Hi,
What is the box size and the angular sampling at the crashed iteration?
Meanwhile, please try 'Combine iterations through disc: Yes'.
Best regards,
Takanori Nakane
On 2019/05/21 22:09, Yan Han wrote:
> Dear all,
>
> I was doing a 3D auto-refine and saw this error message:
>
> 1: Message truncated
> 1: Message truncated, error stack:
> PMPI_Wait(203).....: MPI_Wait(request=0x7ffdca347010, status=0x7ffdca347080) failed
> MPIR_Wait_impl(100):
> do_cts(553)........: Message truncated; 21639520 bytes received but buffer size is 20720976
> in: /opt/relion/relion-3.0.5_release/src/mpi.cpp, line 307
> === Backtrace ===
> /opt/relion/x64/relion3.0.5-release/bin/relion_refine_mpi(_ZN11RelionErrorC2ERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES7_l+0x6d) [0x437e8d]
> /opt/relion/x64/relion3.0.5-release/bin/relion_refine_mpi(_ZN7MpiNode16report_MPI_ERROREi+0xdb) [0x458deb]
> /opt/relion/x64/relion3.0.5-release/bin/relion_refine_mpi(_ZN7MpiNode15relion_MPI_RecvEPvliiiiR10MPI_Status+0x193) [0x459143]
> /opt/relion/x64/relion3.0.5-release/bin/relion_refine_mpi(_ZN14MlOptimiserMpi16compareTwoHalvesEv+0x3f3) [0x4740b3]
> /opt/relion/x64/relion3.0.5-release/bin/relion_refine_mpi(_ZN14MlOptimiserMpi7iterateEv+0x27e) [0x48168e]
> /opt/relion/x64/relion3.0.5-release/bin/relion_refine_mpi(main+0x2091) [0x42fbb1]
> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0) [0x7f188d463830]
> /opt/relion/x64/relion3.0.5-release/bin/relion_refine_mpi(_start+0x29) [0x432149]
> ==================
> ERROR:
> Encountered an MPI-related error, see above. Now exiting...
> application called MPI_Abort(MPI_COMM_WORLD, 1) - process 1
>
> The same particles with binned pixel size can be successfully refined. Can anyone suggest what could go wrong here?
>
> Thanks a lot!
>
> Yan
>
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