From owner-chemistry@ccl.net Sun Feb 8 00:43:00 2009 From: "Jiabo Li jiaboli ~~ yahoo.com" To: CCL Subject: CCL: GAMESS - "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT" Message-Id: <-38574-090207171013-6649-ms2tCdf7bPd03baA9xMP5g]~[server.ccl.net> X-Original-From: Jiabo Li Content-Type: multipart/alternative; boundary="0-926847040-1234040997=:47489" Date: Sat, 7 Feb 2009 13:09:57 -0800 (PST) MIME-Version: 1.0 Sent to CCL by: Jiabo Li [jiaboli _ yahoo.com] --0-926847040-1234040997=:47489 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: quoted-printable Hi Hui, =A0 I assume that you compiled GAMESS with GAMESSPLUS for SMx solvation model. = The message you got indicates that the scratch space needed for your calcul= ation is larger than the fixed scratch space for SMx calculations. The only= way to solve this problem is to modify the scratch space parameter the GAM= ESSPLUS source code and recompile it.=20 =A0 Here is the steps that you can try. =A0 1. Find the source file smx.src in the GAMESSPLUS package. 2. Do a global change of MAXWK=3D5500000 into MAXWK=3D110000000 in smx.src 3. Recompile the smx and relink gamess to create a new gamess executable. =A0 Please let me know if this solves your problem or not. =A0 Regards, =A0 Jiabo --- On Fri, 2/6/09, Yang, Hui hyang3{=3D}UTNet.UToledo.Edu wrote: > From: Yang, Hui hyang3{=3D}UTNet.UToledo.Edu Subject: CCL: GAMESS - "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT" To: "Li, Jiabo " Date: Friday, February 6, 2009, 12:54 PM Hi, I am trying to use GAMESS to calculate the solvation free energy of a biolo= gical system which has 584 electrons. Here is the error. ... =A0DIRECT SCF CALCULATION, SCHWRZ=3DT=A0=A0 FDIFF=3DF =A0 THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT =A0 MAX =3D=A0 5600000 REQUIRMENT =3D 10282931 =A0EXECUTION OF GAMESS TERMINATED ABNORMALLY AT Fri Feb=A0 6 15:08:45 2009 =A0STEP CPU TIME =3D=A0=A0=A0=A0=A0 .95 TOTAL CPU TIME =3D=A0=A0=A0=A0=A0 6= 74.0 (=A0=A0 11.2 MIN) =A0TOTAL WALL CLOCK TIME=3D=A0=A0=A0=A0=A0 675.2 SECONDS, CPU UTILIZATION I= S=A0 99.83% =A022548143 WORDS OF DYNAMIC MEMORY USED =A0*** ERROR TERMINATION *** IN COMPUTE PROCESS=A0=A0=A0=A0 0 ... And here is the header to my input file: =A0$CONTRL SCFTYP=3DRHF RUNTYP=3DENERGY ICHARG=3D0 =A0=A0=A0=A0=A0=A0=A0=A0 MAXIT=3D500 NPRINT=3D-5 EXETYP=3DRUN $END =A0$SYSTEM TIMLIM=3D6000 MWORDS=3D900 $END =A0$SCF DIRSCF=3D.TRUE. FDIFF=3D.FALSE. $END =A0$BASIS=A0 GBASIS=3DN31 NGAUSS=3D6 NDFUNC=3D1 =A0=A0=A0=A0=A0=A0=A0=A0 DIFFSP=3D.TRUE. POLAR=3DPOPLE $END =A0$GUESS=A0 GUESS=3DHUCKEL $END =A0$CM2 ISCRF=3D2 ICMD=3D8C1 =A0=A0=A0=A0=A0 IAQU=3D1 Dielec=3D78.0 =A0$END =A0$DATA =A0HF/6-31+G*C1 =A0C 6.0 45.984800 111.010300 25.847100 =A0...... Does anyone know what does "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT" mean?= And what is "MAX =3D=A0 5600000"? Thank you for your time. Hui --0-926847040-1234040997=:47489 Content-Type: text/html; charset=us-ascii
Hi Hui,
 
I assume that you compiled GAMESS with GAMESSPLUS for SMx solvation model. The message you got indicates that the scratch space needed for your calculation is larger than the fixed scratch space for SMx calculations. The only way to solve this problem is to modify the scratch space parameter the GAMESSPLUS source code and recompile it.
 
Here is the steps that you can try.
 
1. Find the source file smx.src in the GAMESSPLUS package.
2. Do a global change of MAXWK=5500000 into MAXWK=110000000 in smx.src
3. Recompile the smx and relink gamess to create a new gamess executable.
 
Please let me know if this solves your problem or not.
 
Regards,
 
Jiabo

--- On Fri, 2/6/09, Yang, Hui hyang3{=}UTNet.UToledo.Edu <owner-chemistry]^[ccl.net> wrote:
From: Yang, Hui hyang3{=}UTNet.UToledo.Edu <owner-chemistry]^[ccl.net>
Subject: CCL: GAMESS - "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT"
To: "Li, Jiabo " <jiaboli]^[yahoo.com>
Date: Friday, February 6, 2009, 12:54 PM

Hi,

I am trying to use GAMESS to calculate the solvation free energy of a biological system which has 584 electrons.

Here is the error.

...
 DIRECT SCF CALCULATION, SCHWRZ=T   FDIFF=F
  THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT
  MAX =  5600000 REQUIRMENT = 10282931
 EXECUTION OF GAMESS TERMINATED ABNORMALLY AT Fri Feb  6 15:08:45 2009
 STEP CPU TIME =      .95 TOTAL CPU TIME =      674.0 (   11.2 MIN)
 TOTAL WALL CLOCK TIME=      675.2 SECONDS, CPU UTILIZATION IS  99.83%
 22548143 WORDS OF DYNAMIC MEMORY USED
 *** ERROR TERMINATION *** IN COMPUTE PROCESS     0
...

And here is the header to my input file:
 $CONTRL SCFTYP=RHF RUNTYP=ENERGY ICHARG=0
         MAXIT=500 NPRINT=-5 EXETYP=RUN $END
 $SYSTEM TIMLIM=6000 MWORDS=900 $END
 $SCF DIRSCF=.TRUE. FDIFF=.FALSE. $END
 $BASIS  GBASIS=N31 NGAUSS=6 NDFUNC=1
         DIFFSP=.TRUE. POLAR=POPLE $END
 $GUESS  GUESS=HUCKEL $END
 $CM2 ISCRF=2 ICMD=8C1
      IAQU=1 Dielec=78.0
 $END
 $DATA
 HF/6-31+G*C1
 C 6.0 45.984800 111.010300 25.847100
 ......

Does anyone know what does "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT" mean? And what is "MAX =  5600000"?

Thank you for your time.
Hui

--0-926847040-1234040997=:47489-- From owner-chemistry@ccl.net Sun Feb 8 13:16:01 2009 From: "Christopher Cramer cramer]^[umn.edu" To: CCL Subject: CCL: GAMESS - "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT" Message-Id: <-38575-090208103340-10586-8MzqK1nfpJreiHH4iB4Pzw_-_server.ccl.net> X-Original-From: Christopher Cramer Content-Type: multipart/alternative; boundary=Apple-Mail-2-247638865 Date: Sun, 8 Feb 2009 09:03:12 -0600 Mime-Version: 1.0 (Apple Message framework v930.3) Sent to CCL by: Christopher Cramer [cramer-.-umn.edu] --Apple-Mail-2-247638865 Content-Type: text/plain; charset=US-ASCII; format=flowed; delsp=yes Content-Transfer-Encoding: 7bit Jiabo coded CM2 in GAMESSPLUS, so his memory is very good. Relevant to the current version: In the latest version of GAMESSPLUS (v2008-2) the MAX size of the CM2 work array is defined by the formula: MXSATM*(MXSATM+1)+3*MXSBAS*(MXSBAS+1)/2+2*MXSBAS*MXSBAS+1 where MXSATM is the maximum number of atoms and MXSBAS is the maximum number of contracted basis functions permissible for solvation calculations using SMx models in GAMESSPLUS. C CURRENT GAMESSPLUS LIMITATIONS FOR SOLVATION MODULE: C ON TOTAL NUMBER OF ATOMS IS MXSATM=250 C ON TOTAL NUMBER OF CONTRACTED BASIS FUNCTIONS IS MXSBAS=2500. Thus MAX=250*(250+1)+3*2500*(2500+1)/2+2*2500*2500+1= =21,941,501>10,282,931 In the latest version of GAMESSPLUS (v2008-2) the limits should suffice. http://comp.chem.umn.edu/gamessplus/ Perhaps Hui uses an older version of GAMESSPLUS with smaller limits on MXSATM and MXSBAS. Chris On Feb 7, 2009, at 3:09 PM, Jiabo Li jiaboli ~~ yahoo.com wrote: > Hi Hui, > > I assume that you compiled GAMESS with GAMESSPLUS for SMx solvation > model. The message you got indicates that the scratch space needed > for your calculation is larger than the fixed scratch space for SMx > calculations. The only way to solve this problem is to modify the > scratch space parameter the GAMESSPLUS source code and recompile it. > > Here is the steps that you can try. > > 1. Find the source file smx.src in the GAMESSPLUS package. > 2. Do a global change of MAXWK=5500000 into MAXWK=110000000 in smx.src > 3. Recompile the smx and relink gamess to create a new gamess > executable. > > Please let me know if this solves your problem or not. > > Regards, > > Jiabo > > --- On Fri, 2/6/09, Yang, Hui hyang3{=}UTNet.UToledo.Edu chemistry=-=ccl.net> wrote: > From: Yang, Hui hyang3{=}UTNet.UToledo.Edu > Subject: CCL: GAMESS - "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT" > To: "Li, Jiabo " > Date: Friday, February 6, 2009, 12:54 PM > > Hi, > > I am trying to use GAMESS to calculate the solvation free energy of > a biological system which has 584 electrons. > > Here is the error. > > ... > DIRECT SCF CALCULATION, SCHWRZ=T FDIFF=F > THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT > MAX = 5600000 REQUIRMENT = 10282931 > EXECUTION OF GAMESS TERMINATED ABNORMALLY AT Fri Feb 6 15:08:45 2009 > STEP CPU TIME = .95 TOTAL CPU TIME = 674.0 ( 11.2 MIN) > TOTAL WALL CLOCK TIME= 675.2 SECONDS, CPU UTILIZATION IS 99.83% > 22548143 WORDS OF DYNAMIC MEMORY USED > *** ERROR TERMINATION *** IN COMPUTE PROCESS 0 > ... > > And here is the header to my input file: > $CONTRL SCFTYP=RHF RUNTYP=ENERGY ICHARG=0 > MAXIT=500 NPRINT=-5 EXETYP=RUN $END > $SYSTEM TIMLIM=6000 MWORDS=900 $END > $SCF DIRSCF=.TRUE. FDIFF=.FALSE. $END > $BASIS GBASIS=N31 NGAUSS=6 NDFUNC=1 > DIFFSP=.TRUE. POLAR=POPLE $END > $GUESS GUESS=HUCKEL $END > $CM2 ISCRF=2 ICMD=8C1 > IAQU=1 Dielec=78.0 > $END > $DATA > HF/6-31+G*C1 > C 6.0 45.984800 111.010300 25.847100 > ...... > > Does anyone know what does "THE WORK ARRAY FOR CM2 IS NOT > SUFFICIENT" mean? And what is "MAX = 5600000"? > > Thank you for your time. > Hui > -- Christopher J. Cramer University of Minnesota Department of Chemistry 207 Pleasant St. SE Minneapolis, MN 55455-0431 -------------------------- Phone: (612) 624-0859 || FAX: (612) 626-2006 Mobile: (952) 297-2575 cramer#umn.edu http://pollux.chem.umn.edu/~cramer (website includes information about the textbook "Essentials of Computational Chemistry: Theories and Models, 2nd Edition") --Apple-Mail-2-247638865 Content-Type: text/html; charset=US-ASCII Content-Transfer-Encoding: quoted-printable Jiabo coded CM2 in GAMESSPLUS, = so his memory is very good.

Relevant to the current = version:

In the latest version of
GAMESSPLUS = (v2008-2) the MAX size of the CM2 work array is defined by
the = formula:
MXSATM*(MXSATM+1)+3*MXSBAS*(MXSBAS+1)/2+2*MXSBAS*MXSBAS+1
w= here MXSATM is the maximum number of atoms and MXSBAS is the maximum = number
of contracted basis functions permissible for solvation = calculations using
SMx models in GAMESSPLUS.
C CURRENT GAMESSPLUS = LIMITATIONS FOR SOLVATION MODULE:
C  ON TOTAL NUMBER OF ATOMS IS = MXSATM=3D250
C  ON TOTAL NUMBER OF CONTRACTED BASIS FUNCTIONS IS = MXSBAS=3D2500.

Thus = MAX=3D250*(250+1)+3*2500*(2500+1)/2+2*2500*2500+1=3D
=3D21,941,501>10,2= 82,931

In the latest version of GAMESSPLUS (v2008-2) the limits = should suffice.
http://comp.chem.umn.edu/gam= essplus/

Perhaps Hui uses an older version of GAMESSPLUS with = smaller
limits on MXSATM = and
MXSBAS.

Chris

= On Feb 7, 2009, at 3:09 PM, Jiabo Li jiaboli ~~ yahoo.com = wrote:



Christopher J. Cramer

University of = Minnesota

207 Pleasant St. SE

Minneapolis, MN = 55455-0431

Phone:  (612) 624-0859 || = FAX:  (612) = 626-2006

cramer#umn.edu

http://pollux.chem.umn.edu/~cr= amer

    of Computational = Chemistry:  Theories and Models, = 2nd Edition")




= --Apple-Mail-2-247638865-- From owner-chemistry@ccl.net Sun Feb 8 16:04:00 2009 From: "Anselm Horn Anselm.Horn]![chemie.uni-erlangen.de" To: CCL Subject: CCL: The most important journals in computational chemistry area Message-Id: <-38576-090208074911-15414-Vv8/lDI8lg6si7vU9T00wg]_[server.ccl.net> X-Original-From: Anselm Horn Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="iso-8859-1" Date: Sun, 8 Feb 2009 12:57:13 +0100 MIME-Version: 1.0 Sent to CCL by: Anselm Horn [Anselm.Horn|a|chemie.uni-erlangen.de] Hi Morad, I'd like to add the "Journal of Molecular Modelling" to Johannes' list: J.Mol.Model. (monthly, 2007: 1.669) http://springerlink.com/content/10052= 9/ As Johannes already pointed out, the ranking of the journals depends on t= he area you are interested in. It also might be of interest, in which dat= abases and indices the journal is listed (e.g. PubMed for medical/life sc= ience topics). Regards, Anselm Bioinformatik Institut f=FCr Biochemie Emil-Fischer-Zentrum Friedrich-Alexander-Universit=E4t Erlangen-N=FCrnberg Germany From owner-chemistry@ccl.net Sun Feb 8 22:18:01 2009 From: "Green Power powergreen+*+gmail.com" To: CCL Subject: CCL:G: TDDFT with Gaussian Message-Id: <-38577-090208221615-26205-TxsjKqnMnuDgw0xZrFtrpA[*]server.ccl.net> X-Original-From: Green Power Content-Type: multipart/alternative; boundary=000e0cd14f2a679f9b046273cac5 Date: Sun, 8 Feb 2009 22:16:03 -0500 MIME-Version: 1.0 Sent to CCL by: Green Power [powergreen.%a%.gmail.com] --000e0cd14f2a679f9b046273cac5 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 7bit Hi, All, My TDDFT calculations of a ploymer under PBC condition are failed with an error message as follows. Could you give any suggestion to fix the problem. Thank you. Tian SCF Done: E(RB+HF-LYP) = -452.496908632 A.U. after 11 cycles Convg = 0.5916D-07 -V/T = 2.0105 S**2 = 0.0000 Range of M.O.s used for correlation: 11 190 NBasis= 190 NAE= 36 NBE= 36 NFC= 10 NFV= 0 NROrb= 180 NOA= 26 NOB= 26 NVA= 154 NVB= 154 PBC SCF information not saved. Error termination via Lnk1e in /opt/g03/revD01//g03/l801.exe at Sun Feb 8 21:54:03 2009. Input file: %chk=PPP.chk %Mem=1000Mb # B3LYP/6-31G(d,p) TD PBC=(NKPoint=12) Pop=full PBC 0 1 C 2.000143738 1.238552246 0.071917550 N 0.665726644 1.174118070 0.067833641 ............... TV 4.24488797 0.0 0.0 --000e0cd14f2a679f9b046273cac5 Content-Type: text/html; charset=ISO-8859-1 Content-Transfer-Encoding: quoted-printable Hi, All,

My TDDFT calculations of a ploymer under PBC condition are = failed with an error message as follows. Could you give any suggestion to f= ix the problem. Thank you.
Tian

 SCF Done:  E(RB+HF-LYP= ) =3D  -452.496908632     A.U. after   1= 1 cycles
             Co= nvg  =3D    0.5916D-07     &nb= sp;       -V/T =3D  2.0105
 &nbs= p;           S**2 &n= bsp; =3D   0.0000
 Range of M.O.s used for correlation:&n= bsp;   11   190
 NBasis=3D   190 NAE= =3D    36 NBE=3D    36 NFC=3D  &nbs= p; 10 NFV=3D     0
 NROrb=3D    = 180 NOA=3D    26 NOB=3D    26 NVA=3D &nb= sp; 154 NVB=3D   154
 PBC SCF information not saved.
 Error termination via Lnk1e i= n /opt/g03/revD01//g03/l801.exe at Sun Feb  8 21:54:03 2009.

Input file:

%chk=3DPPP.chk
%Mem=3D1000Mb
# B3LYP/6-31G(d,p) = TD PBC=3D(NKPoint=3D12) Pop=3Dfull

PBC

0 1
C     2.000143738  &nbs= p;  1.238552246     0.071917550
N  &n= bsp;  0.665726644     1.174118070   = ;  0.067833641
...............
TV     4.2448= 8797  0.0  0.0


--000e0cd14f2a679f9b046273cac5--
Hi Hui,
 
I assume that you = compiled GAMESS with GAMESSPLUS for SMx solvation model. The message you = got indicates that the scratch space needed for your calculation is = larger than the fixed scratch space for SMx calculations. The only way = to solve this problem is to modify the scratch space parameter the = GAMESSPLUS source code and recompile it.
 
=
Here is the steps that you can try.
 
1. = Find the source file smx.src in the GAMESSPLUS package.
2. Do = a global change of MAXWK=3D5500000 into MAXWK=3D110000000 in = smx.src
3. Recompile the smx and relink gamess to create a = new gamess executable.
 
Please let me know = if this solves your problem or not.
 
=
Regards,
 
Jiabo

--- On Fri, = 2/6/09, Yang, Hui hyang3{=3D}UTNet.UToledo.Edu = <owner-chemistry=3D-=3Dccl.net> wrote:
=
From: Yang, Hui hyang3{=3D}UTNet.UToledo.Edu = <owner-chemistry=3D-=3Dccl.net>
Subject: CCL: GAMESS - "THE WORK = ARRAY FOR CM2 IS NOT SUFFICIENT"
To: "Li, Jiabo " = <jiaboli=3D-=3Dyahoo.com>
Date: Friday, February 6, 2009, 12:54 = PM

Hi,

I = am trying to use GAMESS to calculate the solvation free energy of a = biological system which has 584 electrons.

Here is the = error.

...
 DIRECT SCF CALCULATION, SCHWRZ=3DT   = FDIFF=3DF
  THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT
  = MAX =3D  5600000 REQUIRMENT =3D 10282931
 EXECUTION OF = GAMESS TERMINATED ABNORMALLY AT Fri Feb  6 15:08:45 = 2009
 STEP CPU TIME =3D      .95 TOTAL = CPU TIME =3D      674.0 (   11.2 = MIN)
 TOTAL WALL CLOCK TIME=3D      = 675.2 SECONDS, CPU UTILIZATION IS  99.83%
 22548143 WORDS = OF DYNAMIC MEMORY USED
 *** ERROR TERMINATION *** IN COMPUTE = PROCESS     0
...

And here is the header = to my input file:
 $CONTRL SCFTYP=3DRHF RUNTYP=3DENERGY = ICHARG=3D0
         MAXIT=3D500= NPRINT=3D-5 EXETYP=3DRUN $END
 $SYSTEM TIMLIM=3D6000 MWORDS=3D900= $END
 $SCF DIRSCF=3D.TRUE. FDIFF=3D.FALSE. = $END
 $BASIS  GBASIS=3DN31 NGAUSS=3D6 = NDFUNC=3D1
         = DIFFSP=3D.TRUE. POLAR=3DPOPLE $END
 $GUESS  GUESS=3DHUCKEL = $END
 $CM2 ISCRF=3D2 ICMD=3D8C1
      = IAQU=3D1 = Dielec=3D78.0
 $END
 $DATA
 HF/6-31+G*C1
 = C 6.0 45.984800 111.010300 25.847100
 ......

Does anyone = know what does "THE WORK ARRAY FOR CM2 IS NOT SUFFICIENT" mean? And what = is "MAX =3D  5600000"?

Thank you for your = time.
Hui