On 29 March 2016 at 20:18, George Ovchinnikov <lives9@gmail.com> wrote:

I'm trying to update firedrake, but getting

TESTING: configureLibrary from
config.packages.netcdf(/tmp/pip-YAhIai-build/config/BuildSystem/config/package.py:626)

===============================================================================
Trying to download
ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-4.3.2.tar.gz for NETCDF

===============================================================================

===============================================================================
Trying to download
http://ftp.mcs.anl.gov/pub/petsc/externalpackages/netcdf-4.3.2.tar.gz
for NETCDF

===============================================================================

===============================================================================
Trying to download
ftp://ftp.mcs.anl.gov/pub/petsc/externalpackages/netcdf-4.3.2.tar.gz for
NETCDF

===============================================================================

*******************************************************************************
UNABLE to CONFIGURE with GIVEN OPTIONS (see
configure.log for details):

-------------------------------------------------------------------------------
Unable to download NETCDF
Unable to download package NETCDF from:
ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-4.3.2.tar.gz
* If URL specified manually - perhaps there is a typo?
* If your network is disconnected - please reconnect and rerun
./configure
* Or perhaps you have a firewall blocking the download
* Alternatively, you can download the above URL manually, to
/yourselectedlocation/netcdf-4.3.2.tar.gz
and use the configure option:
--download-netcdf=/yourselectedlocation/netcdf-4.3.2.tar.gz
file could not be opened successfully
Downloaded package NETCDF from:
http://ftp.mcs.anl.gov/pub/petsc/externalpackages/netcdf-4.3.2.tar.gz is
not a tarball.
[or installed python cannot process compressed files]
* If you are behind a firewall - please fix your proxy and rerun
./configure
For example at LANL you may need to set the environmental variable
http_proxy (or HTTP_PROXY?) to http://proxyout.lanl.gov
* Alternatively, you can download the above URL manually, to
/yourselectedlocation/netcdf-4.3.2.tar.gz
and use the configure option:
--download-netcdf=/yourselectedlocation/netcdf-4.3.2.tar.gz
Unable to download package NETCDF from:
ftp://ftp.mcs.anl.gov/pub/petsc/externalpackages/netcdf-4.3.2.tar.gz
* If URL specified manually - perhaps there is a typo?
* If your network is disconnected - please reconnect and rerun
./configure
* Or perhaps you have a firewall blocking the download
* Alternatively, you can download the above URL manually, to
/yourselectedlocation/netcdf-4.3.2.tar.gz
and use the configure option:
--download-netcdf=/yourselectedlocation/netcdf-4.3.2.tar.gz

*******************************************************************************

Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-YAhIai-build/setup.py", line 302, in <module>
**metadata)
File "/usr/lib/python2.7/distutils/core.py", line 151, in setup
dist.run_commands()
File "/usr/lib/python2.7/distutils/dist.py", line 953, in run_commands
self.run_command(cmd)
File "/usr/lib/python2.7/distutils/dist.py", line 972, in run_command
cmd_obj.run()
File "/tmp/pip-YAhIai-build/setup.py", line 218, in run
config(prefix, self.dry_run)
File "/tmp/pip-YAhIai-build/setup.py", line 148, in config
if status != 0: raise RuntimeError(status)
RuntimeError: 256

----------------------------------------
Command "/home/george/polygon/firedrake/bin/python -u -c "import
setuptools,
tokenize;__file__='/tmp/pip-YAhIai-build/setup.py';exec(compile(getattr(tokenize,
'open', open)(__file__).read().replace('\r\n', '\n'), __file__,
'exec'))" install --record /tmp/pip-OhlEEH-record/install-record.txt
--single-version-externally-managed --compile --install-headers
/home/george/polygon/firedrake/include/site/python2.7/petsc" failed with
error code 1 in /tmp/pip-YAhIai-build/
Traceback (most recent call last):
File "firedrake-install", line 836, in <module>
install("petsc/")
File "firedrake-install", line 497, in install
run_pip_install(["--ignore-installed", package])
File "firedrake-install", line 360, in run_pip_install
check_call(pipinstall + pipargs)
File "firedrake-install", line 211, in check_call
subprocess.check_call(arguments, env=env)
File "/usr/lib/python2.7/subprocess.py", line 540, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command
'['/home/george/polygon/firedrake/bin/pip', 'install', '--no-deps',
'--ignore-installed', 'petsc/']' returned non-zero exit status 1

On all of the abovementioned urls I'm getting 403 error when trying to
access manually.

Sincerely,
George

On 29.03.2016 18:30, Andrew McRae wrote:
> I also note that your line numbers don't match up with the current
> codebase; e.g.
> https://github.com/firedrakeproject/firedrake/blob/master/firedrake/linear_solver.py
>
> On 29 March 2016 at 16:13, George Ovchinnikov <lives9@gmail.com

> <mailto:lives9@gmail.com>> wrote:
>
> Here it is
>
> ---------------------------------------------------------------------------
> KeyError Traceback (most recent
> call last)
> <ipython-input-8-752634385ffb> in <module>()
> 22
> 23 w_sol = Function(V)
> ---> 24 solve(frm_tilde, rhs, w_sol, solver_parameters={"ksp_type":
> "preonly", "pc_type": "lu"})
> 25 File("w_sol.pvd") << w_sol
>
> /home/george/polygon/firedrake_new/firedrake/local/lib/python2.7/site-packages/firedrake/solving.pyc
> in solve(*args, **kwargs)
> 121 else:
> 122 # Solve pre-assembled system
> --> 123 return _la_solve(*args, **kwargs)
> 124
> 125
>
> /home/george/polygon/firedrake_new/firedrake/local/lib/python2.7/site-packages/firedrake/solving.pyc
> in _la_solve(A, x, b, **kwargs)
> 209 options_prefix=options_prefix)
> 210
> --> 211 solver.solve(x, b)
> 212
> 213
>
> /home/george/polygon/firedrake_new/firedrake/local/lib/python2.7/site-packages/firedrake/linear_solver.pyc
> in solve(self, x, b)
> 140 r = self.ksp.getConvergedReason()
> 141 if r < 0:
> --> 142 raise RuntimeError("LinearSolver failed to converge
> after %d iterations with reason: %s", self.ksp.getIterationNumber(),
> solving_utils.KSPReasons[r])
>
> KeyError: -11
>
>
>
> On 29.03.2016 18:10, Andrew McRae wrote:
> > What output do you get?
> >
> > On 29 March 2016 at 16:09, George Ovchinnikov <lives9@gmail.com <mailto:lives9@gmail.com>

> > <mailto:lives9@gmail.com <mailto:lives9@gmail.com>>> wrote:
> >
> > Dear All,
> >
> > I have trilinear form a(w,u,v) and usually solve
> > a(w,u,v) = l(v), for u with fixed w.
> >
> > Here I have:
> >
> > a = w dot(grad(u), grad(v)) * dx,
> > and
> > l(v) = f * v * dx.
> >
> > Now, given u_tilde I want to solve for w, i.e. find
> > w_tilde such, that
> > a(w_tilde, u_tilde, v) = l(v), for any v in suitable subspace.
> >
> > I'm trying the following:
> >
> > mesh = UnitSquareMesh(size, size)
> > V = FunctionSpace(mesh, "CG", 1)
> >
> > f = Function(V)
> > f.interpolate(Expression("1"))
> >
> > u_tilde = Function(V)
> > u_tilde.interpolate(Expression("1/(1+exp(-1*x[0])) *
> > 1/(1+exp(-1*(1-x[0]))) *1/(1+exp(-1*x[1])) *
> 1/(1+exp(-1*(1-x[1])))" ))
> >
> > w_tilde = TrialFunction(V)
> > v = TestFunction(V)
> >
> > a_tilde = (w_tilde * dot(grad(u_tilde), grad(v))) * dx
> > frm_tilde = assemble( a_tilde )
> >
> > L = f * v * dx
> > rhs = assemble(L)
> >
> > w_sol = Function(V)
> > solve(frm_tilde, rhs, w_sol, solver_parameters={"ksp_type":
> "preonly",
> > "pc_type": "lu"})
> > File("w_sol.pvd") << w_sol
> >
> >
> > It fails to converge:
> > 140 r = self.ksp.getConvergedReason()
> > 141 if r < 0:
> > --> 142 raise RuntimeError("LinearSolver failed to
> converge
> > after %d iterations with reason: %s",
> self.ksp.getIterationNumber(),
> > solving_utils.KSPReasons[r])
> >
> > KeyError: -11
> >
> > I'm using direct method, not the iterative one, so what is
> happening
> > here?
> >
> > _______________________________________________
> > firedrake mailing list
> > firedrake@imperial.ac.uk <mailto:firedrake@imperial.ac.uk>

> <mailto:firedrake@imperial.ac.uk <mailto:firedrake@imperial.ac.uk>>

> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake
> >
> >
> >
> >
> > _______________________________________________
> > firedrake mailing list
> > firedrake@imperial.ac.uk <mailto:firedrake@imperial.ac.uk>
> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake
> >
>
>
> _______________________________________________
> firedrake mailing list
> firedrake@imperial.ac.uk <mailto:firedrake@imperial.ac.uk>
> https://mailman.ic.ac.uk/mailman/listinfo/firedrake
>
>
>
>
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>

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