[Wien] Possible clash between different libiomp5.so library file

[Lawal Mohammed]

Thanks a lot Prof. L. Mark, I take your advice.
Actually I did nothing, because the system admin handled the issue after your first letter.Now, the issue of libiomp5.so is solved, I was told about an issue between the wien2k and intel_2015.
With kind regards.
Lawal 

 

    On Thursday, January 10, 2019, 3:38:03 PM GMT+8, Laurence Marks <L-marks at northwestern.edu> wrote:  
 
 Read the ouput from "ifort --help", or "man ifort". Learn!

_____
Professor Laurence Marks
"Research is to see what everybody else has seen, and to think what nobody else has thought", Albert Szent-Gyorgi
www.numis.northwestern.edu
On Wed, Jan 9, 2019, 23:21 Lawal Mohammed <mohammedlawal08 at yahoo.com wrote:

Thank you very much Prof. L. Mark,
"ldd lapw0" returned
linux-vdso.so.1 =>  (0x00007fff3cfa7000)        libiomp5.so => /software/intel2015-1/composer_xe_2015.3.187/compiler/lib/intel64/libiomp5.so (0x00002b8340b5f000)        libpthread.so.0 => /lib64/libpthread.so.0 (0x00002b8340e9f000)        libm.so.6 => /lib64/libm.so.6 (0x00002b83410bf000)        libdl.so.2 => /lib64/libdl.so.2 (0x00002b83413c7000)        libc.so.6 => /lib64/libc.so.6 (0x00002b83415cf000)        /lib64/ld-linux-x86-64.so.2 (0x00002b8340937000)        libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00002b8341997000)
The compilation and execution was done using composer_xe_2015.3.187, libiomp5.so seems to be in right directory. Please which part of compilation option should I edit, and I couldn't figure out what you mean by static compilation in this case. 
The system admin is interested, so I have already forward the link to this thread to him/them. 
With kind regards
Lawal



On Thursday, January 10, 2019, 10:17:23 AM GMT+8, Laurence Marks <L-marks at northwestern.edu> wrote:

Try "ldd lapw0" to see what shared libraries are being used, then edit your compilation options to do static compilation. Depending upon what compiler your have the options will change; do "ifort --help | more" or "ifort --help > Fort.txt" and read.... (or gfortran, etc).
At least for the non-mpi you can build lapw0 & others without any shared libraries. I have never seen this fail, but it might.

On Wed, Jan 9, 2019, 19:58 Lawal Mohammed <mohammedlawal08 at yahoo.com wrote:

Dear Developers and Users,
I am facing a problem and need your help.The issue is an error when I submitted a job on cluster machine. The error message is:  
Calculating Bismuthtest1 in /home/username/WIEN2k/Bismuthtest1on node5 with PID 21645using WIEN2k_18.2 (Release 17/7/2018) in /software/wien2k-18.2
    start       (Thu Jan 10 09:48:12 CST 2019) with lapw0 (100/99 to go)
    cycle 1     (Thu Jan 10 09:48:12 CST 2019)  (100/99 to go)
>   lapw0  -p   (09:48:12) starting parallel lapw0 at Thu Jan 10 09:48:12 CST 2019-------- .machine0 : processorsrunning lapw0 in single mode0.022u 0.036s 0:00.08 62.5%     0+0k 0+56io 0pf+0werror: command   /software/wien2k-18.2/lapw0para lapw0.def   failed>   stop error
In the output file the error is:lapw0: relocation error: lapw0: symbol kmp_aligned_malloc, version VERSION not defined in file libiomp5.so with link time reference
grep: *scf1*: No such file or directory
grep: lapw2*.error: No such file or directory
Many thanks to Gavin for pointing out that the error was due to clash between other libraries with the  Intel Fortran library. However, after I reported the issue, system admin confirmed that the environmental variables was okay. Any help to rectify this issue is highly appreciated.
I will provide addition information if needed.
Thanks alot for your time.With kind regards.
Lawal


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