Changes for page 02. Installing PyNN - Linux
Last modified by adavison on 2022/10/04 13:53
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... ... @@ -56,73 +56,49 @@ 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 - Webeginbycreatingadirectoryforourproject.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 - Nextwe shallcreate a virtual environmentwithin this directory. Python 3 provides intrinsic support for creatingvirtualenvironments.SincePython 3.6, therecommended method of creatinganew virtualenvironmentis 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 - A73 +=== References to websites (For more information, visit us at…) === 87 87 88 -(% class="box infomessage" %) 89 -((( 90 -**Screencast** - file explorer 91 -\\<< show directory contents; especially site-packages >> 92 -))) 75 +. 93 93 77 +=== Contact information (For questions, contact us at…) === 94 94 95 - 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.79 +. 96 96 97 -We start here with the installation of Brian2. 98 98 99 -(% class="box infomessage" %) 100 -((( 101 -**Screencast** - current state of editor 102 -\\ 103 -))) 82 +~(% class="box successmessage" %) 83 +~(~(~( 84 +~*~*Slide~*~* recap of learning objectives 85 +~)~)~) 104 104 105 105 106 -(% class="box successmessage" %) 107 -((( 108 -**Slide** recap of learning objectives 109 -))) 110 - 111 111 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. 112 112 90 + 113 113 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. 114 114 115 -(% class="box successmessage" %) 116 -((( 117 -**Slide** acknowledgements, contact information 118 -))) 119 119 120 -(% class="wikigeneratedid" %) 121 -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. 94 +~(% class="box successmessage" %) 95 +~(~(~( 96 +~*~*Slide~*~* acknowledgements, contact information 97 +~)~)~) 122 122 123 -(% class="wikigeneratedid" %) 124 -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. 125 125 100 +~(% class="wikigeneratedid" %) 101 +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. 126 126 127 -(% class="wikigeneratedid" %) 128 - [[https:~~/~~/realpython.com/python-virtual-environments-a-primer/>>https://realpython.com/python-virtual-environments-a-primer/]]103 +~(% class="wikigeneratedid" %) 104 +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.