I installed it using pip3. but unable to execute from jupyter notebook or from command line. the error given bellow
Command line error
~/Desktop$ python3
Python 3.9.5 (default, Jun 4 2021, 12:28:51)
[GCC 7.5.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
import pyemma
Traceback (most recent call last):
File "", line 1, in
File "/home/debanjan/amber20/miniconda/lib/python3.9/site-packages/pyemma/init.py", line 34, in
from . import msm
File "/home/debanjan/amber20/miniconda/lib/python3.9/site-packages/pyemma/msm/init.py", line 83, in
from msmtools.analysis.dense.pcca import PCCA
File "/home/debanjan/amber20/miniconda/lib/python3.9/site-packages/msmtools/init.py", line 41, in
from . import estimation
File "/home/debanjan/amber20/miniconda/lib/python3.9/site-packages/msmtools/estimation/init.py", line 91, in
from .api import *
File "/home/debanjan/amber20/miniconda/lib/python3.9/site-packages/msmtools/estimation/api.py", line 38, in
from . import dense
File "/home/debanjan/amber20/miniconda/lib/python3.9/site-packages/msmtools/estimation/dense/init.py", line 24, in
from .mle import mle_trev, mle_trev_given_pi
File "msmtools/estimation/dense/mle/mle_trev.pyx", line 1, in init msmtools.estimation.dense.mle.mle_trev
ValueError: numpy.ndarray size changed, may indicate binary incompatibility. Expected 96 from C header, got 88 from PyObject
Jupyter notebook issue
!pip3 install pyemma
Requirement already satisfied: pyemma in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (2.5.11)
Requirement already satisfied: tqdm>=4.23 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (4.62.3)
Requirement already satisfied: psutil>=3.1.1 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (5.8.0)
Requirement already satisfied: mdtraj>=1.9.2 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (1.9.7)
Requirement already satisfied: decorator>=4.0.0 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (5.1.1)
Requirement already satisfied: matplotlib in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (3.5.0)
Requirement already satisfied: bhmm<0.7,>=0.6 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (0.6.3)
Requirement already satisfied: msmtools>=1.2 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (1.2.6)
.......................
......................
Requirement already satisfied: multiprocess>=0.70.12 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pathos->pyemma) (0.70.12.2)
Requirement already satisfied: joblib>=0.11 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from scikit-learn->deeptime->pyemma) (1.1.0)
I installed it using pip3. but unable to execute from jupyter notebook or from command line. the error given bellow
Command line error ~/Desktop$ python3 Python 3.9.5 (default, Jun 4 2021, 12:28:51) [GCC 7.5.0] :: Anaconda, Inc. on linux Type "help", "copyright", "credits" or "license" for more information.
Jupyter notebook issue !pip3 install pyemma Requirement already satisfied: pyemma in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (2.5.11) Requirement already satisfied: tqdm>=4.23 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (4.62.3) Requirement already satisfied: psutil>=3.1.1 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (5.8.0) Requirement already satisfied: mdtraj>=1.9.2 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (1.9.7) Requirement already satisfied: decorator>=4.0.0 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (5.1.1) Requirement already satisfied: matplotlib in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (3.5.0) Requirement already satisfied: bhmm<0.7,>=0.6 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (0.6.3) Requirement already satisfied: msmtools>=1.2 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pyemma) (1.2.6) ....................... ...................... Requirement already satisfied: multiprocess>=0.70.12 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from pathos->pyemma) (0.70.12.2) Requirement already satisfied: joblib>=0.11 in /home/debanjan/amber20/miniconda/lib/python3.9/site-packages (from scikit-learn->deeptime->pyemma) (1.1.0)
import pyemma ModuleNotFoundError Traceback (most recent call last) /tmp/ipykernel_3014/684328617.py in
----> 1 import pyemma
ModuleNotFoundError: No module named 'pyemma'
Same with Mdshare