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+ 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'
This is similar to #1373. bcbio-gff uses Bio.SeqFeature.SimpleLocation which is not available on older versions of Python supported by Augur. BCBio-GFF should set a minimum version requirement for Biopython (upstream issue).
Potential solutions
(short-term solution) Update Augur's setup.py to the earliest version of Biopython that supports Bio.SeqFeature.SimpleLocation.
(long-term solution) Update bcbio-gff's setup.py to the earliest version of Biopython that supports Bio.SeqFeature.SimpleLocation.
The text was updated successfully, but these errors were encountered:
Failing scheduled CI:
This is similar to #1373. bcbio-gff uses
Bio.SeqFeature.SimpleLocation
which is not available on older versions of Python supported by Augur. BCBio-GFF should set a minimum version requirement for Biopython (upstream issue).Potential solutions
Bio.SeqFeature.SimpleLocation
.Bio.SeqFeature.SimpleLocation
.The text was updated successfully, but these errors were encountered: