On Thu, 18 Dec 2014 14:33:40 +1300 Bart Verleye <[email protected]> wrote:
> > > > So, you're trying now with master, right? > > Yes, I cloned everything from git > > > > >> > >> However, now I'm getting the error below. I tried using COMMANDS > > > > This does not do what expected, see > > https://bitbucket.org/fenics-project/instant/commits/f425083bd29b358e677a683ebb5551f3c55d43a1#comment-1497241 > > > >> instead of SUBPROCESS and also changed getstatusoutput to > >> get_status_output, according to what I found on FEniCS help pages, > > > > Why? > > > > Preventively try running 'instant-clean' script. Then check whether > > directories specified in INSTANT_CACHE_DIR and INSTANT_ERROR_DIR > > environment variables exist and are writable. > > > > What does it do with INSTANT_CALL_METHOD='SUBPROCESS','OS_SYSTEM' or > > 'COMMANDS' (without any modification). Also what about > > INSTANT_CALL_METHOD='COMMANDS' with the following patch? > > > > ============================================================================== > > diff --git a/instant/output.py b/instant/output.py > > index def2587..58b9f8b 100644 > > --- a/instant/output.py > > +++ b/instant/output.py > > @@ -157,9 +157,9 @@ elif _call_method == 'OS_SYSTEM': > > return (status, output) > > > > elif _call_method == 'COMMANDS': > > - import subprocess > > + import commands > > def get_status_output(*args, **kwargs): > > - status, output = subprocess.getstatusoutput(*args, > > **kwargs) > > + status, output = commands.getstatusoutput(*args, **kwargs) > > output = output.decode('utf-8') if sys.version_info[0] > 2 > > else output return status, output > > else: > > > ============================================================================== > > > > That worked, thanks. > > > We are getting there...but, > > The Poisson example requires UMFPack to be installed with dolfin. I Certainly not, there's not single word http://fenicsproject.org/documentation/dolfin/dev/python/demo/documented/poisson/python/documentation.html about UMFPack. > tried two versions, 4.2 and 4.4, pointed to the include dir and > library in the ccmake interface, but it seems not to find it. > > Does dolfin depend on a specific version of UMFPack? Or are there any > other dependencies that have to be set for dolfin to work with > UMFPack? Nobody knows probably, because classes UmfpackLUSolver and CholmodCholeskySolver are not covered by tests, demos and used at all with usual DOLFIN build with PETSc. Instead PETScLUSolver is usually employed and it can use PETSc UMFPACK, CHOLMOD, ... So you should not need building DOLFIN with UMFPACK/CHOLDMOD. Jan > > Thanks. > Bart > > > > > > > > Jan > > > >> but the error still remains. > >> > >> Thanks, > >> Bart > >> > >> > >> > >> (virtualPython)bver018 build-wm-p > >> /projects/uoa00295/virtualPython/lib/python2.7/site-packages/instant > >> $ python poisson.py > >> > >> Calling FFC just-in-time (JIT) compiler, this may take some time. > >> Traceback (most recent call last): > >> File "/projects/uoa00295/test/poisson.py", line 6, in <module> > >> V = FunctionSpace(mesh, 'Lagrange', 1) > >> File > >> "/projects/uoa00295/dolfin/build/lib/python2.7/site-packages/dolfin/functions/functionspace.py", > >> line 468, in __init__ > >> FunctionSpaceBase.__init__(self, mesh, element, > >> constrained_domain) File > >> "/projects/uoa00295/dolfin/build/lib/python2.7/site-packages/dolfin/functions/functionspace.py", > >> line 153, in __init__ > >> ufc_element, ufc_dofmap = jit(self._ufl_element, > >> mpi_comm=mesh.mpi_comm()) > >> File > >> "/projects/uoa00295/dolfin/build/lib/python2.7/site-packages/dolfin/compilemodules/jit.py", > >> line 64, in mpi_jit > >> return local_jit(*args, **kwargs) > >> File > >> "/projects/uoa00295/dolfin/build/lib/python2.7/site-packages/dolfin/compilemodules/jit.py", > >> line 128, in jit > >> return form_compiler.jit(form, parameters=p) > >> File > >> "/gpfs1m/projects/uoa00295/virtualPython/lib/python2.7/site-packages/ffc/jitcompiler.py", > >> line 72, in jit > >> return jit_element(ufl_object, parameters) > >> File > >> "/gpfs1m/projects/uoa00295/virtualPython/lib/python2.7/site-packages/ffc/jitcompiler.py", > >> line 177, in jit_element > >> compiled_form, module, prefix = jit_form(form, parameters) > >> File > >> "/gpfs1m/projects/uoa00295/virtualPython/lib/python2.7/site-packages/ffc/jitcompiler.py", > >> line 148, in jit_form > >> cache_dir = cache_dir) > >> File > >> "/gpfs1m/projects/uoa00295/virtualPython/lib/python2.7/site-packages/ffc/backends/ufc/build.py", > >> line 73, in build_ufc_module > >> **kwargs) > >> File > >> "/gpfs1m/projects/uoa00295/virtualPython/lib/python2.7/site-packages/instant/build.py", > >> line 563, in build_module > >> recompile(modulename, module_path, new_compilation_checksum, > >> build_system) > >> File > >> "/gpfs1m/projects/uoa00295/virtualPython/lib/python2.7/site-packages/instant/build.py", > >> line 144, in recompile > >> ret, output = get_status_output(cmd) > >> File > >> "/gpfs1m/projects/uoa00295/virtualPython/lib/python2.7/site-packages/instant/output.py", > >> line 163, in get_status_output > >> status, output = subprocess.check_output(*args, **kwargs) > >> File > >> "/share/easybuild/RHEL6.3/westmere/software/Python/2.7.8-goolf-1.5.14/lib/python2.7/subprocess.py", > >> line 566, in check_output > >> process = Popen(stdout=PIPE, *popenargs, **kwargs) > >> File > >> "/share/easybuild/RHEL6.3/westmere/software/Python/2.7.8-goolf-1.5.14/lib/python2.7/subprocess.py", > >> line 710, in __init__ > >> errread, errwrite) > >> File > >> "/share/easybuild/RHEL6.3/westmere/software/Python/2.7.8-goolf-1.5.14/lib/python2.7/subprocess.py", > >> line 1327, in _execute_child > >> raise child_exception > >> OSError: [Errno 2] No such file or directory > >> > > >> > Jan > >> > > >> >> > >> >> Thanks, > >> >> Bart > >> >> > >> >> > >> >> > >> > > >> > > > _______________________________________________ fenics-support mailing list [email protected] http://fenicsproject.org/mailman/listinfo/fenics-support
