Re: [apollo] New install error

[Nathan Dunn]

I would raise an issue here: https://github.com/galaxy-genome-annotation/python-apollo

I would let them know where you got the software from or how you ran it.

NAthan

On Mar 7, 2023, at 8:17 AM, Jason Somers <jasona...@gmail.com> wrote:

Hi,

Maybe wrong place to post but I am encountering this error on a new install apollo/arrow

Anyone got any hints?

❯ arrow init
Traceback (most recent call last):
  File "/Library/Frameworks/Python.framework/Versions/3.11/bin/arrow", line 5, in <module>
    from arrow.cli import arrow
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/arrow/cli.py", line 9, in <module>
    from .apollo import get_apollo_instance
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/arrow/apollo.py", line 3, in <module>
    from apollo import ApolloInstance
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/apollo/__init__.py", line 4, in <module>
    from apollo import (annotations, cannedcomments, cannedkeys,
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/apollo/annotations/__init__.py", line 10, in <module>
    from BCBio import GFF
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/BCBio/GFF/__init__.py", line 3, in <module>
    from BCBio.GFF.GFFParser import GFFParser, DiscoGFFParser, GFFExaminer, parse, parse_simple
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/BCBio/GFF/GFFParser.py", line 34, in <module>
    from Bio.Seq import UnknownSeq
ImportError: cannot import name 'UnknownSeq' from 'Bio.Seq' (/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/Bio/Seq.py)

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