[petsc-users] petsc4py --with-64-bit-indices
Satish Balay
balay at mcs.anl.gov
Sat Dec 17 15:42:13 CST 2016
self.gitcommit = '026d6fa' # maint/3.7 from may-21-2026
self.download = ['git://https://bitbucket.org/petsc/petsc4py','https://bitbucket.org/petsc/petsc4py/get/'+self.gitcommit+'.tar.gz']
self.downloaddirname = 'petsc-petsc4py'
Configure is setup to use tarball that is obtained from the gitcommit - i.e not the petsc4py release tarball. i.e use:
https://bitbucket.org/petsc/petsc4py/get/026d6fa.tar.gz
[or let petsc configure download it for you - instead of wget]
Also I think its best to use gnu/mpi to be compatible with gnu/python.
Satish
On Sat, 17 Dec 2016, Barry Smith wrote:
>
> Please do
>
> ls /home1/caparmor/aponte/petsc/petsc-3.7.4/linux-gnu-intel/externalpackages
>
> and send the results. It looks like we may have a bug in checking for the correct file.
>
> Sorry about this, it is not suppose to be this difficult.
>
> Barry
>
>
> > On Dec 17, 2016, at 2:18 PM, Aurelien Ponte <aurelien.ponte at ifremer.fr> wrote:
> >
> > Ok, while waiting for an answer for the pip approach, I am trying another one:
> >
> > module load python/2.7.10_gnu-4.9.2
> > setenv MPICC mpiicc
> > setenv PETSC_DIR /home1/caparmor/aponte/petsc/petsc-3.7.4
> > setenv PETSC_ARCH linux-gnu-intel
> >
> > wget http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/petsc-3.7.4.tar.gz
> > wget https://bitbucket.org/petsc/petsc4py/downloads/petsc4py-3.7.0.tar.gz
> > pip install --user --upgrade cython (not sure cython is required if not in dev mode)
> > cd /home1/caparmor/aponte/petsc/petsc-3.7.4
> > ./configure PETSC_ARCH=linux-gnu-intel --with-cc=mpiicc --with-fc=mpiifort --with-blas-lapack-dir=/appli/intel/Compiler/11.1/073/mkl --with-64-bit-indices --download-petsc4py=/home1/caparmor/aponte/petsc/petsc4py-3.7.0.tar.gz
> >
> > But the latter fails with the following message (which I do not understand as petsc4py-3.7.0.tar.gz is indeed in the right place):
> >
> > ================================================================================
> > TEST configureLibrary from config.packages.petsc4py(/home1/caparmor/aponte/petsc/petsc-3.7.4/config/BuildSystem/config/packages/petsc4py.py:82)
> > TESTING: configureLibrary from config.packages.petsc4py(config/BuildSystem/config/packages/petsc4py.py:82)
> > Looking for PETSC4PY at git.petsc4py, hg.petsc4py or a directory starting with petsc-petsc4py
> > Could not locate an existing copy of PETSC4PY:
> > []
> > Downloading petsc4py
> > ===============================================================================
> > Trying to download file:///home1/caparmor/aponte/petsc/petsc4py-3.7.0.tar.gz for PETSC4PY
> > ===============================================================================
> >
> > Downloading file:///home1/caparmor/aponte/petsc/petsc4py-3.7.0.tar.gz to /home1/caparmor/aponte/petsc/petsc-3.7.4/linux-gnu-intel/externalpackages/_d_petsc4py-3.7.0.tar.gz
> > Extracting /home1/caparmor/aponte/petsc/petsc-3.7.4/linux-gnu-intel/externalpackages/_d_petsc4py-3.7.0.tar.gz
> > Executing: cd /home1/caparmor/aponte/petsc/petsc-3.7.4/linux-gnu-intel/externalpackages; chmod -R a+r petsc4py-3.7.0;find petsc4py-3.7.0 -type d -name "*" -exec chmod a+rx {} \;
> > Looking for PETSC4PY at git.petsc4py, hg.petsc4py or a directory starting with petsc-petsc4py
> > Could not locate an existing copy of PETSC4PY:
> > ['petsc4py-3.7.0']
> > ERROR: Failed to download PETSC4PY
> > **** Configure header /tmp/petsc-ViI4NW/confdefs.h ****
> >
> >
> > any ideas for this one?
> > thanks
> > aurelien
> >
> >
> > Le 17/12/2016 à 20:19, Barry Smith a écrit :
> >> Looks like --install-option= are options for pip not the underlying package.
> >>
> >> Lisandro, how does one do what seems to be a simple request?
> >>
> >>
> >>> On Dec 17, 2016, at 9:00 AM, Aurelien Ponte <aurelien.ponte at ifremer.fr> wrote:
> >>>
> >>> Hi all,
> >>>
> >>> I am trying to install petsc4py and petsc with the --with-64-bit-indices option.
> >>>
> >>> I followed the pip install described on the petsc4py bitbucket with some slight modifications:
> >>>
> >>> module load python/2.7.10_gnu-4.9.2
> >>> wget https://bootstrap.pypa.io/get-pip.py
> >>> python get-pip.py --user
> >>> setenv MPICC mpiicc
> >>> pip install --user --upgrade mpi4py
> >>> pip install --user --upgrade numpy
> >>> pip install --user petsc petsc4py --install-option="--with-64-bit-indices"
> >>>
> >>> but I do get the error copied below.
> >>>
> >>> Any ideas on what I could do?
> >>>
> >>> Should I try to use a different method of install?
> >>>
> >>> thanks
> >>>
> >>> aurelien
> >>>
> >>>
> >>>
> >>>
> >>> service7>479% pip install --user petsc petsc4py --install-option="--with-64-bit-indices"
> >>> /home1/caparmor/aponte/.local/lib/python2.7/site-packages/pip/commands/install.py:194: UserWarning: Disabling all use of wheels due to the use of --build-options / --global-options / --install-options.
> >>> cmdoptions.check_install_build_global(options)
> >>> Collecting petsc
> >>> Downloading petsc-3.7.2.1.tar.gz (8.7MB)
> >>> 100% |################################| 8.7MB 116kB/s
> >>> Collecting petsc4py
> >>> Downloading petsc4py-3.7.0.tar.gz (1.7MB)
> >>> 100% |################################| 1.7MB 415kB/s
> >>> Requirement already satisfied: numpy in /home1/caparmor/aponte/.local/lib/python2.7/site-packages (from petsc4py)
> >>> Skipping bdist_wheel for petsc, due to binaries being disabled for it.
> >>> Skipping bdist_wheel for petsc4py, due to binaries being disabled for it.
> >>> Installing collected packages: petsc, petsc4py
> >>> Running setup.py install for petsc ... error
> >>> Complete output from command /appli/python/2.7.10_gcc-4.9.2/python-2.7.10/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-3C49gO/petsc/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-iuRtIV-record/install-record.txt --single-version-externally-managed --compile --with-64-bit-indices --user --prefix=:
> >>> usage: -c [global_opts] cmd1 [cmd1_opts] [cmd2 [cmd2_opts] ...]
> >>> or: -c --help [cmd1 cmd2 ...]
> >>> or: -c --help-commands
> >>> or: -c cmd --help
> >>>
> >>> error: option --with-64-bit-indices not recognized
> >>>
> >>> ----------------------------------------
> >>> Command "/appli/python/2.7.10_gcc-4.9.2/python-2.7.10/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-3C49gO/petsc/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-iuRtIV-record/install-record.txt --single-version-externally-managed --compile --with-64-bit-indices --user --prefix=" failed with error code 1 in /tmp/pip-build-3C49gO/petsc/
> >>>
> >>>
> >>> --
> >>> Aurélien Ponte
> >>> Tel: (+33) 2 98 22 40 73
> >>> Fax: (+33) 2 98 22 44 96
> >>> UMR 6523, IFREMER
> >>> ZI de la Pointe du Diable
> >>> CS 10070
> >>> 29280 Plouzané
> >>>
> >
> >
> > --
> > Aurélien Ponte
> > Tel: (+33) 2 98 22 40 73
> > Fax: (+33) 2 98 22 44 96
> > UMR 6523, IFREMER
> > ZI de la Pointe du Diable
> > CS 10070
> > 29280 Plouzané
> >
>
>
More information about the petsc-users
mailing list