When I installed the EDTA 2.0.0, I tried to run it. But there is something wrong in the step of the TIR. Is this the version problem of the python ?
Traceback (most recent call last):
File "/opt/Bio/EDTA/2.0.0/share/EDTA/bin/TIR-Learner2.5/Module3_New/getDataset.py", line 13, in
from sklearn.preprocessing import LabelEncoder, OneHotEncoder
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/sklearn/init.py", line 82, in
from .base import clone
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/sklearn/base.py", line 17, in
from .utils import _IS_32BIT
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/sklearn/utils/init.py", line 23, in
from .class_weight import compute_class_weight, compute_sample_weight
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/sklearn/utils/class_weight.py", line 7, in
from .validation import _deprecate_positional_args
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/sklearn/utils/validation.py", line 22, in
import joblib
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/init.py", line 120, in
from .parallel import Parallel
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/parallel.py", line 26, in
from ._parallel_backends import (FallbackToBackend, MultiprocessingBackend,
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/_parallel_backends.py", line 17, in
from .pool import MemmappingPool
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/pool.py", line 31, in
from ._memmapping_reducer import get_memmapping_reducers
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/_memmapping_reducer.py", line 37, in
from .externals.loky.backend import resource_tracker
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/externals/loky/init.py", line 12, in
from .backend.reduction import set_loky_pickler
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/externals/loky/backend/reduction.py", line 125, in
from joblib.externals import cloudpickle # noqa: F401
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/externals/cloudpickle/init.py", line 4, in
from .cloudpickle import * # noqa
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/joblib/externals/cloudpickle/cloudpickle.py", line 64, in
import typing_extensions as _typing_extensions
File "/opt/Bio/EDTA/2.0.0/lib/python3.6/site-packages/typing_extensions.py", line 159, in
class _FinalForm(typing._SpecialForm, _root=True):
AttributeError: module 'typing' has no attribute '_SpecialForm'
You may want to test with the small data in EDTA/test/. Most likely your env is not correctly set up.
Shujun
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oushujun
