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| The code for running experiments and analysing data is all stored on [//gitlab.science.ru.nl gitlab].
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| ==Introduction==
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| To run experiments in a lab, you will need particular Matlab files that are stored in a [https://gitlab.science.ru.nl/marcw/experiment.git Git repository]
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| For bachelor/master/PhD students:
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| * Ask for an administrator (Marc van Wanrooij, [[Technical Support Group|Günter Windau]]) to create a new user account.
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| * Login to [https://gitlab.science.ru.nl Gitlab]
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| * Ask for a Git Master (Marc van Wanrooij, Günter Windau) to give you access to the [https://gitlab.science.ru.nl/marcw/experiment.git Git repository] to add you as a Developer (this will allow you to change things without affecting the main repository).
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| * install Atlassian SourceTree by going to Windows/ProgramFiles/Atlassian and double clicking on sourcetree.exe (this will be your interface with the repository instead of the default terminal/command prompt).
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| * Clone the [https://gitlab.science.ru.nl/marcw/experiment.git experiment-repository] by clicking on Clone in SourceTree to MATLAB/experiment in your User account Documents folder (all required m-files will now be copied to your folder, i.e. you will own your own local repository)
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| * Create a new branch of this repository by clicking on Branch in SourceTree, and give it a meaningful name, such as your own first name (this will enable you to edit the m-files and upload/push it to the remote repository, without affecting the main repository).
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| * Add the local repository to Matlab's path (via ...)
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| * Start an experiment
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| At the end of a student's internship (or when relevant), request for a merge (to incorporate all the useful changes you made into the main repository)
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| == How can I access Gitlab?==
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| Login to [//gitlab.science.ru.nl gitlab] with your Science Faculty account. Then ask Marc to gain access to biophysics and biophysics_labs
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| == How can I get (clone) the code from the repository? ==
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| You can get the code from the repository in several ways, all with their own advantages.
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| === Download zip-file ===
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| === Click ===
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| * Instal the GitHUB client [https://windows.github.com/ for Windows] or [https://mac.github.com/ for Mac], and add the repository via Command line instructions:
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| ** '''Git global setup'''
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| *** git config --global user.name "Your Name"
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| *** git config --global user.email "your.e@mail.adress"
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| ** '''Create a new repository'''
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| *** git clone https://gitlab.science.ru.nl/username/projectname.git
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| *** cd test
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| *** touch README.md
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| *** git add README.md
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| *** git commit -m "add README"
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| *** git push -u origin master
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| ** '''Existing folder or Git repository'''
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| *** cd existing_folder
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| *** git init
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| *** git remote add origin https://gitlab.science.ru.nl/username/projectname.git
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| *** git push -u origin master
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| * Install the Git client [https://www.atlassian.com/software/sourcetree/overview Atlassian Sourcetree], and ''Clone'' the repository via a button press
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| == How can I get the changes others have made (fetch/pull)? ==
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| * In Github for Windows: the Sync button
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| * In Atlassian Sourcetree: the Pull button
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| == How can I put my changes of the code in the repository (commit/push)?==
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| You should have Master rights to be able to upload your changes to the remote repository.
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| If you do not have own, you should work in a branch.
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| * In Github for Windows and in Atlassian Source Tree: push the Branch button, and give it a meaningful name (i.e. your first name)
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| Then you can upload
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| * In Github for Windows: Sync
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| * In Atlassian SourceTree: stage files - commit - push when commit
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| == Which repositories exist, and what are they for? ==
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| === Biophysics ===
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| For running experiments in the [[Sphere_lab]], to analyse fast eye and head movements, to do bayesian data anaysis, and some other utilities
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