Error in GFFParser: AttributeError: module 'Bio.SeqFeature' has no attribute 'SimpleLocation'

[victorlin]

The feature in question was added in Biopython 1.80, so it does not work with earlier versions.

This was by a test in one of my repos after the recent release of 0.7.1 (specifically commit eec72c3). Error message snippet:

+    File "/home/runner/micromamba/envs/augur/lib/python3.8/site-packages/BCBio/GFF/GFFParser.py", line 589, in _get_feature
+      new_feature = SeqFeature.SeqFeature(SeqFeature.SimpleLocation(start=rstart, end=rend, strand=feature_dict['strand']), feature_dict['type'],
+  AttributeError: module 'Bio.SeqFeature' has no attribute 'SimpleLocation'

Workaround

Install biopython>=1.80

Potential solution

Pin biopython>=1.80 in setup.py so dependency resolvers (e.g. pip) will not be able to install an incompatible version.