SynBioHub is down

[jakebeal]

synbiohub.org is down and has been for the last day or so, according to the failed regressions tests I'm seeing.

[cjmyers]

Should be back up now. It went down when I was traveling and did not have time till now to restart.

[jakebeal]

Did anything change between before and after the restart? pySBOL2 is now getting failures on certain SynBioHub search queries that were not failures before: https://github.com/SynBioDex/pySBOL2/actions/runs/8683864240/job/23821869774

[cjmyers]

Shouldn't have changed. I can check on this when I get a moment.

[cjmyers]

I'm really confused by this one. When I click on the part that it says it cannot find. It comes right up. Can you provide any more context about the error?

[jakebeal]

It's happening because the SynBioHub search API is not returning an object with the expected identity. I haven't dug farther in to see if it's not getting the object or if it's coming back with a different identity.

[cjmyers]

Can you point me to the test code where the error is happening? Nothing has changed with SBH1 in ages.

[jakebeal]

Here are the two places where failures are occurring:

• https://github.com/SynBioDex/pySBOL2/blob/master/test/test_searchquery.py#L51
• https://github.com/SynBioDex/pySBOL2/blob/master/test/test_searchquery.py#L106

[cjmyers]

I think I figured it out. I turned off SBOLExplorer, since it was using a lot of resources and seems to be one of the reasons for SBH going down. This would indeed change search results.

[jakebeal]

Is it OK for SBOLExplorer to be turned back on, or do you need to leave it off?
My impression is that it does make a big difference for search results.

[cjmyers]

I would prefer to wait until we can figure out why it was using so much memory before turning it back on. It seems it was what was causing SBH to go down a lot, since it used up resources. The recent instances going down are unrelated to SBH. They were due to some issue with Caddy. I've updated the Caddyfile just now and hoping this will make things more stable. It would be good if your tests did not depend on SBOLExplorer, since we cannot guarantee that it will always be on. Make a search that is only going to return less than 50 results, and you should be good.