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intermine / sequence-alignment-service

Small sequence alignment service to be used in combination with the Multiple Sequence Alignment viewer
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add description and running instructions to readme #2

Closed yochannah closed 5 years ago

yochannah commented 5 years ago

future us will thank now us for making it easy to figure out what to do to make this run, and why we want to do it :)

AdrianBZG commented 5 years ago

@yochannah For context, the reason of this small service is that the sequences of the proteins fetched from InterMine are not aligned (and we need them aligned to make sense when shown in the MSA viewer, as it just shows sequences without aligning them), so we needed to find some alignment service that either 1) has an API to call it from JS or 2) is a JS library. We didn't find a suitable tool with 1), so we went with 2).

yochannah commented 5 years ago

Sounds reasonable! Shall we deploy this as ~sequencealign.apps.intermine.org~ sequencealignment.apps.intermine.org and hardcode to that url rather than localhost?

AdrianBZG commented 5 years ago

@yochannah That sounds like the way to go! 👍 (sequencealignment.apps.intermine.org)

heralden commented 5 years ago

Fixed with #3

heralden commented 5 years ago

I should note that this has been deployed on sequencealignment.apps.intermine.org like you noted, and https://github.com/intermine/bluegenes-msa-viewer has been updated with the hardcoded url.