Hi Sjors and all,
I have been trying very hard to get a 3DR of a small dataset.
Usually, 2D classification workes fine (if grouping at least 25 images)
but when running the 3DR just using one of the classes the program
always crashes regardless of various changes of the parameters (larger
groups, particle diameter, symmetry). I usually get the following error
messages (the same occurs on the cluster (centos) and on the PC
(ubuntu)):
1/ 1 sec
............................................................~~(,_,">
[oo]
12/ 12 sec
............................................................~~(,_,">
14.70/14.70 min
............................................................~~(,_,">_,">
000/??? sec ~~(,_,">
[oo] 3: MPI_ERR_TRUNCATE: message truncated
3: MPI_ERR_TRUNCATE: message truncated
terminate called after throwing an instance of 'RelionError'
[ubuntu:07291] *** Process received signal ***
[ubuntu:07291] Signal: Aborted (6)
[ubuntu:07291] Signal code: (-6)
[ubuntu:07291] [ 0] /lib/libpthread.so.0(+0xf8f0) [0x7fdc4cab88f0]
[ubuntu:07291] [ 1] /lib/libc.so.6(gsignal+0x35) [0x7fdc4c756b25]
[ubuntu:07291] [ 2] /lib/libc.so.6(abort+0x180) [0x7fdc4c75a670]
[ubuntu:07291] [ 3]
/usr/lib/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x115)
[0x7fdc4cfa98c5]
[ubuntu:07291] [ 4] /usr/lib/libstdc++.so.6(+0xcacf6) [0x7fdc4cfa7cf6]
[ubuntu:07291] [ 5] /usr/lib/libstdc++.so.6(+0xcad23) [0x7fdc4cfa7d23]
[ubuntu:07291] [ 6] /usr/lib/libstdc++.so.6(+0xcae1e) [0x7fdc4cfa7e1e]
[ubuntu:07291] [ 7]
/usr/local/relion-1.2-beta12/lib/librelion-1.2.so.1(_ZN7MpiNode16report_MPI_ERROREi+0x141)
[0x7fdc4ea34d11]
[ubuntu:07291] *** End of error message ***
--------------------------------------------------------------------------
mpirun noticed that process rank 3 with PID 7291 on node ubuntu exited
on signal 6 (Aborted).
Any idea?
Thanks, Dieter
--
Dr. Dieter Blaas
Max F. Perutz Laboratories,
Inst. Med. Biochem.,
Med. Univ. Vienna
Dr. Bohr Gasse 9/3
A-1030 Vienna, Austria
Tel. 0043 1 4277 61630
Fax 0043 1 4277 9616
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