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Subscribe
   Victor E. Kuz`min
     E-mail: victor@ignet.odessa.ua

                                            


From ccl@www.ccl.net  Thu Apr  3 12:33:42 1997
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From: Leonardo Demaria <demaria@sissa.it>
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Subject: STO two-center overlap integrals.
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Hi everybody, 
	
	I need to calculate STO two-center overlap integrals between s and
p type orbitals for general n. Does any one know about a Fortran 77
subroutine that does this task?

	I thank you all in advance.

			Best regards,

				Leonardo De Maria

From John_Beckerle@quickmail.clemson.edu  Thu Apr  3 12:33:49 1997
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Date: 3 Apr 1997 12:23:29 -0500
From: "John Beckerle" <John_Beckerle@quickmail.clemson.edu>
Subject: "Best" Multiprocessor Platf
To: "List CCL" <CHEMISTRY@www.ccl.net>
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We are seriously considering investing in a multiprocessor compute server.
The candidates include the IBM SP2, SGI Origin2000, Sun Ultra HPC, DEC
Alphaserver and other similar machines.  We are probably looking at something
on the order of 8 processors and 2GB of memory, although expandability and
upgradability are important.  The system is supposed to serve a variety of
engineering and scientific high performance computing needs, not just
computational chemistry.

I would like to poll the collective experience of CCL as to what is the best
platform, and even more importantly, which platforms should be avoided for
computational chemistry applications.  I am interested in hearing about real
experience with software availability, incompatibilities, and performance
surprises (including effective use of parallelism), both good and bad.  We are
interested in the full range of computational chemistry applications including
SCF and MD. 

I would like to stress that I am looking for good and bad experiences with
effectively using any of these multiprocessor machines and the roadblocks
others have encountered.  I am not so interested in relatively minor
differences in performance of the individual CPUs, benchmarks, etc.  I want to
know if they can be used effectively without miracles.

I am already familiar with the extensive evaluation of workstation performance
by Martyn Guest, as well as Milan Hodoscek's comparison for parallel MD
speedups.

As I don't subscribe to CCL at this time, please respond directly to:
beckerj@clemson.edu

I will summarize to the list if their is interest.

John Beckerle
Clemson University
beckerj@clemson.edu




From jtgolab@amoco.com  Thu Apr  3 13:38:30 1997
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From: jtgolab@amoco.com (Joe Golab)
Date: Thu, 3 Apr 1997 10:13:46 -0600
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Subject: Summary of responses to "CCL: IRIX 6.2+ and MSC's XMOL"
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This is the third attempt to post this summary.  Sorry for bandwidth if
any of you has seen it before.

 ------------------------------ Forward Header ------------------------------
Date: March 27, 1997

RE: Summary of responses to "CCL: IRIX 6.2+ and MSC's XMOL"

>-- Original Question

>! Dear CCL:
>!
>! Recently, we upgraded our Silicon Graphics equipment to IRIX 6.2.  After
>! that, Xmol stopped working (% xmol - Exec format error) because Xmol uses
>! the COFF binary format.  According to Xmol's creators (Minnesota's SC),
>! "There are not plans to produce a new XMol distribution".
>!
>! We have been looking for an alternative to Xmol.  So far, we haven't had
>! much luck to duplicate Xmol's "Extras/Animate" feature.  We have found that
>! feature very useful when looking at optimization runs, IRC runs, etc.  The
>! animation button basically reads and displays a series of geometries from an
>! Xmol input file.
>!
>! Can anyone suggest an alternative software product for UNIX machines?
>! We have tried Rasmol and have not had any luck getting it to do animation
>! using a series of separate geometries.  (Which should not be taken as a slam
>! to Rasmol which we have found useful for Web presentations.)
>!
>! If any replies are received, I'll post the summary.  Thank you.
>!
>! --
>!
>! :Joe
>!  jtgolab@amoco.com
>!  (630) 961-7878  <SOCON 231 7878>


>-- Executive Summary

 1) Source Code to Xmol is not available (to the best of my knowledge).  It
    was only distributed via executable code.  I (for one) wish one of the
    commerical software vendors would investigate the possibility of
    distributing a working copy of Xmol.  As far as I know, MSC has no plans
    for it beyond what is on their web site now.
    (Hint, Hint, Knudge, Knudge, Wink, Wink - Know what I mean?)

 2) Suggested Replacements
    a) VMD      - http://www.ks.uiuc.edu/Research/vmd/
    b) MOLDEN   - http://www.caos.kun.nl/~schaft/molden/molden.html
    c) Chime    - http://www.mdli.com/chemscape
    d) gOpenMol - http://laaksonen.csc.fi/gopenmol/gopenmol.htmls


>-- Response

*> Hi again Joe.  I don't use Xmol, but would the MOLDEN program do what
*> you need?  I use it to visualize geometry optimizations, vibrational
*> frequencies, and orbitals from Gaussian and sometimes GAMESS.  It's
*> free and has a web page:
*> http://www.caos.kun.nl/~schaft/molden/molden.html
*>
*> Good luck!
*>
*> ----------------------------------------------
*> Dr. Karl K. Irikura
*> Physical and Chemical Properties Division
*> National Institute of Standards and Technology
*> Gaithersburg, MD  20899
*> voice: 301-975-2510	fax: 301-975-3670
*> e-mail: karl.irikura@nist.gov
*> ----------------------------------------------

>-- Response

*> try using Chime as a plugin of a web page. It allows animations.
*> You only will have to set up a web page to do the embedding.
*>
*> Chemscape Chime is free downloadable from http://www.mdli.com/chemscape
*>
*> Rene P.F. Kanters
*> Chemistry Project Specialist
*> Chemistry Department
*> University of Richmond VA 23173
*>
*> phone: (804) 287-6873
*> email: rkanters@richmond.edu
*> www:   http://www.richmond.edu/~rkanters
*>        http://www.science.richmond.edu/~kanters

>-- Response

*> You might want to try VMD, just released to the public on Mar 25. It's
*> homepage is http://www.ks.uiuc.edu/Research/vmd/
*>
*> David E. Reichert, Ph.D.
*> Mallinckrodt Inst. of Radiology
*> Div. Radiation Sciences
*> phone: (314)362-8461
*> fax: (314)362-9940
*> e-mail: reichertd@mirlink.wustl.edu

>-- Response

*> I use vmd to display dynamics (results from MD and normal modes).
*> I think vmd can use Xmol's xyz files, however I never tried that.
*> Instead, I wrote a little program that generates dcd files that
*> vmd can read. You are welcome to have it, if you want.
*> I found that vmd makes very fast and very pretty animation.
*> I you don't know where to find vmd on the net, I cal dig it up for you.
*>
*> Hope that helps,   Gert
*>
*> Gert von Helden
*> Dept. of molecular and Laser Physics, University of Nijmegen, Netherlands
*> e-mail: gertvh@sci.kun.nl, phone: (+31) 24 3652179, fax: (+31) 24 3653311

>-- Response

*> Did you tried the molden software ?
*> I use it on IRIX6.2 but you should have gaussian output.
*> Is it your case
*>
*> Dorothee Berthomieu
*> **************************************************
*> Laboratoire des Materiaux et Procedes Membranaires
*> UMR CNRS 5635
*> Ecole Nationale Superieure de Chimie de Montpellier
*> 8, rue de l'Ecole Normale
*> 34296 MONTPELLIER cedex 5
*> Tel : (33) 467 14 43 40
*> Telecopie :   (33) 467 14 43 47
*> email : bertho@crit1.univ-montp2.fr
*> http://www.dr13.cnrs.fr/lmpm/fequ.html#DEPOCVD

>-- Response

*> Have you tried MolDen?  It can read various file types (e.g. Gaussian
*> output) and animate things like structures and vibrational modes.
*>
*> Nick
*>
*> ============================================================================
*>   Nicholas A. Nystrom, Ph.D.              Pittsburgh Supercomputing Center
*>   Scientific Specialist                   Mellon Institute Building
*>   email: nystrom@psc.edu                  4400 Fifth Avenue
*>   voice: +1 412-268-1592 fax: -5832       Pittsburgh, PA  15213    USA
*> ============================================================================

>-- Response

*>         Can't you get the xmol source code? All you should
*>   need to do is to rebuild the executable. If the program
*>   is being distributed form an academic center, I would
*>   be surprised if they would not hand out the source.
*>
*>        Good luck,
*>
*>        Randy
*>
*> All opinions expressed here are mine, not my employer's
*>
*> /////////////////////////////////////////////////////////////////////////
*> \\ Randy J. Zauhar, PhD             | E-mail: zauhar@tripos.com        //
*> \\ Tripos, Inc.                     |       : zauhar@fastrans.net      //
*> \\ 1699 S. Hanley Rd., Suite 303    |  Phone: (314) 647-1099 Ext. 3382 //
*> \\ St. Louis, MO 63144              |                                  //
*> /////////////////////////////////////////////////////////////////////////
*> **                                                                     **
*> **  "If you have conceptions of things that you can have no conception **
*> **   of, then the conception and the thing appear to co-incide."       **
*> **   --- C.G. Jung                                                     **
*> *************************************************************************

>-- Response

*> Joe, I assume the source for XMol was never distributed?  Does anybody own
*> it currently?  If they're not going to make a new distribution, what's
*> happening to the program?
*>
*> All that's required is a recompile on an appropriate SGI...
*>
*> Joe
*>
*> --
*>
*> Joe Leonard                       Phone: +1 314 647 8837 x3204
*> Tripos, Inc.                      Fax:   +1 314 647 9241
*> 1699 S. Hanley Rd.                email: jle@tripos.com
*> St. Louis, MO 63144 USA           after-hours: jle@world.std.com

>-- Response

*> We went through exactly the same process. We're presently using the package
*> VMD. You can obtain a copy via http://www.ks.uiuc.edu/Research/vmd/ . It can
*> read in multi-frame XYZ files. Might be worth a try....
*>
*> Regards,
*> Mike
*>
*> -------------------------------------------------------------------
*> |    Mike Fearn,              Tel : UK (01684) 896536             |
*> |    Room PA101,	      Fax : UK (01684) 896150             |
*> |    D.R.A, Malvern,                                              |
*> |    Worcs. WR14 3PS          Email : hp003@dra.hmg.gb            |
*> -------------------------------------------------------------------

>-- Response

*> There are certainly a lot of options. Let me suggest one further:
*>
*> The gOpenMol program at:
*>
*> http://laaksonen.csc.fi/gopenmol/gopenmol.htmls
*>
*> Regards,
*>
*> -leif laaksonen
*>
*> -------------------------------------------------------------------
*> Leif Laaksonen                     |
*> Center for Scientific Computing    | Phone:      358 9 4572378
*> P.O. Box 405                       | Mobile:     358 400425203
*> FIN-02101 Espoo                    | Telefax:    358 9 4572302
*> FINLAND                            | Mail:  Leif.Laaksonen@csc.fi
*> -------- URL: http://laaksonen.csc.fi/leif.laaksonen.html ---------

>-- Response

*>    This seems to be a common question lately as more and more
*> people upgrade to 6.x .  You might want to look at our visualization
*> program, VMD, at http://www.ks.uiuc.edu/Research/vmd/ .  It was
*> developed for, amoung other things, the visualization of MD
*> trajectories.
*>
*>   I doesn't read XYZ files directly, but if you have Babel
*> installed (http://mercury.aichem.arizona.edu/babel.html) it VMD
*> will call it and to the conversion to a set of PDB files automatically,
*> then read them in.  To the user, you wouldn't even notice the exchange.
*>
*> 						Andrew
*> 						dalke@ks.uiuc.edu

-- 

:Joe
 jtgolab@amoco.com
 (630) 961-7878  <SOCON 231 7878>

 +---------------------------------------------------+
 | I bet the sparrow looks at the parrot and thinks, |
 | yes, you can talk, but LISTEN TO YOURSELF!        |
 |                                     - Jack Handey |
 +---------------------------------------------------+
--MimeMultipartBoundary--

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Date: Thu, 3 Apr 1997 16:23:24 -0500
To: CHEMISTRY@ccl.net
Subject: Comp. Chem. Reception at ACS in San Francisco
Cc: chaka@lubrizol.com




                  RECEPTION ANNOUNCEMENT

INDUSTRIAL APPLICATIONS OF COMPUTATIONAL CHEMISTRY RECEPTION 

    American Chemical Society Meeting in San Francisco

                Sunday evening, 6 - 9 pm
                    April 13, 1997
                      ANA Hotel
                 Metropolitan I Suite

      "Bring Your Unsolved Problems to the Experts"


At the reception there will be an opportunity to informally present a 
poster and/or 2 minute oral presentation about an unsolved problem
you wish to discuss with your colleagues.  Then mingle with the experts
from industry and academia and enjoy the refreshments!


***********************************************************************
            RECEPTION AND SYMPOSIUM ARE SPONSORED BY

                      IBM CORPORATION

                 MOLECULAR SIMULATIONS, INC.
***********************************************************************

For more information, please contact the organizers:

Anne Chaka                   Rick Ross
The Lubrizol Corp.           PPG Industries
chaka@lubrizol.com           rbross@ppg.com
216-943-1200 x2027           412-492-5359


************SYMPOSIUM TECHNICAL PROGRAM************************

The Symposium on Industrial Applications of Computational Chemistry in the Computers 
in Chemistry Division comprises seven sessions from Sunday morning, April 13, through 
Wedensday morning, April 16.   The sessions are as follows:
       Materials Properties
       Polymers
       Catalysis
       Automotive, Coatings, and the Petroleum Industry
       Molecular Properties
       Process Simulation
       Solvation and Surfactants




Sunday Morning
       Industrial Applications of Computational Chemistry:  Materials Properties
       Moscone Center Room 123, Exhibit Level

       9:00--22. Computational materials science applications at the Hughes Research 
Laboratories. M. F.
       Gyure, R. N. Schwartz .  Hughes Research Labs
       9:30--23. Glass-densification under 193-nm laser exposure:Experiment and theory. D. 
C. Allan, C.
       Smith, N. F. Borrelli, T. P. Seward III .  Corning Incorporated
       10:00--24. Industrial applications of polymorph prediction. F. J. Leusen 
       10:30--25. Local density-functional theory study of paramagnetic ion-doped BaLiF3 
for information
       storage applications. F. Tsobnang, I. Lado, A. Le Mhaut, J. C. Fayet .  Universite du 
Maine
       11:00--26. Industrial applications of computational materials science:Current status and 
future directions.
       S. J. Mumby .  Molecular Simulations
       11:30--27. A framework for approaching industrial problems by molecular simulation. 
J. M. Newsam.  Molecular Simulations

       Sunday Afternoon
       Industrial Applications of Computational Chemistry:  Polymers
       Moscone Center Room 123, Exhibit Level

       1:30--48. Molecular modeling of polymers. S. H. Jacobson.  Hoechst Celanese
       2:00--49. Applications of molecular dynamics to the study of thermal degradation in 
polymers. M. R.
       Nyden. NIST
       2:30--50. Prediction of stress-strain curves of semicrystalline polymers with rubbery 
amorphous phase. J.
       Bicerano, N. Grant, J. Seitz, K. Pant, Dow Chemical
       3:00--51. Physical properties of PEN by amorphous cell simulation. J. M. O'Reilly, 
D. R. Perchak.  Eastman Kodak.
       3:30--52. Acyl and alkyl attack in the imidization reaction of poly(methyl methacrylate) 
(PMMA):A
       computational study. S. Fitzwater.  Rohm and Haas 
       4:00--53. Rational design of next generation polycarbonates. C. W. Ulmer II, D. A. 
Smith, N. Teich,
       K. Miaskiewicz, P. Nagy, B. G. Sumpter, D. W. Noid.  The DAS Group
       4:30--54. Density functional study of initiators for polymerization of -caprolactones. 
P. W-C. Kung,
       N. Tanpipat, J. Andzelm.  Molecular Simulations

Sunday Evening Reception 6:00-9:00 pm
Industrial Applications of Computational Chemistry Reception
RBring Your Unsolved or Almost Solved Problems to the ExpertsS
Optional Informal Poster and/or 2 minute oral presentation for your topic, then mingle with 
the experts and enjoy the refreshments


       Monday Morning
       Industrial Applications of Computational Chemistry:  Catalysis
       Moscone Center Room 120, Exhibit Level

       9:00--65. A computational study of the nature of Ti(IV) active sites in mesoporous 
titanosilicate catalysts.
       P. E. Sinclair, C. R. A. Catlow, G. Sankar, J. M. Thomas, T. Maschmeyer.  The 
Royal Institution of Great Britain.
       9:30--66. Activation of carbon-hydrogen bonds at transition-metal surfaces. S. 
Clemendot, C. Guerra,
       Z. Liu, J. Harris 
       10:00--67. Modeling of homogeneous catalysis by density-functional molecular 
dynamics. P. M. Margl,
       T. K. Woo, L. Deng, T. Ziegler, P. E. Bl&umlochl 
       10:30--68. Combined quantum mechanical/molecular mechanics (QM/MM) studies of 
homogeneous
       catalysis: Static and ab initio molecular dynamics investigations. T. K. Woo, P. M. 
Margl, L. Deng, T.
       Ziegler 
       11:00--69. Catalysts and sorbents:Industrial modeling applications and opportunities. 
C. M. Freeman,
       A. M. Gorman, C. M. K&umlolmel 
       11:30--70. New reactors based on heat-tense catalytic surfaces. V. I. Anikeev, N. A. 
Kuzin, A. V.
       Gudkov 

       Monday Afternoon
       Industrial Applications of Computational Chemistry:  Automotive, Coatings, and 
Petroleum
       Moscone Center Room 130, Exhibit Level

       1:30--104. Universal behavior in adhesion. J. R. Smith 
       2:00--105. Theoretical results on the mechanism of catalytic NO decomposition over 
Cu zeolites. W. F.
       Schneider, K. C. Hass, R. Ramprasad, J. B. Adams 
       2:30--106. Computational studies of the photochemistry of benzotriazole UV 
stabilizers. K. C. Hass,
       W. F. Schneider, C. M. Estevez, R. D. Bach 
       3:00--107. Theoretical study of the reaction of the chlorine atom with hydrocarbons. 
A. M. Chaka 
       3:30--108. Computational chemistry applications in an industrial coatings research 
laboratory. R. B.
       Ross 
       4:00--109. A joint QSAR project between LZ and Purdue University employing neural 
networks and first
       principles modeling. D. T. Daly, A. M. Chaka, V. Venkatasubramanian, A. 
Sundarum, J. Carruthers 
       4:30--110. Thermodynamical study of factors influencing polysulfides C-S and S-S 
bonds heterolytic scissions,  Presulfiding agents  for the oil refinery industry.
 J. Joffre, C. Moreau, J. C. Duchet, J. Leglise 

       Tuesday Morning
       Industrial Applications of Computational Chemistry:  Molecular Properties
       Moscone Center Room 130, Exhibit Level

       9:00--144. High-performance electronic structure methods: Practicable techniques. G. 
Fitzgerald 
       9:45--145. Accurate thermochemistry:The parameterized multireference perturbation 
PMPx approach. M.
       Dupuis, K. Hirao, M. Yamanishi 
       10:15--146. Theoretical insight into the scaling of third-order nonlinear optical 
properties for polyenes and
       cyanines. B. M. Pierce 
       10:45--147. Binding energy calculations of HIV-2 protease inhibitors. P. H. Lee, G. 
M. Maggiora, W.
       J. Howe, K. W. Watenpaugh, P. K. Tomich, B. Honig 
       11:15--148. Experimental and theoretical studies of LED-compatible fluorogenic K+ 
sensing molecules.
       S-H. Chou, J. G. Bentsen, E. M. Cross, C. C. Nagel, J. E. Trend 

       Tuesday Afternoon
       Industrial Applications of Computational Chemistry:  Process Simulation
       Moscone Center Room 110, Exhibit Level

       2:00--173. Industrial applications of modeling. N. Quirke 
       2:45--174. Making better technical business decisions with chemistry modeling. J. T. 
Golab, M. R.
       Green 
       3:15--175. Calculating chemical reaction equilibria using the reaction ensemble 
method. W. R. Smith, I.
       Nezbeda, M. Strnad 
       3:45--176. Kinetic parameters for hydrocarbon conversion reactions. J. K. Perry, W. 
A. Goddard III,
       A. Patel, N. Reynolds, J. Shinn, R. Frazier 
       4:15--177. Kinetic theory of transport in molecular sieve catalysts. S. M. Auerbach 
       4:45--178. Mathematical modeling of gas-phase catalytic copolymerization of 
propylene with ethylene in a
       system with two reactors. V. I. Anikeev 

       Wednesday Morning
       Industrial Applications of Computational Chemistry:  Solvation and Surfactants
       Moscone Center Room 110, Exhibit Level

       9:00--296. Mesoscale dynamics of polymer surfactant solutions. J. G. E. M Fraaije, 
B. A. C. van
       Vlimmeren, N. M. Maurits 
       9:30--297. Correlation modeling of surfactants and surface active molecules in 
solution. M. J. Doyle, D.
       Rogers 
       10:00--298. Direct methods for calculating lipophilicity:Application to industrial 
chemicals. S. A. Best, K.
       M. Merz Jr., C. H. Reynolds 
       10:30--299. Molecular modeling studies of solvent solubility parameters and their 
components. D. Rigby

       11:00--300. Parameterization and validation of atomic nonbonded parameters. H. Sun 
       11:30--301. Materials modeling on the corporate intranet. J. D. Honeycutt 



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Subject: CCL-Temperature Calculation
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Mail*Link=AE SMTP               CCL:Temperature Calculations

Dear Netters,

I am interested in obtaining Rotational and Vibrational=20
temperature calculations on spherical top molecules. Can anyone=20
provide any info as to what programs are available?...


Many Thanks
Magan









______________________________________________________________________

M.G. Govender
Centre for Theoretical, Computational Chemistry and Vibrational
Spectrscopy.
Dept of Chemistry & Applied Chemistry
University of Natal
Private Bag x10
Dalbridge
Durban                             =20
South Africa                                                         =20
  =20
Phone: +27 - 31 - 2601102

email : govendem@che.und.ac.za
        govendem@lourie.und.ac.za
        govendem@hoopoe.und.ac.za
       =20
       =20
        oo^o0ooo             ooo0ooo             ooo0ooo
       =20
______________________________________________________________________

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From: "csg admin" <csg.admin@amgen.com>
Subject: CCL-G-Gaussian94
To: "David De Corte" <david.decorte@unifr.ch>
Cc: chemistry@www.ccl.net
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Mail*Link=AE SMTP               CCL:G:Gaussian94

I had the same problem and found that it can be solved by using
a)opt=3Dz-matrix and b)puting "S steps step-size" after the the initial
value of the variables being scanned.=20

****************************************
Xiaofeng Duan, Ph.D
WL/MLBP, Bldg. 654
2941 P St. Ste. 1
Wright-Patterson AFB, OH 45433
(513)255-9164
duanx@Picard.ml.wpafb.af.mil
****************************************

On Thu, 3 Apr 1997, David De Corte wrote:

> Hello,=20
>=20
> I've got a small g94 problem. When doing a Scan=3DOpt calculation, the
> calculation stops after the first optimisation and does not perform a
> scan....No error messages are listed... Does anybody know how to preven=
t
> this problem?
> Kind regards,
> 				David
> --=20
> David De Corte			=09
> Institute of Inorganic Chemistry	Tel: 0041-26-300.87.52(49)
> University Fribourg			Fax: 0041-26-300.97.38
> CH-1700 Switzerland			mailto:David.Decorte@unifr.ch
> http://www.unifr.ch/
>=20
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>=20
>=20

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