From chemistry-request@server.ccl.net Fri Jun  1 05:12:39 2001
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Date: Fri, 1 Jun 2001 11:12:24 +0200
To: Frank Jensen <frj@dou.dk>
From: Christoph van =?iso-8859-1?Q?W=FCllen?=  <Christoph.vanWullen@tu-berlin.de>
Subject: Re: CCL:DFT - Spherical atoms
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>
>	Now the question: does anyone know of a program
>which can do such average-of-state wave function with
>a DFT functional, instead of HF, and using a Gaussian
>basis set for expanding the orbitals?
>
>	Frank
What about just setting the occupation number of the alpha-spin 2p orbitals
to 1, and of the beta-spin 2p orbitals to 2/3? This is the "standard"
procedure to do atomic calculations ("spherical spin-polarized atom").
This choice will give spherical potentials, so no problem.

Any program which lets you specify occupation numbers is OK. With Gaussian,
you might get stuck, but with TURBOMOLE for example, this is no problem.
-- 
+---------------------------------+-------------------------------------+
| Prof. Christoph van Wullen      | Tele-Phone (+49) (0)30 314 27870    |
| Technische Universitat Sekr. C3 | Tele-Fax   (+49) (0)30 314 23727    |
| Strasse des 17. Juni 135        | eMail                               |
| D-10623 Berlin, Germany         | Christoph.vanWullen@TU-Berlin.De    |
+---------------------------------+-------------------------------------+

From chemistry-request@server.ccl.net Fri Jun  1 05:47:09 2001
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From: "Mirco Meniconi" <mirco.me@inwind.it>
To: <chemistry@ccl.net>
Subject: free sowftware for ab-initio calculation
Date: Fri, 1 Jun 2001 11:47:13 +0200
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Dear all,

I am looking for a free software capable of performing
DFT and ab-initio calculations.
do you know anything?





From chemistry-request@server.ccl.net Fri Jun  1 08:40:39 2001
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From: John Kerkines <jkerkin@cc.uoa.gr>
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Dear CCLers,

Does anybody know if there is a way to select reference configurations in
a CASSCF calculation in Gaussian 98? For example, I want to impose some
occupation restrictions, or directly specify which configurations I want
to include in a CASSCF(=MCSCF) calculation.

Best
John


From chemistry-request@server.ccl.net Fri Jun  1 09:33:41 2001
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From: "Dr. Wolfgang Utz" <UTZ@apollo1.pharmazie.uni-erlangen.de>
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Hi,

I'm looking for NT software which is able to read output files from mopac7.
We are using Webmo on a linux box and would like to load the .out file 
together with atomic charges into the program. Furthermore we would like to 
graph MEPs from the charges.
We have tested raswin, molekel, weblabviewer and we screened the ccl page 
also.
Could some of you give us some links?

Thankyou in advance

Wolfgang
***********************************************************************
Dr. Wolfgang Utz                                    
Department of Medicinal Chemistry
Emil Fischer Center
Friedrich-Alexander University                 
Schuhstr. 19                                                 
D-91052 Erlangen
Germany                               
Tel. 09131/8524100
Fax  09131/8522585
E-mail:utz@pharmazie.uni-erlangen.de
http://www.medchem.uni-erlangen.de/personel/utz.htm
***********************************************************************

From chemistry-request@server.ccl.net Thu May 31 13:51:58 2001
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    Hi everyone,

    I would like to know how to specify exactly what are the two states
which are matched in a conical intersection
optimization option(with opt=conical). This is clear when these two
states are the two lowest in a MCSCF calculation.
However, when they correspond, for example, to the 2nd and 3rd states,
how can I specify them?

    Thanks in advance,

                                            Silmar



From chemistry-request@server.ccl.net Thu May 31 23:28:08 2001
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From: "Sergio Manzetti" <sergio@proinformatix.com>
To: <chemistry@ccl.net>
Subject: PREPARE
Date: Fri, 1 Jun 2001 13:29:01 -0700
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Does anyone have knowledge of where the PREPARE script is available at for
the AUTODOCK package?

Best Regards


Sergio

____________________________________________________________________________
___________________________
"You're happy only if you find yourself singing in the shower, if that
happens once a year, get young!"

Sergio Manzetti
Research Scholar
Centre of Molecular Biotechnology/ Supercomputer Facility
Queensland University of Technology
2 George St.
BRISBANE
4000 QLD
AUSTRALIA
email: s.manzetti@student.qut.edu.au
Tlf: +61 7 3864 1434
www:  http://www.life.sci.qut.edu.au/html/research/cmgenetics.html
www2: http://www.its.qut.edu.au/hpc/



From chemistry-request@server.ccl.net Thu May 31 18:58:23 2001
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--------------EFD10B3091DBADD940C6E3C6
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hello:
    I was wondering if anyone knows of a good DFT how-to in the style of
Szabo and Ostlund's HF how-to?
I have some of the original literature, and the book by Parr and Yang,
but was looking for a more modern
"this is how we actually do it" reference.

Thanks!

--
Mauricio Cafiero
Doctoral Candidate : Theoretical
                     and Computational
                     Quantum Chemistry
Department of Chemistry
University of Arizona



--------------EFD10B3091DBADD940C6E3C6
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<!doctype html public "-//w3c//dtd html 4.0 transitional//en">
<html>
hello:
<br>&nbsp;&nbsp;&nbsp; I was wondering if anyone knows of a good DFT how-to
in the style of Szabo and Ostlund's HF how-to?
<br>I have some of the original literature, and the book by Parr and Yang,
but was looking for a more modern
<br>"this is how we actually do it" reference.
<p>Thanks!
<pre>--&nbsp;
Mauricio Cafiero
Doctoral Candidate : Theoretical
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; and Computational
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; Quantum Chemistry
Department of Chemistry
University of Arizona</pre>
&nbsp;</html>

--------------EFD10B3091DBADD940C6E3C6--



From chemistry-request@server.ccl.net Fri Jun  1 08:40:05 2001
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From: "nathalie leroux" <nleroux@wanadoo.fr>
To: <chemistry@ccl.net>
Subject: 
Date: Fri, 1 Jun 2001 14:42:13 +0200
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Dear all,

I would like to know if there is a free software which is capable of
modelise the solvatation shell of a molecule with a non common solvant.
Thank you.
N. Leroux



From chemistry-request@server.ccl.net Fri Jun  1 10:37:53 2001
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Date: Fri, 01 Jun 2001 17:38:03 +0300
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Dear Netters:

I am doing calculations on metal cation complexes using the gaussian
program but not sure how to calculated the counterpoise correction. So
any help is most appreciated. I am trying to do it first say for
Mg2+(H2O). I know that the first two calculations need to be done for
Mg2+(H2O) at its optimized geometry, in the first we zero out the charge
on the metal cation and in the second we zero out the nuclear charge on
water but I problem I am not sure about what is the third calculation
which need to be done and how to calculated the counterpoise correction
> from these three calculations. To make things clearer I included the
data for these two calculations.

Thank you very much in advance for the assistance.

Best regards,

Adel El-Azhary



=========================================================

 #p HF/6-31+g*  massage test

 H2O   HF   Mg2+

 2 1
 Mg   0.0  0.0        0.933354
 o2    0.0  0.0       -1.003294
 h3    0.0  0.770810  -1.586945
 h4    0.0 -0.770810  -1.586945

 1 nuc 0.0

 --link1--

 #p HF/6-31+g*  massage test

 HF   Mg2+

 2 1
 Mg   0.0  0.0        0.933354
 o2   0.0  0.0       -1.003294
 h3   0.0  0.770810  -1.586945
 h4   0.0 -0.770810  -1.586945

 2 nuc 0.0
 3 nuc 0.0
 4 nuc 0.0

======================================================



From chemistry-request@server.ccl.net Fri Jun  1 11:20:56 2001
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From: Steven Feldgus <sfeldgus@hamilton.edu>
Subject: Looking for Pluton

Hi,

I used to have a copy of the old version of Pluton (the stand-alone), but
I've since lost it. Now all I can find is Pluton-within-Platon, and there
are some things with this new version that I don't like very much. The
major problem is that printing to a postscript file does not give me the
same image I had on the screen. Does anyone know where I can get a copy of
the OLD Pluton... the one that I was so fond of.

Thanks,

Steve Feldgus
Dept. of Chemistry
Hamilton College

From chemistry-request@server.ccl.net Fri Jun  1 11:34:23 2001
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    Dear all,

    I am trying to optimize a conical intersection between the 2nd and
3rd MCSCF states, as i said in my last message.
The strange thing is that, when i make the same running(with the same
geometry), but without the keyword opt=conical,
the MCSCF calculation converges without problems. However, when i
perform exactly the same calculation, but using
opt=conical(and of course nroot=3 as before) the MCSCF doesn't converge,
even at the first trial geometry. Does anyone
have an idea about the reason why this occurs? How to solve this
problem?

            Thanks in advance,
                                                        Silmar



From chemistry-request@server.ccl.net Fri Jun  1 09:56:09 2001
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From: "Artem R. Oganov" <a.oganov@ucl.ac.uk>
To: chemistry <chemistry@ccl.net>
Cc: chemistry-request <chemistry-request@ccl.net>
Subject: CCL: Summary on electron density plotting programs
Date: Fri, 1 Jun 2001 14:53:59 +0100
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Dear CCLers,

Many thanks for replies. There is a number of programs that can plot
electron density distributions. Among those are SURFER, AVS, VU, Molden,
Gnuplot, Rasmol, gOpenMol, OpenDX. Below is a summary of replies.

Artem R. Oganov

----------------------------------------------
Dear Dr. Oganov,
    I believe that you can use Rasmol (or Raswin for windows), that can be
found
at:
http://www.bernstein-plus-sons.com/software/rasmol/#CodeAndBinaries

    You can vizualise the electron density in a "4D" scheme, using 3
dimensions
for geometric points and a "fourth" dimension displayed by a color scale,
named
"temperature" by the rasmol program.
    See the example for electrostatic potential, that have positive and
negative
values, at:
http://www.dqf.ufpe.br/~zaldini/agoa_esp.html

    I hope this help you.
    Cheers.
Marcelo Zaldini Hernandes
E-mail: zaldini@npd.ufpe.br
------------------------------------------------

Maybe molden works if you supply the correct input?
http://www.caos.kun.nl/~schaft/molden/molden.html

Regards,
Mark Saeys

http://lptnt01.rug.ac.be/chemical.engineering
-------------------------------------------------
I think what you need is Molden:

http://www.cmbi.kun.nl/~schaft/molden/molden.html

best regards
modest
Modest von Korff
-------------------------------------------------
Look at gopenmol. It reads a couple of different density formats, but if
it doesn't support the one you have your data in, it is easy to make a
small program (or script inside gopenmol) to do that for you. It makes
very nice plots and has plenty of options. You will find it compiled for
linux and windows.

http://www.csc.fi/~laaksone/gopenmol/gopenmol.html

Hope this helps,

Atte

	atte.sillanpaa@oulu.fi
----------------------------------------------------
Molden is a good choice, as is gOpenMol, or OpenDX.

					-fred

					Frederick P. Arnold, Jr.
					NUIT, Northwestern U.
					f-arnold@northwestern.edu
-----------------------------------------------------
Dear Artem,

I use the program VU:
http://www.cerca.umontreal.ca/vu/welcome.html

It is freely available to universities, but they "usually ask for a
contribution to its development of at least $100" (dixit their
website). It runs on various UNIX platforms.

The learning curve is a little steep (because it uses some relatively
abstract concepts), but it is very powerful and flexible.

It reads Gaussian "cube" files:
Vu -i gaussian density.cube

Guillaume Lamoureux
-----------------------------------------------------



-----------------------------------------------------
Artem R. Oganov
Department of Geological Sciences
University College London
Gower Street
London WC1E 6BT

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From chemistry-request@server.ccl.net Fri Jun  1 13:48:01 2001
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Date: Fri, 01 Jun 2001 10:47:19 -0700 (MST)
From: Benjamin.Moritz@asu.edu
Subject: Viewing Vibrational frequencies
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Dear All,

I am trying to find some freeware that could be used to view vibrational
frequencies from a Gaussian checkpoint file.  If anyone has any information I
would gladly appreciate it.  Thank You.


Benjamin J. Moritz
Arizona State University
Department of Chemical & Materials Engineering

From chemistry-request@server.ccl.net Fri Jun  1 18:50:30 2001
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Date: Fri, 1 Jun 2001 18:50:29 -0400
From: Mihaly Mezei <mezei@inka.mssm.edu>
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To: Computationl Chemistry List <CHEMISTRY@ccl.net>
Subject: Mercury parameter query
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Sender: Mihaly Mezei <mezei@physbio.mssm.edu>

Greetings,

I am looking for potential parameters for mercury bound to cystein (my web
search offered me holistic medicine, but no potential parameters).

Thanks in advance.

Mihaly Mezei, 

Dept. of Physiology & Biophysics, Mount Sinai School of Medicine
           Voice: (212) 241-2186     Fax: (212) 860-3369|
                 WWW (MSSM home): http://
 adsr13.mssm.edu/domains/dept/facultyInfo.epl?objname=physbio&user=mezeim01
    WWW (Lab home - software, publications): http://inka.mssm.edu/~mezei


