Incorrect SBGN file format following writing the render information

sbgn / libsbgn

Libraries for the Systems Biology Graphical Notation (SBGN); Java and C++

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Incorrect SBGN file format following writing the render information #54

Open ibalaur opened 5 years ago

ibalaur commented 5 years ago

Hello,

I am not sure whether this is related to issue #51, but I get an "invalid file format" after writing the render information. The error refers to <<Attribute "xmlns" was already specified for element "renderInformation".>> Please see the attached simple test case on this. If this is already addressed, could you please create a new jar? Thank you very much.

WriteRenderExtensionExample.java.zip

test-output.sbgn.zip

fbergmann commented 5 years ago

hello irina,

i do need more information, yes indeed the file that you have attached is invalid and will not be recognized. But I have no idea where this is coming from, as it does not happen on my machine. I will need the following information:

JRE / JDK version
operating system you are running

and anything else that you could imagine that would help.

best Frank

ibalaur commented 5 years ago

Hello Frank,

I am using:

Mac, OS X El Capitan, (version 10.11.6).
jre/jdk 1.8 (also changed manually to 1.6 - same output).
eclipse: Version: Oxygen.1a Release (4.7.1a) (not sure if needed);
the libSBGN release from: https://github.com/sbgn/libsbgn/releases/tag/milestone3.1. PS: I will do some updates and get back to you on this.

Thank you. Best, Irina

ibalaur commented 5 years ago

Hello Frank,

Can you please create a new version of the release jar? I think I may not have the lastest updates. Thank you, Irina

fbergmann commented 5 years ago

I've created a new tag and attached my binaries. The maven build is still running at jitpack at this time (not sure why its taking so long)

ibalaur commented 5 years ago

Hello Frank,

Many thanks. I tested with the lastest release (https://github.com/sbgn/libsbgn/releases/tag/milestone3.2) and everything seems to work very well. While I think it should be fine, I will do several more tests before closing this issue.

Best regards, Irina