[petsc-users] petsc-users Digest, Vol 35, Issue 52
Yixun Liu
yxliuwm at gmail.com
Wed Nov 16 13:31:32 CST 2011
Hi,
Please see the attachment.
Yixun
On Wed, Nov 16, 2011 at 1:00 PM, <petsc-users-request at mcs.anl.gov> wrote:
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> Today's Topics:
>
> 1. Re: configuration error on Windows with VS2005 (Satish Balay)
> 2. Re: ERROR Arguments are incompatible in MatSetValues()
> (Matthew Knepley)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Wed, 16 Nov 2011 10:21:29 -0600 (CST)
> From: Satish Balay <balay at mcs.anl.gov>
> Subject: Re: [petsc-users] configuration error on Windows with VS2005
> To: PETSc users list <petsc-users at mcs.anl.gov>
> Message-ID: <alpine.LFD.2.02.1111161019310.2218 at asterix>
> Content-Type: TEXT/PLAIN; charset=US-ASCII
>
> Please send the corresponding configure.log to petsc-maint at mcs.anl.gov
>
> Satish
>
> On Wed, 16 Nov 2011, Yixun Liu wrote:
>
> > Hi,
> > I have a configuration error as I install PETSc.
> >
> > According to the installation instructions, I first *Setup cygwin bash
> > shell with Working Compilers:*
> >
> > C:\Program Files (x86)\Microsoft Visual Studio
> 8\VC>c:\cygwin\bin\bash.exe
> > --login
> >
> > I got the following message:
> >
> > Your group is currently "mkpasswd". This indicates that your
> > gid is not in /etc/group and your uid is not in /etc/passwd.
> > The /etc/passwd (and possibly /etc/group) files should be rebuilt.
> > See the man pages for mkpasswd and mkgroup then, for example, run
> > mkpasswd -l [-d] > /etc/passwd
> > mkgroup -l [-d] > /etc/group
> > Note that the -d switch is necessary for domain users.
> >
> > Then I run the commands:
> > mkpasswd -l > /etc/passwd and
> > mkpasswd -l > /etc/group
> >
> > at last, as I run command cl, I got message:
> >
> > Microsoft (R) 32-bit C/C++ Optimizing Compiler Version 14.00.50727.762
> for
> > 80x86
> > Copyright (C) Microsoft Corporation. All rights reserved.
> > usage: cl [ option... ] filename... [ /link linkoption... ]
> >
> > So, I think it works now.
> >
> > Then I configure PETSc with the following command, but get the error "C
> > compiler you provided with -with-cc=win32fe cl does not work".
> >
> >
> > liuy14 at CC1DR1C515W05 /cygdrive/c/Yixun/VC/petsc-3.2-p5# ./configure
> > --with-cc='win32fe cl' --with-fc='win32fe ifort' --with-cxx='win 32fe
> cl'
> > --download-f-blas-lapack=1
> >
> >
> ===============================================================================
> > Configuring PETSc to compile on your system
> >
> ===============================================================================
> > TESTING: configureExternalPackagesDir from
> > config.framework(config/BuildSystem/c
> > TESTING: configureDebuggers from
> > PETSc.utilities.debuggers(config/PETSc/utilitie
> > TESTING: configureCMake from
> > PETSc.utilities.CMake(config/PETSc/utilities/CMake.
> > TESTING: configureCLanguage from
> > PETSc.utilities.languages(config/PETSc/utilitie
> > TESTING: configureLanguageSupport from
> > PETSc.utilities.languages(config/PETSc/ut
> > TESTING: configureExternC from
> > PETSc.utilities.languages(config/PETSc/utilities/
> > TESTING: configureFortranLanguage from
> > PETSc.utilities.languages(config/PETSc/ut
> > TESTING: configureMake from
> > config.programs(config/BuildSystem/config/programs.p
> > TESTING: configureMkdir from
> > config.programs(config/BuildSystem/config/programs.
> > TESTING: configurePrograms from
> > config.programs(config/BuildSystem/config/progra
> > TESTING: configureMercurial from
> > config.sourceControl(config/BuildSystem/config/
> > TESTING: configureCVS from
> > config.sourceControl(config/BuildSystem/config/source
> > TESTING: configureSubversion from
> > config.sourceControl(config/BuildSystem/config
> > TESTING: configureDirectories from
> > PETSc.utilities.petscdir(config/PETSc/utiliti
> > TESTING: configureExternalPackagesDir from
> > PETSc.utilities.petscdir(config/PETSc
> > TESTING: configureInstallationMethod from
> > PETSc.utilities.petscdir(config/PETSc/
> > TESTING: configureETags from
> > PETSc.utilities.Etags(config/PETSc/utilities/Etags.
> > TESTING: getDatafilespath from
> > PETSc.utilities.dataFilesPath(config/PETSc/utilit
> > TESTING: resetEnvCompilers from
> > config.setCompilers(config/BuildSystem/config/se
> > TESTING: checkMPICompilerOverride from
> > config.setCompilers(config/BuildSystem/co
> > TESTING: checkVendor from
> > config.setCompilers(config/BuildSystem/config/setCompi
> > TESTING: checkInitialFlags from
> > config.setCompilers(config/BuildSystem/config/se
> > TESTING: checkCCompiler from
> > config.setCompilers(config/BuildSystem/config/setCo
> > File
> > "/cygdrive/c/Yixun/VC/petsc-3.2-p5/config/BuildSystem/config/setCompilers
> > .py", line 508, in checkCCompiler
> > self.checkCompiler('C')
> > File
> > "/cygdrive/c/Yixun/VC/petsc-3.2-p5/config/BuildSystem/config/setCompilers
> > .py", line 410, in checkCompiler
> > raise RuntimeError(msg)
> >
> *******************************************************************************
> > UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for
> > detail
> > s):
> >
> -------------------------------------------------------------------------------
> > C compiler you provided with -with-cc=win32fe cl does not work
> >
> *******************************************************************************
> >
> >
> > Thank you for your help.
> >
> > Best,
> >
> > Yixun
> >
>
>
>
> ------------------------------
>
> Message: 2
> Date: Wed, 16 Nov 2011 11:33:13 -0600
> From: Matthew Knepley <petsc-maint at mcs.anl.gov>
> Subject: Re: [petsc-users] ERROR Arguments are incompatible in
> MatSetValues()
> To: PETSc users list <petsc-users at mcs.anl.gov>
> Message-ID:
> <CAMYG4GmyUeoi8DVnu-p3gWdQgyeqdB45juT7mNJs_==Zk4Cf-Q at mail.gmail.com
> >
> Content-Type: text/plain; charset="iso-8859-1"
>
> On Wed, Nov 16, 2011 at 10:09 AM, PEREZ CERQUERA MANUEL RICARDO <
> manuel.perezcerquera at polito.it> wrote:
>
> > Hi all,
> >
> > I have a petsc code which works for a certain number of unknowns, I mean
> > it works with a matrix of 12000X 12000 elements, then when I increase the
> > Number of unknowns to 25000 X 25000 I got this error at certain point in
> > one of the MatSetValues() function, I don't know which are the possible
> > causes, I have enough memory to handle it. Could you give me some ideas
> of
> > whats going on? . Thanks
> >
>
> It appears that you are overflowing the integer offsets. I recommend trying
> this either:
>
> a) With a 64-bit OS
>
> or if you cannot upgrade the machine
>
> b) Configuring with --with-64-bit-indices
>
> Thanks,
>
> Matt
>
>
> > [0]PETSC ERROR: Fortran Pause - Enter command<CR> or <CR> to continue.
> > --------------------- Error Message
> ------------------------------**------
> > [0]PETSC ERROR: Arguments are incompatible!
> > [0]PETSC ERROR: Memory regions overlap: either use PetscMemmov()
> > or make sure your copy regions and lengths are correct.
> > Length (bytes) 1217067760 first address -844745856 second
> > address
> > -1712377200!
> > [0]PETSC ERROR: ------------------------------**
> > ------------------------------**----
> > --------
> > [0]PETSC ERROR: Petsc Release Version 3.2.0, Patch 5, Sat Oct 29 13:45:54
> > CDT 20
> > 11
> > [0]PETSC ERROR: See docs/changes/index.html for recent updates.
> > [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
> > [0]PETSC ERROR: See docs/index.html for manual pages.
> > [0]PETSC ERROR: ------------------------------**
> > ------------------------------**----
> > --------
> > [0]PETSC ERROR: C:\Documents and Settings\d022117\Desktop\**
> > MPIRunsPatrju\patreju1
> > .1.exe on a arch-mswi named GVSRV by d022117 Tue Nov 15 19:00:13 2011
> > [0]PETSC ERROR: Libraries linked from /home/d022117/petsc-3.2-p5/**
> > arch-mswin-cxx-
> > debug/lib
> > [0]PETSC ERROR: Configure run at Mon Nov 7 13:06:56 2011
> > [0]PETSC ERROR: Configure options --with-cc="win32fe cl"
> > --with-fc="win32fe ifor
> > t" --with-cxx="win32fe cl" --download-f-blas-lapack=1
> > --with-scalar-type=complex
> > --with-clanguage=cxx --useThreads=0
> > [0]PETSC ERROR: ------------------------------**
> > ------------------------------**----
> > --------
> > [0]PETSC ERROR: PetscMemcpy() line 1779 in src/mat/impls/aij/seq/e:\**
> > users\manuel
> > \phd\cygwin\home\d022117\**petsc-3.2-p5\include\petscsys.**h
> > [0]PETSC ERROR: MatSetValues_SeqAIJ() line 331 in
> > src/mat/impls/aij/seq/E:\Users
> > \Manuel\Phd\Cygwin\home\**d022117\PETSC-~2.2-P\src\mat\**
> > impls\aij\seq\aij.c
> > [0]PETSC ERROR: MatSetValues() line 1115 in src/mat/interface/E:\Users\**
> > Manuel\Ph
> > d\Cygwin\home\d022117\PETSC-~**2.2-P\src\mat\INTERF~1\matrix.**c
> >
> > job aborted:
> > rank: node: exit code[: error message]
> > 0: gvsrv.delen.polito.it: 1: process 0 exited without calling finalize
> >
> > Eng. Manuel Ricardo Perez Cerquera. MSc. Ph.D student
> > Antenna and EMC Lab (LACE)
> > Istituto Superiore Mario Boella (ISMB)
> > Politecnico di Torino
> > Via Pier Carlo Boggio 61, Torino 10138, Italy
> > Email: manuel.perezcerquera at polito.it
> > Phone: +39 0112276704
> > Fax: +39 011 2276 299
> >
>
>
>
> --
> What most experimenters take for granted before they begin their
> experiments is infinitely more interesting than any results to which their
> experiments lead.
> -- Norbert Wiener
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