Test run not working #39
Description
Hi I'm trying to implement this pipeline in my work, but I'm facing problems. The pipeline was conda installed according with instruction in you GitHub. Here's the error:
$ deepbgc --help
Traceback (most recent call last):
File "/apps/deepbgc/0.1.18/bin/deepbgc", line 6, in
from deepbgc.main import main
File "/apps/deepbgc/0.1.18/lib/python3.7/site-packages/deepbgc/init.py",
line 2, in
from .pipeline import DeepBGCClassifier, DeepBGCDetector,
HmmscanPfamRecordAnnotator, DeepBGCAnnotator, ProdigalProteinRecordAnnotator
File
"/apps/deepbgc/0.1.18/lib/python3.7/site-packages/deepbgc/pipeline/init.py",
line 1, in
from .classifier import DeepBGCClassifier
File
"/apps/deepbgc/0.1.18/lib/python3.7/site-packages/deepbgc/pipeline/classifier.py",
line 4, in
from deepbgc import util
File "/apps/deepbgc/0.1.18/lib/python3.7/site-packages/deepbgc/util.py", line
18, in
from Bio.Alphabet import SingleLetterAlphabet, generic_dna
File
"/apps/deepbgc/0.1.18/lib/python3.7/site-packages/Bio/Alphabet/init.py",
line 21, in
"Bio.Alphabet has been removed from Biopython. In many cases, the alphabet
can simply be ignored and removed from scripts. In a few cases, you may need to
specify the molecule_type as an annotation on a SeqRecord for your script
to work correctly. Please see https://biopython.org/wiki/Alphabet for more
information."
ImportError: Bio.Alphabet has been removed from Biopython. In many cases, the
alphabet can simply be ignored and removed from scripts. In a few cases, you
may need to specify the molecule_type as an annotation on a SeqRecord for
your script to work correctly. Please see https://biopython.org/wiki/Alphabet
for more information.
Thanks in advance,
Alejandro