Hi Ben,
The crash upon completion is not pretty but harmless. When using the
--subtract_exp option: are your particles and the map the same dimensions?
Do all particles in the STAR file exist?
HTH,
Sjors
> Dear Sjors and list
>
> I have a segmentation fault occuring with relion_project
>
> I use the same options as those given in the latest gamma secretase paper
> (—subtract_exp etc.)
>
> It is somewhat mysterious: first time I used it it ran until it created
> the particle star file and then crashed with a segmentation fault. So I
> could use the star file and the corresponding mrcs particle file to run a
> reconstruction.
>
> Now it crashes just after reading the input star file. No mrcs or star
> file is created. I get this output (just the last lines are copied here):
> Done reading STAR file!
> 000/??? sec ~~(,_,">
> [oo]Segmentation fault (core dumped)
>
> If I now remove —subtract_exp, the program runs until it has written the
> mrcs and star files, and then it crashes with this output:
> Done reading STAR file!
> 3/ 3 sec
> ............................................................~~(,_,">
> Done writing 266 images in temp.star
> Segmentation fault (core dumped)
>
>
> I am running relion 1.4 compiled with gcc 4.8.4.
> Any idea of where the bug could come from?
>
>
> Best wishes
> Ben
>
--
Sjors Scheres
MRC Laboratory of Molecular Biology
Francis Crick Avenue, Cambridge Biomedical Campus
Cambridge CB2 0QH, U.K.
tel: +44 (0)1223 267061
http://www2.mrc-lmb.cam.ac.uk/groups/scheres
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