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The attached model is a flat import of an SBML model from BioModels. The rule 'R_ENTCS' on line 4072 has a high degree of symmetry, particularly on the product side (9 Hpl and 6 AMP molecules). This is causing BNG to hang while reading in the model. I tracked the issue down to line 2701 of RxnRule.pm:
# Find product graph automorphisms my @p_auto = $pg->isomorphicToSubgraph($pg);
Is there a way to optimize the subgraph isomorphism algorithm to get around this problem?
The attached model is a flat import of an SBML model from BioModels. The rule 'R_ENTCS' on line 4072 has a high degree of symmetry, particularly on the product side (9 Hpl and 6 AMP molecules). This is causing BNG to hang while reading in the model. I tracked the issue down to line 2701 of RxnRule.pm:
# Find product graph automorphisms
my @p_auto = $pg->isomorphicToSubgraph($pg);
Is there a way to optimize the subgraph isomorphism algorithm to get around this problem?
oscar-ecoli.bngl.txt
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