smearing even when the HOMO/LUMO gap was much = much larger than the energy of the extra term. That is, there were no fract= ional occupations and so smearing "should" have had no effect. b) the solution that we converged to with smearing was different from the o= ne arrived at without smearing. With smearing we arrived at a higher energy= solution with a different distribution of charge and spin density than we = arrived at with no smearing. This was not a numerical error, it was an enti= rely different solution that was 0.25 eV higher. This was for single point = calculations. When we allowed the system to relax, we again arrived at two = different states with slightly different geometries and charge distribution= s with the smeared case 0.03 eV above the no smear solution. c) the use of unconstrained smearing (without the spinset T keyword) allowe= d the calculation to change spin state, but it did not always change it to = a lower energy spin state. I had been told that it would only change spins = if it could find one of lower energy, but this turned out not to be the cas= e. The idea of just using it for everything so that any issues wash out when y= ou take the difference works fine if you're still guaranteed to get the gro= und state solution, but if you're not then it's more problematic. Any thoughts on these issues? Cheers, Adam On Wed, Apr 6, 2011 at 6:25 PM, Govind, Niri > wrote: Hi Frank, Try the following if you want to preserve the multiplicity with smear. dft mult 3 ... ... end set dft:spinset t task dft Best regards, -Niri -----Original Message----- > From: owner-nwchem-users===emsl.pnl.gov [mailto:owner-nwchem-users===emsl.pnl.gov] On Behalf Of Van Dam, Hubertus J Sent: Wednesday, April 06, 2011 4:08 PM To: CCL Subscribers Cc: nwchem-users===emsl.pnl.gov Subject: [NWCHEM] RE: smearing with NWChem Hi Frank, This is an interesting question. There are a few specific points here: 1. The energy that is associated with the smearing is normally supposed to = be negative, so the total energies with smearing should be lower than the o= nes without smearing. 2. The smearing functionality may change the spin state of your system. As = you are working on transition metal complexes I am guessing you might have = open shell systems. I can provide some special directives to control this i= f needed. 3. The code will actually print the energy that it adds on as a result of t= he smearing. Search for "eFermi=3D" in the output. (see also 4.) 4. However, if you subtract the energy from 3. you will not get the energy = you are looking for. The problem is that the DFT energy for a system with f= ractionally occupied orbitals is higher than the energy of the same system = with integer occupations. So the eFermi term that is added on corrects for = that difference and adds a bit more on top of that. 5. Concluding it seems to me that your best bet is to run all calculations = with the same smearing parameter for the final energies and compare the res= ulting energies. I am sorry if this is not the answer you were looking for. If you want any = more specific information please feel free to contact me. Best wishes, Huub ________________________________________ > From: owner-chemistry+hubertus.vandam=3D=3Dpnl.gov===ccl.net<= http://ccl.net> [owner-chemistry+hubertus.vandam=3D=3Dpnl.gov===ccl.net] On Behalf Of Xiaofeng Frank Duan duanx:_:asc.hp= c.mil [owner-chemistry===ccl.net] Sent: Wednesday, April 06, 2011 1:12 PM To: Van Dam, Hubertus J Subject: CCL: smearing with NWChem Sent to CCL by: "Xiaofeng Frank Duan" [duanx^asc.hpc.mil] Hello, I optimized some transitional metal compounds with DFT in NWChem. For some = compounds, I had to use "smear" to get SCF converged even though I decrease= d "smear" values gradually to the minimum. Since 'smear' adds an additional= energy term, the total energy is higher than that of the "zero smear" for = the same structure. My question is: How to correct or scale the "smeared" total energy to the "= zero smeared" one so that I can compare energies among different compounds. Thanks, Frank -=3D This is automatically added to each message by the mailing script =3D-E-mail to subscribers: CHEMISTRY===ccl.net or use:E-mail to administrators: CHEMISTRY-REQUEST===ccl.net or usehttp://www.ccl.net/chemistry/sub_unsub.shtmlhttp://www.ccl.net/spammers.txt--_000_FDD09CBD8676AE40957DCDAD24E9627A01890D4AA131EMAIL04pnlg_ Content-Type: text/html; charset="us-ascii" Content-Transfer-Encoding: quoted-printable

Hi Adam,<= o:p>

 

I agree that your observations are not what y= ou would expect to get. I have noticed looking at the code that the presenc= e of fractional occupations interferes with a number of things (the fractio= nal occupations may be negligibly small). The things it interacts with incl= ude: Level shifters and DIIS. So there is potential that this may mess up t= he optimization of solution you are after. If you still happen to have exam= ples of calculations that demonstrate these issues I am happy to have a loo= k and see if I can figure out what is going on.

 

Best wishes,

 = ;

     = ;   Huub

&n= bsp;

 

From: Adam Pelzer [mailto:adampelzer2010===u.no= rthwestern.edu]
Sent: Wednesday, April 06, 2011 4:46 PM
To= : Govind, Niri
Cc: Van Dam, Hubertus J; CCL Subscribers; nwch= em-users===emsl.pnl.gov
Subject: Re: [NWCHEM] RE: smearing with NWC= hem

 

Hello all. I asked a simi= lar question a few months back.  We found that:

a) some calcul= ations performed with smearing did not converge to the same state as calcul= ations with no smearing even when the HOMO/LUMO gap was much much larger th= an the energy of the extra term. That is, there were no fractional occupati= ons and so smearing "should" have had no effect.

b) the s= olution that we converged to with smearing was different from the one arriv= ed at without smearing. With smearing we arrived at a higher energy solutio= n with a different distribution of charge and spin density than we arrived = at with no smearing. This was not a numerical error, it was an entirely dif= ferent solution that was 0.25 eV higher. This was for single point calculat= ions. When we allowed the system to relax, we again arrived at two differen= t states with slightly different geometries and charge distributions with t= he smeared case 0.03 eV above the no smear solution.

c) the use of = unconstrained smearing (without the spinset T keyword) allowed the calculat= ion to change spin state, but it did not always change it to a lower energy= spin state. I had been told that it would only change spins if it could fi= nd one of lower energy, but this turned out not to be the case.

The= idea of just using it for everything so that any issues wash out when you = take the difference works fine if you're still guaranteed to get the ground= state solution, but if you're not then it's more problematic.

Any = thoughts on these issues?

Cheers,
     =           Adam

On Wed, Apr 6, 2011 at 6:25 PM, Govind, Ni= ri <niri.govind===pnl.gov> w= rote:

Hi Frank,

Try the following= if you want to preserve the multiplicity with smear.

dft
 m= ult 3
 ...
 ...
end
set dft:spinset t
task dft
=
Best regards,
-Niri<= /p>



-----Original Message-----
From: owner-nwchem-users===emsl.pnl.gov [mailto:owner-nwchem-users===emsl.pnl.gov] On B= ehalf Of Van Dam, Hubertus J
Sent: Wednesday, April 06, 2011 4:08 PM
= To: CCL Subscribers
Cc: nwc= hem-users===emsl.pnl.gov
Subject: [NWCHEM] RE: smearing with NWChem
Hi Frank,

This is an interesting question. There are a few spec= ific points here:
1. The energy that is associated with the smearing is = normally supposed to be negative, so the total energies with smearing shoul= d be lower than the ones without smearing.
2. The smearing functionality= may change the spin state of your system. As you are working on transition= metal complexes I am guessing you might have open shell systems. I can pro= vide some special directives to control this if needed.
3. The code will= actually print the energy that it adds on as a result of the smearing. Sea= rch for "eFermi=3D" in the output. (see also 4.)
4. However, i= f you subtract the energy from 3. you will not get the energy you are looki= ng for. The problem is that the DFT energy for a system with fractionally o= ccupied orbitals is higher than the energy of the same system with integer = occupations. So the eFermi term that is added on corrects for that differen= ce and adds a bit more on top of that.
5. Concluding it seems to me that= your best bet is to run all calculations with the same smearing parameter = for the final energies and compare the resulting energies.
I am sorry if= this is not the answer you were looking for. If you want any more specific= information please feel free to contact me.

Best wishes,

&nb= sp;     Huub
________________________________________
From:= owner-chemistry+hubertus.vandam=3D=3Dpnl.gov===ccl.net [owner-chemistry+hubertus.vandam=3D=3Dpnl.gov===ccl.ne= t] On Behalf Of Xiaofeng Frank Duan duanx:_:asc.hpc.mil [owner-chemistry===ccl.net]
Sent: Wednesday, April 06, 2011 1:12= PM
To: Van Dam, Hubertus J
Subject: CCL: smearing with NWChem
Sent to CCL by: "Xiaofeng Frank Duan" [duanx^asc.hpc.mil]
Hello,

I optimized= some transitional metal compounds with DFT in NWChem. For some compounds, = I had to use "smear" to get SCF converged even though I decreased= "smear" values gradually to the minimum. Since 'smear' adds an a= dditional energy term, the total energy is higher than that of the "ze= ro smear" for the same structure.
My question is: How to correct or= scale the "smeared" total energy to the "zero smeared"= one so that I can compare energies among different compounds.

Thank= s,
Frank



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