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#25 SBML2SBGN not available in the webinterface

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nobody
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2022-08-17
2022-08-17
Matthias König
No

Hi all,
I wanted to try the SBML2SBGN conversion using the converter
https://www.ebi.ac.uk/biomodels/tools/converters/
Unfortunately I cannot select the converters from the dropdown, i.e. there is no SBML -> SBGN in the list.

In addition I tried to use the command line tool by downloading the sbfc-1.3.7. Unfortunately it looks like a lot of additional libraries have to be setup and exported correctly for the sbgn2sbgnml.sh script to work. These seem all hard coded for the server in the shell scripts, such as

LD_LIBRARY_PATH=/nfs/production/biomodels/sw/libSBML-5.11.6-Linux/usr/lib64
export JAVA_HOME=/nfs/public/rw/webadmin/java/jdks/latest_1.8

Is there a simple way to get the converters running locally, i.e. a download with all the libraries included, or ideally a docker container with all the dependencies installed ?

Best Matthias

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