[petsc-users] petsc4py --with-64-bit-indices
Aurelien Ponte
aurelien.ponte at ifremer.fr
Sat Dec 17 15:41:50 CST 2016
no worries:
service7>501% ls
/home1/caparmor/aponte/petsc/petsc-3.7.4/linux-gnu-intel/externalpackages
petsc4py-3.7.0
service7>502%
thanks
aurelien
Le 17/12/2016 à 21:24, Barry Smith a écrit :
> 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
>>
--
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
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