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PoonLab / sierra-local

Retrieve HIVdb algorithm as XML and apply locally to HIV sequences
GNU General Public License v3.0
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HIVdb swiched from static to dynamic HTML for DRM ASI2 files #59

Closed ArtPoon closed 5 years ago

ArtPoon commented 5 years ago

https://hivdb.stanford.edu/page/algorithm-updates can no longer be read by current Python urllib or requests methods in updater.py.

ArtPoon commented 5 years ago

I'm able to use selenium and chromedriver to retrieve this file. However, this is going to require a lot of additional dependencies for the user (selenium, chromedriver, and Google Chrome -- even worse if Chrome is not their browser of choice).

In light of this and related issues (#58 ), I am deprecating the updater.py script - instead we need to:

  1. make sure the user is able to point the sierralocal script to custom ASI2 and APOBEC files if needed, and
  2. provide a script or instructions for installing said files in the appropriate location (replacing the versions we will distribute).