I tried it again for libmpich-dev but it doesn't seem to be installed either. mosh@ubuntu:~$ dpkg -s libmpich-dev dpkg-query: package 'libmpich-dev' is not installed and no information is available Use dpkg --info (= dpkg-deb --info) to examine archive files, and dpkg --contents (= dpkg-deb --contents) to list their contents. 64bit doesn't work on my laptop for some reason (it's old) - it makes the graphics go funny and I can't see anything. Suet ________________________________________ From: Florian Rathgeber <florian.rathgeber@imperial.ac.uk> Sent: 16 November 2014 14:22 To: Lee, Suet; McRae, Andrew Cc: firedrake Subject: Re: Firedrake Installation [Please keep list in CC] On 16/11/14 14:12, Lee, Suet wrote:

Not sure if I'm doing it correctly but I tried this:

mosh@ubuntu:~$ dpkg -s mpich2 dpkg-query: package 'mpich2' is not installed and no information is available Use dpkg --info (= dpkg-deb --info) to examine archive files, and dpkg --contents (= dpkg-deb --contents) to list their contents.​

So the problem isn't down to mpich2?

Sorry, the package you want to look for is libmpich-dev Is there any reason to use a 32bit system? We explicitly do *not* support 32bit systems and there isn't really a reason not to use 64bit. Florian

Suet

------------------------------------------------------------------------ *From:* Andrew McRae <a.mcrae12@imperial.ac.uk> *Sent:* 16 November 2014 13:41 *To:* Lee, Suet *Subject:* Re: Firedrake Installation

I have no idea, but I've forwarded your problem to the Firedrake mailing list; some people on there know a lot more than me about MPI.

On 16 November 2014 13:28, Lee, Suet <suet.lee11@imperial.ac.uk <mailto:suet.lee11@imperial.ac.uk>> wrote:

I ran the install mpi4py commange but I have a new error now:

mosh@ubuntu:~$ wget -O - https://github.com/OP2/PyOP2/raw/master/install.sh | sudo bash --2014-11-16 13:20:14-- https://github.com/OP2/PyOP2/raw/master/install.sh Resolving github.com <http://github.com> (github.com <http://github.com>)... 192.30.252.131 Connecting to github.com <http://github.com> (github.com <http://github.com>)|192.30.252.131|:443... connected. HTTP request sent, awaiting response... 302 Found Location: https://raw.githubusercontent.com/OP2/PyOP2/master/install.sh [following] --2014-11-16 13:20:16-- https://raw.githubusercontent.com/OP2/PyOP2/master/install.sh Resolving raw.githubusercontent.com <http://raw.githubusercontent.com> (raw.githubusercontent.com <http://raw.githubusercontent.com>)... 185.31.18.133 Connecting to raw.githubusercontent.com <http://raw.githubusercontent.com> (raw.githubusercontent.com <http://raw.githubusercontent.com>)|185.31.18.133|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 3667 (3.6K) [text/plain] Saving to: ‘STDOUT’

100%[======================================>] 3,667 --.-K/s in 0s

2014-11-16 13:20:16 (40.6 MB/s) - written to stdout [3667/3667]

PyOP2 installation started at Sun Nov 16 13:20:16 GMT 2014 on Linux ubuntu 3.13.0-24-generic #46-Ubuntu SMP Thu Apr 10 19:08:14 UTC 2014 i686 i686 i686 GNU/Linux

*** Privileged installation *** Running unprivileged commands as mosh

*** Preparing system ***

*** Installing dependencies ***

*** Installing PETSc ***

*** Installing PyOP2 ***

[ubuntu:31603] *** Process received signal *** [ubuntu:31603] Signal: Floating point exception (8) [ubuntu:31603] Signal code: Integer divide-by-zero (1) [ubuntu:31603] Failing at address: 0xb74d6da0 [ubuntu:31603] [ 0] [0xb779a40c] [ubuntu:31603] [ 1] /usr/lib/i386-linux-gnu/libhwloc.so.5(+0x2cda0) [0xb74d6da0] [ubuntu:31603] [ 2] /usr/lib/i386-linux-gnu/libhwloc.so.5(+0x2e71c) [0xb74d871c] [ubuntu:31603] [ 3] /usr/lib/i386-linux-gnu/libhwloc.so.5(+0x2ea8b) [0xb74d8a8b] [ubuntu:31603] [ 4] /usr/lib/i386-linux-gnu/libhwloc.so.5(+0x98f6) [0xb74b38f6] [ubuntu:31603] [ 5] /usr/lib/i386-linux-gnu/libhwloc.so.5(hwloc_topology_load+0x1c6) [0xb74b48ec] [ubuntu:31603] [ 6] /usr/lib/libopen-rte.so.4(orte_odls_base_open+0x7b1) [0xb76fa881] [ubuntu:31603] [ 7] /usr/lib/openmpi/lib/openmpi/mca_ess_hnp.so(+0x2445) [0xb7488445] [ubuntu:31603] [ 8] /usr/lib/libopen-rte.so.4(orte_init+0x1cf) [0xb76cfb3f] [ubuntu:31603] [ 9] /usr/lib/libopen-rte.so.4(orte_daemon+0x256) [0xb76ec1c6] [ubuntu:31603] [10] orted() [0x80485b3] [ubuntu:31603] [11] /lib/i386-linux-gnu/libc.so.6(__libc_start_main+0xf3) [0xb7504a83] [ubuntu:31603] [12] orted() [0x80485f8] [ubuntu:31603] *** End of error message *** [ubuntu:31601] [[INVALID],INVALID] ORTE_ERROR_LOG: Unable to start a daemon on the local node in file ess_singleton_module.c at line 343 [ubuntu:31601] [[INVALID],INVALID] ORTE_ERROR_LOG: Unable to start a daemon on the local node in file ess_singleton_module.c at line 140 [ubuntu:31601] [[INVALID],INVALID] ORTE_ERROR_LOG: Unable to start a daemon on the local node in file runtime/orte_init.c at line 128 -------------------------------------------------------------------------- It looks like orte_init failed for some reason; your parallel process is likely to abort. There are many reasons that a parallel process can fail during orte_init; some of which are due to configuration or environment problems. This failure appears to be an internal failure; here's some additional information (which may only be relevant to an Open MPI developer):

orte_ess_set_name failed --> Returned value Unable to start a daemon on the local node (-128) instead of ORTE_SUCCESS -------------------------------------------------------------------------- -------------------------------------------------------------------------- It looks like MPI_INIT failed for some reason; your parallel process is likely to abort. There are many reasons that a parallel process can fail during MPI_INIT; some of which are due to configuration or environment problems. This failure appears to be an internal failure; here's some additional information (which may only be relevant to an Open MPI developer):

ompi_mpi_init: orte_init failed --> Returned "Unable to start a daemon on the local node" (-128) instead of "Success" (0) -------------------------------------------------------------------------- [ubuntu:31601] *** An error occurred in MPI_Init_thread [ubuntu:31601] *** on a NULL communicator [ubuntu:31601] *** Unknown error [ubuntu:31601] *** MPI_ERRORS_ARE_FATAL: your MPI job will now abort -------------------------------------------------------------------------- An MPI process is aborting at a time when it cannot guarantee that all of its peer processes in the job will be killed properly. You should double check that everything has shut down cleanly.

Reason: Before MPI_INIT completed Local host: ubuntu PID: 31601 -------------------------------------------------------------------------- PyOP2 installation failed See /home/mosh/PyOP2/pyop2_install.log for details

Any idea what's going on?

Suet

------------------------------------------------------------------------ *From:* Andrew McRae <a.mcrae12@imperial.ac.uk <mailto:a.mcrae12@imperial.ac.uk>> *Sent:* 15 November 2014 23:13 *To:* Lee, Suet *Subject:* Re: Firedrake Installation

Or, if you want to be a guinea pig, don't run the 'sudo pip install mpi4py' command and just run the install script again :)

(I updated <https://github.com/OP2/PyOP2/commit/e15b3ee8d72369f10c9a84d944a3ecbf06f7e927> the script just now -- thanks for alerting us to that bug)

On 15 November 2014 23:09, Andrew McRae <a.mcrae12@imperial.ac.uk <mailto:a.mcrae12@imperial.ac.uk>> wrote:

Hi Suet,

Sorry about that. This should fix the mpi4py problem: sudo pip install mpi4py

Then try the quick install script again.

Yes, PyOP2, FFC, FIAT and UFL need to be installed before firerake. However, installing FFC/FIAT/UFL is easy -- you just run the 'sudo pip install \ six \ sympy \ ...' command, as described on http://www.firedrakeproject.org/download.html.

Let me know if there's any other problems.

Best,

Andrew

On 15 November 2014 23:00, Lee, Suet <suet.lee11@imperial.ac.uk <mailto:suet.lee11@imperial.ac.uk>> wrote:

Hi Andrew,

So I finally got round to the Firedrake installation!

I'm trying to install PyOP2. The only problem is that I'm running up against the following error:

PyOP2 installation started at Sat Nov 15 22:38:45 GMT 2014 on Linux ubuntu 3.13.0-24-generic #46-Ubuntu SMP Thu Apr 10 19:08:14 UTC 2014 i686 i686 i686 GNU/Linux

*** Privileged installation *** Running unprivileged commands as mosh

*** Preparing system ***

*** Installing dependencies ***

*** Installing PETSc ***

*** Installing PyOP2 ***

Traceback (most recent call last): File "<string>", line 1, in <module> File "pyop2/__init__.py", line 9, in <module> from op2 import * File "pyop2/op2.py", line 38, in <module> import backends File "pyop2/backends.py", line 41, in <module> from logger import warning File "pyop2/logger.py", line 38, in <module> from mpi import MPI File "pyop2/mpi.py", line 37, in <module> from mpi4py import MPI as _MPI ImportError: No module named mpi4py PyOP2 installation failed See /home/mosh/pyop2_install.log for details

I must be missing the file mpi4py? Do I have to install

PyOP2 <http://op2.github.io/PyOP2>, FFC <https://bitbucket.org/mapdes/ffc>, FIAT <https://bitbucket.org/mapdes/fiat>, and UFL <https://bitbucket.org/mapdes/ufl>, before Firedrake? I attempted the quick installation for PyOP2 but do I need to install other packages before that?

Best,

Suet