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Hi all, can someone please review this PR to fix issue 2455? The patch is a bit complex. Basically this patch is attempting to fix the issue that Expand doesn't know how to deal with auxiliary graphs and unbound nodes in TRAPI response knowledge graphs from KPs like Automat. Full details are in the #2455 issue. I've tested on arax.ncats.io/beta using the example queries and using the MWE one-hop query graph provided in the issue. Also reran all the pytest tests for ARAX-expand. So far, so good. But I could use a second pair of eyes to review these diffs for sanity.

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Oh, and I fixed issue #2519 in passing, and (for good measure) updated the top-level .gitignore file so that the cache PID file won't show up in git status anymore.

@saramsey saramsey merged commit 1bd6b98 into master Jul 10, 2025
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