Re: [scipion-users] Creating a project and loading a workflow from the command line

[Kyle D. <kyl...@ep...>]

Hi Yaiza,

No problem at all. In fact, I am using this script and it works perfectly ;)

Thanks!

Kyle


On 03/21/2018 02:05 PM, Yaiza Rancel wrote:
> Hi again Kyle,
>
> Sorry! We do have already a script to do this, it's in 
> scripts/create_project.py, and you can use it like this:
> scipion python scripts/create_project.py name="session1234" 
> workflow="path/to/your/workflow.json"
> Cheers,
> Yaiza
>
>     Activo Mie, 21 Marzo at 12:47 PM , Yaiza Rancel
>     <su...@bc...> Escrito:
>     Hi Kyle,
>
>     At the moment we don't have the option to do this straight away,
>     however this is done in Scipion for our tutorials and it shouldn't
>     be very difficult create a new script and adapt it to your needs.
>     You can find the tutorials script in
>     pyworkflow/apps/pw_tutorial.py, I recommend you to launch the
>     intro tutorial and check the script to see how it's done (To
>     launch the tutorial do: ./scipion tutorial intro).
>     I've attached here a simple version that creates a new project
>     from a json and opens it, you can maybe use it as a starting
>     point. To run it from your scipion directory you can do:
>
>     ./scipion python path/to/create_project_from_json.py
>     [PROJECT_NAME] [PATH_TO_JSON]
>
>     Hope this helps, let us know if you have further questions.
>
>
>     Yaiza Rancel
>     Scipion Team
>
>         Activo Vie, 9 Marzo at 8:13 AM , Kyle Michael Douglass
>         <kyl...@ep...> Escrito:
>         Hi all,
>
>         First-time Scipion user here (version 1.1). How would I create
>         a new project and import a workflow from a .json file from the
>         command line?
>
>         I ask because my collaborators are using Scipion as part of a
>         larger data analysis pipeline that extends beyond EM. At one
>         point in this pipeline we want to automatically launch the
>         Scipion GUI with a new project and import a workflow that has
>         already been specified in a .json file. I know how to do this
>         manually with the GUI, but it would be nice to have the new
>         project and workflow setup via a script so we can easily vary
>         some of the analysis parameters.
>
>         Thanks a lot for the help. I would be happy to provide any
>         additional information if necessary.
>
>         Cheers,
>         Kyle
>
>         Dr. Kyle M. Douglass
>         Post-doctoral Researcher
>         EPFL - The Laboratory of Experimental Biophysics
>         http://leb.epfl.ch/
>         http://kmdouglass.github.io
>
> 300:553135

-- 
Kyle M. Douglass, PhD
Post-doctoral researcher
The Laboratory of Experimental Biophysics
EPFL, Lausanne, Switzerland
http://kmdouglass.github.io
http://leb.epfl.ch