Oh, I just found a way for it. If your kernel/engine run in virtual
environment used for installation of dolfin you can use it then in
notebooks just with
import sys
import os
sys.path.append(os.path.expanduser('~/opt/fenics/lib/python2.7/site-packages/'))
import dolfin
import fenics
I am sourcing /home/rskolasinski/opt/fenics//fenics.conf anyway in my
.bashrc / .bash_profile
2015-06-27 20:10 GMT+02:00 Rafał Skolasiński <[email protected]>:
> That looks like a good idea.
>
> Do you know maybe how to make dolfin accessible through jupyterhub?
> I got my engines working within virtual_environment ( I can import ufc,
> ffc, ply, etc).
>
> But without sourcing /home/rskolasinski/opt/fenics//fenics.conf I can't
> import dolfin.
>
> 2015-06-27 20:00 GMT+02:00 Jan Blechta <[email protected]>:
>
>> On Sat, 27 Jun 2015 19:53:11 +0200
>> Julian Andrej <[email protected]> wrote:
>>
>> > I can do a writeup on the procedure. If this is going to be published,
>> > maybe there is a style guide or template I can use?
>>
>> You could possibly fit it into http://fenicsproject.org/download and
>> make a pull request
>> https://bitbucket.org/fenics-project/fenics-web/pull-requests
>>
>> Jan
>>
>> >
>> > On Sat, Jun 27, 2015 at 7:23 PM, Rafał Skolasiński
>> > <[email protected]> wrote:
>> > > Hi Guys,
>> > >
>> > > Is anyone going to do some tutorial / wiki / page about how to
>> > > finally install dolfin inside virtual environment without problems
>> > > and polluting global installation?
>> > > It would be super useful.
>> > >
>> > > Best,
>> > > Rafal
>> > >
>> > > 2015-06-22 17:26 GMT+02:00 Julian Andrej <[email protected]>:
>> > >>
>> > >> With the prefix option it works flawlessly.
>> > >>
>> > >> Maybe this installation method should be noted on the webpage,
>> > >> because it is way easier than any other method besides a
>> > >> distribution package.
>> > >>
>> > >> On Mon, Jun 22, 2015 at 9:00 AM, Johannes Ring <[email protected]>
>> > >> wrote:
>> > >> > The problem is that FFC assumes that it will be installed
>> > >> > in /usr/local if
>> > >> > no --prefix option is given, so you end up with the wrong path to
>> > >> > UseUFC.cmake in dolfin-1.5-venv/share/ufc/UFCConfig.cmake. You
>> > >> > can fix this
>> > >> > by running pip with the --prefix option like this:
>> > >> >
>> > >> > pip install --install-option="--prefix=$VIRTUAL_ENV"
>> > >> >
>> https://bitbucket.org/fenics-project/ffc/downloads/ffc-1.5.0.tar.gz
>> > >> >
>> > >> > I am tempted to revert
>> > >> > https://bitbucket.org/fenics-project/ffc/commits/12cb900, which
>> > >> > should fix
>> > >> > this problem. Using sys.prefix as default is better than
>> > >> > hard-coding it to
>> > >> > /usr/local IMO.
>> > >> >
>> > >> > Johannes
>> > >> >
>> > >> >
>> > >> > On Sun, Jun 21, 2015 at 12:11 PM Julian Andrej
>> > >> > <[email protected]> wrote:
>> > >> >>
>> > >> >> My whole installation process is the following
>> > >> >>
>> > >> >> $ virtualenv dolfin-1.5-venv
>> > >> >> $ source dolfin-1.5-venv/bin/activate
>> > >> >> $ pip install numpy sympy six ply
>> > >> >> $ pip install
>> > >> >>
>> https://bitbucket.org/fenics-project/ufl/downloads/ufl-1.5.0.tar.gz
>> > >> >> $ pip install
>> > >> >>
>> > >> >>
>> https://bitbucket.org/fenics-project/instant/downloads/instant-1.5.0.tar.gz
>> > >> >> $ pip install
>> > >> >>
>> https://bitbucket.org/fenics-project/fiat/downloads/fiat-1.5.0.tar.gz
>> > >> >> $ pip install
>> > >> >>
>> https://bitbucket.org/fenics-project/ffc/downloads/ffc-1.5.0.tar.gz
>> > >> >>
>> > >> >> None of these tell me ANY errors. I go on with
>> > >> >>
>> > >> >> $ wget
>> > >> >>
>> > >> >>
>> https://bitbucket.org/fenics-project/dolfin/downloads/dolfin-1.5.0.tar.gz
>> > >> >> $ tar xzvf dolfin-1.5.0.tar.gz
>> > >> >> $ cd dolfin-1.5.0/
>> > >> >> $ mkdir build
>> > >> >> $ cd build
>> > >> >> $ cmake -DCMAKE_INSTALL_PREFIX=$VIRTUAL_ENV ..
>> > >> >> $ make -j5 install
>> > >> >>
>> > >> >> Again, no errors i can spot!
>> > >> >>
>> > >> >> Then I am advised to source a PATH config
>> > >> >>
>> > >> >> $ source
>> > >> >>
>> /home/$USERNAME/dev/fenics/dolfin-1.5-venv/share/dolfin/dolfin.conf
>> > >> >>
>> > >> >> on running an example i get this:
>> > >> >>
>> > >> >> $ cat
>> > >> >>
>> > >> >>
>> /home/$USERNAME/.instant/error/ffc_form_ce4f228b8aea5046137150d0bd433bb69019d720/compile.log
>> > >> >> -- The C compiler identification is GNU 4.8.4
>> > >> >> -- The CXX compiler identification is GNU 4.8.4
>> > >> >> -- Check for working C compiler: /usr/bin/cc
>> > >> >> -- Check for working C compiler: /usr/bin/cc -- works
>> > >> >> -- Detecting C compiler ABI info
>> > >> >> -- Detecting C compiler ABI info - done
>> > >> >> -- Check for working CXX compiler: /usr/bin/c++
>> > >> >> -- Check for working CXX compiler: /usr/bin/c++ -- works
>> > >> >> -- Detecting CXX compiler ABI info
>> > >> >> -- Detecting CXX compiler ABI info - done
>> > >> >> CMake Error at CMakeLists.txt:12 (INCLUDE):
>> > >> >> include could not find load file:
>> > >> >>
>> > >> >> /usr/local/share/ufc/UseUFC.cmake
>> > >> >>
>> > >> >>
>> > >> >> -- Found SWIG: /usr/bin/swig (found version "2.0.11")
>> > >> >> -- Configuring incomplete, errors occurred!
>> > >> >> See also
>> > >> >>
>> > >> >>
>> "/tmp/tmpCCDOAD2015-6-19-20-11_instant_21bbb301d6140c6ed460db266a76cff13c305980/ffc_form_ce4f228b8aea5046137150d0bd433bb69019d720/CMakeFiles/CMakeOutput.log".
>> > >> >>
>> > >> >>
>> > >> >>
>> > >> >> On Sat, Jun 20, 2015 at 9:58 AM, Johannes Ring
>> > >> >> <[email protected]> wrote:
>> > >> >> > Try to install FFC again and see if you can spot any errors.
>> > >> >> >
>> > >> >> > Johannes
>> > >> >> >
>> > >> >> > On Fri, Jun 19, 2015 at 9:55 PM Julian Andrej
>> > >> >> > <[email protected]> wrote:
>> > >> >> >>
>> > >> >> >> Hello,
>> > >> >> >>
>> > >> >> >> i installed the dolfin-tools (ufl/ufc/ffc/instant) into a
>> > >> >> >> virtualenv.
>> > >> >> >> On running an example i get the following error
>> > >> >> >>
>> > >> >> >> -- Detecting CXX compiler ABI info
>> > >> >> >> -- Detecting CXX compiler ABI info - done
>> > >> >> >> CMake Error at CMakeLists.txt:12 (INCLUDE):
>> > >> >> >> include could not find load file:
>> > >> >> >>
>> > >> >> >> /usr/local/share/ufc/UseUFC.cmake
>> > >> >> >>
>> > >> >> >> which corresponds to a Debian Bugreport (see
>> > >> >> >> https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=782317)
>> > >> >> >>
>> > >> >> >> I installed everything via pip for example with
>> > >> >> >>
>> > >> >> >> pip install
>> > >> >> >>
>> > >> >> >>
>> > >> >> >>
>> https://bitbucket.org/fenics-project/instant/downloads/instant-1.5.0.tar.gz
>> > >> >> >>
>> > >> >> >> Dolfin is installed via
>> > >> >> >>
>> > >> >> >> mkdir build
>> > >> >> >> cd build
>> > >> >> >> cmake -DCMAKE_INSTALL_PREFIX=$VIRTUAL_ENV ..
>> > >> >> >> make -j5 install
>> > >> >> >>
>> > >> >> >> I cannot build the current git versions (master branches)
>> > >> >> >> because dolfin compilation fails with
>> > >> >> >> In file included from
>> > >> >> >>
>> > >> >> >>
>> > >> >> >>
>> > >> >> >>
>> /home/****/dev/fenics/fenics-project-dolfin-7ca3fda8087c/dolfin/multistage/PointIntegralSolver.cpp:38:0:
>> > >> >> >>
>> > >> >> >>
>> > >> >> >>
>> > >> >> >>
>> /home/atomic/dev/fenics/fenics-project-dolfin-7ca3fda8087c/dolfin/fem/UFC.h:130:33:
>> > >> >> >> error: ‘vertex_integral’ is not a member of ‘ufc’
>> > >> >> >> _______________________________________________
>> > >> >> >> fenics-support mailing list
>> > >> >> >> [email protected]
>> > >> >> >> http://fenicsproject.org/mailman/listinfo/fenics-support
>> > >> >> _______________________________________________
>> > >> >> fenics-support mailing list
>> > >> >> [email protected]
>> > >> >> http://fenicsproject.org/mailman/listinfo/fenics-support
>> > >> _______________________________________________
>> > >> fenics-support mailing list
>> > >> [email protected]
>> > >> http://fenicsproject.org/mailman/listinfo/fenics-support
>> > >
>> > >
>> > _______________________________________________
>> > fenics-support mailing list
>> > [email protected]
>> > http://fenicsproject.org/mailman/listinfo/fenics-support
>>
>>
>
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