Dependencies Python environment #1
Description
I'm trying to set up an python environment in conda that runs GPTime. Can you specify the version of the required packages?
This is my environment so far, but it fails:
(GPTime) D:\Benni\Code\GPTime>conda list
# packages in environment at D:\Programs\anaconda3\envs\GPTime:
#
# Name Version Build Channel
backports 1.0 py27_1
backports.functools_lru_cache 1.5 py27_1
backports_abc 0.5 py27h0ec6b72_0
blas 1.0 mkl
ca-certificates 2018.03.07 0
certifi 2018.10.15 py27_0
cycler 0.10.0 py27h59acbbf_0
decorator 4.3.0 <pip>
freetype 2.9.1 h4d385ea_1
functools32 3.2.3.2 py27_1
futures 3.2.0 py27_0
GPy 1.9.6 <pip>
icc_rt 2017.0.4 h97af966_0
icu 58.2 h2aa20d9_1
intel-openmp 2019.0 118
joblib 0.12.5 py27_0
jpeg 8d vc9_2
kiwisolver 1.0.1 py27hc56fc5f_0
libpng 1.6.35 h7a46e7a_0
libtiff 4.0.6 vc9_2
matplotlib 1.5.1 np111py27_0
mkl 2019.0 118
mkl_fft 1.0.6 py27hac4a418_0
numpy 1.11.3 py27hfef472a_4
numpy-base 1.15.4 py27h2753ae9_0
openssl 1.1.1 h0c8e037_0
paramz 0.9.4 <pip>
pip 18.1 py27_0
pyparsing 2.3.0 py27_0
pyqt 4.10.4 py27_1
python 2.7.15 h2880e7c_3
python-dateutil 2.7.5 py27_0
pytz 2018.7 py27_0
qt 4.8.7 vc9_6
scikit-learn 0.19.2 py27hc804a74_0
scipy 1.1.0 py27ha5da055_0
setuptools 40.5.0 py27_0
singledispatch 3.4.0.3 py27h3f9d112_0
sip 4.18.1 py27hc56fc5f_2
six 1.11.0 <pip>
six 1.11.0 py27_1
sqlite 3.25.2 h0c8e037_0
tk 8.5.18 vc9_0
tornado 5.1.1 py27h0c8e037_0
vc 9 h7299396_1
vs2008_runtime 9.00.30729.1 hfaea7d5_1
wheel 0.32.2 py27_0
wincertstore 0.2 py27hf04cefb_0
zlib 1.2.11 hbc2faf4_2
(GPTime) D:\Benni\Code\GPTime>python gptime.py --operation train --peptides ./Da
ta/20110922_EXQ4_NaNa_SA_YeastEasy_Labelfree_06.rtimes_q_0.001.tsv --model ./mod
el.pk --ntrain 100
D:\Programs\anaconda3\envs\GPTime\lib\site-packages\sklearn\cross_validation.py
:41: DeprecationWarning:This module was deprecated in version 0.18 in favor of t
he model_selection module into which all the refactored classes and functions ar
e moved. Also note that the interface of the new CV iterators are different from
that of this module. This module will be removed in 0.20.
D:\Programs\anaconda3\envs\GPTime\lib\site-packages\sklearn\grid_search.py:42:
DeprecationWarning:This module was deprecated in version 0.18 in favor of the mo
del_selection module into which all the refactored classes and functions are mov
ed. This module will be removed in 0.20.
D:\Programs\anaconda3\envs\GPTime\lib\site-packages\GPy\kern\src\stationary.py:
168: RuntimeWarning:overflow encountered in divide
D:\Programs\anaconda3\envs\GPTime\lib\site-packages\GPy\kern\src\rbf.py:54: Run
timeWarning:invalid value encountered in multiply
(GPTime) D:\Benni\Code\GPTime>