From CTARG@Levels.UniSA.Edu.Au  Mon Nov 11 02:12:36 1996
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 Mon, 11 Nov 1996 17:10:55 +0930
Date: Mon, 11 Nov 1996 17:10:55 +0930
Subject: HPGL files creasted by MOPAC DENSITY
To: chemistry@www.ccl.net
Message-id: <01IBQ6X2RHUA9LX663@Levels.UniSA.Edu.Au>
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Dear all,

I am having a slight problem dealing with the electron density HPGL files 
generated by MOPAC DENSITY. I am able to read them into WORD but I  would
like to change the colour of the contours - for instance to dotted
and solid both in black for positive and negative electron densities.

Does anybody know of a way to do this - for instance are there lines
in the HPGL files that I can edit?

Thanks very much

Andrea 

From Geoffrey@averell.umh.ac.be  Mon Nov 11 05:12:38 1996
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          id AA23118; Mon, 11 Nov 1996 10:43:11 +0100
Message-Id: <9611110943.AA23118@averell.umh.ac.be>
Subject: Error message with g94
To: chemistry@www.ccl.net (CCL Computational Chemistry List)
Date: Mon, 11 Nov 1996 10:43:11 +0100 (NFT)
X-Mailer: ELM [version 2.4 PL0]
Content-Type: text


Dear CCl'ers,

I'm performing DFT calculations with gaussian94 on heavy metals by using pseudopotentials.
During the optimization of these systemes, i have the following message:
"No unpruned grid is available for this atom.", how can i avoid it ?
Is it due to my pseudopotential's parameters?. If i use the Becke-Lee Yang Parr's
functional, i have an other message: 
Requested convergence on RMS density matrix=1.00D-08 within  64 cycles.
 Requested convergence on MAX density matrix=1.00D-06.
 Integral accuracy reduced to 1.0D-05 until final iterations.
 No unpruned grid is available for this atom.
 No unpruned grid is available for this atom.
 Problem detected with inexpensive integrals.
 Switching to full accuracy and repeating last cycle.
 Warning!  Spurious integrated density:
 NE=   38 Integral=   36.31129 Tolerance=1.00D-03
 Consistency failure #2 in CalDSu.
 Error termination via Lnk1e in /local/g94/l502.exe.
 Job cpu time:  0 days  0 hours  1 minutes   .2 seconds.
 File lengths (MBytes):  RWF=   11 Int=    0 D2E=    0 Chk=    1 Scr=    1

Is there somebody who could help me?    
Best regards,

Geoffrey Pourtois 

****************************************************************
*             Geoffrey      Pourtois, PhD student              * 
*           Service de Chimie des Materiaux Nouveaux           *
*  Center for Research in Molecular Electronics and Photonics  *
*                  University of Mons-Hainaut                  *
*           20, Place du Parc,  B-7000 Mons, BELGIUM           *
*    e-mail : Geoffrey@averell.umh.ac.be                       *
*    fax    : +32 65 37 3366                                   *
*             +32 65 37 3054                                   *
*    tel    : +32 65 37 3363                                   *
****************************************************************

 

From ansu@thon.csb.ki.se  Mon Nov 11 10:12:41 1996
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To: chemistry@www.ccl.net
Cc: ansu@e45.it.ki.se
Subject: ESP units in MOPAC 
Date: Mon, 11 Nov 96 15:45:19 +0100
X-Mts: smtp




Dear all,

I apologize for the silly question but could you please tell me
in what units the potential is output in the ESP module of MOPAC6
(unit 21)? I couldn't find it in the manual, and the original ref.
is not available here at the moment.

Thanks in advance


Ansuman Lahiri
Center for Structural Biochemistry
Karolinska Institutet
E-mail:ansu@csb.ki.se
Fax: +46-8-608-9290
Tel: +46-8-608-9193



From cburkhart@goodyear.com  Tue Nov  5 13:11:26 1996
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Date: Tue, 05 Nov 1996 12:57:24 -0500
From: Craig Burkhart <cburkhart@goodyear.com>
Organization: Goodyear Research
X-Mailer: Mozilla 2.02S (X11; I; IRIX64 6.2 IP28)
To: Computational Chemistry List <chemistry@www.ccl.net>
Subject: SUMMARY: Hydrocarbon Forcefields




Dear Netters,

After much clacking of virtual tongues and over 25 responses from many parts
of cyberspace, I am finally delivering on the promised summary of responses
concerning liquid state simulations of alkanes/alkenes. Before proceding,
much thanks is in order to the following people--

On forcefields:

Bill Jorgensen (Yale), Ilja Siepmann (UMinn), David Maxwell (DuPont-Merck),
Erin Duffy (Yale) and Andreas Bick (MSI)

On methodology:

Mike Kotelyanskii (UDelaware), Ilja Siepmann, Eric Wallis (Phillips Petroleum)
and Carol Parrish (Columbia)

 ...And now on to the summary :)

My Queries:

1) Do you have experience with liquid density NpT MD simulations of
   branched hydrocarbons?

2) If so, can you point me in the direction of a forcefield which you
   have found appropriate for the calculation of liquid densities
   and delta-Hvap?


1) Concerning experience/methods:

Mike Kotelyanskii and Ilja Siepmann reminded me of an old rule of thumb
concerning cutoffs--that you should put them at a place where g(r) is
structureless; that is, where g(r) is close to unity. Good point. Most
of us learn this along the way and then promptly forget about it.

This brought up an important back-and-forth about the nature of how one
deals with long-ranged nonbonded interactions (van der Waals and
coulombic). Most of my simulations were underestimating the densities
of my alkanes by 5-7% or so. I was basically using nonbonded cutoffs
with smooth splines in about the 8-8.5 Angstrom range. This turns out
to be way too short, and if you look at the g(r) you realize that there
is significant liquid structure in this range. I redid a few of my
alkane simulations using 12-13 Angstrom cutoffs. The net result is that
I gained about 2% in density so that my errors were now in the 4% range
using Jorgensen's 1994 OPLS-AA.  For this I thank Mike Kotelyanskii for
being persistent enough in prodding me to look at the effect of
cutoffs.

We now turn our attention to the question of "tail corrections". Tail
corrections are done to handle the effect of truncating the nonbonded
potential. That is, it corrects the tail that exists past the cutoff.
For strictly van der Waals interactions, this correction is always
attractive (this may not be true with electrostatics).  The standard
method is discussed in detail in Allen & Tildesley's book "Computer
Simulation of Liquids".  Note however that this correction is most
applicable in hydrocarbon liquids for NVT ensembles. This is no problem
for software using Monte Carlo (MC) dynamics, which recalculates the
"tail term" only when a volume move, or some suitable interval, occurs.
My thanks to Eric Wallis in discussing his experience with MC tail
corrections.

It is however a problem in standard Newtonian (MD) dynamics using the
NpT (Gibbs) ensemble, where both molecules and system volume are
constantly changing. In this instance, using the Ewald summation may be
a more viable approach. A useful implementation of this method for both
coulombic and Lennard- Jones potentials is given by Karasawa & Goddard,
J. Phys. Chem. 93, 7320(1989). It is basically a generalization of
Donald Williams' "accelerated convergence" technique (see his series of
Acta Cryst.  articles in the late 60's-early 70's) which was based on
Ewald's seminal work. This newest rendition of the Ewald sum has its
advantages over systematically increasing your nonbonded cutoff.  It
computes an estimate of the full long-ranged interaction which is
dependent only on your convergence criteria. I've have used a 0.01
kcal/mole/atom cutoff with good success. The bottom line is that the
use of the Ewald method reduces my density errors to about 3% using the
1994 OPLS-AA.

2) Concerning forcefields:

There are 3 groups currently working on improving liquid alkane/alkene
forcefields, each with a slightly different emphasis. Bill Jorgensen's
group (which includes past members David Maxwell and Erin Duffy) has
published a great deal on their Optimized Potentials for Liquid
Simulations (OPLS) approach. Professor Jorgensen has informed me that a
new OPLS-AA forcefield will be published in an upcoming J. Amer. Chem.
Soc. November issue. He maintains that OPLS-AA(1996) will give
densities generally within 2%. With his help, I'm currently running a
test on a branched alkane liquid cell. My thanks to Bill Jorgensen
for helping me with the details of implementing OPLS-AA.

The second group involves Ilja Siepmann's recent collaborations.  He
has published work with B Smit, S Balasubramanian, C Mundy and ML Klein
on united-atom approaches to hydrocarbon liquid critical parameters
(critical density, temperature, ...) and solute partitioning.  His
approach may be appealing for polymer based problems as well. His most
recently published work [S Balasubramanian, ML Klein and JI Siepmann,
J. Phys. Chem. 1996, 100, 11960] use an updated forcefield. He informs
me that they, too, are putting the finishing touches on this
forcefield, which is due to be published next year; he has upcoming
articles submitted to Mol. Phys. and Fluid Phase Eq. which may be of
use to this audience.

The third group involves Andreas Bick and coworkers at MSI. They
are currently revamping the Biosym PCFF parameterization for liquids.
However, it is only available at this time to their consortium
members, and may be published sometime in the next year (we hope).

Summary:

The Jorgensen OPLS-AA forcefield, coupled with the appropriate
long-range corrections may be the most comprehensive method of
currently dealing with liquid hydrocarbons of small-to-intermediate
size. However, Siepmann's forcefield may be also useful depending
on the properties you wish to simulate, and may be more appropriate
for long-chain systems.

As always, I thank the members of the CCL for their help. Even if Jan
doesn't want to burn bandwidth on debating the CCL's survival, I
must add my $0.02 worth :). IMHO it is a unique GLOBAL resource and
that we should do what is necessary to guarantee its survival.
Time to put your money where your mouth is...

Sincerely yours,

Craig.

-- 
----------------------------------------------------------------------------
! ONLY 102 DAYS 'TIL SPRING TRAINING ! ONLY 102 DAYS 'TIL SPRING TRAINING !
----------------------------------+-----------------------------------------
Papernet:  Craig W. Burkhart      |"I believe in the Church of Baseball. I've
           Goodyear Research      |tried all the major religions and most of
           142 Goodyear Blvd.     |the minor ones...but there's too much
           Akron, OH   44305      |guilt in religion--you see there's no
Mouthnet:  330.796.3163           |guilt in baseball...The only church that
Faxnet:           .3304           |really feeds the soul, day in and day out,
Internet:  cburkhart@goodyear.com |is the Church of Baseball".
                                  |--Annie Savoy, "Bull Durham"
----------------------------------+-----------------------------------------
!!! WAIT 'TIL NEXT YEAR !!! WAIT 'TIL NEXT YEAR !!! WAIT 'TIL NEXT YEAR !!! 
----------------------------------------------------------------------------


From ccl@www.ccl.net  Wed Nov  6 23:11:43 1996
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Date: Thu, 7 Nov 1996 14:19:03 +1100
Message-Id: <v03007807aea71185dcb3@[138.194.40.204]>
To: <chemistry@ccl.net>




Australian Science - Australia's Future
Date: Thu, 7 Nov 1996 14:22:18 +1000
To: anchodd@postoffice.utas.edu.au, chminf-l@iubvm.ucs.indiana.edu,
 chemistry@ccl.net
From: "Dr. Dave Winkler" <D.Winkler@chem.csiro.au>
Subject: Provisional program for ChIN molecular design symposium at 7ACC
Cc: iwata@race.u-tokyo.ac.jp

Call for papers:

           ONE DAY SYMPOSIUM ON COMPUTATIONAL CHEMISTRY
                      AND MOLECULAR DESIGN

                             at the

               7th Asian Chemical Congress(6ACC)
                        16-20 May 1997
               International Conference Centre
                     HIROSHIMA, JAPAN

The symposium will cover research in computational chemistry, molecular
design of drugs and materials and bio-organic chemistry.  The symposium
will follow a similar format to that of the successful computational
chemistry symposia held at the 5th Asian Chemical Congress in Kuala Lumpur
in 1993 and 6th Asian Chemical Congress in Manila in 1995.  Papers
discussing research conducted in any of these broad areas are now requested
by the Symposium convenors.

Requests for further information on the  computational chemistry symposium,
and
expressions of interest, should be directed to the convenors:-

Dr. David Winkler                         Phone:  61-3-9542-2244
Principal Research Scientist              Fax:    61-3-9543-8160
CSIRO Division of Chemicals and Polymers
Private Bag 10 Rosebank MDC  		  D.Winkler@chem.csiro.au
Clayton 3168 Australia

Prof. Xu Zhihong
Laboratory of Computer Chemistry
Academia Sinica				  xu@lcc.icm.ac.cn
Beijing

Abstracts of papers (one inch margins, A4 paper, single spaced 10 point Times,
Courier, Pica or Elite typeface, title in bold capitals) should be
submitted to
the Secretariat as soon as possible.  Please send copies to the computational
chemistry convenor as well.


                             P R O G R A M

SESSION 1	MOLECULAR DESIGN OF BIOACTIVE AGENTS

0900-0930  Prof. Toshio Fujita (Fujitsu Kansai, Japan) -
           "Experimental Theoretical Chemistry:  A Contradiction
           in Terms?"
0930-1000  Prof. Yoshi Takahashi (Toyohashi Institute of Technology, Japan)
1000-1030  Contributed paper

1030-1100  MORNING TEA

SESSION 2	MOLECULAR DESIGN OF MATERIALS

1100-1130  Dr. Suichi Iwata (University of Tokyo, Japan)
           'Dealing with complexity in the current information environment'
1130-1200  Dr. Xiaoxia Li (LCC, Academia Sinica)-
           "Internet Network System and Resources for Chemistry-
           The Internet in China and WWW for ChIN"
1200-1230  Contributed paper.

1230-1400  LUNCH

SESSION 3 	NEW FRONTIERS IN COMPUTATIONAL CHEMISTRY

1400-1430  Prof. Warren Hehre (Wavefunction Inc)-
           "Conformations of C60 analogues"
1430-1500  Prof. Eiji Osawa (Toyohashi University of Technology, Japan)-
           "Molecular orbital studies of conducting polymers"
1500-1530  Contributed paper

1530-1600  AFTERNOON TEA

SESSION 4	THEORY AND EXPERIMENT IN CHEMISTRY

1600-1630  Dr. Dave Winkler (CSIRO Australia)
           "Use of DFT and EMS to Study Strained Ring Structures"
1630-1700  Contributed paper


Cheers,

Dave

Dr. David A. Winkler                             Voice: 61-3-9542-2477
Principal Research Scientist                     Fax:   61-3-9543-8160
CSIRO Division of Chemicals and Polymers         http://www.csiro.au
Private Bag 10,Clayton South MDC,                http://www.wark.csiro.au
Clayton 3169, Australia





From cdac.ernet.in!gadre@parcom.ernet.in  Thu Nov  7 06:11:46 1996
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Date: Thu Nov  7 12:03:32 1996 (GMT + 0530)
From: gadre@cdac.ernet.in
Message-Id: <9611070633.AA28137@parcom.cdac.ernet.in>
To: CHEMISTRY@www.ccl.net




Dear Sirs :
	We are looking for optimization routines incorporating
Simulated Annealing.  Are there any web sites or references?
Thank You,

Shridhar Gadre (e-mail : gadre@parcom.ernet.in ; gadre@unipune.ernet.in)



From ccl@www.ccl.net  Thu Nov  7 17:11:55 1996
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Date: Thu, 7 Nov 1996 17:10:18 -0500 (EST)
From: "Subhas J. Chakravorty" <rahsjc@rohmhaas.com>
X-Sender: rahsjc@walrus.sh.rohmhaas.com
To: chemistry@ccl.net
Subject: MOPAC93.
Message-Id: <Pine.A32.3.93.961107170442.16068A-100000@walrus.sh.rohmhaas.com>





We would like tthe URL for MOPAC-93.
The one on the CCL gives FILE NOT found.
We need the report on the bug-fixes

Subhas J. Chakravorty,

sjchakravorty@rohmhaas.com

(215)-619-5481
Rohm and Haas Company
Spring House, PA-19447

**************************************************************************
Disclaimer : Opinions in the above text are not of Rohm and Haas Company +
**************************************************************************



From boyd@chem.iupui.edu  Fri Nov  8 16:12:07 1996
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 08 Nov 1996 15:51:19 -0500
Date: Fri, 08 Nov 1996 15:43:59 -0500
From: Boyd <boyd@chem.iupui.edu>
Subject: RCC: free books
To: OSC CCL <chemistry@www.ccl.net>
Message-id: <n1364654216.80259@macgw.chem.iupui.edu>





CCLers:
Just a friendly reminder:  we will be giving away free volumes of 
"Reviews in Computational Chemistry" in 1997.  You have 
only 7 weeks left in 1996 to become eligible.  See our home page at
http://chem.iupui.edu/~boyd/rcc.html
for details.
Thanks,  Don
Donald B. Boyd, Ph.D.
Research Professor of Chemistry
Editor, REVIEWS IN COMPUTATIONAL CHEMISTRY
Department of Chemistry
Indiana University-Purdue University at Indianapolis
402 North Blackford Street
Indianapolis, Indiana 46202-3274, U.S.A.
Internet boyd@chem.iupui.edu


From unipune.ernet.in!gadre@iucaa.ernet.in  Sat Nov  9 08:12:14 1996
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Date: Fri, 8 Nov 1996 17:44:47 +0500
From: gadre@unipune.ernet.in (Faculty)
Message-Id: <9611082244.AA11506@unipune.ernet.in>
To: CHEMISTRY@www.ccl.net
Subject: Paraffin stacking
Cc: ramav@beloit.edu



Dear Sirs :
  Do you have a guess or explanation for the fact that the paraffins
pack with their skeletons almost parallel?
 Further, what is a simple explanation for the fact that even n
paraffins have higher MP's than the next odd n-ones?
I'll be grateful for your response and references related to
my query. Thanks...................................Shridhar Gadre
08.11.96.




From tse@ned1.sims.nrc.ca  Mon Nov 11 12:12:44 1996
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	by www.ccl.net (8.8.2/950822.1) id LAA17318; Mon, 11 Nov 1996 11:20:12 -0500 (EST)
Message-Id: <199611111620.QAA26735@ned1.sims.nrc.ca>
From: "Dr. J. S. Tse" <tse@ned1.sims.nrc.ca>
Subject: Al3+ MD paramters
To: chemistry@www.ccl.net
Date: Mon, 11 Nov 1996 11:20:00 -0500 (EST)
X-Mailer: ELM [version 2.4ME+ PL11 (25)]
Content-Type: text


Dear Netters,

   I would greatlu appreicate information concerning the potnetial 
parameters for Al3+ in biological simulations.

    Thank you.

    John S. Tse


From gerwalin@iris1.chemie.uni-kl.de  Mon Nov 11 14:12:44 1996
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Date: Mon, 11 Nov 1996 19:55:02 +0100
From: Elmar Gerwalin <gerwalin@iris1.chemie.uni-kl.de>
Message-Id: <199611111855.TAA12238@iris1.chemie.uni-kl.de>
To: chemistry@www.ccl.net
Subject: G94 : Restart a SCF-job after some iteration-cycles


Hi
How can I restart a SCF(RHF)-job, which already has started some SCF-cycles
and then was aborted (due to cpu-limit) ?
It seems to me that when I use 
#P RHF/6-31++G(d,p) scf=restart
the job always starts again with cycle 1 of the SCF-Procedure (link 502)

What's wrong in my input file ?

Thanks in advance for any help
Bye
yours Elmar
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SIGNATUR-TEST
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From chatt@tniri.go.jp  Mon Nov 11 20:12:46 1996
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Date: Tue, 12 Nov 96 09:20:46 JST
From: chatt@tniri.go.jp (Abhijit Chatterjee)
Message-Id: <9611120020.AA05566@tnhost.tniri.go.jp>
To: CHEMISTRY@www.ccl.net
Subject: MOPAC-93




Dear Friends,

i am looking for information or URL address of MOPAC-93,
I am also looking for the source code. 
Can anybody list out the advantages of MOPAC-93

regards

Abhijit

