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| software:anaconda:farber [2020-02-03 18:11] – created anita | software:anaconda:farber [2020-11-02 11:54] (current) – [Recipes] anita |
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| </code> | </code> |
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| | See [[software:anaconda:farber#Recipes|Recipes]] for examples of building virtual environments for specific packages. |
| ===== Virtual Environment ==== | ===== Virtual Environment ==== |
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| If you are going to follow the instructions for creating an Anaconda virtual environment on Farber consider using a slight modification to the documentation provided by each software package and use VALET to load the proper version of Anaconda for Python 2 or Python3 and also specify a path in your home directory not in the system path for Anaconda, and ignore the warnings to update ''conda'' as part of the message while building your virtual environment. | If you are going to follow the instructions for creating an Anaconda virtual environment on Farber consider using a slight modification to the documentation provided by each software package and use VALET to load the proper version of Anaconda for Python 2 or Python3, also specify a path in your home directory not in the system path for Anaconda, and ignore the warnings to update ''conda'' while it is building your virtual environment. |
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| See the example below which creates a virtual Anaconda environment based on Python3 for FEniCS called ''fenicsproject'' in the ''traine'' home directory and installs all the fenics packages and mshr. Once the environment is created, then a simple interactive test is done on a compute node via ''qlogin'' to verify the new ''fenicsproject'' Anaconda environment is working properly. | See the example below which creates a virtual Anaconda environment based on Python3 for FEniCS called ''fenicsproject'' in the ''traine'' home directory and installs all the fenics packages and mshr. Once the environment is created, then a simple interactive test is done on a compute node via ''qlogin'' to verify the new ''fenicsproject'' Anaconda environment is working properly. |
| Your interactive job 3985323 has been successfully scheduled. | Your interactive job 3985323 has been successfully scheduled. |
| Establishing /opt/shared/univa/local/qlogin_ssh session to host n038 ... | Establishing /opt/shared/univa/local/qlogin_ssh session to host n038 ... |
| | [(it_css:traine)@n038 ~]$ vpkg_devrequire anaconda/5.2.0:python3 |
| | Adding package `anaconda/5.2.0:python3` to your environment |
| [(it_css:traine)@n038 ~]$ source activate ~/fenicsproject | [(it_css:traine)@n038 ~]$ source activate ~/fenicsproject |
| (/home/1201/fenicsproject) [traine@r00n56 ~]$ python -c "import mshr" | (/home/1201/fenicsproject) [(it_css:traine)@n038 ~]$ python3 -c "import mshr" |
| (/home/1201/fenicsproject) [traine@r00n56 ~]$ source deactivate | (/home/1201/fenicsproject) [(it_css:traine)@n038 ~]$ source deactivate |
| [traine@r00n56 ~]$ exit | [(it_css:traine)@n038 ~]$ exit |
| exit | exit |
| salloc: Relinquishing job allocation 5434421 | Connection to n038 closed. |
| [(it_css:traine)@login00 ~]$ | /opt/shared/univa/local/qlogin_ssh exited with exit code 0 |
| | [(it_css:traine)@farber ~]$ |
| </code> | </code> |
| | |
| | ===== Recipes ==== |
| | |
| | Examples documented as recipes to be used for specific installations including using a ''workgroup'' directory as well as creating VALET packages for these environments and job scripts setup for batch runs, but can also perhaps help others in solving similar installation dilemmas. |
| | |
| | * [[technical:recipes:pyqt5-in-virtualenv|Building PyQt5 in a Python Virtual Environment]] |
| | * [[technical:recipes:keras-in-virtualenv|Keras Python Virtual Environment]] |
| | * [[technical:recipes:emcee-in-virtualenv|Python Virtualenv: emcee and pyKLIP]] |
| | * [[technical:recipes:mpi4py-in-virtualenv|Python Virtual Environments with mpi4py]] |