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jcrozum / biobalm

The biologist's Boolean attractor landscape mapper, building Waddington landscapes from Boolean networks.
https://jcrozum.github.io/biobalm/
MIT License
2 stars 0 forks source link

mole site down #99

Closed jcrozum closed 7 months ago

jcrozum commented 9 months ago

Tests are failing because they can't fetch mole. Will check again later to see if it's fixed. Otherwise, we many need to check other options. Does anyone know if it's permissible to bundle mole with balm?

daemontus commented 9 months ago

I'll have to double check this, but my observation from latest testing is that not a single attractor detection benchmark actually finished thanks to mole :D I.e. we either solve everything with pint + preprocessing, or we go to mole and then it timeouts. So maybe we could just replace it with something else for the sake of completeness, but accept that it's probably not going to get you great results.

jcrozum commented 9 months ago

Looks like the site is back up. I was able to download mole again and verify that it's released under the GPL, so we could bundle it if we want to. I'm OK with replacing it (or doing nothing) if that's easier/better though.

jcrozum commented 7 months ago

mole is no longer a dependency