Hi Dieter,
Are you using the latest version from the Wiki? From you error meesage I
think you're using an old version. The first few line should contain:
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set modelstar=${rootname}_it0${iter}_half1_model.star
set samplstar=${rootname}_it0${iter}_sampling.star
set optstar=${rootname}_it0${iter}_optimiser.star
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In that case it should work for the auto-refine run. Note that for the
3D classification, you would need to change the modelstar line to:
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set modelstar=${rootname}_it0${iter}_model.star
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HTH,
S
On 08/08/2013 08:47 AM, Dieter Blaas wrote:
> Hi Sjors and all,
> I am trying to use ./Relion_make_orientational_contrib.sh but do
> not really understand how:
>
> after relion has converged I have the following files:
>
> C1_it018_data.star
> C1_it018_half2_class001.mrc
> C1_it018_half1_class001.mrc
> C1_it018_half2_model.star
> C1_it018_half1_model.star
> C1_it018_sampling.star
> C1_half2_class001_unfil.mrc
> C1_half1_class001_unfil.mrc
> C1_data.star
> C1_class001.mrc
> C1_model.star
> C1_sampling.star
>
> So, if I understand correctly, I should run
> "./Relion_make_orientational_contrib.csh C1 18"
>
> I get:
>
> "grep: C1_it018_model.star: No such file or directory
> done! Use UCSF Chimera to visualise the BILD files (you may need to
> change the origins of your maps in the Volume Viewer window"
>
> why does it need the last iteration? There will never be a
> "C1_it018_model.star" because there is two with "half1" and "half2"
> and one without the iteration number When omitting the "18" I get
> other error messages...
>
> I prefer to ask before I start to rename files etc...
>
> Thanks a lot for help, Dieter
>
--
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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