[Mesa-users] Install failure r8845

Matthew Clayton matthew.clayton at exeter.ox.ac.uk
Mon Feb 12 12:07:12 EST 2018 

Hi all,

Kenny's suggestion seems to solve the problem. Thanks Kenny!

In the interests of working out what it was that was going on, the result of

    echo $LD_LIBRARY_PATH

is

    /cvmfs/soft.computecanada.ca/nix/lib:/opt/software/lib:/opt/software/slurm/lib

After using the command

    module --force purge

the result changes to only

    /opt/software/lib:/opt/software/slurm/lib

after which MESA compiles just fine.

Cheers,

Matthew
________________________________
From: Rob Farmer [r.j.farmer at uva.nl]
Sent: 12 February 2018 16:47
Cc: Matthew Clayton; mesa-users at lists.mesastar.org
Subject: Re: [Mesa-users] Install failure r8845

Hi Matthew,

Could you post the output of:
echo $LD_LIBRARY_PATH
after initializing the sdk

Thanks
Rob


On 12 February 2018 at 17:40, RICHARD H D TOWNSEND via Mesa-users <mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>> wrote:
Hi Matthew —

You’re problem has got me stumped. It seems as though your system C library is missing some routines.

Could you bring this up with your cluster sysadmin, to see if they have any suggestions?

cheers,

Rich

On Feb 12, 2018, at 10:37 AM, Matthew Clayton via Mesa-users <mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>> wrote:

Hi Amber,

A good point, but unfortunately doing that hasn't got rid the error.

Matthew
________________________________
From: amber lauer [amber.lauer at tunl.duke.edu<mailto:amber.lauer at tunl.duke.edu>]
Sent: 11 February 2018 21:37
To: Matthew Clayton
Cc: RICHARD H D TOWNSEND; mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>
Subject: Re: [Mesa-users] Install failure r8845

​Just a reminder, in case you don't already know: make sure to do ./clean before you try and install again, especially when you switch sdk's.​

On Sat, Feb 10, 2018 at 11:23 AM, Matthew Clayton via Mesa-users <mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>> wrote:
Hi Rich,
Here is the output from that command

GNU C Library (GNU libc) stable release version 2.24, by Roland McGrath et al.
Copyright (C) 2016 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.
There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE.
Compiled by GNU CC version 5.3.0.
Available extensions:
    crypt add-on version 2.1 by Michael Glad and others
    GNU Libidn by Simon Josefsson
    Native POSIX Threads Library by Ulrich Drepper et al
    BIND-8.2.3-T5B
libc ABIs: UNIQUE IFUNC
For bug reporting instructions, please see:
<http://www.gnu.org/software/libc/bugs.html>.

Cheers,
Matthew
________________________________
From: RICHARD H D TOWNSEND [townsend at astro.wisc.edu<mailto:townsend at astro.wisc.edu>]
Sent: 10 February 2018 16:12
To: Matthew Clayton
Cc: Aaron Dotter; mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>

Subject: Re: [Mesa-users] Install failure r8845

Hi Matthew —

Can you post the output of the command

/cvmfs/soft.computecanada.ca/nix/var/nix/profiles/16.09/lib/libc.so.6<http://soft.computecanada.ca/nix/var/nix/profiles/16.09/lib/libc.so.6:>

cheers,

Rich

On Feb 10, 2018, at 9:59 AM, Matthew Clayton via Mesa-users <mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>> wrote:

Here it is:

./tester: relocation error: /cvmfs/soft.computecanada.ca/nix/var/nix/profiles/16.09/lib/libc.so.6:<http://soft.computecanada.ca/nix/var/nix/profiles/16.09/lib/libc.so.6:> symbol _dl_find_dso_for_object, version GLIBC_PRIVATE not defined in file ld-linux-x86-64.so.2 with link time reference


Matthew
________________________________
From: Aaron Dotter [aaron.dotter at gmail.com<mailto:aaron.dotter at gmail.com>]
Sent: 10 February 2018 15:50
To: Matthew Clayton
Cc: mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>
Subject: Re: [Mesa-users] Install failure r8845

OK, then please post the contents of const/test/tmp.txt.



On Sat, Feb 10, 2018 at 10:43 AM, Matthew Clayton <matthew.clayton at exeter.ox.ac.uk<mailto:matthew.clayton at exeter.ox.ac.uk>>wrote:
Hi Aaron,

Thanks for getting back to me so quickly. Unfortunately I gave it a try with the sdk version you suggested and I got the same error.

Cheers,

Matthew
________________________________
From: Aaron Dotter [aaron.dotter at gmail.com<mailto:aaron.dotter at gmail.com>]
Sent: 10 February 2018 15:31
To: Matthew Clayton
Cc: mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>
Subject: Re: [Mesa-users] Install failure r8845

Hi Matthew,

It's entirely possible that the build is failing because the SDK version (August 2017) you're using is newer than MESA r8845 (June 2016).  There is an SDK release from January 2016 that ought to be compatible.

Aaron

On Sat, Feb 10, 2018 at 10:26 AM, Matthew Clayton via Mesa-users <mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>> wrote:
Hi there,

I'm trying to install MESA version 8845 using SDK version x86_64-linux-20170802 on a linux cluster.
./install fails almost immediately with:

   gfortran -fopenmp -o ../tester test_const.o -L../../make -lconst


   FAILED


   /home/mclayton/project/mclayton/mesa-r8845/const/test
   TEST FAILED -- compare test_output to tmp.txt


   /home/mclayton/project/mclayton/mesa-r8845/const
   ./build_and_test FAILED

I've tried using the latest version of the sdk, which seems to get past the prereqs check just fine, and I get the same error on ./install.
Any ideas?

Cheers,

Matthew

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--
Amber Lauer
Postdoctoral Researcher
Triangle University Nuclear Lab
Duke University
amber.lauer at tunl.duke.edu<mailto:amber.lauer at duke.edu>
_______________________________________________
mesa-users at lists.mesastar.org<mailto:mesa-users at lists.mesastar.org>
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