[petsc-users] petsc4py --with-64-bit-indices

Sat Dec 17 14:24:59 CST 2016

   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
> 