In regards to the KEGG license terms (
https://www.kegg.jp/kegg/legal.html /
https://www.pathway.jp/en/academic.html), I believe it is ok for individual academic users to use the downloaded KGML (I think this could include conversion to another format for use in a specific application). I interpreted Marina's original question to fall in this category. In terms of converting a large number of pathways automatically for inclusion into (for example) WikiPathways, I believe this is not allowed without a license. The scripts we have pre-date the change in KEGGs change in FTP access policy.
Marina: The gpml you sent is basically empty, it contains only a partial pathway information and no nodes or edges. Normally, I would recommend transcribing individual pathways from KEGG manually using PathVisio, and I can recommend some strategies for making this as efficient as possible. But looking at the pathway you referenced in the gpml,
https://www.kegg.jp/kegg-bin/show_pathway?sot01110, I would not recommend this. If you need to visualize data on the entire pathway I would recommend using
Cytoscape and one of the apps that enable import from KEGG (
https://apps.cytoscape.org/search?q=KEGG), or break it up into the most relevant smaller chunks for manual curation.