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lmb-embrapa / machado

This repository provides users with a framework to store, search and visualize biological data.
GNU General Public License v3.0
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RefSeqs JBrowse route is unusably slow with a large number of sequences #345

Closed njbooher closed 2 years ago

njbooher commented 2 years ago

Setup

>>> import sys; print(sys.version)
3.8.8 (default, Aug 11 2021, 06:52:42) 
[GCC 8.5.0 20210514 (Red Hat 8.5.0-3)]
>>> import platform; print(platform.python_implementation()); print(platform.platform())
CPython
Linux-5.14.9-200.fc34.x86_64-x86_64-with-glibc2.2.5

Expected behaviour

JBrowse on this page should load within a couple seconds https://db.abalone.dbgenome.org/feature/?feature_id=1224439

Actual behaviour

JBrowse doesn't load because the RefSeqs api endpoint takes too long to load

From what I understand this is likely caused by ModelSerializer being slow.

https://hakibenita.com/django-rest-framework-slow

I will be testing the suggestions from that post today and probably make a pull request.

azneto commented 2 years ago

Performance upgrades are really welcome. Thanks.