From ernst@bkfug.kfunigraz.ac.at  Wed Aug 17 07:38:44 1994
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From: "nobody@nowhere" <ernst@bkfug.kfunigraz.ac.at>
To: chemistry@ccl.net
Message-ID: <00983157.064E63B3.29@bkfug.kfunigraz.ac.at>
Subject: wanted: review article comput. chem. 


Hi all, 

I would be interested in  recent review literature in computational 
chemistry, which is fairly general in scope (which methods are used to 
calculate which quantity, this sort of thing), perhaps also things of a 
comparative nature (the best we can do for small/large/very large systems). 

The focus is on methods and their range of applicability, not as much 
on differences among implementations and varieties of any given method. 
As my understanding of 'method' and 'implementation' is not likely 
to be uniquely defined, here are some examples: 

examples for methods: DFT, SCF, IGLO, etc...
examples for varieties: pure DFT, hybrid DFT
examples for implementations: direct vs. conventional SCF 
(I know, I know - this is NOT unique - is G2 a method or a variety 
of a family of methods?)

To make the confusion complete: I am interested in questions such 
as "Is DFT a method which can be used if I'm interested in enthalpies 
of formation (of small/large) systems";
I am not interested in questions such as "can I do MP2 frequencies 
for a 20-atom system using a direct algorithm on a workstation". 

I will be glad to summarize to the list, and if this wasn't a 
very good way to put my question, I will be glad to be told why. 

	Thanks,
		Margot


From mckelvey@Kodak.COM  Wed Aug 17 08:38:40 1994
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Reply-To: mckelvey@Kodak.COM
Message-Id: <9408171229.AA08936@Kodak.COM>
To: osc@Kodak.COM
Subject: PC vs RISC


Recent comments prompt this...Check DR. DOBBS this year for article on PENTIUM
and MATRIX MATH. The major contribution to the differences comes from compilers.When the PENTIUM was given the same instructions in assembler that the SGI compiler generated the PENTIUM was FASTER!...with a lot of "all else being the same"

John McKelvey
Eastman Kodak

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From brock@chemie.uni-hamburg.de  Wed Aug 17 09:49:21 1994
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From: brock@chemie.uni-hamburg.de (Mathias Brock)
Message-Id: <9408171318.AA05027@pcaix1.chemie.uni-hamburg.de>
Subject: EISPACK on RS6000 (xlf) failure
To: chemistry@ccl.net
Date: Wed, 17 Aug 1994 15:18:17 +0100 (DFT)
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Dear netters,

the implementation of EISPACk on RS6000 under xlf.
Calculation of 3x3-symmetric matrix from example (Ref.:
Lecture notes in Computer Science 6,1974,100) caused wrong
eigenvalue and -vectors, although no error in compilation
occured. This calculation simply follows the standard route.

Is anybody out there with experience on EISPACK ? I would
be grateful for suggestions on accuracy and reliability for
several matrix-eigenvalue problem solution.

Mathias Brock
brock@chemie.uni-hamburg.de


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From jkl@ccl.net Wed Nov  3 23:36:01 1993
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this is a test
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From BIENSTOCK@NIEHS.NIH.GOV  Wed Aug 17 11:38:44 1994
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Date: Wed, 17 Aug 1994 11:23:31 -0500 (EST)
From: Rachelle Bienstock <BIENSTOCK@NIEHS.NIH.GOV>
Subject: Price quotation for PDB on CD ROM..
To: chemistry@ccl.net
Message-id: <01HG0IMAE33M99E7RK@NIEHS.NIH.GOV>
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Hi-

Does anyone out there know how much it costs to 
obtain the PDB distribution on CD ROM and how 
this service works?  Is it a subscription service
where one pays a set fee and receives updates, or
is it a one time fee where one must pay for 
additional updates?

Also does anyone have a contact person?  I have called
516-282-3629 which was the number I was given and left a message
but I don't know if this was the correct number to call for
this kind of information...

Rachelle

From hurst@hyper.hyper.com  Wed Aug 17 12:38:55 1994
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From: hurst@hyper.hyper.com (Graham Hurst)
Message-Id: <9408171641.AA07059@hyper.hyper.com.hyper.com>
To: Charlie Simpson <csimpson%gomez@MSI.COM>, chemistry@ccl.net
Subject: Re:  CCL:PC vs. RISC timings


One certainly had to reply quickly to get included in the summary!

A similar question came up about a month ago, and I replied with:

> Here are some timings for HyperChem, written in C, for comparison.
> 
> MNDO energy and gradient for C60, converged to 1e-2, without DIIS:
> 
> Computer                  Time (s)     Rel. speed
> 486DX 50 MHz                375             1
> Pentium 90 MHz              87.6           4.28
> SGI Indy 100 Mhz            77.8           4.82
> IBM RS/6000-250 66 MHz      51.8           7.24
> DEC 3000 200 MHz (I think)  42.4           8.84
> 
> The first two numbers are for full HyperChem (user interface and
> calculation module) running on the same processor under Windows 3.11.
> The last three are for the computation module running on the unix
> computer with the HyperChem user interface running on a 486.  All
> times are wall clock times for start to finish observed on the PC.

The Indy uses an R4000 chip, the IBM 250 uses a PowerPC 601 chip and
the DEC uses an Alpha chip.

As John McKelvey points out, the compiler can make a huge difference
in approaching "peak" chip speed, and in many cases the speed of
RISC computers is due to close interaction between chip and compiler
designers.  Of course such cooperation need not be exclusive to RISC...

If the orignal poster was looking for a machine strictly for running
modelling or his own floating-point intensive code, then RISC would
be preferable.

If, as I inferred from the original post, he was looking for a *personal*
computer, then I would choose a Pentium.  It's no slouch for speed
(even for floating point) and the wealth of software available far
surpasses any RISC.  90 MHz Pentium PCs are increasingly affordable
too - they are now around $3000.

Of course most RISC's can run most PC software via emulation (with the
usual notable exception of code requiring 386s or better), but there is
(so far) a huge performance hit with emulation.  RISC machines
like the above are slower than the 486DX50 when running PC software
under emulation (see the May 26 PC Magazine for benchmarks).
A future PowerPC is supposed to have hardware Intel emulation, and
some PC apps recompiled for RISCs are in the pipeline, but the
Pentium and its successors are by no means doomed...

Cheers,

Graham
------------
Graham Hurst (hurst@hyper.com)
Hypercube Inc, 7-419 Phillip St, Waterloo, Ont, Canada N2L 3X2 (519)725-4040
Info requests to: info@hyper.com    Support questions to: support@hyper.com
Email group: Send "subscribe hyperchem" to hyperchem-request@hyper.com

From becky@MSI.COM  Wed Aug 17 16:38:57 1994
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From: becky@MSI.COM (Becky Rone X 276)
Message-Id: <9408172036.AA22091@franz.MSI.COM>
To: BIENSTOCK@NIEHS.NIH.GOV, chemistry@ccl.net
Subject: Re:  CCL:Price quotation for PDB on CD ROM..


Molecular Simulations, Inc. has a license to redistribute PDB. It does not
come on CD ROM, but it does come on several other media. Plus, it includes
several derivative files which are useful with the MSI products, i.e.
QUANTA. Call (617) 229-9800 for more details. Ask for Customer Support.

From bear@ellington.pharm.arizona.edu  Wed Aug 17 17:38:50 1994
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Date: Wed, 17 Aug 94 13:56:56 -0700
From: bear@ellington.pharm.arizona.edu (Soaring Bear)
Message-Id: <9408172056.AA23807@ellington.pharm.arizona.edu>
To: chemistry@ccl.net
Subject: dynamics water disruption



Hello computational chemists:
        What methods are folks using to measure that
sufficient water disruption has occurred during
molecular dynamics of solvated molecules?

thankyou,

* UU  UU                SOARING BEAR                   *
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* UU  UU A   University of Arizona, New Pharmacy 404   *
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*      AA AA         where the sun shines              *
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