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56	56	**Slide** listing prerequisites
57	57	)))
58	58
59		-I shall be demonstrating the installation on a computer with Ubuntu 18.04 OS installed. The steps are likely to remain very similar for other versions of Ubuntu OS, and also not expected to vary significantly for other Linux distributions. In the latter case, you will find on the Internet about how to carry out the equivalent of the tasks demonstrated here using Ubuntu OS. Also, the tutorial will focus only on Python 3, as Python 2 has now been deprecated. It is recommended to use Python version 3.6 or higher. I would be using Python 3.9.7 in this tutorial.
	59	+I shall be demonstrating the installation on a computer with Ubuntu 18.04 OS installed. The steps are likely to remain very similar for other versions of Ubuntu OS, and also not expected to vary significantly for other Linux distributions. In the latter case, you will find on the Internet about how to carry out the equivalent of the tasks demonstrated here using Ubuntu OS.
60	60
61		-(% class="box infomessage" %)
62		-(((
63		-**Screencast** - terminal
64		-)))
	61	+=== Description, explanation, and practice ===
65	65
66		-We shall make use of virtual environments in this tutorial. This allows multiple Python projects to coexist on the same computer, even when they might have different, and even conflicting, requirements. It helps isolate projects and thereby preventing unrequested changes in others, when any one of them is updated.
	63	+.
67	67
68		-We begin by creating a directory for our project.
	65	+=== Summary (In this tutorial, you have learned to do X…) ===
69	69
70		-(% class="box infomessage" %)
71		-(((
72		-**Screencast** - terminal
73		-\\(% style="color:#000000" %)cd ~~
74		-mkdir pynn_project
75		-cd pynn_project
76		-)))
	67	+.
77	77
78		-Next we shall create a virtual environment within this directory. Python 3 provides intrinsic support for creating virtual environments. Since Python 3.6, the recommended method of creating a new virtual environment is as follows:
	69	+=== Acknowledgements if appropriate ===
79	79
80		-(% class="box infomessage" %)
81		-(((
82		-**Screencast** - terminal
83		-\\(% style="color:#000000" %)python -m venv pynn_env
84		-)))
	71	+.
85	85
86		-This will create a sub-directory named 'pynn_env' within our project directory, with several files and sub-directories. Let us take a look at the 'site-packages' directory.
	73	+=== References to websites (For more information, visit us at…) ===
87	87
88		-(% class="box infomessage" %)
89		-(((
90		-**Screencast** - file explorer
91		-\\(% style="color:#000000" %)<< show directory contents; especially lib/python3.9/site-packages >>
92		-)))
	75	+.
93	93
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.
	77	+=== Contact information (For questions, contact us at…) ===
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:
	79	+.
97	97
98		-(% class="box infomessage" %)
99		-(((
100		-**Screencast** - terminal
101		-\\(% style="color:#000000" %)source pynn_env/bin/activate
102		-)))
103	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.
	82	+~(% class="box successmessage" %)
	83	+~(~(~(
	84	+~*~*Slide~*~* recap of learning objectives
	85	+~)~)~)
105	105
106		-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.
107	107
108		-We start here with the installation of Brian2. Brian2 can be installed simply using the pip command.
	88	+That is the end of this tutorial, in which I've demonstrated how to install PyNN, and other required simulators, in a Linux system. You are now ready to start modeling! To learn about model development in PyNN, do take a look at our next tutorial.
109	109
110		-(% class="box infomessage" %)
111		-(((
112		-**Screencast** - terminal
113		-\\pip install brian2
114		-)))
115	115
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.
	91	+Als,  we will be releasing a series of tutorials, throughout the rest of 2021 and 2022, to introduce these more advanced features of PyNN, so keep an eye on the EBRAINS website.
117	117
118		-(% class="box infomessage" %)
119		-(((
120		-**Screencast** - file explorer
121		-\\(% style="color:#000000" %)<< show directory contents lib/python3.9/site-packages >>
122		-)))
123	123
124		-(% class="box successmessage" %)
125		-(((
126		-**Slide** recap of learning objectives
127		-)))
	94	+~(% class="box successmessage" %)
	95	+~(~(~(
	96	+~*~*Slide~*~* acknowledgements, contact information
	97	+~)~)~)
128	128
129		-That is the end of this tutorial, in which I've demonstrated how to install PyNN, and other required simulators, in a Linux system. You are now ready to start modeling! To learn about model development in PyNN, do take a look at our next tutorial.
130	130
131		-Als,  we will be releasing a series of tutorials, throughout the rest of 2021 and 2022, to introduce these more advanced features of PyNN, so keep an eye on the EBRAINS website.
132		-
133		-(% class="box successmessage" %)
134		-(((
135		-**Slide** acknowledgements, contact information
136		-)))
137		-
138		-(% class="wikigeneratedid" %)
	100	+~(% class="wikigeneratedid" %)
139	139	PyNN has been developed by many different people, with financial support from several different organisations. I'd like to mention in particular the CNRS and the European Commission, through the FACETS, BrainScaleS and Human Brain Project grants.
140	140
141		-(% class="wikigeneratedid" %)
	103	+~(% class="wikigeneratedid" %)
142	142	For more information visit neuralensemble.org/PyNN. If you have questions you can contact us through the PyNN Github project, the NeuralEnsemble forum, EBRAINS support, or the EBRAINS Community.
143		-
144		-
145		-(% class="wikigeneratedid" %)
146		-[[https:~~/~~/realpython.com/python-virtual-environments-a-primer/>>https://realpython.com/python-virtual-environments-a-primer/]]