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cov-lineages / pangoLEARN

Store of the trained model for pangolin to access.
GNU General Public License v3.0
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Error after the latest release 2021-04-28 #11

Closed animesh-workplace closed 3 years ago

animesh-workplace commented 3 years ago

I'm getting the following error after installing the latest version of PangoLEARN Error: please update to pangoLEARN version >= 2021-04-28

animesh-workplace commented 3 years ago

I'm getting the following things after installing pangoLEARN manually using python setup.py install

/usr/lib/python3/dist-packages/setuptools/dist.py:481: UserWarning: The version specified ('2021-04-28') is an invalid version, this may not work as expected with newer versions of setuptools, pip, and PyPI. Please see PEP 440 for more details.
  warnings.warn(
running install
running bdist_egg
running egg_info
writing pangoLEARN.egg-info/PKG-INFO
writing dependency_links to pangoLEARN.egg-info/dependency_links.txt
writing entry points to pangoLEARN.egg-info/entry_points.txt
writing top-level names to pangoLEARN.egg-info/top_level.txt
reading manifest file 'pangoLEARN.egg-info/SOURCES.txt'
writing manifest file 'pangoLEARN.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
creating build/bdist.linux-x86_64/egg
creating build/bdist.linux-x86_64/egg/pangoLEARN
copying build/lib/pangoLEARN/__init__.py -> build/bdist.linux-x86_64/egg/pangoLEARN
creating build/bdist.linux-x86_64/egg/pangoLEARN/data
copying build/lib/pangoLEARN/data/decisionTreeHeaders_v1.joblib -> build/bdist.linux-x86_64/egg/pangoLEARN/data
copying build/lib/pangoLEARN/data/decisionTree_v1.joblib -> build/bdist.linux-x86_64/egg/pangoLEARN/data
copying build/lib/pangoLEARN/data/lineages.downsample.csv -> build/bdist.linux-x86_64/egg/pangoLEARN/data
copying build/lib/pangoLEARN/data/lineages.metadata.csv -> build/bdist.linux-x86_64/egg/pangoLEARN/data
copying build/lib/pangoLEARN/data/lineage_recall_report.csv -> build/bdist.linux-x86_64/egg/pangoLEARN/data
copying build/lib/pangoLEARN/data/decision_tree_rules.txt -> build/bdist.linux-x86_64/egg/pangoLEARN/data
byte-compiling build/bdist.linux-x86_64/egg/pangoLEARN/__init__.py to __init__.cpython-38.pyc
creating build/bdist.linux-x86_64/egg/EGG-INFO
copying pangoLEARN.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pangoLEARN.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pangoLEARN.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pangoLEARN.egg-info/entry_points.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pangoLEARN.egg-info/not-zip-safe -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pangoLEARN.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
creating 'dist/pangoLEARN-2021_04_28-py3.8.egg' and adding 'build/bdist.linux-x86_64/egg' to it
removing 'build/bdist.linux-x86_64/egg' (and everything under it)
Processing pangoLEARN-2021_04_28-py3.8.egg
removing '/usr/local/lib/python3.8/dist-packages/pangoLEARN-2021_04_28-py3.8.egg' (and everything under it)
creating /usr/local/lib/python3.8/dist-packages/pangoLEARN-2021_04_28-py3.8.egg
Extracting pangoLEARN-2021_04_28-py3.8.egg to /usr/local/lib/python3.8/dist-packages
pangoLEARN 2021-04-28 is already the active version in easy-install.pth
Installing pangoLEARN script to /usr/local/bin

Installed /usr/local/lib/python3.8/dist-packages/pangoLEARN-2021_04_28-py3.8.egg
Processing dependencies for pangoLEARN===2021-04-28
Finished processing dependencies for pangoLEARN===2021-04-28
aineniamh commented 3 years ago

Have you tried running pangolin --update in the environment? Sometimes if you've previously used pip install, using python setup.py install doesn't overwrite it.

But also, 

Installed /usr/local/lib/python3.8/dist-packages/pangoLEARN-2021_04_28-py3.8.egg
Processing dependencies for pangoLEARN===2021-04-28
Finished processing dependencies for pangoLEARN===2021-04-28

this looks like it installed correctly?

animesh-workplace commented 3 years ago

Weird error i got don't know why. I had to uninstall pangolin and pangoLEARN and then again installing it fixed the error

animesh-workplace commented 3 years ago

Have you tried running pangolin --update in the environment? Sometimes if you've previously used pip install, using python setup.py install doesn't overwrite it.

I usually do that everytime before running pangolin

aineniamh commented 3 years ago

Okay, but to confirm it's working now after uninstalling and re-installing? I'll close the issue if that's the case.