Re: [Dolfin] UFC Python wrapper location change?
On Fri, Aug 20, 2010 at 02:14:29PM -0700, Johan Hake wrote:
> On Friday August 20 2010 13:58:18 Garth N. Wells wrote:
> > On Aug 20 2010, Anders Logg wrote:
> > >On Fri, Aug 20, 2010 at 08:29:44PM +0100, Garth N. Wells wrote:
> > >> On Fri, 2010-08-20 at 21:05 +0200, Anders Logg wrote:
> > >> > On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
> > >> > > On Friday August 20 2010 03:10:27 Anders Logg wrote:
> > >> > > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> > >> > > > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> > >> > > > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote:
> > >> > > > > > > I'm running into a Python error (below), which I suspect is
> > >> > > > > > > due to the relocation of the UFC Python module (now in its
> > >> > > > > > > own subdirectory). Do I need to add
> > >> > > > > > >
> > >> > > > > > > from ufc import *
> > >> > > > > > >
> > >> > > > > > > somewhere?
> > >> > > > > > >
> > >> > > > > > > Garth
> > >> > > > > > >
> > >> > > > > > > Traceback (most recent call last):
> > >> > > > > > > File "demo.py", line 20, in
> > >> > > > > > >
> > >> > > > > > > from dolfin import *
> > >> > > > > > >
> > >> > > > > > > File
> > >> > > > > > >
> > >> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/
> > >> > > > > > > __init__. py", line 13, in
> > >> > > > > > >
> > >> > > > > > > import dolfin.cpp as cpp
> > >> > > > > > >
> > >> > > > > > > File
> > >> > > > > > >
> > >> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/
> > >> > > > > > > cpp.py", line 8902, in
> > >> > > > > > >
> > >> > > > > > > class GenericFunction(ufc.function,Variable):
> > >> > > > > > > AttributeError: 'module' object has no attribute 'function'
> > >> > > > > >
> > >> > > > > > Looks like a missing __init__.py in the ufc directory, but I
> > >> > > > > > thought that was added?
> > >> > > > >
> > >> > > > > It's present on my machine.
> > >> > > > >
> > >> > > > >
> > >> > > > > Make sure that you clean out any pkg-config and old versions
> > >> > > > > for UFC.
> > >> > > >
> > >> > > > It's all installed in one directory which I just delete before
> > >> > > > testing.
> > >> > >
> > >> > > You also need to get rid of old ufc.py{c} and _ufc.so sticking
> > >> > > around.
> > >> >
> > >> > They are also somewhere under the same install tree and I just delete
> > >> > the entire tree so that shouldn't be an issue.
> > >> >
> > >> > > Does it work now when function is imported?
> > >> >
> > >> > Yes, everything builds fine (just finished on Lucid) but something is
> > >> > wrong which prevents me from running the demos. Will need to debug.
> > >>
> > >> Are you compiling the demos with CMake/make or SCons?
> > >
> > >I wasn't sourcing the correct file before.
> > >
> > >I'm getting a ton of these now when I compile the Poisson demo:
> > >
> > >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> > >reference to `PyObject_SetAttrString'
> > >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> > >reference to `PyType_IsSubtype'
> > >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> > >reference to `PyErr_Fetch'
> > >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> > >reference to `PyCObject_Import'
> > >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> > >reference to `PyExc_RuntimeError'
> > >
> > >Any ideas? I have never really used Trilinos before so I'm not
> > >familiar with how it's setup, but do we really use the Python wrappers
> > >for Trilinos? Perhaps they can be disabled in the build to get around
> > >this.
> >
> > Yes, just disable PyTrilinos. I've always had trouble with it. I think
> > Sandia need to pay Johan Hake to sort themselves out.
>
> That will be expensive...
>
> I have no problems (now) to import PyTrilinos. It tooks some time to get it
> going. Is there any way I can export my CMake settings for compiling
> PyTrilinos?
Sounds like a good reason for turning of PyTrilinos by default in
Dorsal. Let's do that. No reason for us to build something we don't
use and also breaks DOLFIN...
--
Anders
> It was not that a pleasent experience compiling it and I have forgot what ever
> options I chose in the cmake-gui...
>
> Johan
>
> > Garth
> >
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Re: [Dolfin] UFC Python wrapper location change?
On Friday August 20 2010 14:18:20 Garth N. Wells wrote:
> On Aug 20 2010, Johan Hake wrote:
> >On Friday August 20 2010 13:58:18 Garth N. Wells wrote:
> >> On Aug 20 2010, Anders Logg wrote:
> >> >On Fri, Aug 20, 2010 at 08:29:44PM +0100, Garth N. Wells wrote:
> >> >> On Fri, 2010-08-20 at 21:05 +0200, Anders Logg wrote:
> >> >> > On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
> >> >> > > On Friday August 20 2010 03:10:27 Anders Logg wrote:
> >> >> > > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> >> >> > > > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> >> >> > > > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells
> >> >> > > > > >
> >> >> > > > > > wrote:
> >> >> > > > > > > I'm running into a Python error (below), which I suspect
> >> >> > > > > > > is due to the relocation of the UFC Python module (now in
> >> >> > > > > > > its own subdirectory). Do I need to add
> >> >> > > > > > >
> >> >> > > > > > > from ufc import *
> >> >> > > > > > >
> >> >> > > > > > > somewhere?
> >> >> > > > > > >
> >> >> > > > > > > Garth
> >> >> > > > > > >
> >> >> > > > > > > Traceback (most recent call last):
> >> >> > > > > > > File "demo.py", line 20, in
> >> >> > > > > > >
> >> >> > > > > > > from dolfin import *
> >> >> > > > > > >
> >> >> > > > > > > File
> >> >> > > > > > >
> >> >> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolf
> >> >> > > > > > > in/ __init__. py", line 13, in
> >> >> > > > > > >
> >> >> > > > > > > import dolfin.cpp as cpp
> >> >> > > > > > >
> >> >> > > > > > > File
> >> >> > > > > > >
> >> >> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolf
> >> >> > > > > > > in/ cpp.py", line 8902, in
> >> >> > > > > > >
> >> >> > > > > > > class GenericFunction(ufc.function,Variable):
> >> >> > > > > > > AttributeError: 'module' object has no attribute
> >> >> > > > > > > 'function'
> >> >> > > > > >
> >> >> > > > > > Looks like a missing __init__.py in the ufc directory, but
> >> >> > > > > > I thought that was added?
> >> >> > > > >
> >> >> > > > > It's present on my machine.
> >> >> > > > >
> >> >> > > > >
> >> >> > > > > Make sure that you clean out any pkg-config and old versions
> >> >> > > > > for UFC.
> >> >> > > >
> >> >> > > > It's all installed in one directory which I just delete before
> >> >> > > > testing.Makefile.export.Trilinos_install
> >> >> > >
> >> >> > > You also need to get rid of old ufc.py{c} and _ufc.so sticking
> >> >> > > around.
> >> >> >
> >> >> > They are also somewhere under the same install tree and I just
> >> >> > delete the entire tree so that shouldn't be an issue.
> >> >> >
> >> >> > > Does it work now when function is imported?
> >> >> >
> >> >> > Yes, everything builds fine (just finished on Lucid) but something
> >> >> > is wrong which prevents me from running the demos. Will need to
> >> >> > debug.
> >> >>
> >> >> Are you compiling the demos with CMake/make or SCons?
> >> >
> >> >I wasn't sourcing the correct file before.
> >> >
> >> >I'm getting a ton of these now when I compile the Poisson demo:
> >> >
> >> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >> >reference to `PyObject_SetAttrString'
> >> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >> >reference to `PyType_IsSubtype'
> >> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >> >reference to `PyErr_Fetch'
> >> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >> >reference to `PyCObject_Import'
> >> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >> >reference to `PyExc_RuntimeError'
> >> >
> >> >Any ideas? I have never really used Trilinos before so I'm not
> >> >familiar with how it's setup, but do we really use the Python wrappers
> >> >for Trilinos? Perhaps they can be disabled in the build to get around
> >> >this.
> >>
> >> Yes, just disable PyTrilinos. I've always had trouble with it. I think
> >> Sandia need to pay Johan Hake to sort themselves out.
> >
> >That will be expensive...
> >
> > I have no problems (now) to import PyTrilinos. It tooks some time to get
> > it going. Is there any way I can export my CMake settings for compiling
> > PyTrilinos?
>
> Have a look in CMakeCache.txt.
Nothing to see there...
Have you turned off relative path and rpath?
> > It was not that a pleasent experience compiling it and I have forgot what
> > ever options I chose in the cmake-gui...
>
> I like cmake-gui for Trilinos too - it's very civilised. The Trilinos build
> system has improved out of sight. PETSc next?
Yes you have mentioned that. Looks like a trend ;)
Johan
> Garth
>
> >Johan
> >
> >> Garth
> >>
> >> >--
> >> >Anders
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Re: [Dolfin] UFC Python wrapper location change?
On Aug 20 2010, Johan Hake wrote:
On Friday August 20 2010 13:58:18 Garth N. Wells wrote:
On Aug 20 2010, Anders Logg wrote:
>On Fri, Aug 20, 2010 at 08:29:44PM +0100, Garth N. Wells wrote:
>> On Fri, 2010-08-20 at 21:05 +0200, Anders Logg wrote:
>> > On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
>> > > On Friday August 20 2010 03:10:27 Anders Logg wrote:
>> > > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
>> > > > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
>> > > > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells
>> > > > > > wrote:
>> > > > > > > I'm running into a Python error (below), which I suspect
>> > > > > > > is due to the relocation of the UFC Python module (now in
>> > > > > > > its own subdirectory). Do I need to add
>> > > > > > >
>> > > > > > > from ufc import *
>> > > > > > >
>> > > > > > > somewhere?
>> > > > > > >
>> > > > > > > Garth
>> > > > > > >
>> > > > > > > Traceback (most recent call last):
>> > > > > > > File "demo.py", line 20, in
>> > > > > > >
>> > > > > > > from dolfin import *
>> > > > > > >
>> > > > > > > File
>> > > > > > >
>> > > > > > >
>> > > > > > >
>> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/
>> > > > > > > __init__. py", line 13, in
>> > > > > > >
>> > > > > > > import dolfin.cpp as cpp
>> > > > > > >
>> > > > > > > File
>> > > > > > >
>> > > > > > >
>> > > > > > >
>> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/
>> > > > > > > cpp.py", line 8902, in
>> > > > > > >
>> > > > > > > class GenericFunction(ufc.function,Variable):
>> > > > > > > AttributeError: 'module' object has no attribute
>> > > > > > > 'function'
>> > > > > >
>> > > > > > Looks like a missing __init__.py in the ufc directory, but I
>> > > > > > thought that was added?
>> > > > >
>> > > > > It's present on my machine.
>> > > > >
>> > > > >
>> > > > > Make sure that you clean out any pkg-config and old versions
>> > > > > for UFC.
>> > > >
>> > > > It's all installed in one directory which I just delete before
>> > > > testing.
>> > >
>> > > You also need to get rid of old ufc.py{c} and _ufc.so sticking
>> > > around.
>> >
>> > They are also somewhere under the same install tree and I just
>> > delete the entire tree so that shouldn't be an issue.
>> >
>> > > Does it work now when function is imported?
>> >
>> > Yes, everything builds fine (just finished on Lucid) but something
>> > is wrong which prevents me from running the demos. Will need to
>> > debug.
>>
>> Are you compiling the demos with CMake/make or SCons?
>
>I wasn't sourcing the correct file before.
>
>I'm getting a ton of these now when I compile the Poisson demo:
>
>/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
>reference to `PyObject_SetAttrString'
>/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
>reference to `PyType_IsSubtype'
>/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
>reference to `PyErr_Fetch'
>/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
>reference to `PyCObject_Import'
>/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
>reference to `PyExc_RuntimeError'
>
>Any ideas? I have never really used Trilinos before so I'm not
>familiar with how it's setup, but do we really use the Python wrappers
>for Trilinos? Perhaps they can be disabled in the build to get around
>this.
Yes, just disable PyTrilinos. I've always had trouble with it. I think
Sandia need to pay Johan Hake to sort themselves out.
That will be expensive...
I have no problems (now) to import PyTrilinos. It tooks some time to get
it going. Is there any way I can export my CMake settings for compiling
PyTrilinos?
Have a look in CMakeCache.txt.
It was not that a pleasent experience compiling it and I have forgot what
ever options I chose in the cmake-gui...
I like cmake-gui for Trilinos too - it's very civilised. The Trilinos build
system has improved out of sight. PETSc next?
Garth
Johan
Garth
>--
>Anders
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Re: [Dolfin] UFC Python wrapper location change?
On Friday August 20 2010 13:58:18 Garth N. Wells wrote:
> On Aug 20 2010, Anders Logg wrote:
> >On Fri, Aug 20, 2010 at 08:29:44PM +0100, Garth N. Wells wrote:
> >> On Fri, 2010-08-20 at 21:05 +0200, Anders Logg wrote:
> >> > On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
> >> > > On Friday August 20 2010 03:10:27 Anders Logg wrote:
> >> > > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> >> > > > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> >> > > > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote:
> >> > > > > > > I'm running into a Python error (below), which I suspect is
> >> > > > > > > due to the relocation of the UFC Python module (now in its
> >> > > > > > > own subdirectory). Do I need to add
> >> > > > > > >
> >> > > > > > > from ufc import *
> >> > > > > > >
> >> > > > > > > somewhere?
> >> > > > > > >
> >> > > > > > > Garth
> >> > > > > > >
> >> > > > > > > Traceback (most recent call last):
> >> > > > > > > File "demo.py", line 20, in
> >> > > > > > >
> >> > > > > > > from dolfin import *
> >> > > > > > >
> >> > > > > > > File
> >> > > > > > >
> >> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/
> >> > > > > > > __init__. py", line 13, in
> >> > > > > > >
> >> > > > > > > import dolfin.cpp as cpp
> >> > > > > > >
> >> > > > > > > File
> >> > > > > > >
> >> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/
> >> > > > > > > cpp.py", line 8902, in
> >> > > > > > >
> >> > > > > > > class GenericFunction(ufc.function,Variable):
> >> > > > > > > AttributeError: 'module' object has no attribute 'function'
> >> > > > > >
> >> > > > > > Looks like a missing __init__.py in the ufc directory, but I
> >> > > > > > thought that was added?
> >> > > > >
> >> > > > > It's present on my machine.
> >> > > > >
> >> > > > >
> >> > > > > Make sure that you clean out any pkg-config and old versions
> >> > > > > for UFC.
> >> > > >
> >> > > > It's all installed in one directory which I just delete before
> >> > > > testing.
> >> > >
> >> > > You also need to get rid of old ufc.py{c} and _ufc.so sticking
> >> > > around.
> >> >
> >> > They are also somewhere under the same install tree and I just delete
> >> > the entire tree so that shouldn't be an issue.
> >> >
> >> > > Does it work now when function is imported?
> >> >
> >> > Yes, everything builds fine (just finished on Lucid) but something is
> >> > wrong which prevents me from running the demos. Will need to debug.
> >>
> >> Are you compiling the demos with CMake/make or SCons?
> >
> >I wasn't sourcing the correct file before.
> >
> >I'm getting a ton of these now when I compile the Poisson demo:
> >
> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >reference to `PyObject_SetAttrString'
> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >reference to `PyType_IsSubtype'
> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >reference to `PyErr_Fetch'
> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >reference to `PyCObject_Import'
> >/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
> >reference to `PyExc_RuntimeError'
> >
> >Any ideas? I have never really used Trilinos before so I'm not
> >familiar with how it's setup, but do we really use the Python wrappers
> >for Trilinos? Perhaps they can be disabled in the build to get around
> >this.
>
> Yes, just disable PyTrilinos. I've always had trouble with it. I think
> Sandia need to pay Johan Hake to sort themselves out.
That will be expensive...
I have no problems (now) to import PyTrilinos. It tooks some time to get it
going. Is there any way I can export my CMake settings for compiling
PyTrilinos?
It was not that a pleasent experience compiling it and I have forgot what ever
options I chose in the cmake-gui...
Johan
> Garth
>
> >--
> >Anders
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Re: [Dolfin] UFC Python wrapper location change?
On Aug 20 2010, Anders Logg wrote:
On Fri, Aug 20, 2010 at 08:29:44PM +0100, Garth N. Wells wrote:
On Fri, 2010-08-20 at 21:05 +0200, Anders Logg wrote:
> On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
> > On Friday August 20 2010 03:10:27 Anders Logg wrote:
> > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> > > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> > > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote:
> > > > > > I'm running into a Python error (below), which I suspect is
> > > > > > due to the relocation of the UFC Python module (now in its
> > > > > > own subdirectory). Do I need to add
> > > > > >
> > > > > > from ufc import *
> > > > > >
> > > > > > somewhere?
> > > > > >
> > > > > > Garth
> > > > > >
> > > > > > Traceback (most recent call last):
> > > > > > File "demo.py", line 20, in
> > > > > >
> > > > > > from dolfin import *
> > > > > >
> > > > > > File
> > > > > >
> > > > > >
> > > > > >
> > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.
> > > > > > py", line 13, in
> > > > > >
> > > > > > import dolfin.cpp as cpp
> > > > > >
> > > > > > File
> > > > > >
> > > > > >
> > > > > >
> > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py",
> > > > > > line 8902, in
> > > > > >
> > > > > > class GenericFunction(ufc.function,Variable):
> > > > > > AttributeError: 'module' object has no attribute 'function'
> > > > >
> > > > > Looks like a missing __init__.py in the ufc directory, but I
> > > > > thought that was added?
> > > >
> > > > It's present on my machine.
> > > >
> > > >
> > > > Make sure that you clean out any pkg-config and old versions
> > > > for UFC.
> > >
> > > It's all installed in one directory which I just delete before
> > > testing.
> >
> > You also need to get rid of old ufc.py{c} and _ufc.so sticking
> > around.
>
> They are also somewhere under the same install tree and I just delete
> the entire tree so that shouldn't be an issue.
>
> > Does it work now when function is imported?
>
> Yes, everything builds fine (just finished on Lucid) but something is
> wrong which prevents me from running the demos. Will need to debug.
>
Are you compiling the demos with CMake/make or SCons?
I wasn't sourcing the correct file before.
I'm getting a ton of these now when I compile the Poisson demo:
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyObject_SetAttrString'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyType_IsSubtype'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyErr_Fetch'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyCObject_Import'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyExc_RuntimeError'
Any ideas? I have never really used Trilinos before so I'm not
familiar with how it's setup, but do we really use the Python wrappers
for Trilinos? Perhaps they can be disabled in the build to get around
this.
Yes, just disable PyTrilinos. I've always had trouble with it. I think
Sandia need to pay Johan Hake to sort themselves out.
Garth
--
Anders
___
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Re: [Dolfin] UFC Python wrapper location change?
On Fri, Aug 20, 2010 at 08:29:44PM +0100, Garth N. Wells wrote:
> On Fri, 2010-08-20 at 21:05 +0200, Anders Logg wrote:
> > On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
> > > On Friday August 20 2010 03:10:27 Anders Logg wrote:
> > > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> > > > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> > > > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote:
> > > > > > > I'm running into a Python error (below), which I suspect is due to
> > > > > > > the relocation of the UFC Python module (now in its own
> > > > > > > subdirectory). Do I need to add
> > > > > > >
> > > > > > > from ufc import *
> > > > > > >
> > > > > > > somewhere?
> > > > > > >
> > > > > > > Garth
> > > > > > >
> > > > > > > Traceback (most recent call last):
> > > > > > > File "demo.py", line 20, in
> > > > > > >
> > > > > > > from dolfin import *
> > > > > > >
> > > > > > > File
> > > > > > >
> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.
> > > > > > > py", line 13, in
> > > > > > >
> > > > > > > import dolfin.cpp as cpp
> > > > > > >
> > > > > > > File
> > > > > > >
> > > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py",
> > > > > > > line 8902, in
> > > > > > >
> > > > > > > class GenericFunction(ufc.function,Variable):
> > > > > > > AttributeError: 'module' object has no attribute 'function'
> > > > > >
> > > > > > Looks like a missing __init__.py in the ufc directory, but I thought
> > > > > > that was added?
> > > > >
> > > > > It's present on my machine.
> > > > >
> > > > >
> > > > > Make sure that you clean out any pkg-config and old versions for UFC.
> > > >
> > > > It's all installed in one directory which I just delete before
> > > > testing.
> > >
> > > You also need to get rid of old ufc.py{c} and _ufc.so sticking around.
> >
> > They are also somewhere under the same install tree and I just delete
> > the entire tree so that shouldn't be an issue.
> >
> > > Does it work now when function is imported?
> >
> > Yes, everything builds fine (just finished on Lucid) but something is
> > wrong which prevents me from running the demos. Will need to debug.
> >
>
> Are you compiling the demos with CMake/make or SCons?
I wasn't sourcing the correct file before.
I'm getting a ton of these now when I compile the Poisson demo:
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyObject_SetAttrString'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyType_IsSubtype'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyErr_Fetch'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyCObject_Import'
/home/logg/scratch/lib/fenics-dev/lib/libpytrilinos.so: undefined
reference to `PyExc_RuntimeError'
Any ideas? I have never really used Trilinos before so I'm not
familiar with how it's setup, but do we really use the Python wrappers
for Trilinos? Perhaps they can be disabled in the build to get around
this.
--
Anders
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Re: [Dolfin] UFC Python wrapper location change?
On Fri, 2010-08-20 at 21:05 +0200, Anders Logg wrote:
> On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
> > On Friday August 20 2010 03:10:27 Anders Logg wrote:
> > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> > > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> > > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote:
> > > > > > I'm running into a Python error (below), which I suspect is due to
> > > > > > the relocation of the UFC Python module (now in its own
> > > > > > subdirectory). Do I need to add
> > > > > >
> > > > > > from ufc import *
> > > > > >
> > > > > > somewhere?
> > > > > >
> > > > > > Garth
> > > > > >
> > > > > > Traceback (most recent call last):
> > > > > > File "demo.py", line 20, in
> > > > > >
> > > > > > from dolfin import *
> > > > > >
> > > > > > File
> > > > > >
> > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.
> > > > > > py", line 13, in
> > > > > >
> > > > > > import dolfin.cpp as cpp
> > > > > >
> > > > > > File
> > > > > >
> > > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py",
> > > > > > line 8902, in
> > > > > >
> > > > > > class GenericFunction(ufc.function,Variable):
> > > > > > AttributeError: 'module' object has no attribute 'function'
> > > > >
> > > > > Looks like a missing __init__.py in the ufc directory, but I thought
> > > > > that was added?
> > > >
> > > > It's present on my machine.
> > > >
> > > >
> > > > Make sure that you clean out any pkg-config and old versions for UFC.
> > >
> > > It's all installed in one directory which I just delete before
> > > testing.
> >
> > You also need to get rid of old ufc.py{c} and _ufc.so sticking around.
>
> They are also somewhere under the same install tree and I just delete
> the entire tree so that shouldn't be an issue.
>
> > Does it work now when function is imported?
>
> Yes, everything builds fine (just finished on Lucid) but something is
> wrong which prevents me from running the demos. Will need to debug.
>
Are you compiling the demos with CMake/make or SCons?
Garth
> --
> Anders
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Re: [Dolfin] UFC Python wrapper location change?
On Fri, Aug 20, 2010 at 11:01:40AM -0700, Johan Hake wrote:
> On Friday August 20 2010 03:10:27 Anders Logg wrote:
> > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote:
> > > > > I'm running into a Python error (below), which I suspect is due to
> > > > > the relocation of the UFC Python module (now in its own
> > > > > subdirectory). Do I need to add
> > > > >
> > > > > from ufc import *
> > > > >
> > > > > somewhere?
> > > > >
> > > > > Garth
> > > > >
> > > > > Traceback (most recent call last):
> > > > > File "demo.py", line 20, in
> > > > >
> > > > > from dolfin import *
> > > > >
> > > > > File
> > > > >
> > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.
> > > > > py", line 13, in
> > > > >
> > > > > import dolfin.cpp as cpp
> > > > >
> > > > > File
> > > > >
> > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py",
> > > > > line 8902, in
> > > > >
> > > > > class GenericFunction(ufc.function,Variable):
> > > > > AttributeError: 'module' object has no attribute 'function'
> > > >
> > > > Looks like a missing __init__.py in the ufc directory, but I thought
> > > > that was added?
> > >
> > > It's present on my machine.
> > >
> > >
> > > Make sure that you clean out any pkg-config and old versions for UFC.
> >
> > It's all installed in one directory which I just delete before
> > testing.
>
> You also need to get rid of old ufc.py{c} and _ufc.so sticking around.
They are also somewhere under the same install tree and I just delete
the entire tree so that shouldn't be an issue.
> Does it work now when function is imported?
Yes, everything builds fine (just finished on Lucid) but something is
wrong which prevents me from running the demos. Will need to debug.
--
Anders
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Re: [Dolfin] UFC Python wrapper location change?
On Friday August 20 2010 03:10:27 Anders Logg wrote:
> On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote:
> > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote:
> > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote:
> > > > I'm running into a Python error (below), which I suspect is due to
> > > > the relocation of the UFC Python module (now in its own
> > > > subdirectory). Do I need to add
> > > >
> > > > from ufc import *
> > > >
> > > > somewhere?
> > > >
> > > > Garth
> > > >
> > > > Traceback (most recent call last):
> > > > File "demo.py", line 20, in
> > > >
> > > > from dolfin import *
> > > >
> > > > File
> > > >
> > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.
> > > > py", line 13, in
> > > >
> > > > import dolfin.cpp as cpp
> > > >
> > > > File
> > > >
> > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py",
> > > > line 8902, in
> > > >
> > > > class GenericFunction(ufc.function,Variable):
> > > > AttributeError: 'module' object has no attribute 'function'
> > >
> > > Looks like a missing __init__.py in the ufc directory, but I thought
> > > that was added?
> >
> > It's present on my machine.
> >
> >
> > Make sure that you clean out any pkg-config and old versions for UFC.
>
> It's all installed in one directory which I just delete before
> testing.
You also need to get rid of old ufc.py{c} and _ufc.so sticking around.
Does it work now when function is imported?
Johan
> Can you give a short guide to running virtual machines for other OS on
> my Ubuntu Lucid machine? I'm thinking of testing earlier Ubuntu
> versions (+ Lucid and OS X).
>
> --
> Anders
>
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Re: [Dolfin] UFC Python wrapper location change?
On Fri, Aug 20, 2010 at 12:17:15PM +0200, Johannes Ring wrote: > On Fri, Aug 20, 2010 at 12:10 PM, Anders Logg wrote: > > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote: > >> On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote: > >> > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote: > >> > > I'm running into a Python error (below), which I suspect is due to the > >> > > relocation of the UFC Python module (now in its own subdirectory). Do I > >> > > need to add > >> > > > >> > > from ufc import * > >> > > > >> > > somewhere? > >> > > > >> > > Garth > >> > > > >> > > Traceback (most recent call last): > >> > > File "demo.py", line 20, in > >> > > from dolfin import * > >> > > File > >> > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.py", > >> > > line 13, in > >> > > import dolfin.cpp as cpp > >> > > File > >> > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", > >> > > line 8902, in > >> > > class GenericFunction(ufc.function,Variable): > >> > > AttributeError: 'module' object has no attribute 'function' > >> > > >> > Looks like a missing __init__.py in the ufc directory, but I thought > >> > that was added? > >> > > >> > >> It's present on my machine. > >> > >> > >> Make sure that you clean out any pkg-config and old versions for UFC. > > > > It's all installed in one directory which I just delete before > > testing. > > > > Can you give a short guide to running virtual machines for other OS on > > my Ubuntu Lucid machine? I'm thinking of testing earlier Ubuntu > > versions (+ Lucid and OS X). > > For testing earlier versions of Ubuntu and Debian I would recommend > setting up a chroot environment: > > https://wiki.ubuntu.com/DebootstrapChroot > > Johannes I will probably try VirtualBox. I realize I need to run it on the Mac since I don't have enough disk space on my Lucid laptop. Thanks for the pointers. -- Anders ___ Mailing list: https://launchpad.net/~dolfin Post to : dolfin@lists.launchpad.net Unsubscribe : https://launchpad.net/~dolfin More help : https://help.launchpad.net/ListHelp
Re: [Dolfin] UFC Python wrapper location change?
On Fri, 2010-08-20 at 12:10 +0200, Anders Logg wrote: > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote: > > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote: > > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote: > > > > I'm running into a Python error (below), which I suspect is due to the > > > > relocation of the UFC Python module (now in its own subdirectory). Do I > > > > need to add > > > > > > > > from ufc import * > > > > > > > > somewhere? > > > > > > > > Garth > > > > > > > > Traceback (most recent call last): > > > > File "demo.py", line 20, in > > > > from dolfin import * > > > > File > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.py", > > > > line 13, in > > > > import dolfin.cpp as cpp > > > > File > > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", > > > > line 8902, in > > > > class GenericFunction(ufc.function,Variable): > > > > AttributeError: 'module' object has no attribute 'function' > > > > > > Looks like a missing __init__.py in the ufc directory, but I thought > > > that was added? > > > > > > > It's present on my machine. > > > > > > Make sure that you clean out any pkg-config and old versions for UFC. > > It's all installed in one directory which I just delete before > testing. > > Can you give a short guide to running virtual machines for other OS on > my Ubuntu Lucid machine? I'm thinking of testing earlier Ubuntu > versions (+ Lucid and OS X). > I use VirtualBox. It's really easy. Garth > -- > Anders ___ Mailing list: https://launchpad.net/~dolfin Post to : dolfin@lists.launchpad.net Unsubscribe : https://launchpad.net/~dolfin More help : https://help.launchpad.net/ListHelp
Re: [Dolfin] UFC Python wrapper location change?
On Fri, Aug 20, 2010 at 12:10 PM, Anders Logg wrote: > On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote: >> On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote: >> > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote: >> > > I'm running into a Python error (below), which I suspect is due to the >> > > relocation of the UFC Python module (now in its own subdirectory). Do I >> > > need to add >> > > >> > > from ufc import * >> > > >> > > somewhere? >> > > >> > > Garth >> > > >> > > Traceback (most recent call last): >> > > File "demo.py", line 20, in >> > > from dolfin import * >> > > File >> > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.py", >> > > line 13, in >> > > import dolfin.cpp as cpp >> > > File >> > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", >> > > line 8902, in >> > > class GenericFunction(ufc.function,Variable): >> > > AttributeError: 'module' object has no attribute 'function' >> > >> > Looks like a missing __init__.py in the ufc directory, but I thought >> > that was added? >> > >> >> It's present on my machine. >> >> >> Make sure that you clean out any pkg-config and old versions for UFC. > > It's all installed in one directory which I just delete before > testing. > > Can you give a short guide to running virtual machines for other OS on > my Ubuntu Lucid machine? I'm thinking of testing earlier Ubuntu > versions (+ Lucid and OS X). For testing earlier versions of Ubuntu and Debian I would recommend setting up a chroot environment: https://wiki.ubuntu.com/DebootstrapChroot Johannes > -- > Anders > > ___ > Mailing list: https://launchpad.net/~dolfin > Post to : dolfin@lists.launchpad.net > Unsubscribe : https://launchpad.net/~dolfin > More help : https://help.launchpad.net/ListHelp > ___ Mailing list: https://launchpad.net/~dolfin Post to : dolfin@lists.launchpad.net Unsubscribe : https://launchpad.net/~dolfin More help : https://help.launchpad.net/ListHelp
Re: [Dolfin] UFC Python wrapper location change?
On Fri, Aug 20, 2010 at 11:03:21AM +0100, Garth N. Wells wrote: > On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote: > > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote: > > > I'm running into a Python error (below), which I suspect is due to the > > > relocation of the UFC Python module (now in its own subdirectory). Do I > > > need to add > > > > > > from ufc import * > > > > > > somewhere? > > > > > > Garth > > > > > > Traceback (most recent call last): > > > File "demo.py", line 20, in > > > from dolfin import * > > > File > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.py", > > > line 13, in > > > import dolfin.cpp as cpp > > > File > > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", > > > line 8902, in > > > class GenericFunction(ufc.function,Variable): > > > AttributeError: 'module' object has no attribute 'function' > > > > Looks like a missing __init__.py in the ufc directory, but I thought > > that was added? > > > > It's present on my machine. > > > Make sure that you clean out any pkg-config and old versions for UFC. It's all installed in one directory which I just delete before testing. Can you give a short guide to running virtual machines for other OS on my Ubuntu Lucid machine? I'm thinking of testing earlier Ubuntu versions (+ Lucid and OS X). -- Anders ___ Mailing list: https://launchpad.net/~dolfin Post to : dolfin@lists.launchpad.net Unsubscribe : https://launchpad.net/~dolfin More help : https://help.launchpad.net/ListHelp
Re: [Dolfin] UFC Python wrapper location change?
On Fri, 2010-08-20 at 11:56 +0200, Anders Logg wrote: > On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote: > > I'm running into a Python error (below), which I suspect is due to the > > relocation of the UFC Python module (now in its own subdirectory). Do I > > need to add > > > > from ufc import * > > > > somewhere? > > > > Garth > > > > Traceback (most recent call last): > > File "demo.py", line 20, in > > from dolfin import * > > File > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.py", > > line 13, in > > import dolfin.cpp as cpp > > File > > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", > > line 8902, in > > class GenericFunction(ufc.function,Variable): > > AttributeError: 'module' object has no attribute 'function' > > Looks like a missing __init__.py in the ufc directory, but I thought > that was added? > It's present on my machine. > -- > Anders > > PS: Will be offline for a few hours. Things building fine on my Lucid > machine so far. Make sure that you clean out any pkg-config and old versions for UFC. Garth ___ Mailing list: https://launchpad.net/~dolfin Post to : dolfin@lists.launchpad.net Unsubscribe : https://launchpad.net/~dolfin More help : https://help.launchpad.net/ListHelp
Re: [Dolfin] UFC Python wrapper location change?
On Fri, Aug 20, 2010 at 10:54:04AM +0100, Garth N. Wells wrote: > I'm running into a Python error (below), which I suspect is due to the > relocation of the UFC Python module (now in its own subdirectory). Do I > need to add > > from ufc import * > > somewhere? > > Garth > > Traceback (most recent call last): > File "demo.py", line 20, in > from dolfin import * > File > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/__init__.py", > line 13, in > import dolfin.cpp as cpp > File > "/home/garth/Work/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", > line 8902, in > class GenericFunction(ufc.function,Variable): > AttributeError: 'module' object has no attribute 'function' Looks like a missing __init__.py in the ufc directory, but I thought that was added? -- Anders PS: Will be offline for a few hours. Things building fine on my Lucid machine so far. ___ Mailing list: https://launchpad.net/~dolfin Post to : dolfin@lists.launchpad.net Unsubscribe : https://launchpad.net/~dolfin More help : https://help.launchpad.net/ListHelp
