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From: "Marta Forés i Bocsh" <marta@stark.udg.es>
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Dear all,

I thank to all who replied my question about getting the energy value
for an initial guess in Gaussian. The energy value for the last guess of
a previous calculation can be obtained with the ‘guess=read’ and
‘scf(maxcyc=1)’ options, although being printed 'after two cycles' in
the output file. The initial question and the Prof. S. Fau and D.
Babic’s responses are summarized below. I am very grateful to them.


Marta


Initial question
----------------



We need to get the UB3LYP energy of a molecule with a specific guess
 obtained from a previous calculation. In GAUSSIAN, there is an option
 scf(maxcyc=N) that allows to specify the number of scf cycles (N) you
 want. If N=-1 the program does not do any scf cycle and gives you
 directly the nuclear energy, if N=0 the program does as many cycles as
 it is necessary to have the energy converged and if N=1 one gets the
 energy obtained after doing the second scf cycle (and with the #P
option
 it does not give you the electronic energy difference between the two
 first cycles, which would permit you to know the fist energy value)
Does
 anybody know if there is any way to obtain the energy value for a
 specific initial orbital set (obtained from a guess=read commend).


Responses
-------------


Prof. S. Fau

It is a bit confusing. You are right with saying that the electronic
energy of cycle 1 belongs to the SCF energy with the label "after 2
cycles", since the SCF energy is the sum of this electronic energy and
the nuclear repulsion energy (computed in link 301). But I still think
that this SCF energy "after 2 cycles" is the SCF energy that belongs to
the guess. (I think the label "after 2 cycles" is wrong.) My arguments
are as follows (using a single point calculation of H2 at rHH=1. as an
example):

To solve the SCF-equations, you take a guess for MOs which allows you to
calculate the density matrix and the Fock-matrix. Then you diagonalize
the Fock-matrix and finally you get the diagonal matrix of MO energies
and a new set of MOs (and a new density matrix). Therefore the density
matrix is changed, even if you perform only one SCF-cycle (GAUSSIAN uses
differences between old and new density matrices as convergence
criterion). With direct SCF GAUSSIAN's default procedure is to save the
wavefunction (i.e. the MOs) after each cycle to allow a restart of the
SCF. If the SCF is converged, the MOs are also available as a new guess.

I repeated the calculations with the command lines
  1:  # rhf/6-31G(d,p) guess(SAVE,only)      with rHH = 1.
  2:  # rhf/6-31G(d,p) scf(SAVE,maxcyc=1) geom=check guess=check
  3:  # rhf/6-31G(d,p) scf(restart,nosave,maxcyc=1) geom=check
  4:  # rhf/6-31G(d,p) scf(restart,SAVE,maxcyc=1) geom=check
  5:  # rhf/6-31G(d,p) scf(restart,nosave,maxcyc=1) geom=check
  6:  # rhf/6-31G(d,p) scf(restart,nosave,maxcyc=1) geom=check
because H2 is to small to show energy changes if a converged WFN is used
as a guess.
I got the following energies:
  1: no energy
  2: -1.06975649801  <-- found better MOs and WROTE them to the
checkpoint-file
  3: -1.09870782510  <-- found better MOs
  4: -1.09870782510  <-- found better MOs and WROTE them to the
checkpoint-file
  5: -1.09945738967  <-- found better MOs
  6: -1.09945738967  <-- found better MOs

___________________________________
Dr. Stefan Fau
Fachbereich Chemie, AK Frenking
Philipps-Universität Marburg
35032 Marburg, Germany
fau@chemie.uni-marburg.de

-----------------------------------------------------------------------


Prof. D. Babic

I DO NOT see anything strange or anything that would indicate that
the energy reported in the first cycle does not correspond to initial
orbi-
tals.

        It might be that you don't know a few things that I also learned

recently.  There are two places in the checkpoint file where the
orbitals are
stored.  The first one is where Guess(Save,Only) stores them and also
where
the final converged orbitals are saved.  These orbitals are read into by

Guess=Read command (for example) and you can also read them by
performing
formchk command.

        The orbitals obtained during the SCF calculation are stored in
the
different place in the checkpoint file and they are accessible ONLY by
the Restart option.  These orbitals are stored only if Save option is
active
in SCF (not Guess).  These orbitals can not be read by formchk (unless
one
modifies it).

        The subroutine that controls SCF calculation is CycOpn in
l502.F.
First, the one- and two-electron parts of the Fock matrix are computed
to-
gether with one- and two-electron contributions to the energy.  They are

computed with the initial orbital set which can be from the first or the

second orbital block in the checkpoint file, depending on whether
Guess=Read
is active or SCF(Restart).  Then, Fock matrix is diagonalized and the
new
orbitals are obtained.  If Save option is turned ON, they are stored in
the
second block in the chkpoint file.  So the orbitals stored with MaxCyc=1
are
not identical to the initial orbitals - they are intended for the next
SCF-
-cycle.  If MaxCyc=1, the job ends, but the succeeding restart will
start
from THESE orbitals, which were not yet used for calculation of energy.


Darko Babic
                                                Institute "Rudjer
Boskovic"
                                                HR-10001 Zagreb, P.O.B.
1016
                                                          Croatia






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Dear CCL `ers

I would like to ask for the e-mail address of Alex Granovsky who distributes
PC Gamess. I have been using some address since recentky but this does not
seem to work now and I am not sure whether the address was not changed.

Many thanks beforehand.

Robert Ponec
Institute of Chemical Process Fundamentals
Czech Academy of Sciences
Prague 6, Suchdol 2
165 02 Czech Republic
fax: 420 2 20920661
tel:420 2 20390271
email: rponec@icpf.cas.cz



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From chemistry-request@server.ccl.net  Tue Dec 22 08:50:01 1998
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From: EILERT OFSTEAD  <eofstead@goodyear.com>
To: <chemistry@www.ccl.net>
Subject: Quantifying Agostic H--M Interactions?
Message-ID: <0056650001255277000002L572*@MHS>
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I would be interested in the comments of CCL'ers regarding preferred strategies
for evaluating organometallic compounds which may have agostic interactions
present.  In particular, I want to compare the relative stabilities of isomers
where only one has a probable agostic interaction.  Both accuracy and
efficiency are of value here, so some compromise might be expected.  My
interest includes both alkali metal and transition metal compounds.

One would expect correlation effects to be important in these weak non-bonded
interactions, so post-HF methods are probably indicated (pain! avoid if
possible!), but since some of the DFT methods supposedly include correlation, I
have explored them tentatively as well.  Scatter!!! With Li complexes, the
highest Li-H interaction **appears** to be indicated when using MP2/HF, but
when I try the more efficient LMP2 method available in Jaguar, eg, a
substantially higher stabilization seems indicated (+1 kcal. Real??).  And DFT
methods consistently give somewhat lower apparent stabilization energies,
intermediate between MP2 and straight HF. What is a poor chemist to believe.

Maybe that's life in the modeling world (at least in my short existence
there).  So, recommendations, references, etc would be much appreciated.

thanks, and best wishes for the Holidays,

Eilert
eofstead@goodyear.com
------------------

From chemistry-request@server.ccl.net  Tue Dec 22 10:31:22 1998
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Date: Tue, 22 Dec 1998 10:27:15 -0500 (EST)
From: Jan Labanowski <jkl@ccl.net>
To: Ponec Robert EXCHANGE <Rponec@icpf.cas.cz>
cc: CCL <chemistry@www.ccl.net>, Jan Labanowski <jkl@ccl.net>
Subject: Re: request for address
In-Reply-To: <D661436E5525D1118A3E00A0C91413DE300DD0@panter.icpf.cas.cz>
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The official page for GAMESS is:
http://www.msg.ameslab.gov/GAMESS/GAMESS.html

The instructions: "How to get a copy of GAMESS"
are available at:
http://www.msg.ameslab.gov/GAMESS/dist.menu.html

and the information about PC GAMESS is available as link from the page above at
   http://classic.chem.msu.su/gran/gamess/index.html

and the ftp site with PC Gamess is at:
ftp://www.msg.ameslab.gov/FTP/PC-GAMESS/
or from the PC GAMESS www page at IOWA:
http://www.msg.ameslab.gov/GAMESS/dist.pc.shtml

Alex A. Granovsky web page is at

http://classic.chem.msu.su/gran/index.html
and his e-mail is: gran@classic.chem.msu.su
(though he only knows if he read his mail).

The archive of GAMESS users discussions is at: 

http://mineral.umd.edu/gamess-users/archive/date.html


On Tue, 22 Dec 1998, Ponec Robert EXCHANGE wrote:

> Dear CCL `ers
> 
> I would like to ask for the e-mail address of Alex Granovsky who distributes
> PC Gamess. I have been using some address since recentky but this does not
> seem to work now and I am not sure whether the address was not changed.
> 
> Many thanks beforehand.
> 
> Robert Ponec
> Institute of Chemical Process Fundamentals
> Czech Academy of Sciences
> Prague 6, Suchdol 2
> 165 02 Czech Republic
> fax: 420 2 20920661
> tel:420 2 20390271
> email: rponec@icpf.cas.cz
> 
> 
> 

Jan K. Labanowski            |    phone: 614-292-9279,  FAX: 614-292-7168
Ohio Supercomputer Center    |    Internet: jkl@ccl.net 
1224 Kinnear Rd,             |    http://www.ccl.net/chemistry.html
Columbus, OH 43212-1163      |    


From chemistry-request@server.ccl.net  Tue Dec 22 14:31:56 1998
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Date: Tue, 22 Dec 1998 22:34:25 -0800
From: val <val@cacr.ioc.ac.ru>
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Organization: IOC
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> Easy accessibility from other hosts, for example. This makes your work
> much more efficient if you can check the results and start a new job, say,
> from home on Sunday.
> 
> Regards,
>  * Przemek Czyryca, pczyryca@smurf.chem.usu.edu *

i)
Good! The above mentioned things are really true, since every linux
machine is rather stable telnet, ftp, www and email server just after
the installation without any additional work.

ii)
Moreover, one can use an automatic process control systems (like NQS,
for example) to set up a number of jobs in sequential, parallel or
mixed mode (i.e. during weekends, conference travels, vacations, or
just on a multi-user quantum chemistry server) and the system will 
run all of them in intelligent manner taking into account the 
resources available.

iii)
Next, in some critical cases, when a task reaches the limit of
the hardware, one can unload all the GUI applications and the XWindows
itself. In this case the calculation process will use 99% CPU time 
and 99% of RAM available. The same hardly could be possible for any of
w95/wnt machines (look how much memory and CPU time the GUI sometimes
requires ;-)
All the things pointed out in i) and ii) don't need GUI, so they will
work perfectly correct, finely, GUI can be started again after the 
critical point completion (without having to restart the system).


However, it's clear now that Linux-Windows problem does not have
an universal solution.
So, I would suggest to discuss more detailed questions, rather than
L. vs W. in general.

best regards,
Valentin.


====================================================================
                                             ,         ,      ,   ,
Valentin P. Ananikov                         |\\\\ ////|     /////|
NMR Group                                    | \\\|/// |    ///// |
ND Zelinsky Institute of Organic Chemistry   |  |~~~|  |   |~~~|  |
Leninsky Prospect 47                         |  |===|  |   |===|  |
Moscow  117913                               |  |   |  |   |   |  |
Russia                                       |  | A |  |   | Z |  |
                                              \ |   | /    |   | /
e-mail: val@cacr.ioc.ac.ru                     \|===|/     |===|/
http://nmr.ioc.ac.ru/Staff/AnanikovVP/          '---'      '---'
  Fax +7 (095)1355328   Phone +7 (095)9383536
====================================================================

From chemistry-request@server.ccl.net  Tue Dec 22 15:21:13 1998
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Date: Tue, 22 Dec 1998 15:09:07 -0500 (EST)
From: Ascanio DiPippo <ascanio@salve5.salve.edu>
To: Stefan Konietzny <konietz@chemie.uni-kl.de>
cc: CCL <chemistry@www.ccl.net>
Subject: Re: CCL:G:Linux vs Windows 95 vs Windows NT
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I agree with Stephan.  I remind my students that I don't know what 
computer systems, Pythagoras, Newton, Rutherford, Dirac, Einstein ... used
I do know that a genius with a brain and pencil can outdo any idiot with 
a computer and softway whether UNIX or G98W. it doesn't hurt to try it.  
Like bad programs on TV, you can always interupt its electron supply.

Happy Holidays
Pacem in terris atque calcio.

Fr. Ascanio, C.H.S.
On Tue, 22 Dec 1998, Stefan Konietzny wrote:

> 
> Dear Gergo,
> 
> >--- "Windows was designed to keep the idiots away from Unix so we could
> >hack in peace.  Let's not break that." - Tom Christiansen (Perl Journal) 
> >
> >Kiss Gergo PhD Student Szent-Gyorgyi Albert Orvostudomanyi Egyetem
> >Orvosvegytani Intezet Albert Szent-Gyorgyi Medical University Department
> >of Medical Chemistry H-6720 Szeged, Dom ter 8. (+36) 62-454-000/2889
> 
> Do you think that this is funny? I dont think so. People try to discuss
> the pros and cons of two operating systems and i think it helps noone to
> insult those who like to use Windows or who just want to know if it is
> worth to try g98w.
> The question is not what you love or hate, or what you think about people
> who use one or the other, but which experiences you have made. 
> I hope the others who discussed this subject seriously agree with me.
> 
> Merry Christmas to everyone,
> 
> Stefan Konietzny.
> 
> 
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From chemistry-request@server.ccl.net  Tue Dec 22 18:58:05 1998
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Date: Tue, 22 Dec 1998 18:53:56 -0500 (EST)
From: "E. Lewars" <elewars@alchemy.chem.utoronto.ca>
Message-Id: <199812222353.SAA03471@alchemy.chem.utoronto.ca>
To: CHEMISTRY@www.ccl.net
Subject: rate const and activation free energy: true of false?


1998 Dec 22, Tuesday

True or false:

Two reactions with exactly the same free energies of activation (delta G of
activation, not Arrhenius activation energy) _must_ have the same rate constants
(at the same temperature).

           E. Lewars
===========================

