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I have a Python 3.5.1 environment managed by conda. I'm trying to create a new Python 3.5.1 environment with conda create and listing several of the modules I want in the new environment.
One such module is dateutil (not python-dateutil), which is already installed for the existing 3.5.1 environment and was installed merely with the command conda install dateutil -- which gave no warnings or conflicts when I created that environment around 6 months ago. I'm trying to replicate this environment to provide something cloneable to share for an analysis with a collaborator -- when I use conda list on my current 3.5.1 environment, I see that plain dateutil is installed, not python-dateutil, so that's what I need.
However, now when I try to include dateutil for the new environment, it says there is a conflict and that dateutil is only available for Python 2.6.*, 2.7.*, 3.3.*, 3.4.*.
Here's an example:
user@computer:~/programming$ conda create -n test_dateutil python=3.5.1 dateutil
Using Anaconda Cloud api site https://api.anaconda.org
Fetching package metadata: ............
Solving package specifications: ....
The following specifications were found to be in conflict:
- dateutil -> python 2.6*|2.7*|3.3*|3.4*
- python 3.5.1*
But with the existing Python 3.5.1 environment, dateutil is clearly installed with no trouble:
(py35)user@computer:~$ ipython
Python 3.5.1 |Continuum Analytics, Inc.| (default, Dec 7 2015, 11:16:01)
Type "copyright", "credits" or "license" for more information.
IPython 4.1.2 -- An enhanced Interactive Python.
? -> Introduction and overview of IPython's features.
%quickref -> Quick reference.
help -> Python's own help system.
object? -> Details about 'object', use 'object??' for extra details.
In [1]: dateutil
Out[1]: <module 'dateutil' from '/home/user/anaconda/envs/py35/lib/python3.5/site-packages/dateutil/__init__.py'>
In [2]: dateutil.
dateutil.easter dateutil.relativedelta dateutil.tz
dateutil.parser dateutil.rrule
In [2]: dateutil.__
dateutil.__builtins__ dateutil.__file__ dateutil.__package__ dateutil.__version__
dateutil.__cached__ dateutil.__loader__ dateutil.__path__
dateutil.__doc__ dateutil.__name__ dateutil.__spec__
In [2]: dateutil.__version__
Out[2]: '2.4.2'
In [3]: dateutil.__package__
Out[3]: 'dateutil'
From conda list
(py35)user@computer:~$ conda list
# packages in environment at /home/user/anaconda/envs/py35:
#
cycler 0.10.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/cycler-0.10.0-py35_0.tar.bz2
cython 0.24 py35_0 http://repo.continuum.io/pkgs/free/linux-64/cython-0.24-py35_0.tar.bz2
dateutil 2.4.2 py35_0 http://repo.continuum.io/pkgs/free/linux-64/dateutil-2.4.2-py35_0.tar.bz2
decorator 4.0.2 py35_0 http://repo.continuum.io/pkgs/free/linux-64/decorator-4.0.2-py35_0.tar.bz2
entrypoints 0.2 py35_1 http://repo.continuum.io/pkgs/free/linux-64/entrypoints-0.2-py35_1.tar.bz2
fontconfig 2.11.1 5 http://repo.continuum.io/pkgs/free/linux-64/fontconfig-2.11.1-5.tar.bz2
freetype 2.5.5 0 http://repo.continuum.io/pkgs/free/linux-64/freetype-2.5.5-0.tar.bz2
funcsigs 0.4 py35_0 http://repo.continuum.io/pkgs/free/linux-64/funcsigs-0.4-py35_0.tar.bz2
ipykernel 4.3.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/ipykernel-4.3.1-py35_0.tar.bz2
ipython 4.1.2 py35_0 http://repo.continuum.io/pkgs/free/linux-64/ipython-4.1.2-py35_0.tar.bz2
ipython-genutils 0.1.0 <pip>
ipython_genutils 0.1.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/ipython_genutils-0.1.0-py35_0.tar.bz2
ipywidgets 4.1.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/ipywidgets-4.1.1-py35_0.tar.bz2
jinja2 2.8 py35_1 http://repo.continuum.io/pkgs/free/linux-64/jinja2-2.8-py35_1.tar.bz2
jsonschema 2.5.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/jsonschema-2.5.1-py35_0.tar.bz2
jupyter 1.0.0 py35_3 http://repo.continuum.io/pkgs/free/linux-64/jupyter-1.0.0-py35_3.tar.bz2
jupyter-client 4.2.2 <pip>
jupyter-console 4.1.1 <pip>
jupyter-core 4.1.0 <pip>
jupyter_client 4.2.2 py35_0 http://repo.continuum.io/pkgs/free/linux-64/jupyter_client-4.2.2-py35_0.tar.bz2
jupyter_console 4.1.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/jupyter_console-4.1.1-py35_0.tar.bz2
jupyter_core 4.1.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/jupyter_core-4.1.0-py35_0.tar.bz2
libgfortran 3.0 0 http://repo.continuum.io/pkgs/free/linux-64/libgfortran-3.0-0.tar.bz2
libpng 1.6.17 0 http://repo.continuum.io/pkgs/free/linux-64/libpng-1.6.17-0.tar.bz2
libsodium 1.0.10 0 http://repo.continuum.io/pkgs/free/linux-64/libsodium-1.0.10-0.tar.bz2
libxml2 2.9.2 0 http://repo.continuum.io/pkgs/free/linux-64/libxml2-2.9.2-0.tar.bz2
markupsafe 0.23 py35_2 http://repo.continuum.io/pkgs/free/linux-64/markupsafe-0.23-py35_2.tar.bz2
matplotlib 1.5.1 np110py35_0 http://repo.continuum.io/pkgs/free/linux-64/matplotlib-1.5.1-np110py35_0.tar.bz2
midiutil HEAD <pip>
mistune 0.7.2 py35_0 http://repo.continuum.io/pkgs/free/linux-64/mistune-0.7.2-py35_0.tar.bz2
mkl 11.3.1 0 http://repo.continuum.io/pkgs/free/linux-64/mkl-11.3.1-0.tar.bz2
mock 1.3.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/mock-1.3.0-py35_0.tar.bz2
nbconvert 4.2.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/nbconvert-4.2.0-py35_0.tar.bz2
nbformat 4.0.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/nbformat-4.0.1-py35_0.tar.bz2
ncurses 5.9 5 https://conda.binstar.org/asmeurer/linux-64/ncurses-5.9-5.tar.bz2
nose 1.3.7 py35_0 http://repo.continuum.io/pkgs/free/linux-64/nose-1.3.7-py35_0.tar.bz2
notebook 4.2.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/notebook-4.2.1-py35_0.tar.bz2
numpy 1.10.4 py35_1 http://repo.continuum.io/pkgs/free/linux-64/numpy-1.10.4-py35_1.tar.bz2
openblas 0.2.14 4 http://repo.continuum.io/pkgs/free/linux-64/openblas-0.2.14-4.tar.bz2
openssl 1.0.2d 0 http://repo.continuum.io/pkgs/free/linux-64/openssl-1.0.2d-0.tar.bz2
pandas 0.16.2 np110py35_0 http://repo.continuum.io/pkgs/free/linux-64/pandas-0.16.2-np110py35_0.tar.bz2
path.py 7.6.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/path.py-7.6.1-py35_0.tar.bz2
patsy 0.4.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/patsy-0.4.1-py35_0.tar.bz2
pbr 1.3.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pbr-1.3.0-py35_0.tar.bz2
pexpect 3.3 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pexpect-3.3-py35_0.tar.bz2
pickleshare 0.5 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pickleshare-0.5-py35_0.tar.bz2
pip 7.1.2 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pip-7.1.2-py35_0.tar.bz2
psycopg2 2.6.1 py35_1 http://repo.continuum.io/pkgs/free/linux-64/psycopg2-2.6.1-py35_1.tar.bz2
ptyprocess 0.5.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/ptyprocess-0.5.1-py35_0.tar.bz2
pygments 2.1.3 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pygments-2.1.3-py35_0.tar.bz2
pyparsing 2.0.3 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pyparsing-2.0.3-py35_0.tar.bz2
pyqt 4.11.4 py35_1 http://repo.continuum.io/pkgs/free/linux-64/pyqt-4.11.4-py35_1.tar.bz2
pystan 2.8.0.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pystan-2.8.0.0-py35_0.tar.bz2
python 3.5.1 0 http://repo.continuum.io/pkgs/free/linux-64/python-3.5.1-0.tar.bz2
pytz 2015.4 py35_0 http://repo.continuum.io/pkgs/free/linux-64/pytz-2015.4-py35_0.tar.bz2
pyyaml 3.11 py35_1 http://repo.continuum.io/pkgs/free/linux-64/pyyaml-3.11-py35_1.tar.bz2
pyzmq 15.2.0 py35_1 http://repo.continuum.io/pkgs/free/linux-64/pyzmq-15.2.0-py35_1.tar.bz2
qt 4.8.7 1 http://repo.continuum.io/pkgs/free/linux-64/qt-4.8.7-1.tar.bz2
qtconsole 4.2.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/qtconsole-4.2.1-py35_0.tar.bz2
readline 6.2.5 1 https://conda.binstar.org/asmeurer/linux-64/readline-6.2.5-1.tar.bz2
runcython3 0.2.6 <pip>
scikit-learn 0.16.1 np110py35_0 http://repo.continuum.io/pkgs/free/linux-64/scikit-learn-0.16.1-np110py35_0.tar.bz2
scipy 0.17.0 np110py35_2 http://repo.continuum.io/pkgs/free/linux-64/scipy-0.17.0-np110py35_2.tar.bz2
seaborn 0.7.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/seaborn-0.7.0-py35_0.tar.bz2
setuptools 18.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/setuptools-18.1-py35_0.tar.bz2
simplegeneric 0.8.1 py35_0 http://repo.continuum.io/pkgs/free/linux-64/simplegeneric-0.8.1-py35_0.tar.bz2
sip 4.16.9 py35_0 http://repo.continuum.io/pkgs/free/linux-64/sip-4.16.9-py35_0.tar.bz2
six 1.9.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/six-1.9.0-py35_0.tar.bz2
sqlalchemy 1.0.12 py35_0 http://repo.continuum.io/pkgs/free/linux-64/sqlalchemy-1.0.12-py35_0.tar.bz2
sqlite 3.8.4.1 1 http://repo.continuum.io/pkgs/free/linux-64/sqlite-3.8.4.1-1.tar.bz2
statsmodels 0.6.1 np110py35_0 http://repo.continuum.io/pkgs/free/linux-64/statsmodels-0.6.1-np110py35_0.tar.bz2
terminado 0.6 py35_0 http://repo.continuum.io/pkgs/free/linux-64/terminado-0.6-py35_0.tar.bz2
tk 8.5.18 0 http://repo.continuum.io/pkgs/free/linux-64/tk-8.5.18-0.tar.bz2
tornado 4.3 py35_1 http://repo.continuum.io/pkgs/free/linux-64/tornado-4.3-py35_1.tar.bz2
traitlets 4.0.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/traitlets-4.0.0-py35_0.tar.bz2
wheel 0.24.0 py35_0 http://repo.continuum.io/pkgs/free/linux-64/wheel-0.24.0-py35_0.tar.bz2
xz 5.0.5 0 http://repo.continuum.io/pkgs/free/linux-64/xz-5.0.5-0.tar.bz2
yaml 0.1.6 0 http://repo.continuum.io/pkgs/free/linux-64/yaml-0.1.6-0.tar.bz2
zeromq 4.1.4 0 http://repo.continuum.io/pkgs/free/linux-64/zeromq-4.1.4-0.tar.bz2
zlib 1.2.8 0 http://repo.continuum.io/pkgs/free/linux-64/zlib-1.2.8-0.tar.bz2
The particular tarball for dateutil doesn't appear to exist anymore (but definitely was installed with just a simple conda install dateutil previously).
918
The dateutil module supports the parsing of dates in any string format. This module provides internal up-to-date world time zone details. This module helps in computing the relative deltas. This module also helps in computing the dates based on pretty flexible rules of recurrence.
Extensions to the standard Python datetime module. Info: This package contains files in non-standard labels . linux-64 v2.6.1 win-32 v2.6.1 noarch v2.8.2 osx-64 v2.6.1 win-64 v2.6.1 The dateutil module provides powerful extensions to the standard datetime module, available in Python.
linux-64 v2.6.1 win-32 v2.6.1 noarch v2.8.2 osx-64 v2.6.1 win-64 v2.6.1 The dateutil module provides powerful extensions to the standard datetime module, available in Python.
The conda environment file is this: process_busco.yml: Using either conda env create -f process_busco.yml or from within the workflow package results in multiple package conflicts. stdout: Collecting package metadata (repodata.json): done Solving environment: / Found conflicts! Looking for incompatible packages.
The problem arises if you set your "python path" to default to that of miniconda3, a procedure which is automated when you accept that the miniconda3 installer adds the following line to your .bashrc file. In other words, everytime you open a shell, your system sets the python interpreter to that of miniconda3, which is version 3.6.
The related Github issue said that the dateutil package was renamed as python-dateutil.
Thus, a mere conda install python-dateutil works fine with Python 3.5.
161
The URL http://repo.continuum.io/pkgs/free/linux-64/dateutil-2.4.2-py35_0.tar.bz2 no longer exists, and I'm not sure why. I'm filing an issue for you on anaconda-issues.
https://github.com/ContinuumIO/anaconda-issues/issues/858
22
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