Last modified by adavison on 2022/10/04 13:53
From version 27.7
edited by shailesh
on 2021/10/08 10:36
Change comment: There is no comment for this version
To version 27.10
edited by shailesh
on 2021/10/08 11:16
Change comment: There is no comment for this version

Summary

Details

Page properties
Content
... ... @@ -91,6 +91,12 @@
91 91  \\(% style="color:#000000" %)python3 -m venv pynn_env
92 92  )))
93 93  
94 +(% class="box warningmessage" %)
95 +(((
96 +**Note:**
97 +\\Observe that this command is as 'python3' and not simply 'python'. This is because Ubuntu 20, as default, understands only the former. You can find on the Internet various ways to have 'python' also refer to 'python3', but for the purposes of this tutorial we shall keep things simple and try to work with the bare minimum changes to the system.
98 +)))
99 +
94 94  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.
95 95  
96 96  (% class="box infomessage" %)
... ... @@ -140,11 +140,17 @@
140 140  (% class="box infomessage" %)
141 141  (((
142 142  **Screencast** - terminal
143 -\\(% style="color:#000000" %)python3
149 +\\(% style="color:#000000" %)python
144 144  \\import brian2
145 145  \\exit()
146 146  )))
147 147  
154 +(% class="box warningmessage" %)
155 +(((
156 +**Note: **
157 +\\You might remember that earlier in this tutorial we had to use the term 'python3' to run Python on our system. But here, as in the rest of this tutorial, we shall simply write 'python'. This is possible because once we have activated our virtual environment, this environment understands that both 'python' and 'python3' are equivalent.
158 +)))
159 +
148 148  If there are no error messages here, and the import is successful, then we have completed installing Brian 2.
149 149  
150 150  We shall now move on to install the NEST simulator. Unlike Brian 2, NEST is not a Python package and therefore it cannot be installed via the 'pip' command.
... ... @@ -172,7 +172,7 @@
172 172  (% class="box infomessage" %)
173 173  (((
174 174  **Screencast** - terminal
175 -\\(% style="color:#000000" %)python3
187 +\\(% style="color:#000000" %)python
176 176  \\import nest
177 177  \\exit()
178 178  )))
... ... @@ -185,10 +185,34 @@
185 185  
186 186  If there are no error messages here, and the import is successful, then we have completed installing NEST simulator, and are able to load it on Python.
187 187  
188 -We next move on to the third simulation, NEURON. The installation for NEURON is a bit more involved.
200 +We next move on to the third simulator, NEURON. The installation for NEURON used to be more involved previously, but can now be easily completed using the 'pip' command:
189 189  
190 -<< add more >>
202 +(% class="box infomessage" %)
203 +(((
204 +**Screencast** - terminal
205 +\\(% style="color:#000000" %)pip install neuron
206 +)))
191 191  
208 +This installs the NEURON simulator on your system. To confirm that we have properly installed NEURON, we can test as follows:
209 +
210 +(% class="box infomessage" %)
211 +(((
212 +**Screencast** - terminal
213 +\\(% style="color:#000000" %)nrngui
214 +)))
215 +
216 +This will display the NEURON banner, which mentions the version amongst other info. Here, as we can see, we have now installed NEURON v8.0.0 on our system. Let us next verify that this is indeed accessible via Python.
217 +
218 +(% class="box infomessage" %)
219 +(((
220 +**Screencast** - terminal
221 +\\(% style="color:#000000" %)python
222 +\\from neuron import h
223 +\\exit()
224 +)))
225 +
226 +
227 +
192 192  (% class="box successmessage" %)
193 193  (((
194 194  **Slide** recap of learning objectives