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From: "Schiffer, Heinz, Dr., WIA / SC" <Schiffer@MSMWIA.hoechst.hoechst-ag.d400.de>
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To: CCL <chemistry@www.ccl.net> (Receipt Notification Requested) (Non Receipt 
    Notification Requested)
Subject: Largest Hartree-Fock calculation



Sometime ago someone asked for references to large ab initio calculations ( 
sorry, but I forgot who it was ). I just got a copy of a paper of Gustavo 
Scuseria at Rice University in Houston who did a Hartree-Fock geometry 
optimization within icosahedral symmetry for a fullerene with 540 atoms and 
with 2700 basis functions on a single IBM RS6000 workstation. The program he 
used was TURBOMOLE  from Ahlrichs' group in Karlsruhe.

From p.mencarelli@caspur.it  Fri Feb 23 03:30:04 1996
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To: chemistry@www.ccl.net
From: "Dr. Paolo Mencarelli" <p.mencarelli@caspur.it>
Subject: Interaction energy in host-guest complex


Hi all,

I am an organic chemist interested in host-guest chemistry and I have a
question on a computational aspect of this topic.

The interaction energy (Delta E) of the host and the guest in a given
complex may be defined as:

Delta E = Esteric(complex) - Esteric(host) - Esteric(guest) 

where the steric energies may be evaluated by the molecular mechanics
approach.(For the time being I am neglecting the entropic and solvation
effects which are not taken into account by a molecular mechanics simulation
in the gas phase).
The interaction energies are useful in comparing the relative stabilities of
different conformations of the complex, for example different orientations
of the guest with respect to the host. 
Now comes my question: given two different complexes of the same host with
two different guests (or two hosts with the same guest), is it correct to
compare the interaction energies of the two complexes in order to find out
which is the better guest (or the better host)?
I am not sure that this is correct since, when the two guests (or the two
hosts) are not stereoisomers or not even isomers, the two complexes have
different chemical compositions.
Thanks to all who reply. I will summarize.

Paolo
*********************************************************
*   Dr. Paolo Mencarelli                                *
*   Dipartimento di Chimica  - Universita' La Sapienza  *
*   P.le Aldo Moro, 2  00185 Roma - ITALY               *
*   tel 06-49913697 fax 06-490631                       *
*   E-Mail p.mencarelli@caspur.it                       * 
*********************************************************


From peon@medchem.dfh.dk  Fri Feb 23 05:30:12 1996
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To: "Dr. Paolo Mencarelli" <p.mencarelli@caspur.it>
From: peon@medchem.dfh.dk (Per-Ola Norrby)
Subject: Re: CCL:Interaction energy in host-guest complex
Cc: chemistry@www.ccl.net


        Dear Paolo,

        The comparison you want to make is correct, as long as no new
covalent bonds are formed between the guest and host.  The bond-specific
enthalpy contributions will all cancel out.  As you stated, you will only
get the steric component in the gas phase from this comparison (closely
related, but not identical to the enthalpic component).  My gut feeling in
this is that the most serious error in this would be the neglect of
solvation.  However, you should also be aware of the risk of
entropy-enthalpy compensation:  To make it short, the entropy difference
will probably give a significant contribution OPPOSITE to that of the
enthalpy.  For a short summary on this subject, see: J.D.Dunitz, Chemistry
& Biology, 2(11), 709-712, 1995.
        If you are comparing to experimental enthalpies, you mainly have to
worry about the solvation part (there are several good computational
approaches), but if you are trying to correlate binding constants at one
temperature, you will definitely have to take a look at the above article.
The really bad part of this is that it's pretty hard to estimate the
entropy contribution from a weak interaction computationally.

        PeO Norrby


^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
 *  Per-Ola Norrby
 *  The Royal Danish School of Pharmacy, Dept. of Med. Chem.
 *  Universitetsparken 2, DK 2100 Copenhagen, Denmark
 *  tel. +45-35376777-506, +45-35370850    fax +45-35372209
 *  Internet: peon@medchem.dfh.dk, http://compchem.dfh.dk:/



From estiu@nahuel.biol.unlp.edu.ar  Fri Feb 23 07:30:07 1996
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To: chemistry@www.ccl.net
From: estiu@nahuel.biol.unlp.edu.ar (Estiu, Guillermina)
Subject: GABA


Hello netters !

        Perhaps somebody remember some references of recent publications of
calculations on GABA (Gamma amino butiric acid). Semiempirical, ab-initio,
whatever... 
        I would really appreciate any kind of information !!

>                Guillermina Estiu
>                estiu@nahuel.biol.unlp.edu.ar
>


From trunec@elanor.sci.muni.cz  Fri Feb 23 07:42:04 1996
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From: "David Trunec" <trunec@sci.muni.cz>
Date: Fri, 23 Feb 96 13:20:55 CST
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To: chemistry@www.ccl.net
Subject: relaxed potential energy scan with G94


Dear netters,
I have problem with the calculation of relaxed potential energy scan 
using G94. I am using the following job:

%Chk=SF6
# MP2/6-31G* SCAN=OPT

SF6 calculation

0 1
S1
F1 S1 sfv
F2 S1 sf F1 90.0
F3 S1 sf F1 90.0 F2 90.0
F4 S1 sf F1 90.0 F2 180.0
F5 S1 sf F1 90.0 F2 -90.0
F6 S1 sf F2 90.0 F1 180.0

sfv 1.2 S 30 0.05
sf=1.595

I want to scan variable sfv and optimize other variables. But G94
finds fully optimized geometry and ends, it does not do
the scan. Could you, please, write me, what I am doing bad ?

                       Thanks,
                                David Trunec

From OLIVER@psipsy.uct.ac.za  Fri Feb 23 11:30:12 1996
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From: "Oliver Hill" <OLIVER@psipsy.uct.ac.za>
Organization:  Dept of Chemistry, UCT
To: chemistry@www.ccl.net, JACKSON@psipsy.uct.ac.za, GERALD@psipsy.uct.ac.za
Date:          Fri, 23 Feb 1996 17:43:37 SAST-2
Subject:       SUMMARY:SGI Indigo2 Screen
Reply-to: oliver@psipsy.uct.ac.za
Priority: normal
X-mailer: Pegasus Mail/Windows (v1.22)


Dear CCLers

Thank you to everyone you responded to my query (original below), it 
seems we're not alone with our problem or our low budget!! Here is a 
summary for those interested. 

Original message:
Dear ccl'ers

We have a SGI Indigo2 which we use for modelling using BIOSYM's 
software. Our screen has recently died and we are looking at cheaper 
alternatives to what is normally supplied. Has anyone out there 
adapted a high res pc screen to be used on an Indigo2 (XL graphics) 
and what sort of performance does it give? How do you go about it?

Any help or info will be very much appreciated. I'll post a summary 
if anyone else is interested.

Oliver Hill
-----------------------------------------------
Responses:
Dear Dr. Hill:
       Yes, please do post a response if you get answers.  There are so 
many of us without the funds for a new system.
Sincerely,
Anita Zvaigzne
Welch Postdoctoral Fellow
University of North Texas Health Science Center at Fort Worth
-----------------------------------------------
Hi Oliver,

I am writing this on a Indigo-2 with a Nanao 21" monitor (F2-21).
SGI's "sync on green", and the required cabling (not necessarily the
unique solution) is a 13W3 to RGB (aka BNC) cable.  Plug the red,
green and blue cables into the back of the monitor, leave the sync
cable hanging, and it should work.  I just did this yesterday... so
far I am pleased with the monitor.

Joe
----------------------------------------
Dear Oliver,

we have no experiences with SGI but with other workstations: Sun and HP.
I tried to connect the monitor of my PC to them and the results were
lousy. HP has a special cable for the monitors such that all other
default BNC connections give wrong colours. This is similar for Sun. We
have ordered a couple of cables but none of them did a good job. 

BTW, the monitor is the part of the equipment the human has most contact with.
To save here is to save on the wrong place (mostly and ergonomically).

Best regards,
Thomas
-----------------------------------------
Dear netter

We are runing a indigo R4000 with a SONY 20" monitor that is avaible for all
personal computers (Mac, PC). It has a RGB plug behind just as the SGI's does.
In fact, I do think that most of the screens sold by them are SONY. I just want
to had that we are using the stereo glasses and that It works perfectly well.
In France, the lowest price I saw for it was 10 000 FF (~ 2000 US $).

Bye
________________________________________________________________________________

Jacques-Antoine DURET			GROUPE DE PHARMACOCHIMIE MOLECULAIRE
UFR DE PHARMACIE 			Universite Joseph Fourier GRENOBLE
5 Avenue de Verdun			Tel : (33) 76 04 10 00
38243 Meylan FRANCE			Fax ; (33) 76 41 85 71
		E-Mail : Jacques-Antoine.DURET@ujf-grenoble.fr
________________________________________________________________________________
I had the same thing happen and am currently fighting with SGI over
repair/replacement.  Please let me know what you find out.
The screens on our older 4D/30Gs are still going fine, so I wonder if the
Indigo IIxl screens are 'lemons'.

Cheers,

Dave

Dr. David A. Winkler                            Voice: 61-3-542-2244
Principal Research Scientist                    Fax:   61-3-543-8160
CSIRO Division of Chemicals and Polymers        CSIRO: http://www.csiro.au
Private Bag 10,Rosebank MDC, Clayton, Australia       http://www.chem.csiro.au
------------------------------------------
______________________________________________________________________
| Oliver Hill                        |                               |
| Department of Chemistry            | "The true scientist never     |
| University of Cape Town            |  loses the faculty of         |
| Rondebosch, 7700                   |  amazement. It is the essence |
| SOUTH AFRICA                       |  of his(her) being."          |
| oliver@psipsy.uct.ac.za (internet) |                 - HANS SELYE  |
|                                    |                               |
| Tel. +27-21-650-2527               |                               |
| Fax. +27-21-650-3788               |                               |
|____________________________________|_______________________________|
|  http://www.cem.uct.ac.za/PeopleInChemDept/grad/oliver-hill.html   |
|____________________________________________________________________|

From grzesb@icm.edu.pl  Fri Feb 23 11:48:42 1996
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Date: Fri, 23 Feb 1996 17:14:11 +0100
From: Grzegorz Bakalarski <G.Bakalarski@icm.edu.pl>
Message-Id: <199602231614.RAA02328@korab.icm.edu.pl>
To: chemistry@www.ccl.net
Subject: G94:SUMMARY:Out of memory in l303.exe


Dear Netter,

Many thanks to all who respond for my querry on l303.exe in Gaussian 94.
I've got some useful advices and some comments. There was a little 
confusion about system I've metioned, because I've forgot to add diffusive
functions in my mail (opposite to my input file). Finally my initial input
line was:
#P blyp/6-311++(2df,2pd) scf=(direct).
and the system was Zn2+H2O, which gave 138 basis functions and 38 electrons.

The final solution I've chosen, was (proposed by XIANZ@ASUCHM.LA.ASU.EDU) 
to skip l303.exe. So my input line was:

%Mem=5000000
 #P blyp/6-311++(2df,2pd) IOP(3/36=-1)  scf=(direct)

 I was able to do SCF however for optimization I had to add
more memory.

Thanks again, and best wishes,-
				Grzegorz Bakalarski

**********
***************************
**********************************************
HERE BEGINS FULL SUMMARY:
***********************************************************************
***********************************************************************
ORIGINAL QUERRY:
**********************************************
**************************
*********
Dear Netters,
 
I am quite new in using G94. So maybe it is a FAQ ... .
I have a system with 138 basis functions. (H2O...ZN2+)
and I use 6-311(2df,2pd) basis set. Until I request
at least 10MW memory (%Mem=6 000 000), I get a   
message: 
 
(Enter /scratch/gaussian_OSF1/g94/l303.exe) 
 DipDrv:  MaxL=1. 
 Out of memory in DipPsm. 
 Error termination via Lnk1e in /scratch/gaussian_OSF1/g94/l303.exe. 
 
In G94 User Reference I found that l303 calculates multipole integrals.
 
My question are:
^^^^^^^^^^^^^^^
1) What are these "multipole integrals"Remote server has closed connection
2) Is there any way to force Gaussian to use smaller amount of memory ?
( I tried SCF=DIRECT or SCF=CONVENTIONAL or INT=NoRaffinetti and other options )
 
Thanks for any help. I will summarize if there will be any interest .
 
Grzegorz Bakalarski

**********
***************************
***********************************************************************
			RESPONSES:
***********************************************************************
**************************
*********

From XIANZ@ASUCHM.LA.ASU.EDU Tue Feb 20 17:35 CET 1996
Dear Grzegorz:
   Those integrals are used to calculate quadripole and higher. Generally
we don't need those things. You may try to turn off options of calculating
multipoles by setting IOP(36) = -1 for overlay 3. But I still suspect if
this will work. Back a few years ago, I managed to transport G86 my PC.
As far as I remember, Gaussian program kind of preset (or say pre-allocate
space for those matrices). G94 may change that, I don't know.
 
-Gu

**********
***************************
***************************
*********


From amasunov@shiva.Hunter.CUNY.EDU Tue Feb 20 00:52 MET 1996
I also hit this sometimes. It seems like a bug in Gaussian: it requires
more memory than needs. Did you try to contact Gaussian Inc.? 
Please post summary.
AM
      __   _________ 
     /  \ /  _   _  \   Artem Masunov - amasunov@shiva.hunter.cuny.edu
    /    \\  \\  \\  \       Chemistry Department, Hunter College
   /  /\  \\  \\  \\  \          City University of New York
  /  ____  \\  \\  \\  \     695 Park Avenue, New York, NY 10021
 /__/\__/\__\\__\\__\\__\ Tel: (212) 725-0317, Fax: (212) 772-5332
 \__\/  \/__//__//__//__/

**********
***************************
***************************
*********

From jskwiat@phys.uni.torun.pl Tue Feb 20 11:45 MET 1996
Panie Grzegorzu,
mysle ze nie warto wykonywac obliczen z funkcjami f dla ukladu woda + Zn2.
Wykorzystanmie tych fiunkcji nie wiele daje, a liczy sie bardzo dlugo. Moze
Pan raczej sprobuje z funkcjami dyfuzyjnymi (one sa wazne dla kompleksow)...
Staszek Kwiatkowski

**********
***************************
***************************
*********

From: cory@bohr.chem.mun.ca (Cory C. Pye)
I believe that the multipole integrals are those integrals of the form
<Phi| x^l y^m z^n |Phi>, where  l,m,n >= 0 . These are needed in calculating
the dipole, quadrupole, octupole moments, which I believe aren't applicable to
a charged molecule.
You may wish to use a smaller basis set. The f orbitals may be contributing to the
memory problem, so unless they are absolutely necessary, you might want to use
something like 6-311(2d,2p), or if they are needed, maybe 6-311(2df,2p). What
are d's on Hydrogen going to improve, unless you need to do some superaccurate
IR or Raman intensity calculation, or a large scale CI. 
We have been able to achieve decent results for metal water
clusters even with a 6-31G(d) basis set, see JPC 99 3793 (1995) and
JPC 100 601 (1996) especially the latter, at least for vib. freq's.
We have also performed several calcs on other M(H2O)6 m+ ions.
(We used G92, but these should be fairly similar).
I did not realize there was a 6-311G basis set for Zn, do you
have a reference handy? I know of the 6-311G basis for C-N and of
the MacLean-Chandler basis sets for second-row atoms.
 
2) SMALLER memory? This usually is only a problem for small machines (Linux PC, 
Apollo DN 10000, Commodore VIC-20 :-) ) Just set %mem=whatever_you_want_as_your_maximum.
What I find best is to look at the amount available (say, from vmstat) and set it to
correspond to just a little under that, IF IT NEEDS A LOT. Setting it to be more means
that your system will swap like mad, making other users mad as well.
 
-Cory
   *************
 *****************  !  Cory C. Pye
***   **    **  **  !  Graduate Student
**   *  ****        !  Unpaid Sys Admin
**      *  *        !  Theoretical and
**      *  *        !  Computational Chemistry
***     *  *    **  !
 *****************  !  Les Hartree-Focks
   *************    !  (Apologies to Montreal Canadien Fans)

**********
***************************
***************************
*********

From: gaussian.com!fox@lorentzian.com (Doug Fox)
  Dr. Bakalarski,
 
   I have tried to duplicate your problem and find that it runs in 
4MW but I don't get 138 basis functions so I don't think I have
interpreted your description correctly.
 
   Which revision of G94 are you using?
 
   You can use the old G92 algorithm by using INT=(Rys1E) which should
use less memory even if it is slightly slower.
 
 Douglas J. Fox
  Director of Technical Support
  help@gaussian.com
 
**********
***************************
***************************
*********

From marcin@tiger.chem.uw.edu.pl Wed Feb 21 10:21 MET 1996
Moze nie bedzie to odpowiedz na Panskie klopoty wprost, ale wydaje mi sie
ze chyba Panskie klopoty zaczynaja sie i koncza w dobraniu ilosci pamieci do
obliczen. 138 funkcji bazy to raczej standardowe obliczenie w przypadku G94
i zwykle 3 megaslowa starczaja. W Panskim przypadku troche nie moglem
sie zorientowac o ile mega slow chodzi (10 czy 6?) ale zakladajac
ze G94 jest zainstalowany na Alphie w ICM, ktora ma zdaje sie 64 MB RAM
rezerwacja 10 Mslow musi zakonczyc sie kleska (10*8*1000000> 64 MB RAM).
Jesli mozna zadac pytanie: co za obliczenie wymaga az 10 MW pamieci,
ktorys rzad rachunku Mollera-Plesseta, czestosci? Powyzsze spostrzezenia
zakladaja ze slowo ma 8 bajtow, jesli wiecej (a tak jest na Crayach) to
jest jeszcze gorzej, bo w zakladanych 64 MB RAM mniej jest slow. 64 MB RAM to drugie 
zalozenie.
Serdecznie pozdrawiam i mam nadzieje, ze choc troche pomoglem
Marcin Wisiorowski
marcinw@icm.edu.pl albo marcin@chem.uw.edu.pl

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			END OF FILE
*******************************************************************************
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*********



From owner-chemistry@ccl.net  Fri Feb 23 12:30:12 1996
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Date: Fri, 23 Feb 1996 11:42:47 -0500 (EST)
From: "Subhas J. Chakravorty" <chakravo@indiana.edu>
X-Sender: chakravo@juliet.ucs.indiana.edu
To: chemistry@ccl.net
Subject: Pseudopotential LANL1DZ Gaussian-92
Message-ID: <Pine.HPP.3.91.960223114007.22693A-100000@juliet.ucs.indiana.edu>
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I want to print out the LANL1DZ  Pseudopotential, is it possible ?
using the Gaussian-92 program

Subhas J. Chakravorty                                     chakravo@indiana.edu
Chemistry,Indiana University,Bloomington,IN-47405


From owner-chemistry@ccl.net  Fri Feb 23 14:30:10 1996
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Date: Fri, 23 Feb 1996 16:23:31 -0003
Subject: Carbon-silicon binding energy
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	Dear netters,

	We are dealing with a semiempirical model of diamond
deposition onto a silicon substrate and we have some dificulties
to found a suitable value for the binding energy between carbon 
and silicon atoms at the surface of the substrate. 
	Any reference about this subject will be very welcome.
	
	Best wishes,

			Claudio Perottoni
			Universidade Federal do Rio Grande do Sul
			Instituto de Fisica
			Porto Alegre - BRAZIL
                        e-mail: PEROTT@IF.UFRGS.BR


From wuping@nsrc.nus.sg  Fri Feb 23 23:30:26 1996
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Date: Sat, 24 Feb 1996 11:54:55 +0800 (SGT)
From: Wu Ping <wuping@aba.nsrc.nus.sg>
To: chemistry@www.ccl.net
Subject: register
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My name is Ping WU, a research scientist in the National Supercomputing 
Research Centre of Singapore. Please register me on the computational 
chemistry list. Thanks.

Ping WU, Ph.D
Research Scientist

