#38 Export to SBGN throws error

[Venkatesh Muthukrishnan]

Hi,

I have installed SBGN-ED plugin and while trying to save us sbgn, it creates a empty file with a name and throws an error.

I am using VANTED - 2.6.0 Any ideas ?

With thanks,
Venkat

[Tobias Czauderna]

Dear Venkat,

Could you please provide some more information, e.g.the error thrown.
If possible, could you please save the regarding network as gml file and
provide it to us?
Would it make it easier to solve the problem.
Thanks!

Tobias

On 5 December 2015 at 03:08, Venkatesh Muthukrishnan mkvenkatesh@users.sf.net wrote:

---

• [bugs:#38] http://sourceforge.net/p/vanted/bugs/38/ Export to SBGN
  throws error*

Status: open
Group: V2.0
Labels: SBGN-ED
Created: Fri Dec 04, 2015 04:08 PM UTC by Venkatesh Muthukrishnan
Last Updated: Fri Dec 04, 2015 04:08 PM UTC
Owner: Christian Klukas

Hi,

I have installed SBGN-ED plugin and while trying to save us sbgn, it
creates a empty file with a name and throws an error.

I am using VANTED - 2.6.0 Any ideas ?

With thanks,
Venkat

---

Sent from sourceforge.net because you indicated interest in
https://sourceforge.net/p/vanted/bugs/38/

To unsubscribe from further messages, please visit
https://sourceforge.net/auth/subscriptions/

[Venkatesh Muthukrishnan]

Dear Tobias,

When I load a model from Biomodels database and layout them on Radial tree I wasn’t able to save them as “.SBGN”.

As requested, I have attached the gml file for your reference also the screen shot of the error.

Hope this helps.

with thanks,
Venkat

[Tobias Czauderna]

Thanks, Venkat!

When you download a model from the Biomodels database it is visualized in Vanted in a generic style.
If you want to save it as .sbgn file, you have to translate it to SBGN first.
1) Load a model from Biomodels database
2) Go to SBGN-ED tab -> Tools, Click "Translate SBML to SBGN"
3) optional: do some layout and adapt the compartment shapes
4) Save as .sbgn file

Regards,
Tobias