Goal: Understand how Conda’s pip works with a User’s Python Pip pip package Installs.
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Miniconda does ship with a default version of Python. |
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[salexan5@mblog1 conda]$ cd /project/arcc<project-name>/salexan5<username>/conda [salexan5@mblog1 conda]$ module purge []$ module load miniconda3/24.3.0 [salexan5@mblog1 conda]$ conda create -p py_env ## Package Plan ## environment location: /cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env # To activate this environment, use # $ conda activate /cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env [salexan5@mblog1 conda]$ conda activate /cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ python --version Python 3.12.2 (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ which python /apps/u/opt/linux/miniconda3/24.3.0/bin/python |
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Try Installing numpy into our Conda environment
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([]$ module purge []$ module load miniconda3/24.3.0 []$ conda activate /cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda] (/cluster/medbow/project/<project-name>/<username>/conda/py_env) []$ pip install numpy Defaulting to user installation because normal site-packages is not writeable Requirement already satisfied: numpy in /home/salexan5<username>/.local/lib/python3.12/site-packages (1.26.4) (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ python ~/py_test.py Python: 3.12.2 | packaged by Anaconda, Inc. | (main, Feb 27 2024, 17:35:02) [GCC 11.2.0] Numpy: 1.26.4 |
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# This list should be empty since we have essentially a blank conda environment # since we have not conda installed anything. (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ conda list # packages in environment at /cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env: # # Name Version Build Channel |
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(/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ pip list -v Package Version Location Installer ----------------------- ----------- ---------------------------------------------------------------- --------- anaconda-anon-usage 0.4.4 /apps/u/opt/linux/miniconda3/24.3.0/lib/python3.12/site-packages conda archspec 0.2.3 /apps/u/opt/linux/miniconda3/24.3.0/lib/python3.12/site-packages conda ... numpy 1.26.4 /home/salexan5<username>/.local/lib/python3.12/site-packages pip ... pip 23.3.1 /apps/u/opt/linux/miniconda3/24.3.0/lib/python3.12/site-packages ... |
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(/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ pip install numpy==2.0.0 Defaulting to user installation because normal site-packages is not writeable ... Installing collected packages: numpy Attempting uninstall: numpy Found existing installation: numpy 1.26.4 Uninstalling numpy-1.26.4: Successfully uninstalled numpy-1.26.4 Successfully installed numpy-2.0.0 (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ pip list -v Package Version Location Installer ----------------------- ----------- ---------------------------------------------------------------- --------- ... numpy 2.0.0 /home/salexan5<username>/.local/lib/python3.12/site-packages pip ... |
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The |
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(/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ echo $CONDA_PREFIX /cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env_3.12.4) [salexan5@mblog2 conda]$ export PYTHONUSERBASE=$CONDA_PREFIX (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ pip list -v Package Version Location Installer ----------------------- -------- ------------------------------------------------------------------------------- --------- ... numpy 2.0.0 /cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env/lib/python3.12/site-packages pip ... |
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(/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ pwd /project/arcc<project-name>/salexan5<username>/conda (/cluster/medbow/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog1 conda]$ ls py_env/lib/python3.12/site-packages/ numpy numpy-2.0.0.dist-info numpy.libs |
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Starting a new session, notice which version of |
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[salexan5@mblog2 ~]$ module purge []$ module load miniconda3/24.3.0 [salexan5@mblog2 ~]$ conda activate /project/arcc<project-name>/salexan5<username>/conda/py_env (/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog2 ~]$ pip list -v Package Version Location Installer ----------------------- ----------- ---------------------------------------------------------------- --------- ... numpy 2.0.0 /home/salexan5<username>/.local/lib/python3.12/site-packages pip ... (/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog2 ~]$ export PYTHONUSERBASE=$CONDA_PREFIX (/project/arcc<project-name>/salexan5<username>/conda/py_env) [salexan5@mblog2 ~]$ pip list -v Package Version Location Installer ----------------------- -------- ---------------------------------------------------------------- --------- ... numpy 2.0.0 /project/arcc<project-name>/salexan5<username>/conda/py_env/lib/python3.12/site-packages pip ... |
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Remember: Conda Environments, Pip Installs and Package Locations
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Remember: If you do not set |
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