Changes for page 02. Installing PyNN - Linux
Last modified by adavison on 2022/10/04 13:53
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... ... @@ -88,22 +88,39 @@ 88 88 (% class="box infomessage" %) 89 89 ((( 90 90 **Screencast** - file explorer 91 -\\<< show directory contents; especially lib/python3.9/site-packages >> 91 +\\(% style="color:#000000" %)<< show directory contents; especially lib/python3.9/site-packages >> 92 92 ))) 93 93 94 94 As you see here, only a limited number of basic packages have currently been installed in this virtual environment. In the steps ahead, we shall install various other packages, and you shall see that these would be reflected here. 95 95 96 +To enter into this virtual environment, and thereby use its resources in isolation from other projects on your computer, we require to "activate" it. This is achieved by running the command: 97 + 98 +(% class="box infomessage" %) 99 +((( 100 +**Screencast** - terminal 101 +\\(% style="color:#000000" %)source pynn_env/bin/activate 102 +))) 103 + 104 +Notice how this changes the command prompt to show the name of your virtual environment. In our case, we had named it 'pynn_env', and this is now reflected as a prefix to the command prompt. This confirms that we are now in our new virtual environment. 105 + 96 96 Now that we have our project's virtual environment setup, we are now ready to install PyNN and other simulators. In general, it is advisable to install the various simulators (especially NEURON and NEST) prior to installing PyNN, because PyNN will then auto compile NEURON's NMODL fles and NEST's extensions during installation. Alternatively, this would need to be done manually as described on the PyNN website. In this tutorial, we will adopt the easier approach and begin by installing the simulators. For the purposes of this tutorial, we shall demonstrate the installation of Brian2, NEURON and NEST simulators. 97 97 98 -We start here with the installation of Brian2. 108 +We start here with the installation of Brian2. Brian2 can be installed simply using the pip command. 99 99 100 100 (% class="box infomessage" %) 101 101 ((( 102 102 **Screencast** - terminal 103 - 113 +\\pip install brian2 104 104 ))) 105 105 116 +This will install Brian2, along with all its dependencies such as 'cython', 'numpy', etc. We can now go back into our virtual environment's 'site-packages' directory to see how it is now populated with all these packages. 106 106 118 +(% class="box infomessage" %) 119 +((( 120 +**Screencast** - file explorer 121 +\\(% style="color:#000000" %)<< show directory contents lib/python3.9/site-packages >> 122 +))) 123 + 107 107 (% class="box successmessage" %) 108 108 ((( 109 109 **Slide** recap of learning objectives