From XIANZ@ASUCHM.LA.ASU.EDU  Fri May 13 00:53:53 1994
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From: <XIANZ@ASUCHM.LA.ASU.EDU>
Date: Thu, 12 May 1994 21:11:54 -0700 (MST)
To: chemistry@ccl.net
Message-Id: <940512211154.3f63@ASUCHM.LA.ASU.EDU>
Subject: Erroneous write when running Gaussian 92


Hi,
	I got a problem with running Gaussian 92 on RS6k. The following 
is the part of the output. Is there anyone who had such a problem or 
could give me some sugestions to overcome it? Thank you in advance!

------------------------------------------------------------------
 Integral buffers will be    262144 words long.
 Raffenetti 1 integral format.
 Two-electron integral symmetry is turned on.
   154 basis functions      304 primitive gaussians
    44 alpha electrons       44 beta electrons
       nuclear repulsion energy       748.7087906731 Hartrees.
 One-electron integrals computed using PRISM.
 The smallest eigenvalue of the overlap matrix is  1.440D-03
 DipDrv:  MaxL=4.
 DipDrv:  will hold 34 matrices at once.
 Out2e will use a cutoff of  1.00D-10
 Standard cutoffs selected in Shell.
      8744872 integrals produced for a total of      8744872.
 SHELL:  FMTGEN WAS CALLED   484606 TIMES.
 Enter DskHGP, NBasis= 154.
 Generating unsorted Raff 1 combos
 Use symmetry via Dacre-Elder procedure.
 NGot=     2000000 Memory for HGP=     1858928 Memory for Sort=           0.
 Out2e will use a cutoff of  1.00D-10
Erroneous write. write 471040 instead of 1048576.
fd = 6
---------------------------------------------------------------------

X Gu
Department of chemistry
Arizona State University
xianz@asuchm.la.asu.edu

From young@semi.korea.ac.kr  Fri May 13 03:53:55 1994
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From: young@semi.korea.ac.kr (Hyun Su Kim)
Message-Id: <9405130617.AA01594@semi.korea.ac.kr>
Subject: MD simulation discussion mate!
To: chemistry@ccl.net
Date: Fri, 13 May 94 16:17:07 GMT+9:00
X-Mailer: ELM [version 2.4dev PL32]



Dear Netters,

I want to get the E-mail list of following subject. 
subject: 

   1. Molecular Dynamic simulation (program also)
   2. Mote Carlo simulation        (program also)

Please send me the list.
I want to know also the FTP sites which have public simulation
program and its source code.
It was so difficult to find it myself, so I decide to write this mail. 
-----------------------------------------------------------------------
Notice:

I am searching discussion mate about above subject.
Please send me mail, if you want.

-----------------------------------------------------------------------
Real name: Hyun Su, Kim
Address  : Korea University graduate school, 
           anam dong, songbuk gu, Seoul, Korea
E-mail   : young@semi.korea.ac.kr
-----------------------------------------------------------------------
 

From chp1aa@surrey.ac.uk  Fri May 13 07:53:58 1994
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From: Mr Andrew D Allen <chp1aa@surrey.ac.uk>
Message-Id: <9405131105.AA27505@central.surrey.ac.uk>
Subject: Heats of formation from Molecular Mechanics
To: chemistry@ccl.net
Date: Fri, 13 May 94 12:05:50 BST
Mailer: Elm [revision: 70.85]


A colleague of mine is doing a series of studies on some molecules and wants
to obtain a value of Heat of Formation from steric / strain energies from 
molecular mechanics methods. She doesn't want to spend expensive time and
resources doing Semi-empirical work for these molecules.

Any help or pointers welcome

Andy
--
###############################################################################
Structural and Computation Chemistry Group_________chp1aa@uk.ac.surrey - JANET.
Department of Chemistry____________________________phone_______+44(483)-259591.
University of Surrey_______________________________fax_________+44(483)-300803.
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From sverdlik@trinity.tc.cornell.edu  Fri May 13 08:53:59 1994
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Message-Id: <9405131250.AA40926@trinity.tc.cornell.edu>
To: <XIANZ@ASUCHM.LA.ASU.EDU>
Subject: Re: CCL:Erroneous write when running Gaussian 92 
In-Reply-To: Your message of "Thu, 12 May 94 21:11:54 PDT."
             <940512211154.3f63@ASUCHM.LA.ASU.EDU> 
Reply-To: Daniel Ira Sverdlik <sverdlik@tc.cornell.edu>
Cc: chemistry@ccl.net, Daniel Sverdlik <sverdlik@tc.cornell.edu>
Return-Receipt-To: sverdlik@tc.cornell.edu
Date: Fri, 13 May 94 08:50:10 -0400
From: Daniel Ira Sverdlik <sverdlik@trinity.tc.cornell.edu>


Typically the erroneous write error message indicates that you have run out of
disk space.  

Daniel Ira Sverdlik
Technical Consultant, Cornell Theory Center
--------
> Hi,
> 	I got a problem with running Gaussian 92 on RS6k. The following 
> is the part of the output. Is there anyone who had such a problem or 
> could give me some sugestions to overcome it? Thank you in advance!
> 
> ------------------------------------------------------------------
>  Integral buffers will be    262144 words long.
>  Raffenetti 1 integral format.
>  Two-electron integral symmetry is turned on.
>    154 basis functions      304 primitive gaussians
>     44 alpha electrons       44 beta electrons
>        nuclear repulsion energy       748.7087906731 Hartrees.
>  One-electron integrals computed using PRISM.
>  The smallest eigenvalue of the overlap matrix is  1.440D-03
>  DipDrv:  MaxL=4.
>  DipDrv:  will hold 34 matrices at once.
>  Out2e will use a cutoff of  1.00D-10
>  Standard cutoffs selected in Shell.
>       8744872 integrals produced for a total of      8744872.
>  SHELL:  FMTGEN WAS CALLED   484606 TIMES.
>  Enter DskHGP, NBasis= 154.
>  Generating unsorted Raff 1 combos
>  Use symmetry via Dacre-Elder procedure.
>  NGot=     2000000 Memory for HGP=     1858928 Memory for Sort=           0.
>  Out2e will use a cutoff of  1.00D-10
> Erroneous write. write 471040 instead of 1048576.
> fd = 6
> ---------------------------------------------------------------------
> 
> X Gu
> Department of chemistry
> Arizona State University
> xianz@asuchm.la.asu.edu
> 

From vijaya@chem.psu.edu  Fri May 13 10:54:07 1994
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Date: 	Fri, 13 May 1994 10:12:52 -0400
From: "Vijaya Kumar Pidugu" <vijaya@chem.psu.edu>
Message-Id: <9405131412.AA03555@felix.chem.psu.edu>
To: chemistry@ccl.net
Subject: zeolite


Hi,
Is there an ftp site to obtain the geometries of zeolites. 
I need the coordinates of the atoms.
Thanks
vijaya@chem.psu.edu

From system@alchemy.chem.utoronto.ca  Fri May 13 11:22:37 1994
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Date: Fri, 13 May 1994 10:05:33 -0400
From: System Admin (Mike Peterson) <system@alchemy.chem.utoronto.ca>
Message-Id: <199405131405.KAA25505@alchemy.chem.utoronto.ca>
To: chemistry@ccl.net
Subject: Re: CCL:Erroneous write when running Gaussian 92


This error is almost always caused by the disk filling up (no free space).
First thing to try is to use 'scf=direct' if you can. You can try
moving /g92/scratch to a disk with more disk space, or split your
%rwf/%int files between disks by giving them explicit names,
or you may have to buy a big disk to run large G92 calculations.

Mike.

From bbesler@ouchem.chem.oakland.edu  Fri May 13 11:55:17 1994
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Date: Fri, 13 May 94 11:46:15 -0400
From: bbesler@ouchem.chem.oakland.edu (Brent H. Besler)
Message-Id: <9405131546.AA02946@ouchem.chem.oakland.edu>
To: chemistry@ccl.net
Subject: I/O and Gaussian 9x


I am working with Dr. H. B. Schlegel at Wayne State University to configure
and optimal system for doing Gaussian 9x calculations on IBM RS/6000's 
The program is highly I/O limited on post-SCF calculations such as 
QCISD, MP4, etc.  We have tried creating a logical volume on two SCSI-2 disks o
with separate controllers vs. a single disk.  This should pseud-stripe
the disk I/O.  However I find that the wall time is slightly lengthened,
probably due to the logical volume manager overhead.  We find that 
on the RS/6000's any RAM which is not being used by processes or the 
kernel is used as a large disk cache.  I/O so far has only been improved
by going to large RAM configuration like 256 Mbytes.  I would like to 
try the following, and wonder if anyone on the net has tried with Gaussian
or other ab initio codes on I/O bound jobs:

1. Using a level 0 RAID with Fast-Wide SCSI II disks(a Segate Barrcuda drive
or the like).

2.  I/O across a FDDI ring or ATM 100 MBPS network to a "disk farm"?

From JARZECAA@ctrvax.Vanderbilt.Edu  Fri May 13 12:54:04 1994
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 13 May 1994 10:57:03 CDT
Date: Fri, 13 May 1994 10:57:03 -0500 (CDT)
Subject: the CISD in Gaussian 92
To: chemistry@ccl.net
Message-id: <01HCADS0LKHE8XQUNJ@ctrvax.Vanderbilt.Edu>
X-VMS-To: IN%"chemistry@ccl.net"
MIME-version: 1.0
Content-transfer-encoding: 7BIT



	Dear Netters,

        Does anyone know how to do the CISD calculations in Gaussian
92 for a singlet state based on UHF?  It must be UHF or some other methods
because the value of S^2 for my singlet is not equal to zero.
       
        Any suggestions are pleased to see.
 
        Thank You for your time and help. 


                             A.A.J.

*****************************************
Andrzej A. Jarzecki			
Vanderbilt University				
Department of Chemistry 
Nashville, TN 37235.

Telenone: 615-322-7324
e-mail: Jarzecaa@Ctrvax.Vanderbilt.Edu
*****************************************

From fh@oberon.qc.ag-berlin.mpg.de  Fri May 13 13:00:25 1994
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          id AA20979; Fri, 13 May 1994 18:13:29 +0200
From: fh@oberon.qc.ag-berlin.mpg.de (Frank Haase)
Message-Id: <9405131613.AA20979@oberon.qc.ag-berlin.mpg.de>
Subject: Schaefer-Horn-Ahlrichs basis sets
To: chemistry@ccl.net
Date: Fri, 13 May 1994 18:13:29 +0200 (MESZ)
X-Mailer: ELM [version 2.4 PL22]
Content-Type: text
Content-Length: 1249      


hi carlo !

the internet number of the ftp site in karlsruhe has changed. the new number
is         129.13.107.186     (tchibm3.chemie.uni-karlsruhe.de)
the remaining coordinates are still o.k. i.e. anonymous id and directory
pub/basis .

frank haase
--------------------------------------------------------------------------------
                                Max-Planck Gesellschaft
                                Quantum chemistry group at the
                                Humboldt University Berlin     
                                D-10117 Berlin                           
                                Jaeger Str. 10/11  
                                Germany
                                E-mail: fh@oberon.qc.ag-berlin.mpg.de
--------------------------------------------------------------------------------
      No RISC, no fun !
--------------------------------------------------------------------------------
Every program has at least one bug and can be shortened by at least one
instruction - from which, by induction, one can deduce that every program
can be reduced to one instruction THAT DOESN'T WORK.

(unknown TURBOMOLE programmer)
--------------------------------------------------------------------------------

From combariz@rouge.phys.lsu.edu  Fri May 13 13:55:18 1994
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Date: Fri, 13 May 94 12:40:03 CDT
From: combariz@rouge.phys.lsu.edu (Jaime Combariza)
Message-Id: <9405131740.AA11494@rouge.phys.lsu.edu>
To: chemistry@ccl.net
Subject: Gaussian run help!


	

Hi all!

I am trying to run gaussian92 on a system consisting of 7 Na atoms
plus four `dummy' centers (not on the atoms). This is an open shell
system (multiplicity=2). When I run this using rohf I get the scf
to converge. However, the uhf DOES NOT converge at all. I have tried just
about every way to improve (force) convergence with no luck.

1 - read rohf guess for the UHF run ------> X
2 - read cation guess (singlet uhf) ------> X
3 - read anion guess (singlet uhf)  ------> X
4 - read highly positive cation guess +5 -> X
5 - used vshift, qc and others -----------> X

If I use iop(5/32=1) the run converges on the energy to ~ 3x10**-5 but
the RMSDP and MAXDP converge to less than 10**-2. HOW reliable
is this energy?

I am trying to do CI and G92 uses the uhf wavefunctions to do this.

Any help, hints will be greatly appreciated.

Jaime E. Combariza

From fh@oberon.qc.ag-berlin.mpg.de  Fri May 13 13:59:36 1994
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From: fh@oberon.qc.ag-berlin.mpg.de (Frank Haase)
Message-Id: <9405131710.AA11824@oberon.qc.ag-berlin.mpg.de>
Subject: I/O and Gaussian 9x
To: chemistry@ccl.net (ccl)
Date: Fri, 13 May 1994 19:10:20 +0200 (MESZ)
X-Mailer: ELM [version 2.4 PL22]
Content-Type: text
Content-Length: 1042      



I dont have much experience with G9x and I/O but let me comment on the two
points raised by you.

1) so far SCSI 2 fast-wide was not available for RS/6000 boxes - but i heard
in some weeks it will be announced by IBM.

2) if you do I/O to remote disks over FDDI it is extremely important to 
tune your net-performance because only crude standard settings are in the
configuration. One can write a small test program that writes several 100 MB
on a remote disk and can analyze the net performance with the nice monitor
program (version 1.11 is recommended). There are several settings to be 
optimized but two important are i) the socket default buffer size 
( see the tcp_sendspace,tcp_recvspace settings in rc.net) which is
set to 16K and may be a good value for ethernet but FDDI has a different 
optimum and ii)  number of blocked I/O daemons (biod-proccesses) which are 
usually set to 6. The optimum values depend from your local FDDI implementation
and should be found by a series of tests to reach the optimum net performance.

frank

From h.rzepa@ic.ac.uk  Fri May 13 14:03:07 1994
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Date: Fri, 13 May 1994 18:31:55 +0100
To: CHEMISTRY@ccl.net
From: h.rzepa@ic.ac.uk (Henry Rzepa) (Henry Rzepa)
Subject: Concurrent electronic (www) and journal publishing: A Copyright problem


As more and more material associated with papers gets mounted on
ftp, gopher and now www servers, the copyright has become an
interesting issue. We have received some guidance from Butterworth-
Heinemann which I pass on here without comment in the hope that
it may clarify how we may proceed.

We have now inserted the following statement at the top of this paper;

http://www.ch.ic.ac.uk/jmg/CRG.html

The publisher of J. Mol. Graphics , Butterworth-Heineman have asked the
authors of this paper to clearly indicate the nature of the copyright
associated with this article. They do not object to the paper being mounted
in this form, but have asked that it be removed from the World-Wide-Webb
once the article is published by Butterworth-Heinemann. They have asked
that after this date, a statement to the effect that copyright would now
had been transferred to the publisher as a result of publication of the
paper in the journal, and that any further request for electrocopying and
electrostorage should be referred to the publisher. We are given to
understand that publication will occur in approximately June 1994.

I should emphasise that this is the policy of a particular publisher. Others
may have different policies.

Of course in due course, it will be interesting to see what the relative
readership of the WWW and the printed forms will be (assuming anybody
reads either!)


Dr Henry Rzepa, Dept. Chemistry, Imperial College, LONDON SW7 2AY;
rzepa@ic.ac.uk via Eudora 2.02, Tel:+44  71 225 8339, Fax:+44 71 589 3869.
>From June '94: (44) 171 584 5774, Fax: (44) 171 584 5804
http://www.ch.ic.ac.uk/rzepa.html




From bruce@dggpi2.chem.purdue.edu  Fri May 13 14:55:18 1994
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Date: Fri, 13 May 94 13:29:18 -0500
From: bruce@dggpi2.chem.purdue.edu (Bruce Luxon)
Message-Id: <9405131829.AA09867@dggpi2.chem.purdue.edu>
To: CHEMISTRY@ccl.net
Subject: Morass Software Update



-=-=-=-=--=-=-=-=-=-=-=-=-=  MORASS version 2.1  -=-=-=-=-=-=-=--=-=-=-=-=-

ANNOUNCING NEW MORASS SOFTWARE NOW AVAILABLE ON INTERNET -  May 13, 1994

o MORASS - Multiple Overhauser Relaxation AnalysiS and Simulation - uses
a full hybrid matrix eigenvalue/eigenvector solution to the Bloch equations
to derive cross-relaxation rates and interproton distances.

o MORASS analyzes 2D NMR NOESY data from oligonucleotides and proteins to 
evaluate cross-relaxation rates from which interproton distances are obtained.
These are output in a format suitable for use as distance constraints in 
molecular dynamics calculations.

o MORASS 2.1 will now produce output suitable for display using the graphics
package GRASP.  With GRASP, NOESY constraint differences are displayed
with a .pdb file as pair-wise interactions (constraint differences being the
difference between the theoretical NOESY derived interproton distances and
the distance calculated from the .pdb file). The constraint diffs are 
shown as color-coded cylinders between the two sites and the width of
the cylinders are proportional to the magnitude of the difference.

o GRASP modified to accept MORASS input is available from Dr. Anthony Nicholls
at Columbia Universiy (nicholls@cuhhca.hhmi.columbia.edu).

o MORASS 2.1 comes with new, complete and up to date documentation.

o Older MORASS input files should run error-free on version 2.1 .

o MORASS code compiles on SGI Irix 4.04 & 4.0.5H, IBM RS6000, DEC Ultrix & VAX.
It may compile on others but I'm personally not familiar with them.

MORASS IS AVAILABLE FROM -

1. FTP ANONYMOUS to dggpi2.chem.purdue.edu. Tar file is in /pub/morass.

2. GOPHER to www.ccl.net (Ohio Supercomputer Center, Ohio State U.)
   -> Software / Morass

3. GOPHER to nmrfam.wisc.edu (Univ. of Wisconsin, Madison)
   -> Other NMR Gopher Servers and NMR Software Sites / Morass

4. GOPHER to micro.ifas.ufl.edu (University of Florida, Gainsville)
   -> NMR Software / Morass

TO RUN MORASS YOU NEED TO GET -

o morass21.tar.Z  and

YOU MAY ALSO WISH TO GET -

o ../flatwell/flatwell.tar.Z - AMBER flatwell potential code
o cshift/cshift.tar.Z - Chemical shift routine
o ../util/util/tar.Z - AMBER and MORASS utilities
o testout/testout.tar.Z - output files from the test input

CONTENTS of .tar FILE INCLUDE -

o Source code in Fortran
o Makefiles for SGI, IBM RS6K and DEC Ultrix
o Documentation in LaTeX format (also in /docs)
o Sample input files
o Sample output files
o GRASP - MORASS .rgb sample files (also in /grasp)

Note that the DOCS and GRASP files are available separately as noted but
the .tar file contains EVERYTHING.

BRUCE
____________________________________________________________________________
|                                      |                                   |
|"You can't always get what you want,  | Dr. Bruce A. Luxon                |
|   But if you try sometimes,          | Chemistry Department              |
|     You just might find              | Purdue University                 |
|       You get what you need ..."     | W. Lafayette, IN  47907           |
|                                      | (317)494-5289; Fax (317)494-0239  |
|                         Mick Jagger  | bruce@dggpi2.chem.purdue.edu      |
|______________________________________|___________________________________|




From SBOESCH@aardvark.ucs.uoknor.edu  Fri May 13 16:54:04 1994
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From: <SBOESCH@aardvark.ucs.uoknor.edu>
Message-Id: <199405132004.QAA16522@www.ccl.net>
Date: Fri, 13 May 94 15:05 CDT
Subject: usr guide xmol
To: chemistry@ccl.net
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Dear Netters,

	Recently I was told that in order to get a copy of the user
	guide for Xmol, you need to use WWW.
	We currently do not have access to WWW.
	Does anyone know how to gain access or how to get a copy of the
	user guide for Xmol without using WWW.

	I appreciate the help.

	Scott E. Boesch
	Department of Chemistry & Biochemistry
	University of Oklahoma

From jkl@ccl.net  Fri May 13 17:02:05 1994
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From: Jan Labanowski <jkl@ccl.net>
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Date: Fri, 13 May 1994 16:15:39 -0400
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To: SBOESCH@aardvark.ucs.uoknor.edu
Subject: Re: usr guide xmol
In-Reply-To: Mail from '<SBOESCH@aardvark.ucs.uoknor.edu>'
      dated: Fri, 13 May 94 15:05 CDT
Cc: chemistry@ccl.net


Scott E. Boesch <SBOESCH@aardvark.ucs.uoknor.edu> writes:
> 	Recently I was told that in order to get a copy of the user
> 	guide for Xmol, you need to use WWW.

If you have WWW you can have it fancy. But the old ways still work for
me (even though I have Mosaic...).
  ftp ftp.msc.edu
  Name: anonymous
  Passwd: e-mail address
  ftp> cd pub/xmol
  ftp> binary
  ftp> get xmol.tar
  ftp> quit

Then do
  tar xvof xmol.tar 
and you have all the *.help and *.1, *.ps and *.ascii doc files which
you need.

Jan Labanowski
jkl@ccl.net


From news@nntp-server.caltech.edu  Fri May 13 20:54:10 1994
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From: hpritcha@cco.caltech.edu
Newsgroups: mlist.chemistry
Subject: GAMESS and the Cray-T3D
Date: 14 May 1994 00:17:41 GMT
Organization: caltech
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Hello again mlist.chemistry people!

I would be very interested in hearing from 
anyone who has been working on trying to get the GAMESS
code to run on a Cray T3D.

I know that some folks at PSC are trying to run
GAMESS on their T3D, but I don't think I have any specific
names or addresses.

Again, thanks for all the help last time with getting
the GAMESS code to go on a paragon.

Howard Pritchard                 |  Terra es,
818-395-6537                     |     terram ibis.
hpritcha@ccosun.caltech.edu      |

From JKONG@ac.dal.ca  Fri May 13 13:55:15 1994
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Date: Fri, 13 May 1994 14:18:55 -0300
From: JING KONG <JKONG@ac.dal.ca>
Subject: Geom. of excited states with DFT?
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Dear netters,

	A friend of mine is asking for the possibility of using DFT to 
optimize the strutures of exited states.  The molecule he is intersted 
in is p-N,N-diemthylaminobenzonitrile which has fluoresence.
 
	(Somehow I got such impression that DFT ( we use DeMon ) is much
slower than MP2, especially for geometry optimization. Is the analytical
gradient the reason or something else ? Please forgive me if this has been 
discussed.)

	Thanks!

Jing


