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Problem importing biopython module
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Hello there, I am new to Pythonista and it’s been great so far but i am having problems importing the biopython package.
I have installed it using pip but when I run the following import I get this:from Bio import SeqIO
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/private/var/mobile/Containers/Shared/AppGroup/60AB303A-8972-4389-BAB8-077C39F8243A/Pythonista3/Documents/site-packages-2/Bio/SeqIO/init.py", line 375, in <module>
from Bio.Align import MultipleSeqAlignment
File "/private/var/mobile/Containers/Shared/AppGroup/60AB303A-8972-4389-BAB8-077C39F8243A/Pythonista3/Documents/site-packages-2/Bio/Align/init.py", line 22, in <module>
from Bio.Align import _aligners
ImportError: cannot import name _alignersWhat am I doing wrong? I used this package with Anaconda and spyder before with no problems
Many thanks!
Thomas -
@tgerme biopython has lots of c extensions that of course won't work on iOS:
EXTENSIONS = [
Extension('Bio.Align._aligners',
['Bio/Align/_aligners.c']),
Extension('Bio.cpairwise2',
['Bio/cpairwise2module.c']),
Extension('Bio.Nexus.cnexus',
['Bio/Nexus/cnexus.c']),
Extension('Bio.PDB.QCPSuperimposer.qcprotmodule',
["Bio/PDB/QCPSuperimposer/qcprotmodule.c"]),
Extension('Bio.motifs._pwm',
["Bio/motifs/_pwm.c"]),
Extension('Bio.Cluster._cluster',
['Bio/Cluster/cluster.c', 'Bio/Cluster/clustermodule.c']),
Extension('Bio.PDB.kdtrees',
["Bio/PDB/kdtrees.c"]),
Extension('Bio.KDTree._CKDTree',
["Bio/KDTree/KDTree.c", "Bio/KDTree/KDTreemodule.c"]),
]If you need those, you cannot use biopython in pythonista.
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That makes sense, thank you
