Bug#531419: [Debichem-devel] Bug#531419: gromacs: FTBFS: error: couldn't find library libmd_mpi_d_openmpi.so.5

2009-06-03 Thread Manuel Prinz
Am Dienstag, den 02.06.2009, 15:29 -0700 schrieb Nicholas Breen: Doesn't seem like it was necessarily the eglibc switch, though. Downgrading to openmpi 1.3-2 on an otherwise up-to-date sid box doesn't show the bug. fakeroot 1.12.2, libc6 2.9-13. Interestingly, it works with OpenMPI 1.3.2 on

Bug#531419: [Debichem-devel] Bug#531419: gromacs: FTBFS: error: couldn't find library libmd_mpi_d_openmpi.so.5

2009-06-02 Thread Manuel Prinz
Am Montag, den 01.06.2009, 19:15 -0700 schrieb Nicholas Breen: I confess that the peculiar interactions of compilers, fakeroot, and (e)glibc put me well out of my depth. ACK. But from what I see and experienced, I get the feeling that it's related to eglibc. Anyway, here is my backtrace

Bug#531419: [Debichem-devel] Bug#531419: gromacs: FTBFS: error: couldn't find library libmd_mpi_d_openmpi.so.5

2009-06-02 Thread Nicholas Breen
(Adding Cc: #531522, the bug I cloned to openmpi.) On Tue, Jun 02, 2009 at 11:38:20PM +0200, Manuel Prinz wrote: ACK. But from what I see and experienced, I get the feeling that it's related to eglibc. Anyway, here is my backtrace (amd64): Doesn't seem like it was necessarily the eglibc

Bug#531419: [Debichem-devel] Bug#531419: gromacs: FTBFS: error: couldn't find library libmd_mpi_d_openmpi.so.5

2009-06-01 Thread Nicholas Breen
On Mon, Jun 01, 2009 at 12:57:49PM +0200, Kurt Roeckx wrote: Source: gromacs Version: 4.0.5-2 Severity: serious Hi, There was an error while trying to autobuild your package: [...] Looks like another victim of #531184, the MPI update-alternatives bug you filed on Saturday; should clear

Bug#531419: [Debichem-devel] Bug#531419: gromacs: FTBFS: error: couldn't find library libmd_mpi_d_openmpi.so.5

2009-06-01 Thread Kurt Roeckx
On Mon, Jun 01, 2009 at 01:02:19PM -0700, Nicholas Breen wrote: On Mon, Jun 01, 2009 at 12:57:49PM +0200, Kurt Roeckx wrote: Source: gromacs Version: 4.0.5-2 Severity: serious Hi, There was an error while trying to autobuild your package: [...] Looks like another victim of

Bug#531419: [Debichem-devel] Bug#531419: gromacs: FTBFS: error: couldn't find library libmd_mpi_d_openmpi.so.5

2009-06-01 Thread Nicholas Breen
clone 531419 -1 reassign -1 libopenmpi-dev retitle -1 libopenmpi-dev: mpicc segfaults under fakeroot block 531419 by -1 thanks Okay, it looks like the root cause is something that's appeared recently in openmpi - it fails under 1.3.2-2, but works under 1.3-2. Manuel, I'm cloning the bug for