From cmral@mimose3.urz.uni-halle.de  Thu May 22 01:43:54 1997
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From: cmral@mimose3.urz.uni-halle.de (Thomas Novak)
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Subject: CCL:Looking for program
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Dear colleagues,

in order to examine the reliability of the DFT-treatment, I've been
looking for the most efficient way of performing some calculations
on our catalyst models with highly sophisticated single reference 
post-HF methods, such as CCSD[T], CPF or MCPF.
A system under investigation is f.i. cationic NiC9H15 (C1-symmetry), 
consisting of 86 electrons within 246 basis functions, . 
Which commercial program system should best be suitable of doing this large 
job regarding efficient consumption of cpu-time and storage space and
possible restart facilities ?
Any suggestions are highly appreciated.

-- Thomas


From toukie@zui.unizh.ch  Thu May 22 04:43:57 1997
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Date: Thu, 22 May 1997 10:03:28 +0200
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From: "Hr. Dr. S. Shapiro" <toukie@zui.unizh.ch>
Subject: 2 unrelated questions
Cc: toukie@zui.unizh.ch


Dear Colleagues;

        I have two quite unrelated questions for which perhaps some CCLers
might be able to provide useful replies:

Question 1:  In order to obtain Mulliken partial atomic charges for some
work in which we are engaged, I prepared a Z-matrix for the molecule
p-tolylacetylene ("tolac.mop"), as follows:


am1 nointer
p-tolylacetylene

C     0.000000  0    0.000000  0    0.000000  0   0   0   0 
C     1.401729  0    0.000000  0    0.000000  0   1   0   0 
C     1.399999  0  120.081459  0    0.000000  0   2   1   0 
C     1.399809  0  120.056900  0    0.000000  0   3   2   1 
C     1.399806  0  119.942001  0    0.000000  0   4   3   2 
C     1.400006  0  120.056679  0    0.000000  0   5   4   3 
C     1.312333  0  120.109207  0  180.000000  0   1   2   3 
C     1.200200  0  179.891647  0  180.000000  0   7   1   2 
H     1.103619  0  119.699532  0  180.000000  0   2   3   1 
H     1.103127  0  119.972672  0  180.000000  0   3   2   1 
H     1.103111  0  120.028992  0  180.000000  0   4   3   2 
H     1.103127  0  119.970596  0  180.000000  0   5   4   3 
H     1.103619  0  119.699341  0  180.000000  0   6   5   4 
H     1.059943  0  180.000000  0  180.000000  0   8   7   1 


When I tried running it in MOPAC 6.0, I got the following output:


                     CALCULATION ABANDONED AT THIS POINT


           THREE ATOMS BEING USED TO DEFINE THE
           COORDINATES OF A FOURTH ATOM, WHOSE BOND-ANGLE IS
           NOT ZERO OR 180 DEGREEES, ARE IN AN ALMOST STRAIGHT
           LINE.  THERE IS A HIGH PROBABILITY THAT THE
           COORDINATES OF THE ATOM WILL BE INCORRECT.


                    THE FAULTY ATOM IS ATOM NUMBER  14

                                :
                                :

                         [some stuff omitted]

                                :
                                :

            CARTESIAN COORDINATES UP TO FAULTY ATOM


     I            X            Y            Z
     1          .00000       .00000       .00000
     2         1.40173       .00000       .00000
     3         2.10345      1.21144       .00000
     4         1.40648      2.42540       .00000
     5          .00667      2.42736       .00000
     6         -.69623      1.21660       .00000
     7         -.65833     -1.13526       .00000
     8        -1.26237     -2.17238       .00000
     9         1.95719      -.95365       .00000
    10         3.20658      1.20934       .00000
    11         1.95985      3.37966       .00000
    12         -.54306      3.38375       .00000
    13        -1.79982      1.22503       .00000
    14          .00000       .00000       .00000


       ATOMS  8,  7, AND  1 ARE WITHIN  .0025 ANGSTROMS OF A STRAIGHT LINE


        Adding the keyword "geo-ok" didn't help.  Does anyone know of a
workaround to this so that I can obtain Mulliken partial atomic charges for
the atoms of p-tolylacetylee using MOPAC?


Question 2:  I would like to know if there is some established quantitative
measure of the "degree" of chirality.  For example, consider the chiral
molecules CR1R2R3R4, where in one case R1 = H, R2 = D, R3 = T, and R4 = F,
whereas in another case R1 = H, R2 = naphthyl, R3 = n-octyl, and R4 = NO2.
Whilst both molecules are chiral, it is clear that the structural variation
when R1 = H, R2 = naphthyl, R3 = n-octyl, and R4 = NO2 makes this a "more"
chiral molecule than when R1 = H, R2 = D, R3 = T, and R4 = F.  But how to
express in a quantitative fashion that the second chiral molecule is "more"
chiral than the first?  I thought that perhaps the RMS deviation between the
two enantiomorphs of each of these chiral molecules might provide
quantification of chirality.  Does anyone have any further, possibly better,
suggestions?

        Thanks in advance to all responders.

Sincerely,

S. Shapiro
toukie@zui.unizh.ch
 


From gadre@chem.unipune.ernet.in  Thu May 22 07:07:12 1997
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From: gadre@chem.unipune.ernet.in (Prof. Shridhar R. Gadre)
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To: CHEMISTRY@www.ccl.net
Subject: ICCCRE second announcement


               XII International Conference on Computers              
                 in  Chemical  Research  and Education                 
                             (XII ICCCRE)                             
                          SECOND ANNOUNCEMENT                          

It is our pleasure to invite you to the XII   International Conference 
on Computers in Chemical Research  and  Education  (ICCCRE)  which  is 
being organised at University of Pune, India  from  January  5  to  9, 
1998.  We are happy to inform you  that  we  have  received  excellent 
response from all over the world  and  many  eminent  scientists  have 
agreed to participate in the conference.  Some of the invited speakers 
who have already accepted our invitation are : 
Professor/Drs. A. L. Parrill-Baker, S.P. Bhattacharyya,  C.J.  Cramer, 
E.R. Davidson, M.J. Field, S.R. Gadre, F.A.  Gianturco,  K.  Hirao, 
S. Iwata, R.S. Lamba,  H.P. Luthi, P. Lykos, A.R. Moll,  M.  Marsili, 
C. Middlecamp,  K.  Raghavachari,  M.  Rami  Reddy,  A.P.   Rendell, 
S. Ramasesha,  H.F. Schaefer III, N.  Sathyamurthy,  J.J.P.  Stewart, 
W. Torop, I.K. Ugi, R. Viswanathan, N. Yathindra, S.E. Yoo, 
M.C. Zerner et al. The list is still expanding !      

The tentative program of the conference is given below.

Date        9.00-12.00            13.00-15.00           15.30-18.00
        Invited + Contributed    Poster Session    Invited + Contributed    
        Lectures                                   Lectures
        
Jan 5         T1                     P1                    T2

Jan 6         T2                     P2                    T3

Jan 7         T3                     P3                 Excursion

Jan 8         T4                     P4                    T5

Jan 9         T4                     P5                    T6   

The topics listed above are as follows.

T1 : Semi-Empirical, Ab initio and Density Functional Methods

T2 : Electronic journals, Publishing, Conferencing and Networks

T3 : Molecular modeling, Quantitative structure-Activity Relationship

T4 : Computers in Chemical Education

T5 : Artificial  intelligence,  Chemometrics, Neutral  networks  and 
     their chemical applications

T6 : New Algorithms and  Techniques  in  computational  chemistry  and 
     parallel computing

P1 : Topics covered under T1.

P2 : Topics under T3.

P3 : Topics discussed in T2 and T5.

P4 : Topics under T6.

P5 : Topics covered in T4.

On three days, there may be evening lectures from 19:30 to 20:30.
***********************************************************************
  Award Announcement :  
***********************************************************************

To commemorate the Golden Jubilee of India's Independence we are pleased
to announce TWO prizes, one each in the category of contributed lectures
and posters for the best presentation.

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

Information on Abstracts :

Abstracts for invited talks/contributory presentations/posters  should 
be submitted not later than July 31, 1997 to 

Dr. Shridhar R. Gadre
Department of Chemistry
University of Pune
Pune-411 007. (INDIA)
fax : 0091-212-351728
e-mail : gadre@unipune.ernet.in



The printed area must be contained within a rectangle of  size  234  x 
156 mm (9.2" x 6.1").  Top 50 mm should be used  only  for  title  and 
Authors' name/s and address/es.  For title, a font size of 14 in  bold 
face is recommended.  The name and address may be done  in  font  size 
12.  Abstract should be preferably written  in  MS WORD or Mac WORD 
software (1.5 line spacing) using Times font  with a font size of 10.  
In case of unavailability of WORD the abstract may be written using 
any software.  The abstract should fit in one A4 size page.  
References denoted by  superscript  numbers  in  the  text  and 
should be listed at the  end  of  the  text  using  standard  Chemical 
Abstracts Source Service Index (CASSI) terminology, followed by  YEAR, 
VOLUME AND PAGE.   Please  note  that  abstracts  will  be  reproduced 
directly from the authors' originals and  hence  2  copies  should  be 
mailed without folding the paper.  A book of abstracts of all oral and 
poster contributions will be distributed at the meeting.

The registration fees for the participants from abroad are :

US$ 300  for  non-students  and  US$ 150  for  students.    The 
registration fees should be paid  before  July  31,  1997.   The  late 
registration fees  are  US$ 400  (non  students)   and  US$ 200 
(students) only upto September 30, 1997. Equivalent amount in British
pounds, Deutsche  marks or Japanese yens or of course, Indian Rupees is also
acceptable.  The fees are non-refundable.

The registration fees should be paid by demand-draft /banker's draft
in  the  name  of "The Registrar, University of Pune" payable at the 
State Bank of India, Pune.   Payment is also acceptable by visa and master 
card.  Please contact us  for  fuller  details  before  effecting  the 
payment.
The current exchange rate is approximately Rs.36 per US$.

Travel :

The participants are requested to book their flight arriving at Mumbai 
(Bombay) International airport.  There are  some  domestic  connecting 
flights from Mumbai to Pune.  You should try to  get  such  connecting 
flight (if available) to  reach  Pune.   Upon  your  arrival  at  Pune 
(domestic) airport, arrangements will be made to carry you  upto  your 
Hotel/conference site.  For the participants who do not have connecting 
flights from Mumbai to Pune, special  arrangements  may  be  made  to 
provide ground transportation  upto  Pune.   Our  volunteers  will  be 
available on  the  airport to receive you if you send us your  arrival 
schedule  in  advance  (at least 30 days before the conference).

For further information on Pune University  and  Pune  city,  you  may 
visit the web site
               http://www.unipune.ernet.in
               http://www.unc.edu/~pune
For travel information around Pune you may visit
               http://iucaa.iucaa.ernet.in/~snk/place1.html
               http://iucaa.iucaa.ernet.in/~snk/place2.html

For travel with in Maharashtra State visit web sites 
http://spiderman.bu.edu/misc/india/places/indiastates/maharashtra.html
http://www.clemson:edu/~nsankar/india/states/maharashtra.html
http://wwwvms.utexas.edu/~savkar/rashtra.html

Weather in Pune

The maximum and minimum temperatures in Pune  in  January  are  around 
27 and 7 degrees Celsius respectively.  Normally there are no  rains 
around  this time and relative humidity is normally less than 40%.

Hotels :

The accommodation is arranged in various hotels in Pune.   Your  room 
may be booked in any of the following hotels.  Please tell us your two 
preferences and we shall be happy to do the room booking for you.  All 
hotels accept credit cards( at least VISA and MASTER CARD ).

1.   Hotel  Span  Executive ; Revenue Colony, Shivaji Nagar, 
                                   Pune-411005, India.
     (Facilities : Luxury rooms, hot and cold water with showers,
     channel  music,  television,  round  the  clock   service,   pure 
     vegetarian breakfast)
     Rates : about Rs.400/- or US$12 per person per day(with double
     occupancy)

2.   Hotel Pride Executive ; 5, University Road, Shivajinagar,
                                   Pune-411005, India.
     (Facilities : Excellent quality luxury rooms, hot and cold  water 
     with   showers,  channel  music,  television,  round  the  clock 
     service, breakfast fruit basket, swimming  pool) 
     Rates  :  about Rs.2000/- or US$60 per person per day
     (with double occupancy).

3.   Hotel Sahara ; Senapati Bapat Road, Pune-411 007, India.
     (Facilities : Luxury rooms, hot and cold water with showers, free 
     shoe polishing, laundry service, channel music, television, round 
     the clock service, pure vegetarian breakfast).
     Rates : about Rs.350/- or US$11 per person per day  (on  double 
     occupancy basis).

4.   Hotel Ranjit, 870/7 Bhandarkar Institute Road,  Deccan  Gymkhana, 
     Pune-411 004.  
     (Facilities : Round the clock service, laundry service, cold  and 
     hot water, doctor on call,  breakfast,  car  rental,  two-channel 
     music)
     Rates : Rs.400/- or US$12 per person per day (with double occupancy).


Sponsors for the Conference :

     University of Pune
     Council of Scientific & Industrial Research (CSIR), New Delhi

Co-sponsors :

     National Chemical Laboratory (NCL), Pune
     Centre for Development of Advanced Computing(C-DAC), Pune
                        
                        
                        HOPE TO SEE YOU IN PUNE
                          IN JANUARY 1998 !
                                  ...




From jlong@monet.chem.uab.edu  Thu May 22 08:43:59 1997
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Date: Thu, 22 May 1997 06:59:41 -0500 (CDT)
Message-Id: <199705221159.GAA21248@monet.chem.uab.edu>
To: chemistry@www.ccl.net
Subject: CCL:hard-copy manuals



Just wanted to add my opinion.
I usually feel lost without a hard copy manual.
On-line or internet available help is nice,
but is no replacement for a well-written manual!
Perhaps I show my age....

Judy Long

From mbigi@dial-up.unipi.it  Thu May 22 09:55:28 1997
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Organization: Centro SERRA University of Pisa - Italy
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From: "Michele Bigi" <mbigi@dial-up.unipi.it>
To: Redime HADJI <redime@azur.incm.u-nancy.fr>
Date: Thu, 8 May 1997 13:56:00 +0000
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On Tue, 6 May 1997, Redime HADJI wrote:
> 
> 
> 	Hi,
> 
> I am looking for any information (references, reviews, methodology,
> etc.) about molecular dynamics simulations of MICELLE(S),
> conformational behaviour of peptides in micelles (in paticular in
> SDS micelles).
> 
> Any hints would be grately appreciated. I will summarize your
> answers.
> 
> Thank you very much in advance.
> 
> 		Redime HADJI-PFEFFER

A search oc Chemical Abstract (1996 and 1997 years) gave those 
results
124:212676
Molecular Dynamics Simulations of a Calcium Carbonate/Calcium
Sulfonate Reverse Micelle. Tobias, Douglas J.; Klein, Michael L. J
 .Phys. Chem., 100(16), 6637-48 1996

125:124424
Molecular Dynamics Simulation of a Micellar System:
2,3,6,7,10,11-Hexakis(1,4,7-trioxaoctyl)triphenylene in Water. Bast,
Tim; Hentschke, Reinhard Phys. Chem., 100(30),12162-12171  1996.  

125:197082
Aggregation processes in self-associating polymer systems. Computer
simulation study of micelles in the superstrong segregation regime.
Khalatur, Pavel G.; Khokhlov, Alexei R.; Nyrkova, Irina A.; Semenov,
Alexander N. Macromol. Theory Simul., 5(4), 713-747  1996. 

124:235566
Wormlike micelles under shear flow: a microscopic model studied by
nonequilibrium-molecular-dynamics computer simulations. Kroeger, M.;
Makhloufi, R. Phys. Rev. E:  Stat. Phys., Plasmas, Fluids, Relat.
Interdiscip. Top., 53(3), 2531-6 1996. 

125:152029
Investigation of molecular dynamics in water-surfactant-solid sorbent 
systems by low energy neutron scattering. Karmazina, T. V.; Slisenko,
V. I.; Mironyuk, A. G. Fiz.-Khim. Metody Issled. Strukt. Din. Mol.
Sist., Mater. Vseross. Soveshch., Volume 3, 128-131.  Edited by:
Gordeev, M. E.  Mariiskii Politekhnicheskii Institut im. A. M.
Gor'kogo: Ioshkar-Ola, Russia. (Russian) 1994.  

125:188794
Dynamics of spin-labeled a-chymotrypsin in reverse micelles of
differently charged surfactants. Caldarau, Horia; Timmins, Graham S.;
Davies, Michael J.; Gilbert, Bruce C. J. Chem. Soc., Faraday Trans.,
92(17), 3151-3155 1996.  

124:169103
Reorientational properties of fluorescent analogs of the protein
kinase C cofactors diacylglycerol and phorbol ester. Pap, Eward H. W.;
Ketelaars, Martijn; Borst, Jan Willem; van Hoek, Arie; Visser, Antonie
J. W. G. Biophys. Chem., 58(3), 255-66  1996.  

125:186047
An NMR, CD, molecular dynamics and fluorometric study of the
conformation of bradykinin antagonists B 9340, B 9430, B 9436 and B
9452 in water and in aqueous micellar solutions. Sejbal, Jan; Cann,
John R.; Stewart, John M.; Gera, Lajos; Kotovych, George
Immunopharmacology, 33, 198-200 1996.  

125:248951
Some ESR spin probe and spin label studies of polymer systems.
Wasserman, A. M.; Khazanovich, T. N.; Kasaikin, V. A. Appl. Magn.
Reson., 10(1-3), 413-429 1996. 

125:97105
Dynamical and structural properties of water/alcohol mixtures.
Onori, G.; Santucci, A.
Mol. Liq., 69, 161-181 1996.  

124:261680
An NMR, CD, Molecular Dynamics, and Fluorometric Study of the
Conformation of the Bradykinin Antagonist B-9340 in Water and in
Aqueous Micellar Solutions. Sejbal, Jan; Cann, John R.; Stewart, John
M.; Gera, Lajos; Kotovych, George Med. Chem., 39(6), 1281-92 1996. 

124:196780
Lipid Chain Dynamics and Molecular Location of Diacylglycerol in
Hydrated Binary Mixtures with Phosphatidylcholine: Spin Label ESR
Studies. Schorn, Karl; Marsh, Derek Biochemistry, 35(12), 3831-6 1996.

124:168759
Taming the Ewald sum in molecular dynamics simulations of solvated
proteins via a multiple time step algorithm. Procacci, Piero; Marchi,
Massimo J. Chem. Phys., 104(8), 3003-12 1996. 

124:80348
Restrained molecular dynamic study of the interaction between bovine
k-casein peptide 98-111 and bovine chymosin and porcine pepsin.
Plowman, Jeffrey E.; Creamer, Lawrence K. J. Dairy Res., 62(3), 451-67
1995. 

I hope that it will help,
Thanks
Michele U. Bigi
Michele U. Bigi
E-Mail: mbigi@farm.unipi.it


From cmral@cluster2.urz.uni-halle.de  Thu May 22 10:44:00 1997
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Subject: CCL:Looking for efficient post-HF calculation
To: CHEMISTRY@www.ccl.net
Date: Thu, 22 May 1997 14:37:11 +0200 (MESZ)
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Dear colleagues,

in order to examine the reliability of the DFT-treatment, I've been
looking for the most efficient way of performing some single point
energy calculations on our catalyst models with highly sophisticated 
single reference post-HF methods, such as CCSD[T], CPF or MCPF.
A system under investigation is f.i. cationic NiC9H15 (C1-symmetry), 
consisting of 86 electrons within 246 basis functions, . 
Which commercial program system should best be suitable of doing this large 
job regarding efficient consumption of cpu-time and storage space and
possible restart facilities ?
Any suggestions are highly appreciated.

-- Elvira

From hxt10@po.cwru.edu  Thu May 22 18:48:41 1997
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From: "Hui-Hsu (Gavin) Tsai" <hxt10@po.cwru.edu>
To: <CHEMISTRY@www.ccl.net>
Subject: summary for another type of discussion in CCL
Date: Thu, 22 May 1997 18:13:04 -0500
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Original proposal:

Dear CCLers:

    I have one suggestion about the type of discussions in CCL.
If we can post research results on CCL, then it may work like
the electric conference. Based on that, everyone can focus on  
interesting research topics and can have deeper discussion.
I think we can exchange our research experience quickly by this way.
What do you think? Any comment?

Hui-Hsu (Gavin) Tsai

Responses:

    ================= Begin forwarded message =================

    From: bruno@antas.agraria.uniss.it (Dr. Bruno Manunza)
    To: hxt10@po.cwru.edu (Hui-Hsu \(Gavin\) Tsai)
    Cc: CHEMISTRY@www.ccl.net
    Subject: CCL:another type of discussion in CCL
    Date: Mon, 12 May
        
    Dear Hui-Hsu,
    	your proposal is interesting and addresses a concrete problem which 
    is: how having quick diffusion of ideas and feedback on them? however I

    think that the CCL cannot be the appropriate forum for this kind of
interactions for a 
    series of reasons. The posting of unrequested research results may lead

    to an overload of the list making difficult to select the messages
which 
    are really interesting for us. The existing electronic conferences and 
    forums seems to work well satisfying the need of rapid communications 
    between authors and readers. Moreover, I'd like to point out the 
    existence of a permanent electronic conference which was announced on 
    this list a few weeks ago, the TMMEC (http://bilbo.edu.uy/tmmec) which 
    addresses the problem you raised.
    	Additionally, electronic conferences allow the access to figures, 
    tables, molecular coordinates, calculations results in a way which
could 
    be difficult to gain in a mailing list.
    Do you agree?
    Regards
    Bruno 
    
    Dr Bruno Manunza
    DISAABA (Dept. of Agricultural Environm. Sci)
    University of Sassari
    V.le Italia 39
    07100 Sassari, ITALY
    phone: 39 79 229215
    fax:   39 79 229276
    e-mail: bruno@antas.agraria.uniss.it
    e-mail: bruno@tharros.dipchim.uniss.it
    e-mail: gx6bot81@cray.cineca.it
    web: http://antas.agraria.uniss.it
    
    
    ================= Begin forwarded message =================

    From: korkin@qtp.ufl.edu (Anatoli Korkin)
    To: hxt10@po.cwru.edu
    Cc: chemistry-request@www.ccl.net
    Subject: Re: CCL:another type of discussion in CCL
    Date: Mon, 12 May 
    
    Dear Hui,
    
    Probably, many CCLers are tired already from a bunch silly questions
    some students post at CCl (like the last one about NaCl) before even 
    make a brief look in the program or basic theory manual or ask another 
    guy in the office or his local supervisor. If they also start to share 
    with us their "experience", they may make all professionals leave from 
    this list and let the guys enjoy themself. 
    I do not want to offend anybody, but it would be really kind of
    everybody to think at least a few minutes before posting a question
    or an "experience" in an overglobe network. We need a professional
network,
    but not a chat-club.
    
    With full respect to all CCL members,
    
    Anatoli Korkin
    
    
    ================= Begin forwarded message =================

    From: rene@mountain.chem.yorku.ca (Rene Fournier)
    To: hxt10@po.cwru.edu
    Subject: new topics on CCL?!
    Date: Mon, 12 May

    
    Hello:
    
       I have some suggestions;
    
    (1) First, you should have directed this request directly to the CCL
        coordinator Jan Labanowski, not to the entire list of over
         a thousand subscribers; asking the opinion of the subscribers
        directly is more or less like bypassing the coordinator's
        authority... 
    
    (2) There would be MUCH too many things posted: about 1000 subscribers,
        times 2 or 3 papers/year average, divided by 365 days/year, that's
        about 7 postings of research results every day!
    
    (3) Typical CCL subscribers would be interested in a tiny fraction
        (less that 1% ??) of those research results and would have no
        convenient way to sort out QUICKLY what is interesting to them;
    
    (4) If feasible, it might be a good idea to post ABSTRACTS of papers
        on the ARCHIVES of CCL, with full reference to where it is (will
be)
        published; there could also be a separate section for abstracts
        of papers not published anywhere (papers that have not passed,
        or not YET passed, the quality control test of refereeing).
        Such archived abstracts would be useful only if there is a
convenient
        search engine (for keywords, authors, etc...) to go with it.
        But that's probably a lot of work for Jan Labanowsky and
associates,
        only they know if it's practical.
    
       So I like your idea but only if implemented as (4) or something
    similar.
    
       Final thoughts: there are unrefereed "electronic journals", or
    rather "electronic bulletin board" where research results are
published.
    I think they work well because:
    
    1) researchers agree to post the results in a nice standard format,
       e.g., postscript;
    2) the "journal" is an entity separate from any discussion list;
    3) the "journal" is targeted at a fairly narrow specialty
    
    
    Regards,
    
       Rene Fournier             Chemistry, York. Univ.   458  CCB
       e-mail: renef@yorku.ca    voice: (416) 736 2100 Ext. 30687
    
    
    



