Problems to export SBML file

asked 2017-10-10 07:27:56 -0500

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I am novice in Pathway Tools, and I want to reconstruct a metabolic genome-scale model and export it to SBML file.

I used PathoLogic to create a new Database for my organism: I added the annotation .gb and the genoma FASTA. Then, I executed, Trial Parse, Automated Build, Run Check the Consistency, Update and save.

Then, I export all reactions to SBML file. However, I obtain 23 warnings like these:

;;; Warning: Reaction #<"RXN-14963" instance frame in NC_0128922BASE[F] @ #x100441b40d2> has more than one unresolved compartment, namely: (CCO-CYTOSOL CCO-IN) Code fix needed, or curation ?

When I have only one warning, I fix it in menu Tools > Pane > Fix. But in this case, I don't know what to do. When I try to read my SBML file, it doesn't works.

What should I do?


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