Re: [scipion-users] scipion 1.1 & localrec 1.2.0 usage question

[Wolfgang L. <w.l...@uk...>]

dear jose miguel,

the particles file is from relion2 after 3d.

the alignment property says:
_alignment = None    373   String

the same star file has been successfully used via the localrec command 
line to extract sub-particles.

cheers,
wolfgang


On 04/24/2017 04:34 PM, Jose Miguel de la Rosa Trevin wrote:
> Hi Wolfgang,
>
> The 'hasAlignmentProj' is a property that SetOfParticles can have, it 
> means that particles have projection-alignment information, i.e, the 
> Euler angles to make a reconstruction. This information is required in 
> this protocol because localrec will take that information together 
> with the symmetry and the vectors to generate another SetOfParticles 
> (called sub-particles here) with another angular information (also 
> projection-alignment). Can you check that the 'projection-alignment' 
> is properly set after the import of particles. If you select the 
> import job, you can click in the 'db' icon and the 'alignment' 
> property under the outputParticles object. Have you imported the star 
> file of the particles after 3D refinement or classification?
>
> Hope this helps,
> Jose Miguel.
>
>
> On Mon, Apr 24, 2017 at 3:39 PM, Wolfgang Lugmayr 
> <wol...@im... 
> <mailto:wol...@im...>> wrote:
>
>     dear all,
>
>     we can run localrec in the given configuration from the
>     commandline (by
>     adding some environment settings).
>
>     when we try to use it from the gui we have the following problem:
>     -> view: localized reconstruction
>     -> 1. compute sub-particles
>     -> input particles
>
>     we cannot choose our imported particle file (from relion).
>
>     what step must be done before that this particle set shows up?
>     or whats means "SetOfParticles (condition: hasAlignmentProj)"?
>
>     thanks in advance for any related comments,
>     cheers,
>     wolfgang
>
>     --
>     Universitätsklinikum Hamburg-Eppendorf (UKE)
>     @ Centre for Structral Systems Biology (CSSB)
>     @ Institute of Molecular Biotechnology (IMBA)
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-- 
Universitätsklinikum Hamburg-Eppendorf (UKE)
@ Centre for Structral Systems Biology (CSSB)
@ Institute of Molecular Biotechnology (IMBA)
Dr. Bohr-Gasse 3-7 (Room 6.14)
1030 Vienna, Austria
Tel.: +43 (1) 790 44-4649
Email: w.l...@uk...
http://www.cssb-hamburg.de/

--

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