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sbmlteam / jsbml

JSBML is a community-driven project to create a free, open-source, pure Java™ library for reading, writing, and manipulating SBML files (the Systems Biology Markup Language) and data streams. It is an alternative to the mixed Java/native code-based interface provided in libSBML.
https://sbml.org/software/jsbml/
GNU Lesser General Public License v2.1
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package org.mangosdk.spi does not exist - project does not compile #261

Closed Schmoho closed 2 months ago

Schmoho commented 2 months ago

Hi. I've just cloned the repo to have a look into how much of an effort it would be to fix https://github.com/sbmlteam/jsbml/issues/217 because it is a nuisance in the downstream consuming https://github.com/draeger-lab/ModelPolisher

Apart from the issue that it is actually quite hard to get a hold of a JRE 1.7 this time around, the project as is does not compile at all (for me) because the package org.mangosdk.spi is not available anywhere.

mvn dependency:resolvechecked https://repo.maven.apache.org/maven2 https://github.com/biojava/maven-repo/raw/master/ https://www.ebi.ac.uk/~maven/m2repo

and couldn't find it.

draeger commented 2 months ago

What exactly goes wrong in ModelPolisher because of JSBML’s dependency on log4j?

Schmoho commented 2 months ago

I had some trouble in the server implementation where jsbml would sometimes capture all logs and write them to a file, instead of them going to stdout. I figured out how to override this behaviour downstream though, so I guess this isn't an issue anymore.

I also realized the ant build script seems to work still, so I apologize and think this issue is closed.