[3dem] order of _rln

[Eric Hanssen]

Hi all,
After doing a couple of 2d and 3D steps in cryosparc I have imported particles positions back in relion, re-extracted them, run 2D classes, 3D classes, create an initial model. However when I run the 3D refinement it crashes straight away. see error below.
Is the order of the _rln field important? Since that is the only thing I can see different in the particle.star.
Eric

in: /home/bio21em1/relion/src/exp_model.cpp, line 414
in: /home/bio21em1/relion/src/exp_model.cpp, line 414
in: /home/bio21em1/relion/src/exp_model.cpp, line 414
in: /home/bio21em1/relion/src/exp_model.cpp, line 414
in: /home/bio21em1/relion/src/exp_model.cpp, line 414
=== Backtrace  ===
/usr/local/bin/relion_refine_mpi(_ZN11RelionErrorC1ERKSsS1_l+0x41) [0x43c771]
/usr/local/bin/relion_refine_mpi(_ZN10Experiment37divideOriginalParticlesInRandomHalvesEib+0x1c6e) [0x53911e]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi18initialiseWorkLoadEv+0x3f1) [0x45b861]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi10initialiseEv+0x955) [0x45c725]
/usr/local/bin/relion_refine_mpi(main+0xb2f) [0x42c6ff]
/lib64/libc.so.6(__libc_start_main+0xfd) [0x375be1ed1d]
/usr/local/bin/relion_refine_mpi() [0x42d409]
==================
ERROR:
ERROR: one of your half sets has no segments. Helical half-sets are always per-filament. Provide at least 2 filaments.
=== Backtrace  ===
/usr/local/bin/relion_refine_mpi(_ZN11RelionErrorC1ERKSsS1_l+0x41) [0x43c771]
/usr/local/bin/relion_refine_mpi(_ZN10Experiment37divideOriginalParticlesInRandomHalvesEib+0x1c6e) [0x53911e]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi18initialiseWorkLoadEv+0x3f1) [0x45b861]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi10initialiseEv+0x955) [0x45c725]
/usr/local/bin/relion_refine_mpi(main+0xb2f) [0x42c6ff]
/lib64/libc.so.6(__libc_start_main+0xfd) [0x375be1ed1d]
/usr/local/bin/relion_refine_mpi() [0x42d409]
==================
ERROR:
ERROR: one of your half sets has no segments. Helical half-sets are always per-filament. Provide at least 2 filaments.
=== Backtrace  ===
/usr/local/bin/relion_refine_mpi(_ZN11RelionErrorC1ERKSsS1_l+0x41) [0x43c771]
/usr/local/bin/relion_refine_mpi(_ZN10Experiment37divideOriginalParticlesInRandomHalvesEib+0x1c6e) [0x53911e]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi18initialiseWorkLoadEv+0x3f1) [0x45b861]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi10initialiseEv+0x955) [0x45c725]
/usr/local/bin/relion_refine_mpi(main+0xb2f) [0x42c6ff]
/lib64/libc.so.6(__libc_start_main+0xfd) [0x375be1ed1d]
/usr/local/bin/relion_refine_mpi() [0x42d409]
==================
ERROR:
ERROR: one of your half sets has no segments. Helical half-sets are always per-filament. Provide at least 2 filaments.
=== Backtrace  ===
/usr/local/bin/relion_refine_mpi(_ZN11RelionErrorC1ERKSsS1_l+0x41) [0x43c771]
/usr/local/bin/relion_refine_mpi(_ZN10Experiment37divideOriginalParticlesInRandomHalvesEib+0x1c6e) [0x53911e]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi18initialiseWorkLoadEv+0x3f1) [0x45b861]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi10initialiseEv+0x955) [0x45c725]
/usr/local/bin/relion_refine_mpi(main+0xb2f) [0x42c6ff]
/lib64/libc.so.6(__libc_start_main+0xfd) [0x375be1ed1d]
/usr/local/bin/relion_refine_mpi() [0x42d409]
==================
ERROR:
ERROR: one of your half sets has no segments. Helical half-sets are always per-filament. Provide at least 2 filaments.
=== Backtrace  ===
/usr/local/bin/relion_refine_mpi(_ZN11RelionErrorC1ERKSsS1_l+0x41) [0x43c771]
/usr/local/bin/relion_refine_mpi(_ZN10Experiment37divideOriginalParticlesInRandomHalvesEib+0x1c6e) [0x53911e]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi18initialiseWorkLoadEv+0x3f1) [0x45b861]
/usr/local/bin/relion_refine_mpi(_ZN14MlOptimiserMpi10initialiseEv+0x955) [0x45c725]
/usr/local/bin/relion_refine_mpi(main+0xb2f) [0x42c6ff]
/lib64/libc.so.6(__libc_start_main+0xfd) [0x375be1ed1d]
/usr/local/bin/relion_refine_mpi() [0x42d409]
==================
ERROR:
ERROR: one of your half sets has no segments. Helical half-sets are always per-filament. Provide at least 2 filaments.
[odin:158859] 4 more processes have sent help message help-mpi-api.txt / mpi-abort
[odin:158859] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages
-----------------
Assoc. Prof Eric Hanssen

Head - Advanced Microscopy Facility
Honorary Principal Fellow - Department of Biochemistry and Molecular Biology

President Australian Microscopy and Microanalysis Society

Bio21 Molecular Science and Biotechnology Institute
30 Flemington Road - The University of Melbourne - Victoria 3010 - Australia
email: ehanssen at unimelb.edu.au<mailto:ehanssen at unimelb.edu.au> | Office: +61 3 83442449 | Microscope: +61 3 83442509
Web: www.microscopy.unimelb.edu.au<http://www.microscopy.unimelb.edu.au/>

[bio21]   [amms-logo]



-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20190524/72190383/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: image001.png
Type: image/png
Size: 43389 bytes
Desc: image001.png
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20190524/72190383/attachment-0002.png>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: image002.png
Type: image/png
Size: 26102 bytes
Desc: image002.png
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20190524/72190383/attachment-0003.png>