Bug#631589: python-dolfin: python -c import dolfin fails with MPI error
Hi Luk, thanks for the report and sorry for the late reply. On Sat, Jun 25, 2011 at 7:57 AM, LUK ShunTim shuntim@polyu.edu.hk wrote: $ python -c import dolfin *** The MPI_comm_size() function was called before MPI_INIT was invoked. *** This is disallowed by the MPI standard. *** Your MPI job will now abort. Does importing PyTrilinos before dolfin fix this problem for you? Try: $ python -c import PyTrilinos;import dolfin This fixes the problem for me. Johannes -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#631589: python-dolfin: python -c import dolfin fails with MPI error
On 08/16/2011 05:30 PM, Johannes Ring wrote: Hi Luk, thanks for the report and sorry for the late reply. On Sat, Jun 25, 2011 at 7:57 AM, LUK ShunTim shuntim@polyu.edu.hk wrote: $ python -c import dolfin *** The MPI_comm_size() function was called before MPI_INIT was invoked. *** This is disallowed by the MPI standard. *** Your MPI job will now abort. Does importing PyTrilinos before dolfin fix this problem for you? Try: $ python -c import PyTrilinos;import dolfin This fixes the problem for me. Yes, it does. Johannes Now an OT bug. :-) I added the import PyTrilinos to demo_poisson.py and got a ufl.Form error. $ python demo_poisson.py Deprecated: ufl.Form has no properties '*_domains'. To associate domains with a form, use dss = ds[mydomains]; a = f*dss(1). Traceback (most recent call last): File demo_poisson.py, line 63, in module problem = VariationalProblem(a, L, bc) File /usr/lib/python2.6/dist-packages/dolfin/fem/variationalproblem.py, line 64, in __init__ self.a = Form(a, form_compiler_parameters=form_compiler_parameters) File /usr/lib/python2.6/dist-packages/dolfin/fem/form.py, line 70, in __init__ if form.cell_domains is not None: File /usr/lib/python2.6/dist-packages/ufl/form.py, line 58, in _get_domains self._trigger_domain_error() File /usr/lib/python2.6/dist-packages/ufl/form.py, line 56, in _trigger_domain_error error(msg) File /usr/lib/python2.6/dist-packages/ufl/log.py, line 148, in error raise self._exception_type(self._format_raw(*message)) ufl.log.UFLException: Deprecated: ufl.Form has no properties '*_domains'. To associate domains with a form, use dss = ds[mydomains]; a = f*dss(1). I guess this will be fixed with the pending 1.0 release. Regards, ST -- -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#631589: python-dolfin: python -c import dolfin fails with MPI error
On Tue, Aug 16, 2011 at 1:00 PM, LUK ShunTim shuntim@polyu.edu.hk wrote: Yes, it does. Good. I will add import PyTrilinos at the top of dolfin/__init__.py to make sure that it will be imported before dolfin. Now an OT bug. :-) I added the import PyTrilinos to demo_poisson.py and got a ufl.Form error. $ python demo_poisson.py Deprecated: ufl.Form has no properties '*_domains'. To associate domains with a form, use dss = ds[mydomains]; a = f*dss(1). Traceback (most recent call last): File demo_poisson.py, line 63, in module problem = VariationalProblem(a, L, bc) File /usr/lib/python2.6/dist-packages/dolfin/fem/variationalproblem.py, line 64, in __init__ self.a = Form(a, form_compiler_parameters=form_compiler_parameters) File /usr/lib/python2.6/dist-packages/dolfin/fem/form.py, line 70, in __init__ if form.cell_domains is not None: File /usr/lib/python2.6/dist-packages/ufl/form.py, line 58, in _get_domains self._trigger_domain_error() File /usr/lib/python2.6/dist-packages/ufl/form.py, line 56, in _trigger_domain_error error(msg) File /usr/lib/python2.6/dist-packages/ufl/log.py, line 148, in error raise self._exception_type(self._format_raw(*message)) ufl.log.UFLException: Deprecated: ufl.Form has no properties '*_domains'. To associate domains with a form, use dss = ds[mydomains]; a = f*dss(1). I guess this will be fixed with the pending 1.0 release. Yes, it's probably an incompatibility between ufl 1.0-beta2 and dolfin 0.9.11, and it should be fixed with the 1.0-beta release. I'm about to prepare a RFS now. Thanks, Johannes -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#631589: python-dolfin: python -c import dolfin fails with MPI error
Package: python-dolfin Version: 0.9.11-1+b1 Severity: grave Justification: renders package unusable Hi, Here's a transcript. $ python -c import dolfin *** The MPI_comm_size() function was called before MPI_INIT was invoked. *** This is disallowed by the MPI standard. *** Your MPI job will now abort. Same error as reported in https://answers.launchpad.net/dolfin/+question/152620 which was fixed in ubuntu ppa. Please upload a fixed package for debian as well. Regards, ST -- System Information: Debian Release: wheezy/sid APT prefers unstable APT policy: (900, 'unstable'), (500, 'gutsy') Architecture: amd64 (x86_64) Kernel: Linux 2.6.39-2-amd64 (SMP w/4 CPU cores) Locale: LANG=en_HK.UTF-8, LC_CTYPE=en_US.UTF8 (charmap=UTF-8) Shell: /bin/sh linked to /bin/bash Versions of packages python-dolfin depends on: ii libamd2.2.0 1:3.4.0-2 approximate minimum degree orderin ii libarmadillo21.99.3+dfsg-1 streamlined C++ linear algebra lib ii libarpack2 2.1+parpack96.dfsg-3+b1 Fortran77 subroutines to solve lar ii libatlas3gf-base 3.8.4-3 Automatically Tuned Linear Algebra ii libblas3gf [libb 1.2-8 Basic Linear Algebra Reference imp ii libboost-filesys 1.46.1-6filesystem operations (portable pa ii libboost-program 1.46.1-6program options library for C++ ii libboost-system1 1.46.1-6Operating system (e.g. diagnostics ii libboost-thread1 1.46.1-6portable C++ multi-threading pn libc6none (no description available) ii libcamd2.2.0 1:3.4.0-2 symmetric approximate minimum degr ii libccolamd2.7.1 1:3.4.0-2 constrained column approximate lib ii libcholmod1.7.1 1:3.4.0-2 sparse Cholesky factorization libr ii libcolamd2.7.1 1:3.4.0-2 column approximate minimum degree ii libdolfin0 0.9.11-1+b1 shared libraries for DOLFIN ii libdolfin0-dev 0.9.11-1+b1 Shared links and header files for ii libgcc1 1:4.6.0-14 GCC support library ii libgomp1 4.6.0-14GCC OpenMP (GOMP) support library ii liblapack3gf [li 3.3.0-4 library of linear algebra routines ii libopenmpi1.31.4.3-2.1 high performance message passing l ii libpetsc3.1 3.1.dfsg-11 Shared libraries for version 3.1 o ii libptscotch-5.1 5.1.11.dfsg-7 MPI programs and libraries for gra ii libpython2.6 2.6.7-1 Shared Python runtime library (ver ii libpython2.7 2.7.2-1 Shared Python runtime library (ver ii libslepc3.1 3.1-p6.dfsg-1 Scalable Library for Eigenvalue Pr ii libstdc++6 4.6.0-14GNU Standard C++ Library v3 ii libtrilinos 10.4.0.dfsg-1 parallel solver libraries within a ii libumfpack5.4.0 1:3.4.0-2 sparse LU factorization library ii libxml2 2.7.8.dfsg-3GNOME XML library ii python 2.6.6-14interactive high-level object-orie ii python-ffc 0.9.10-2compiler for finite element variat ii python-instant 0.9.10-1simple inlining of C / C++ code in ii python-numpy 1:1.5.1-2+b1Numerical Python adds a fast array ii python-pytrilino 10.4.0.dfsg-1 parallel solver libraries within a ii python-ufc 2.0.1-1 Python utilities (templates) for g ii python-ufl 0.9.1-1 unified language for form-compiler ii python-viper 0.4.7-2 minimalistic scientific plotter an ii python2.62.6.7-1 An interactive high-level object-o ii python2.72.7.2-1 An interactive high-level object-o ii swig2.0 2.0.4-2 Generate scripting interfaces to C ii zlib1g 1:1.2.3.4.dfsg-3compression library - runtime python-dolfin recommends no packages. Versions of packages python-dolfin suggests: ii dolfin-doc0.9.11-1 Documentation and demo programs fo -- no debconf information -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
