Re: [scipion-users] Importing particle coordinates

[Jose M. de la R. T. <del...@gm...>]

Dear Josie,

You can use the protocol 'import - coordinates'  (from Import > more >
import - coordinates).
You need to provide the coordinates files with the same name of the
micrographs (without extension).
One way could be to generate eman2-like .box files and use them. In the
file format entry you
could select from other formats.

Nonetheless, you can import coordinates from a folder (in the Xmipp Picker
interface),
following the naming conventions stated before and not one by one.

Hope this helps,
Best,
Jose Miguel


On Thu, May 24, 2018 at 3:39 PM, Ferreira, Josie <
j.f...@im...> wrote:

> Hi all,
>
> I have a dataset (4000 images) that I picked using cisTEM. I now want to
> import the particle coordinates in batch to then extract particles from the
> micrographs that have been drift-corrected and ctf-estimated in Scipion. I
> have converted them to the supported format (top left origin 1,1 in
> pixels). I know that you can import coordinates one image at a time using
> Xmipp manual picking but this is not feasible for this many micrographs.
>
> Is there a way to import a text file with three columns (image name,
> x_coordinate, y_coordinate)?
>
> Thanks for the help!
>
> All the best,
>
> Josie
>
>
>
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