On 26/06/2014 17:11, Dumsani Ndzinisa wrote:
Hi Ian,
Ah I'm sorry I didn't realize that my reply wasn't directed to
the group. I guess this all has to do with me being very *new*
on almost everything here! I will append my previous response
here.
Many thanks to you!!! Commenting out hwloc from the thornlist
has done the trick. My ET has compiled successfully now. Being
the newbie that I am, please do expect me to get back again and
bother you will plenty of elementary questions.
Thanks again.
My previous response which was communicated off the group...here.......
Hi Ian,
Yes, I do have a local installation of the hwloc library. And I think
you've really hit the
nail on the head in your diagnosis. When I went through the make
file, and also looked
at the error message my understanding was that Cactus is trying to
bring in numa
when linking, and it looks for it in the wrong place. Running the command
dpkg --get-selections | grep hwloc, this is the output I get:
hwloc-nox install
libhwloc-dev:amd64 install
libhwloc5:amd64 install
I'll implement the suggestions you gave to me, try to build again and
get back here
with some feedback.
On 26/06/2014 12:53, Ian Hinder wrote:
On 26 Jun 2014, at 12:51, Dumsani Ndzinisa <[email protected]
<mailto:[email protected]>> wrote:
Hi Ian,
Yes, I do have a local installation of the hwloc library. And I
think you've really hit the
nail on the head in your diagnosis. When I went through the make
file, and also looked
at the error message my understanding was that Cactus is trying to
bring in numa
when linking, and it looks for it in the wrong place. Running the
command
dpkg --get-selections | grep hwloc, this is the output I get:
hwloc-nox install
libhwloc-dev:amd64 install
libhwloc5:amd64 install
I'll implement the suggestions you gave to me, try to build again
and get back here
with some feedback.
Hi Dumsani,
Glad to be of help! By the way, you replied just to me, not to the
mailing list.
On 26/06/2014 12:22, Ian Hinder wrote:
On 26 Jun 2014, at 11:56, Dumsani Ndzinisa
<[email protected] <mailto:[email protected]>> wrote:
Hi everyone,
I have a fresh checkout of the latest stable release of the
Einstein Toolkit
(ET_2014_05) which I'm trying to build on my laptop. The laptop is
running on Linux Mint 17, and I have adapted configuration options
from
the bundled "ubuntu.cfg" file. On my machine, I have gcc version
4.8.2,
g++ version 4.8.2, and gfortran 4.8.2 as well.
However, when building the toolkit (using the thornlist
"einsteintoolkit.th <http://einsteintoolkit.th>)
the build always fails no matter what I try. For instance, on my
very first
attempt, I didn't use any of my locally installed libraries but opted
for the
ones bundled with the toolkit. There was one error message in that
case
pointing to the PAPI library having failed to get configured. I
then decided
to comment out this thorn from the thornlist (in the .th file).
From there
on, still building with the bundled external libraries, I have been
persistently
getting an error message (in the linking stage) to the effect a
certain
library (lnuma) could not be found. Below is the error message
that gets
returned onto the screen:
/usr/bin/ld: cannot find -lnuma
collect2: error: ld returned 1 exit status
/home/dumsani/Cactus/lib/make/make.configuration:147: recipe for
target
'/home/dumsani/Cactus/exe/cactus_test-ET6' failed
make[1]: *** [/home/dumsani/Cactus/exe/cactus_test-ET6] Error 1
Makefile:254: recipe for target 'test-ET6' failed
make: *** [test-ET6] Error 2
I would appreciate if anyone with some idea came to my rescue here.
Cactus and the ET are still very new to me. I've been stuck on
this for
almost a week now. And I am of the idea that it shouldn't be taking me
that long. Together with my advisor, we have made a checkout of Cactus
(Llama thornlist) earlier and he did oriente me to the process
until we
had a successful build (we got the executable) for the llama
thornlist. So,
now the idea is for me to get some more practice with Cactus/ET by
checking out the full toolkit, configuring, building and then
running some
example simulations provided in the toolkit.
Hi,
Can you try commenting out the thorn "hwloc" from your thornlist?
Grepping through the source for "numa", the only use of this
library seems to be hwloc. hwloc is a thorn which assists in
binding software threads to physical computational cores and
processes to processor sockets for efficiency, but it is not
necessary for the toolkit to run.
There might be something wrong with the hwloc configure script
(Cactus/arrangements/ExternalLibraries/hwloc/configure.sh). The
relevant lines appear to be
# Add libnuma manually, if necessary
if grep -q '[-]lnuma' ${HWLOC_LIB_DIR}/libhwloc.la 2>/dev/null; then
if ! echo '' ${HWLOC_LIBS} '' | grep -q ' numa '; then
HWLOC_LIBS="${HWLOC_LIBS} numa"
fi
fi
This seems to be attempting to add the numa library to the link
line if it is found in libhwloc.la. The error message indicates
that numa has been added to the link line, but the library is not
available on the link path.
The most recent change to hwloc, in April (i.e. before the
release), is:
"Correct detecting whether -lnuma is necessary"
(http://git.barrywardell.net/?p=arrangements/ExternalLibraries/hwloc.git;a=commitdiff;h=4a3b694661f69df842c12a1e188e42f546dd92e2)
authoreschnett <eschnett@152c557c-6d84-4bc7-9b1a-dfca721279c7>
Sat, 19 Apr 2014 23:07:32 +0200 (21:07 +0000)
committereschnett <eschnett@152c557c-6d84-4bc7-9b1a-dfca721279c7>
Sat, 19 Apr 2014 23:07:32 +0200 (21:07 +0000)
Probably Erik has some insight into this.
We have an automated build and test process running under Ubuntu
12.04, and this is working fine. It also builds hwloc from source,
rather than relying on the Ubuntu version. Do you happen to have
hwloc installed? Maybe it is conflicting with the self-built version?
dpkg -l hwloc
We should probably upgrade the build and test system to Ubuntu
14.04, as that is now the latest stable release. Maybe something
in Ubuntu has changed with the hwloc library.
--
Ian Hinder
http://numrel.aei.mpg.de/people/hinder
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