![]() Use a single command to switch between environments.Wrappers for managing your virtual environments (create, delete, copy).Organizes all of your virtual environments in one place.The extensions include wrappers for creating and deleting virtual environments and otherwise managing your development workflow, making it easier to work on more than one project at a time without introducing conflicts in their dependencies. The virtualenvwrapper package is a set of extensions to the virtualenv tool. > import HTSeq > Virtual Environment Wrapper (virtualenvwrapper) Type "help", "copyright", "credits" or "license" for more information. (mysecondenv) scc1$ which htseq-count /projectnb/yourprojectname/venvs/mysecondenv/bin/htseq-count (mysecondenv) scc1$ python Python 3.7.7 (default, May 21 2020, 14:57:43) (mysecondenv) scc1$ pip install -r requirements.txt Collecting htseq scc1$ source /projectnb/yourprojectname/venvs/mysecondenv/bin/activate (mysecondenv) scc1$ # Install everything in the requirements file. scc1$ virtualenv /projectnb/yourprojectname/venvs/mysecondenv New python executable in /projectnb/yourprojectname/venvs/mysecondenv/bin/python Installing setuptools, pip, wheel.done. ![]() (mynewenv) scc1$ deactivate scc1$ # Build new virtualenv. # Exit/Deactivate current virtual environment. (mynewenv) scc1$ pip freeze -local > requirements.txt (mynewenv) scc1$ cat requirements.txt HTSeq=0.12.4 # Export list of packages in pip “requirements” format (you can give this to someone). scc1$ module load python3/3.7.7 scc1$ source /projectnb/yourprojectname/venvs/mynewenv/bin/activate (mynewenv) scc1$ # See what is installed in this virtualenv. ![]() Exporting and Distributing Environments # Load the python module for the python version you wish to use. scc1$ virtualenv -system-site-packages /projectnb/yourprojectname/venvs/mynewenv New python executable in /projectnb/yourprojectname/venvs/mynewenv/bin/python Installing setuptools, pip, wheel.done. scc1$ module load python3/3.8.10 # Create a virtual environment in your /projectnb/ space. # Load the python module for the python version you wish to use. This allows your virtual environment to access the Python packages that are available as part of our Python modules. To give your virtual environment access to the system site-packages directory you can use the –system-site-packages flag. > import HTSeq > exit() (mynewenv) scc1$ which htseq-count /projectnb/yourprojectname/venvs/mynewenv/bin/htseq-count # Exit/Deactivate the virtual environment (mynewenv) scc1$ deactivate scc1$ Using the –system-site-packages flag Successfully installed htseq-0.12.4 numpy-1.19.1 pysam-0.16.0.1 # Make sure it works (mynewenv) scc1$ which python /projectnb/yourprojectname/venvs/mynewenv/bin/python (mynewenv) scc1$ python Python 3.7.7 (default, May 21 2020, 14:57:43) Installing collected packages: numpy, pysam, htseq "htseq") (mynewenv) scc1$ pip install htseq Collecting htseq # Activate it scc1$ source /projectnb/yourprojectname/venvs/mynewenv/bin/activate (mynewenv) scc1$ # Install packages into this virtualenv (e.g. scc1$ virtualenv /projectnb/yourprojectname/venvs/mynewenv New python executable in /projectnb/yourprojectname/venvs/mynewenv/bin/python Installing setuptools, pip, wheel.done. The home directory is not recommended due to strict space and file number quotas. ![]() Note: The recommended location for virtualenvs is in the /projectnb space of any project.
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