Virtual environments
A virtual environment is an isolated workspace that allows users to run software with its own dependencies, configurations, and even language versions—separate from the system-wide setup. While Python virtual environments are a common example, the concept applies to other languages and tools as well, such as Node.js with nvm, Ruby with rbenv, or containerized environments like Docker.
In environments like HPC (High-Performance Computing) systems, where users often lack permissions to change the global setup, virtual environments are essential. They help avoid conflicts between projects with different dependency requirements, allow for customized setups, and ensure reproducibility and stability. Whether managing software stacks for data science, web development, or research, virtual environments are a powerful way to maintain clean, project-specific configurations without interfering with the system’s core installation.
By using virtual environments, you can create dedicated setups for specific projects or tasks, ensuring that dependencies remain isolated and don’t interfere with one another. This makes it easier to manage multiple projects with different requirements while keeping the system Python untouched.
For more details, refer to the official Python documentation on virtual environments.
https://hpc-wiki.info/hpc/How_to_virtual_environments.
Python Libraries¶
Python virtual environment modules supports creating lightweight “virtual environments”, each with their own independent set of Python packages installed in their site directories. This isolation helps prevent conflicts between projects requiring different package versions. Libraries like venv or virtualenv are commonly used to create these environments, making it easier to manage dependencies for individual projects.
venv¶
The module venv is used to create a virtual environment. Cluster users will have to load the version of python they need first with a module load command. The venv module supports creating lightweight “virtual environments”, each with their own independent set of Python packages installed in their site directories.
Installing Virtual Environment Tools¶
A built-in module in Python for creating virtual environments. No need to install separately, but ensure you’re using Python 3.3 or later.
Creating a Virtual Environment:¶
Users must first load their desired Python version using the module load command.
Once they selected the version of python they want, they can create their virtual environment. These environments can be large, depending on what packages are installed, so it is recommended that they are created in a space other than the home directory. To create a python3 environment named my_venv in the current directory, a user would run:
%%bash
rm -rf my_venv #This would delete the `my_venv` virtual environment folder if it exists
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python3 used is:"
which python3
# now create a new virtual environment `my_venv`
echo " Creating venv 'my_venv' "
python3 -m venv --upgrade-deps my_venv
# use --upgrade-deps to automatically update to the latest pip & setuptools versions
echo "venv created:"
readlink -f my_venv
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python3 used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python3
Creating venv 'my_venv'
venv created:
/home/gth/it4i_course/my_venv
This will create the directory Test1 as well as subdirectories with the files for running Python in the current directory.
#!rm -rf my_venv
This would delete the my_venv virtual environment folder if it exists
Activating the Virtual Environment:¶
%%bash
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
echo "full path to the pip executable currently being used:"
which pip
Activating a Python Virtual Environment
full path to the pip executable currently being used:
/home/gth/it4i_course/my_venv/bin/pip
Once the environment is created, it needs to be activated to install packages and be used. Activating the environment can be done by running the source command with the path to the activate script that was created with the environment. For the Test1 example created above, the command would be:
Installing Packages:¶
Use pip to install packages within venv:
%%bash
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python3 used is:"
which python3
# now create a new virtual environment `my_venv`
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
echo "Displays a list of all installed Python packages in the current environment, along with their versions - location and installer."
pip list -v
echo "Installs a Python package (numpy) into the current environment"
pip install numpy
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python3 used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python3
Activating a Python Virtual Environment
Displays a list of all installed Python packages in the current environment, along with their versions - location and installer.
Package Version Location Installer
--------------------------------- ------------ -------------------------------------------------------------------------------- ---------
anyio 4.3.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
appdirs 1.4.4 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
argon2-cffi 23.1.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
argon2-cffi-bindings 21.2.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
asn1crypto 1.5.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
asttokens 2.4.1 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
async-lru 2.0.4 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
atomicwrites 1.4.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
attrs 23.1.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
Babel 2.13.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
backcall 0.2.0 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
backports.entry-points-selectable 1.2.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
backports.functools-lru-cache 1.6.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
beautifulsoup4 4.12.2 /apps/all/BeautifulSoup/4.12.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
bitarray 2.8.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
bitstring 4.1.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
bleach 6.1.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
blist 1.3.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
CacheControl 0.13.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
cachy 0.3.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
certifi 2023.7.22 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
cffi 1.16.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
chardet 5.2.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
charset-normalizer 3.3.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
cleo 2.0.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
click 8.1.7 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
cloudpickle 3.0.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
colorama 0.4.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
comm 0.2.2 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
commonmark 0.9.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
crashtest 0.4.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
cryptography 41.0.5 /apps/all/cryptography/41.0.5-GCCcore-13.2.0/lib/python3.11/site-packages pip
Cython 3.0.4 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
debugpy 1.8.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
decorator 5.1.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
defusedxml 0.7.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
deprecation 2.1.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
distlib 0.3.7 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
distro 1.8.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
docopt 0.6.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
docutils 0.20.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
doit 0.36.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
dulwich 0.21.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
ecdsa 0.18.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
editables 0.5 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
exceptiongroup 1.1.3 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
execnet 2.0.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
executing 2.0.1 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
fastjsonschema 2.19.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
filelock 3.13.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
fsspec 2023.10.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
future 0.18.3 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
glob2 0.7 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
h11 0.14.0 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
html5lib 1.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
httpcore 1.0.5 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
httpx 0.27.0 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
idna 3.4 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
imagesize 1.4.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
importlib-metadata 6.8.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
importlib-resources 6.1.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
iniconfig 2.0.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
intervaltree 3.1.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
intreehooks 1.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
ipaddress 1.0.23 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
ipykernel 6.29.4 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
ipython 8.17.2 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
ipython-genutils 0.2.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
ipywidgets 8.1.2 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jaraco.classes 3.3.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
jedi 0.19.1 /apps/all/jedi/0.19.1-GCCcore-13.2.0/lib/python3.11/site-packages pip
jeepney 0.8.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
Jinja2 3.1.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
joblib 1.3.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
json5 0.9.25 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jsonschema 4.22.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jsonschema-specifications 2023.12.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyter_client 8.6.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyter_core 5.7.2 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyter-events 0.10.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyter-lsp 2.2.5 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyter_packaging 0.12.3 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyter_server 2.14.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyter_server_terminals 0.5.3 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyterlab 4.2.0 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyterlab_pygments 0.3.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyterlab_server 2.27.1 /apps/all/JupyterLab/4.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
jupyterlab-widgets 3.0.10 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
keyring 24.2.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
keyrings.alt 5.0.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
liac-arff 2.5.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
lockfile 0.12.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
lxml 4.9.3 /apps/all/lxml/4.9.3-GCCcore-13.2.0/lib/python3.11/site-packages pip
markdown-it-py 3.0.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
MarkupSafe 2.1.3 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
matplotlib-inline 0.1.6 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
mdurl 0.1.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
mistune 3.0.2 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
mock 5.1.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
more-itertools 10.1.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
msgpack 1.0.7 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
nbclient 0.10.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
nbconvert 7.16.4 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
nbformat 5.10.4 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
nest-asyncio 1.6.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
netaddr 0.9.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
netifaces 0.11.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
notebook 7.2.0 /apps/all/JupyterNotebook/7.2.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
notebook_shim 0.2.4 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
overrides 7.7.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
packaging 23.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pandocfilters 1.5.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
parso 0.8.3 /apps/all/jedi/0.19.1-GCCcore-13.2.0/lib/python3.11/site-packages pip
pastel 0.2.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pathlib2 2.3.7.post1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pathspec 0.11.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pbr 5.11.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pexpect 4.8.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pickleshare 0.7.5 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
pip 25.1 /home/gth/it4i_course/my_venv/lib/python3.13/site-packages pip
pkginfo 1.9.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
platformdirs 3.11.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pluggy 1.3.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pooch 1.8.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
prometheus-client 0.20.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
prompt-toolkit 3.0.41 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
psutil 5.9.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
ptyprocess 0.7.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pure-eval 0.2.2 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
py 1.11.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
py-expression-eval 0.3.14 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pyasn1 0.5.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pycparser 2.21 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pycryptodome 3.19.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pydevtool 0.3.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
Pygments 2.16.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pylev 1.4.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
PyNaCl 1.5.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pyparsing 3.1.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pyrsistent 0.20.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pytest 7.4.3 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pytest-xdist 3.3.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
python-dateutil 2.8.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
python-json-logger 2.0.7 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
pytoml 0.1.21 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
pytz 2023.3.post1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
PyYAML 6.0.1 /apps/all/PyYAML/6.0.1-GCCcore-13.2.0/lib/python3.11/site-packages pip
pyzmq 25.1.2 /apps/all/PyZMQ/25.1.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
rapidfuzz 2.15.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
referencing 0.35.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
regex 2023.10.3 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
requests 2.31.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
requests-toolbelt 1.0.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
rfc3339-validator 0.1.4 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
rfc3986-validator 0.1.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
rich 13.6.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
rich-click 1.7.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
rpds-py 0.18.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
scandir 1.10.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
SecretStorage 3.3.3 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
semantic-version 2.10.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
Send2Trash 1.8.3 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
shellingham 1.5.4 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
simplegeneric 0.8.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
simplejson 3.19.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
six 1.16.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sniffio 1.3.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
snowballstemmer 2.2.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sortedcontainers 2.4.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
soupsieve 2.5 /apps/all/BeautifulSoup/4.12.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinx-bootstrap-theme 0.8.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinxcontrib-applehelp 1.0.7 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinxcontrib-devhelp 1.0.5 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinxcontrib-htmlhelp 2.0.4 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinxcontrib-jsmath 1.0.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinxcontrib-qthelp 1.0.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinxcontrib-serializinghtml 1.1.9 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
sphinxcontrib-websupport 1.2.6 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
stack-data 0.6.3 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
tabulate 0.9.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
terminado 0.18.1 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
threadpoolctl 3.2.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
tinycss2 1.3.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
toml 0.10.2 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
tomli 2.0.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
tomli_w 1.0.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
tomlkit 0.12.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
tornado 6.4 /apps/all/tornado/6.4-GCCcore-13.2.0/lib/python3.11/site-packages pip
traitlets 5.13.0 /apps/all/IPython/8.17.2-GCCcore-13.2.0/lib/python3.11/site-packages pip
ujson 5.8.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
urllib3 2.0.7 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
virtualenv 20.24.6 /apps/all/virtualenv/20.24.6-GCCcore-13.2.0/lib/python3.11/site-packages pip
wcwidth 0.2.8 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
webencodings 0.5.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
websocket-client 1.8.0 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
widgetsnbextension 4.0.10 /apps/all/jupyter-server/2.14.0-GCCcore-13.2.0/lib/python3.11/site-packages pip
xlrd 2.0.1 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
zipfile36 0.1.3 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
zipp 3.17.0 /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages pip
Installs a Python package (numpy) into the current environment
Collecting numpy
Using cached numpy-2.2.5-cp313-cp313-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Using cached numpy-2.2.5-cp313-cp313-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Installing collected packages: numpy
Successfully installed numpy-2.2.5
Use –no-cache-dir option in pip install tells pip not to use or save any cached files when installing a package.
pip --no-cache-dir install
pip --no-cache-dir uninstall
%%bash
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python3 used is:"
which python3
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
echo "installing Python package (numpy) without using the local pip cache — it forces pip to re-download everything fresh."
pip --no-cache-dir install numpy
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python3 used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python3
Activating a Python Virtual Environment
installing Python package (numpy) without using the local pip cache — it forces pip to re-download everything fresh.
Requirement already satisfied: numpy in ./my_venv/lib/python3.13/site-packages (2.2.5)
No Cache Usage: Normally, pip caches downloaded packages in ~/.cache/pip/ (Linux/macOS) or %LOCALAPPDATA%\pip\Cache\ (Windows). This speeds up future installations, but –no-cache-dir forces pip to always download fresh copies.
No Cache Storage: The downloaded package files will not be stored in the cache for future use, which can save disk space.
Freezing Dependencies:¶
After installing packages, freeze the dependencies into a requirements.txt file:
%%bash
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python3 used is:"
which python3
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
echo "installing Python package (numpy) without using the local pip cache — it forces pip to re-download everything fresh."
pip --no-cache-dir install numpy
echo "Saving the exact versions of all installed packages into a file named requirements.txt."
pip freeze > requirements.txt
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python3 used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python3
Activating a Python Virtual Environment
installing Python package (numpy) without using the local pip cache — it forces pip to re-download everything fresh.
Requirement already satisfied: numpy in ./my_venv/lib/python3.13/site-packages (2.2.5)
Saving the exact versions of all installed packages into a file named requirements.txt.
While requirement files aren’t strictly needed to create or use a virtual environment, it’s highly recommended to track your project’s dependencies — and requirements.txt is the standard way to do that. The format is simple: a plain list of packages, one per line.
To avoid chaos and potential breakage, you should always specify exact versions for your dependencies. Without this, your code might work today and fail tomorrow because a package was updated. Use version specifiers like ==, >=, and < to lock things down. Many packages also support optional features (called extras) that you can include using square brackets — and for serious reproducibility, don’t forget to add environment markers and Python version constraints. Skipping these details now can mean hours of debugging later.
Deactivating the Virtual Environment:¶
To deactivate the virtual environment and return to the global Python environment:
deactivate
%%bash
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python used is:"
which python
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
echo "deactivating the current virtual environment and return to the default environment."
deactivate
echo "Python used is:"
which python
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python
Activating a Python Virtual Environment
deactivating the current virtual environment and return to the default environment.
Python used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python
Version Control:¶
Include the requirements.txt file in your version control system (e.g., Git) to ensure that all collaborators can recreate the same environment.
Ignore the virtual environment directory (e.g., myenv/) to avoid cluttering the repository.
Updating Packages:¶
Regularly update packages within the virtual environment:
%%bash
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python3 used is:"
which python3
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
echo "installing Python package (numpy) - upgrading the package to the latest available version."
pip install --upgrade numpy
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python3 used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python3
Activating a Python Virtual Environment
installing Python package (numpy) - upgrading the package to the latest available version.
Requirement already satisfied: numpy in ./my_venv/lib/python3.13/site-packages (2.2.5)
Cleaning Up:¶
Periodically clean up unused packages and their dependencies:
%%bash
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python3 used is:"
which python3
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
echo "installing Python package (numpy) - upgrading the package to the latest available version."
pip install --upgrade numpy
which pip
# $ pip freeze | xargs pip uninstall -y # This command pipes the list of installed packages from pip freeze directly to pip uninstall from the cli
pip uninstall -y numpy
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python3 used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python3
Activating a Python Virtual Environment
installing Python package (numpy) - upgrading the package to the latest available version.
Requirement already satisfied: numpy in ./my_venv/lib/python3.13/site-packages (2.2.5)
/home/gth/it4i_course/my_venv/bin/pip
Found existing installation: numpy 2.2.5
Uninstalling numpy-2.2.5:
Successfully uninstalled numpy-2.2.5
Virtualenv¶
One of the most popular tools for creating virtual environments. Virtualenv is one of the most widely used tools for creating isolated Python environments. It is especially valuable in HPC environments or shared systems, where users often lack administrative privileges to modify system-wide Python installations. By using Virtualenv, developers can install the required dependencies locally, ensuring that projects remain independent and unaffected by global Python configurations.
Key Benefits of Virtualenv:¶
Isolated Environments – Each project gets its own Python environment, avoiding conflicts.
Version Flexibility – Easily switch between different Python versions without affecting the system installation.
Dependency Management – Install packages specific to a project without interfering with others.
Reproducibility – Maintain a clean and structured development setup, ensuring consistency across different environments.
virtualenv and venv are both tools used in Python to create isolated environments for managing dependencies, ensuring that projects do not interfere with each other. While they serve the same purpose, there are some differences in their implementation and history. virtualenv is an external tool that predates venv and was widely used in the Python community before Python 3.3. It provides more features and customization options. On the other hand, venv is a built-in module in Python 3.3 and later versions, and it is a simplified, streamlined version of virtualenv designed to meet the basic needs of creating isolated environments without the need for an external package. Both tools allow you to create an isolated Python environment, install dependencies without affecting the system-wide Python installation, and maintain project-specific configurations. However, virtualenv still supports older Python versions and includes some additional features, like better performance and support for environments in Python 2.
%%bash
rm -rf my_venv #This would delete the `my_venv` virtual environment folder if it exists
# load python 3.13
echo "Loading python 3.11 via module"
module load Python/3.13.1-GCCcore-14.2.0
# print out the found python executable
echo "Python3 used is:"
which python3
echo " Creating venv 'my_venv' "
pip install --upgrade virtualenv # use --upgrade-deps to automatically update to the latest pip & setuptools versions
virtualenv --version
virtualenv my_venv # now create a new virtual environment `my_venv`
echo "venv created:"
readlink -f my_venv
echo "Activating a Python Virtual Environment"
source my_venv/bin/activate
which python
Loading python 3.11 via module
The following have been reloaded with a version change:
1) GCCcore/13.2.0 => GCCcore/14.2.0
2) Python/3.11.5-GCCcore-13.2.0 => Python/3.13.1-GCCcore-14.2.0
3) SQLite/3.43.1-GCCcore-13.2.0 => SQLite/3.47.2-GCCcore-14.2.0
4) Tcl/8.6.13-GCCcore-13.2.0 => Tcl/8.6.16-GCCcore-14.2.0
5) XZ/5.4.4-GCCcore-13.2.0 => XZ/5.6.3-GCCcore-14.2.0
6) binutils/2.40-GCCcore-13.2.0 => binutils/2.42-GCCcore-14.2.0
7) bzip2/1.0.8-GCCcore-13.2.0 => bzip2/1.0.8-GCCcore-14.2.0
8) libffi/3.4.4-GCCcore-13.2.0 => libffi/3.4.5-GCCcore-14.2.0
9) libreadline/8.2-GCCcore-13.2.0 => libreadline/8.2-GCCcore-14.2.0
10) ncurses/6.4-GCCcore-13.2.0 => ncurses/6.5-GCCcore-14.2.0
11) zlib/1.2.13-GCCcore-13.2.0 => zlib/1.3.1-GCCcore-14.2.0
Python3 used is:
/apps/all/Python/3.13.1-GCCcore-14.2.0/bin/python3
Creating venv 'my_venv'
Defaulting to user installation because normal site-packages is not writeable
Requirement already satisfied: virtualenv in /apps/all/virtualenv/20.24.6-GCCcore-13.2.0/lib/python3.11/site-packages (20.24.6)
Collecting virtualenv
Using cached virtualenv-20.30.0-py3-none-any.whl.metadata (4.5 kB)
Requirement already satisfied: distlib<1,>=0.3.7 in /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages (from virtualenv) (0.3.7)
Requirement already satisfied: filelock<4,>=3.12.2 in /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages (from virtualenv) (3.13.0)
Requirement already satisfied: platformdirs<5,>=3.9.1 in /apps/all/Python-bundle-PyPI/2023.10-GCCcore-13.2.0/lib/python3.11/site-packages (from virtualenv) (3.11.0)
Using cached virtualenv-20.30.0-py3-none-any.whl (4.3 MB)
Installing collected packages: virtualenv
Successfully installed virtualenv-20.30.0
[notice] A new release of pip is available: 24.3.1 -> 25.1
[notice] To update, run: pip install --upgrade pip
virtualenv 20.24.6 from /apps/all/virtualenv/20.24.6-GCCcore-13.2.0/lib/python3.11/site-packages/virtualenv/__init__.py
created virtual environment CPython3.11.11.final.0-64 in 1226ms
creator CPython3Posix(dest=/home/gth/it4i_course/my_venv, clear=False, no_vcs_ignore=False, global=False)
seeder FromAppData(download=False, pip=bundle, setuptools=bundle, wheel=bundle, via=copy, app_data_dir=/home/gth/.local/share/virtualenv)
added seed packages: pip==25.0.1, setuptools==78.1.0, wheel==0.45.1
activators BashActivator,CShellActivator,FishActivator,NushellActivator,PowerShellActivator,PythonActivator
venv created:
/home/gth/it4i_course/my_venv
Activating a Python Virtual Environment
/home/gth/it4i_course/my_venv/bin/python
Conda¶
Anaconda and Miniconda are powerful tools that serve as a package manager, environment manager, and distribution of Python, R, and other software packages commonly used in scientific computing, data science, and machine learning. They provide an easy way to manage multiple environments with different dependencies, making it simple to switch between projects without conflicts. Anaconda comes with a large collection of pre-installed packages and tools like Jupyter Notebook, Spyder, and more, while Miniconda offers a minimal installer, allowing users to install only the packages they need. Both support the conda command-line tool to install, update, and manage packages and environments efficiently. Additionally, Anaconda and Miniconda support R and can manage R packages alongside Python packages, making them versatile options for users who work in both languages. You can install Anaconda or Miniconda from their official websites, depending on your preference for a full-featured setup or a lightweight one.
%%bash
ml Anaconda3/2024.02-1
conda config --add channels defaults #the defaults channel when using Conda with the libmamba solver
Warning: 'defaults' already in 'channels' list, moving to the top
The command conda config --add channels defaults adds the defaults channel to your Conda configuration. This is important when using the libmamba solver, ensuring it can access the default Conda repository for package resolution.
%%bash
ml Anaconda3/2024.02-1
conda info | grep "solver :"
solver : libmamba (default)
conda init bash vs eval “$(conda shell.bash hook)”¶
Both conda init bash and eval "$(conda shell.bash hook)" serve the purpose of configuring your shell to work with conda environments, but they operate differently and are suited for different scenarios.
Key Differences¶
Aspect |
conda init bash |
eval “$(conda shell.bash hook)” |
|---|---|---|
Purpose |
Permanently configures shell initialization files (source: stackoverflow.com) |
Temporarily initializes conda for the current session |
Scope |
System-wide, affects all future shells |
Current shell session only |
Persistence |
Requires shell restart to take effect |
Immediate effect, no restart needed |
Best Use Case |
Interactive shell sessions |
Scripts and automation |
Changes Made |
Modifies shell configuration files |
Only sets up environment variables |
%%bash
# load Anaconda3
module load Anaconda3/2024.02-1
eval "$(conda shell.bash hook)"
# activate and export the `base` environment
conda activate base
which anaconda
/apps/all/Anaconda3/2024.02-1/bin/anaconda
Activating the Virtual Environment:¶
Creating a Virtual Environment:
Using Conda:
%%bash
# load Anaconda3
module load Anaconda3/2024.02-1
eval "$(conda shell.bash hook)"
conda create --name my_env -y
Channels:
- defaults
Platform: linux-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/gth/.conda/envs/my_env
Downloading and Extracting Packages: ...working... done
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use
#
# $ conda activate my_env
#
# To deactivate an active environment, use
#
# $ conda deactivate
To see a list of all your environments:
%%bash
# load Anaconda3
module load Anaconda3/2024.02-1
conda info --envs
#conda env list
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
Activating the Virtual Environment:
%%bash
# Load the Anaconda module
module load Anaconda3/2024.02-1
# Initialize conda shell integration
eval "$(conda shell.bash hook)"
# Display information about all available conda environments
conda info --envs
# Activate the conda environment named 'my_env'
conda activate my_env
# Display the path to the Python executable used in the environment
which python
# Display information about all available conda environments again
conda info --envs
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
/apps/all/Anaconda3/2024.02-1/bin/python
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env * /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
After activation, your command line prompt should indicate the active virtual environment.
Installing Packages:¶
Use pip or conda to install packages within Conda:
pip install package_name
or
%%bash
# Load the Anaconda module
module load Anaconda3/2024.02-1
# Initialize conda shell integration
eval "$(conda shell.bash hook)"
# Display information about all available conda environments
conda info --envs
# Activate the conda environment named 'my_env'
conda activate my_env
# Display the path to the Python executable used in the environment
which python
# Display information about all available conda environments again
conda info --envs
# Install the numpy package in the currently activated environment
conda install numpy
# List all packages installed in the active conda environment
conda list
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
/apps/all/Anaconda3/2024.02-1/bin/python
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env * /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
Channels:
- defaults
Platform: linux-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/gth/.conda/envs/my_env
added / updated specs:
- numpy
The following packages will be downloaded:
package | build
---------------------------|-----------------
numpy-2.2.4 | py313hf4aebb8_0 11 KB
python_abi-3.13 | 0_cp313 6 KB
------------------------------------------------------------
Total: 17 KB
The following NEW packages will be INSTALLED:
_libgcc_mutex pkgs/main/linux-64::_libgcc_mutex-0.1-main
_openmp_mutex pkgs/main/linux-64::_openmp_mutex-5.1-1_gnu
blas pkgs/main/linux-64::blas-1.0-mkl
bzip2 pkgs/main/linux-64::bzip2-1.0.8-h5eee18b_6
ca-certificates pkgs/main/linux-64::ca-certificates-2025.2.25-h06a4308_0
expat pkgs/main/linux-64::expat-2.7.1-h6a678d5_0
intel-openmp pkgs/main/linux-64::intel-openmp-2023.1.0-hdb19cb5_46306
ld_impl_linux-64 pkgs/main/linux-64::ld_impl_linux-64-2.40-h12ee557_0
libffi pkgs/main/linux-64::libffi-3.4.4-h6a678d5_1
libgcc-ng pkgs/main/linux-64::libgcc-ng-11.2.0-h1234567_1
libgomp pkgs/main/linux-64::libgomp-11.2.0-h1234567_1
libmpdec pkgs/main/linux-64::libmpdec-4.0.0-h5eee18b_0
libstdcxx-ng pkgs/main/linux-64::libstdcxx-ng-11.2.0-h1234567_1
libuuid pkgs/main/linux-64::libuuid-1.41.5-h5eee18b_0
mkl pkgs/main/linux-64::mkl-2023.1.0-h213fc3f_46344
mkl-service pkgs/main/linux-64::mkl-service-2.4.0-py313h5eee18b_2
mkl_fft pkgs/main/linux-64::mkl_fft-1.3.11-py313h5eee18b_0
mkl_random pkgs/main/linux-64::mkl_random-1.2.8-py313h06d7b56_0
ncurses pkgs/main/linux-64::ncurses-6.4-h6a678d5_0
numpy pkgs/main/linux-64::numpy-2.2.4-py313hf4aebb8_0
numpy-base pkgs/main/linux-64::numpy-base-2.2.4-py313h3fc9231_0
openssl pkgs/main/linux-64::openssl-3.0.16-h5eee18b_0
pip pkgs/main/linux-64::pip-25.0-py313h06a4308_0
python pkgs/main/linux-64::python-3.13.2-hf623796_100_cp313
python_abi pkgs/main/linux-64::python_abi-3.13-0_cp313
readline pkgs/main/linux-64::readline-8.2-h5eee18b_0
setuptools pkgs/main/linux-64::setuptools-72.1.0-py313h06a4308_0
sqlite pkgs/main/linux-64::sqlite-3.45.3-h5eee18b_0
tbb pkgs/main/linux-64::tbb-2021.8.0-hdb19cb5_0
tk pkgs/main/linux-64::tk-8.6.14-h39e8969_0
tzdata pkgs/main/noarch::tzdata-2025a-h04d1e81_0
wheel pkgs/main/linux-64::wheel-0.45.1-py313h06a4308_0
xz pkgs/main/linux-64::xz-5.6.4-h5eee18b_1
zlib pkgs/main/linux-64::zlib-1.2.13-h5eee18b_1
Proceed ([y]/n)?
numpy-2.2.4 | 11 KB | | 0%
numpy-2.2.4 | 11 KB | ########## | 100%
numpy-2.2.4 | 11 KB | ########## | 100%
python_abi-3.13 | 6 KB | ########## | 100%
done
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
Freezing Dependencies:¶
Conda automatically manages dependencies in its environment and does not require a separate requirements.txt file.
%%bash
module load Anaconda3/2024.02-1
eval "$(conda shell.bash hook)"
conda info --envs
conda activate my_env
conda info --envs
conda list -e > conda_requirements.txt # Save a list of all installed packages in the current environment to a file (conda_requirements.txt)
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env * /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
Deactivating the Virtual Environment:¶
To deactivate the virtual environment and return to the global Python environment:
%%bash
# Load the Anaconda module
module load Anaconda3/2024.02-1
# Initialize conda shell integration
eval "$(conda shell.bash hook)"
# Display information about all available conda environments
conda info --envs
# Activate the conda environment named 'my_env'
conda activate my_env
# Display the path to the Python executable used in the environment
which python
# Display information about all available conda environments again
conda info --envs
# Deactivate the currently active conda environment
conda deactivate
# Display information about all available conda environments after deactivation
conda info --envs
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
/home/gth/.conda/envs/my_env/bin/python
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env * /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
Version Control:¶
Include the requirements.txt file or environment.yml file in your version control system (e.g., Git) to ensure that all collaborators can recreate the same environment.
Ignore the virtual environment directory (e.g., myenv/) to avoid cluttering the repository.
Updating Packages:¶
Regularly update packages within the virtual environment:
conda update package_name.
%%bash
module load Anaconda3/2024.02-1
eval "$(conda shell.bash hook)"
conda info --envs
conda activate my_env
conda update numpy # Update the 'numpy' package in the currently active environment to the latest version
conda list
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
Channels:
- defaults
Platform: linux-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
# All requested packages already installed.
# packages in environment at /home/gth/.conda/envs/my_env:
#
# Name Version Build Channel
_libgcc_mutex 0.1 main
_openmp_mutex 5.1 1_gnu
blas 1.0 mkl
bzip2 1.0.8 h5eee18b_6
ca-certificates 2025.2.25 h06a4308_0
expat 2.7.1 h6a678d5_0
intel-openmp 2023.1.0 hdb19cb5_46306
ld_impl_linux-64 2.40 h12ee557_0
libffi 3.4.4 h6a678d5_1
libgcc-ng 11.2.0 h1234567_1
libgomp 11.2.0 h1234567_1
libmpdec 4.0.0 h5eee18b_0
libstdcxx-ng 11.2.0 h1234567_1
libuuid 1.41.5 h5eee18b_0
mkl 2023.1.0 h213fc3f_46344
mkl-service 2.4.0 py313h5eee18b_2
mkl_fft 1.3.11 py313h5eee18b_0
mkl_random 1.2.8 py313h06d7b56_0
ncurses 6.4 h6a678d5_0
numpy 2.2.4 py313hf4aebb8_0
numpy-base 2.2.4 py313h3fc9231_0
openssl 3.0.16 h5eee18b_0
pip 25.0 py313h06a4308_0
python 3.13.2 hf623796_100_cp313
python_abi 3.13 0_cp313
readline 8.2 h5eee18b_0
setuptools 72.1.0 py313h06a4308_0
sqlite 3.45.3 h5eee18b_0
tbb 2021.8.0 hdb19cb5_0
tk 8.6.14 h39e8969_0
tzdata 2025a h04d1e81_0
wheel 0.45.1 py313h06a4308_0
xz 5.6.4 h5eee18b_1
zlib 1.2.13 h5eee18b_1
Cleaning Up:¶
conda clean --all
This command only clears temporary and cache files.
%%bash
module load Anaconda3/2024.02-1
eval "$(conda shell.bash hook)"
conda activate my_env
which python
conda info --envs
conda clean --all -y # Clean up unused packages and cache from the conda environment
/home/gth/.conda/envs/my_env/bin/python
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env * /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
Will remove 46 (101.4 MB) tarball(s).
Will remove 1 index cache(s).
Will remove 8 (318 KB) package(s).
There are no tempfile(s) to remove.
There are no logfile(s) to remove.
Command |
Effect |
|---|---|
|
Remove temp/cached files only 🚮 |
|
Uninstall specific package(s) 📦 |
|
Delete entire environment 🔥 |
practical examples of the requirements.txt file¶
%%writefile requirements.txt
requests>=2.26.0 # A library for making HTTP requests
numpy>=1.21.0,<2.0.0 # A library for numerical computing in Python
pandas==1.5.3 # A library for data manipulation and analysis
matplotlib # A plotting library for creating visualizations
scipy>=1.7.0 # A library for scientific and technical computing
pytest>=7.0.0 # A testing framework for writing and running tests
Overwriting requirements.txt
%%bash
ml purge # Unloads all currently loaded modules
ml list # lists currently loaded modules
ml Anaconda3/2024.02-1
conda env list
# Create a new conda environment named 'req_env' using the specified requirements file ('requirements.txt')
conda create --name req_env --file requirements.txt -y
conda env list
conda list -e > conda_requirements.txt # Save a list of all installed packages in the current environment to a file (conda_requirements.txt)
The following modules were not unloaded:
(Use "module --force purge" to unload all):
1) XALT/3.0.2
Currently Loaded Modules:
1) XALT/3.0.2 (S)
Where:
S: Module is Sticky, requires --force to unload or purge
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app
Channels:
- defaults
Platform: linux-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/gth/.conda/envs/req_env
added / updated specs:
- matplotlib
- numpy[version='>=1.21.0,<2.0.0']
- pandas==1.5.3
- pytest[version='>=7.0.0']
- requests[version='>=2.26.0']
- scipy[version='>=1.7.0']
The following packages will be downloaded:
package | build
---------------------------|-----------------
_libgcc_mutex-0.1 | main 3 KB
_openmp_mutex-5.1 | 1_gnu 21 KB
blas-1.0 | mkl 6 KB
libgfortran-ng-11.2.0 | h00389a5_1 20 KB
matplotlib-3.10.0 | py311h06a4308_0 7 KB
numpy-1.26.4 | py311h08b1b3b_0 10 KB
------------------------------------------------------------
Total: 67 KB
The following NEW packages will be INSTALLED:
_libgcc_mutex pkgs/main/linux-64::_libgcc_mutex-0.1-main
_openmp_mutex pkgs/main/linux-64::_openmp_mutex-5.1-1_gnu
blas pkgs/main/linux-64::blas-1.0-mkl
bottleneck pkgs/main/linux-64::bottleneck-1.4.2-py311hf4808d0_0
brotli-python pkgs/main/linux-64::brotli-python-1.0.9-py311h6a678d5_9
bzip2 pkgs/main/linux-64::bzip2-1.0.8-h5eee18b_6
c-ares pkgs/main/linux-64::c-ares-1.19.1-h5eee18b_0
ca-certificates pkgs/main/linux-64::ca-certificates-2025.2.25-h06a4308_0
certifi pkgs/main/linux-64::certifi-2025.1.31-py311h06a4308_0
charset-normalizer pkgs/main/noarch::charset-normalizer-3.3.2-pyhd3eb1b0_0
contourpy pkgs/main/linux-64::contourpy-1.3.1-py311hdb19cb5_0
cycler pkgs/main/noarch::cycler-0.11.0-pyhd3eb1b0_0
cyrus-sasl pkgs/main/linux-64::cyrus-sasl-2.1.28-h52b45da_1
expat pkgs/main/linux-64::expat-2.7.1-h6a678d5_0
fontconfig pkgs/main/linux-64::fontconfig-2.14.1-h55d465d_3
fonttools pkgs/main/linux-64::fonttools-4.55.3-py311h5eee18b_0
freetype pkgs/main/linux-64::freetype-2.13.3-h4a9f257_0
icu pkgs/main/linux-64::icu-73.1-h6a678d5_0
idna pkgs/main/linux-64::idna-3.7-py311h06a4308_0
iniconfig pkgs/main/noarch::iniconfig-1.1.1-pyhd3eb1b0_0
intel-openmp pkgs/main/linux-64::intel-openmp-2023.1.0-hdb19cb5_46306
jpeg pkgs/main/linux-64::jpeg-9e-h5eee18b_3
kiwisolver pkgs/main/linux-64::kiwisolver-1.4.8-py311h6a678d5_0
krb5 pkgs/main/linux-64::krb5-1.20.1-h143b758_1
lcms2 pkgs/main/linux-64::lcms2-2.16-h92b89f2_1
ld_impl_linux-64 pkgs/main/linux-64::ld_impl_linux-64-2.40-h12ee557_0
lerc pkgs/main/linux-64::lerc-4.0.0-h6a678d5_0
libabseil pkgs/main/linux-64::libabseil-20250127.0-cxx17_h6a678d5_0
libcups pkgs/main/linux-64::libcups-2.4.2-h2d74bed_1
libcurl pkgs/main/linux-64::libcurl-8.12.1-hc9e6f67_0
libdeflate pkgs/main/linux-64::libdeflate-1.22-h5eee18b_0
libedit pkgs/main/linux-64::libedit-3.1.20230828-h5eee18b_0
libev pkgs/main/linux-64::libev-4.33-h7f8727e_1
libffi pkgs/main/linux-64::libffi-3.4.4-h6a678d5_1
libgcc-ng pkgs/main/linux-64::libgcc-ng-11.2.0-h1234567_1
libgfortran-ng pkgs/main/linux-64::libgfortran-ng-11.2.0-h00389a5_1
libgfortran5 pkgs/main/linux-64::libgfortran5-11.2.0-h1234567_1
libglib pkgs/main/linux-64::libglib-2.78.4-hdc74915_0
libgomp pkgs/main/linux-64::libgomp-11.2.0-h1234567_1
libiconv pkgs/main/linux-64::libiconv-1.16-h5eee18b_3
libnghttp2 pkgs/main/linux-64::libnghttp2-1.57.0-h2d74bed_0
libpng pkgs/main/linux-64::libpng-1.6.39-h5eee18b_0
libpq pkgs/main/linux-64::libpq-17.4-hdbd6064_0
libprotobuf pkgs/main/linux-64::libprotobuf-5.29.3-hc99497a_0
libssh2 pkgs/main/linux-64::libssh2-1.11.1-h251f7ec_0
libstdcxx-ng pkgs/main/linux-64::libstdcxx-ng-11.2.0-h1234567_1
libtiff pkgs/main/linux-64::libtiff-4.7.0-hde9077f_0
libuuid pkgs/main/linux-64::libuuid-1.41.5-h5eee18b_0
libwebp-base pkgs/main/linux-64::libwebp-base-1.3.2-h5eee18b_1
libxcb pkgs/main/linux-64::libxcb-1.15-h7f8727e_0
libxkbcommon pkgs/main/linux-64::libxkbcommon-1.0.1-h097e994_2
libxml2 pkgs/main/linux-64::libxml2-2.13.7-hfdd30dd_0
lz4-c pkgs/main/linux-64::lz4-c-1.9.4-h6a678d5_1
matplotlib pkgs/main/linux-64::matplotlib-3.10.0-py311h06a4308_0
matplotlib-base pkgs/main/linux-64::matplotlib-base-3.10.0-py311hbfdbfaf_0
mkl pkgs/main/linux-64::mkl-2023.1.0-h213fc3f_46344
mkl-service pkgs/main/linux-64::mkl-service-2.4.0-py311h5eee18b_2
mkl_fft pkgs/main/linux-64::mkl_fft-1.3.11-py311h5eee18b_0
mkl_random pkgs/main/linux-64::mkl_random-1.2.8-py311ha02d727_0
mysql pkgs/main/linux-64::mysql-8.4.0-h721767e_2
ncurses pkgs/main/linux-64::ncurses-6.4-h6a678d5_0
numexpr pkgs/main/linux-64::numexpr-2.10.1-py311h3c60e43_0
numpy pkgs/main/linux-64::numpy-1.26.4-py311h08b1b3b_0
numpy-base pkgs/main/linux-64::numpy-base-1.26.4-py311hf175353_0
openjpeg pkgs/main/linux-64::openjpeg-2.5.2-h0d4d230_1
openldap pkgs/main/linux-64::openldap-2.6.4-h42fbc30_0
openssl pkgs/main/linux-64::openssl-3.0.16-h5eee18b_0
packaging pkgs/main/linux-64::packaging-24.2-py311h06a4308_0
pandas pkgs/main/linux-64::pandas-1.5.3-py311hba01205_0
pcre2 pkgs/main/linux-64::pcre2-10.42-hebb0a14_1
pillow pkgs/main/linux-64::pillow-11.1.0-py311hac6e08b_1
pip pkgs/main/linux-64::pip-25.0-py311h06a4308_0
pluggy pkgs/main/linux-64::pluggy-1.5.0-py311h06a4308_0
pyparsing pkgs/main/linux-64::pyparsing-3.2.0-py311h06a4308_0
pyqt pkgs/main/linux-64::pyqt-6.7.1-py311h6a678d5_1
pyqt6-sip pkgs/main/linux-64::pyqt6-sip-13.9.1-py311h5eee18b_1
pysocks pkgs/main/linux-64::pysocks-1.7.1-py311h06a4308_0
pytest pkgs/main/linux-64::pytest-8.3.4-py311h06a4308_0
python pkgs/main/linux-64::python-3.11.11-he870216_0
python-dateutil pkgs/main/linux-64::python-dateutil-2.9.0post0-py311h06a4308_2
pytz pkgs/main/linux-64::pytz-2024.1-py311h06a4308_0
qtbase pkgs/main/linux-64::qtbase-6.7.3-hdaa5aa8_0
qtdeclarative pkgs/main/linux-64::qtdeclarative-6.7.3-h6a678d5_0
qtsvg pkgs/main/linux-64::qtsvg-6.7.3-he621ea3_0
qttools pkgs/main/linux-64::qttools-6.7.3-h80c7b02_0
qtwebchannel pkgs/main/linux-64::qtwebchannel-6.7.3-h6a678d5_0
qtwebsockets pkgs/main/linux-64::qtwebsockets-6.7.3-h6a678d5_0
readline pkgs/main/linux-64::readline-8.2-h5eee18b_0
requests pkgs/main/linux-64::requests-2.32.3-py311h06a4308_1
scipy pkgs/main/linux-64::scipy-1.15.2-py311h23a989f_1
setuptools pkgs/main/linux-64::setuptools-75.8.0-py311h06a4308_0
sip pkgs/main/linux-64::sip-6.10.0-py311h6a678d5_0
six pkgs/main/linux-64::six-1.17.0-py311h06a4308_0
sqlite pkgs/main/linux-64::sqlite-3.45.3-h5eee18b_0
tbb pkgs/main/linux-64::tbb-2021.8.0-hdb19cb5_0
tk pkgs/main/linux-64::tk-8.6.14-h39e8969_0
tornado pkgs/main/linux-64::tornado-6.4.2-py311h5eee18b_0
tzdata pkgs/main/noarch::tzdata-2025a-h04d1e81_0
unicodedata2 pkgs/main/linux-64::unicodedata2-15.1.0-py311h5eee18b_1
urllib3 pkgs/main/linux-64::urllib3-2.3.0-py311h06a4308_0
wheel pkgs/main/linux-64::wheel-0.45.1-py311h06a4308_0
xcb-util-cursor pkgs/main/linux-64::xcb-util-cursor-0.1.4-h5eee18b_0
xz pkgs/main/linux-64::xz-5.6.4-h5eee18b_1
zlib pkgs/main/linux-64::zlib-1.2.13-h5eee18b_1
zstd pkgs/main/linux-64::zstd-1.5.6-hc292b87_0
_openmp_mutex-5.1 | 21 KB | | 0%
libgfortran-ng-11.2. | 20 KB | | 0%
numpy-1.26.4 | 10 KB | | 0%
matplotlib-3.10.0 | 7 KB | | 0%
blas-1.0 | 6 KB | | 0%
_openmp_mutex-5.1 | 21 KB | ########## | 100%
blas-1.0 | 6 KB | ########## | 100%
matplotlib-3.10.0 | 7 KB | ########## | 100%
libgfortran-ng-11.2. | 20 KB | ########1 | 81%
blas-1.0 | 6 KB | ########## | 100%
matplotlib-3.10.0 | 7 KB | ########## | 100%
numpy-1.26.4 | 10 KB | ########## | 100%
libgfortran-ng-11.2. | 20 KB | ########## | 100%
numpy-1.26.4 | 10 KB | ########## | 100%
_libgcc_mutex-0.1 | 3 KB | ########## | 100%
_libgcc_mutex-0.1 | 3 KB | ########## | 100%
blas-1.0 | 6 KB | ########## | 100%
matplotlib-3.10.0 | 7 KB | ########## | 100%
numpy-1.26.4 | 10 KB | ########## | 100%
_openmp_mutex-5.1 | 21 KB | ########## | 100%
done
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use
#
# $ conda activate req_env
#
# To deactivate an active environment, use
#
# $ conda deactivate
# conda environments:
#
base /apps/all/Anaconda3/2024.02-1
my-first-conda-env /home/gth/.conda/envs/my-first-conda-env
my_env /home/gth/.conda/envs/my_env
req_env /home/gth/.conda/envs/req_env
venv-app /home/gth/.conda/envs/venv-app