Difference between revisions of "Code"

Latest revision as of 11:39, 21 March 2024

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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==
-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]
-For bachelor/master/PhD students:
-* Ask for an administrator (Marc van Wanrooij, [[Technical Support Group|Günter Windau]]) to create a new user account.
-* Login to [https://gitlab.science.ru.nl Gitlab]
-* 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).
-* 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).
-* 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)
-* 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).
-* Add the local repository to Matlab's path (via ...)
-* Start an experiment
-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)
-== How can I access Gitlab?==
-Login to [//gitlab.science.ru.nl gitlab] with your Science Faculty account. Then ask Marc to gain access to biophysics and biophysics_labs
-== How can I get (clone) the code from the repository? ==
-You can get the code from the repository in several ways, all with their own advantages.
-=== Download zip-file ===
-=== Click ===
-* 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:
-** '''Git global setup'''
-*** git config --global user.name "Your Name"
-*** git config --global user.email "your.e@mail.adress"
-** '''Create a new repository'''
-*** git clone https://gitlab.science.ru.nl/username/projectname.git
-*** cd test
-*** touch README.md
-*** git add README.md
-*** git commit -m "add README"
-*** git push -u origin master
-** '''Existing folder or Git repository'''
-*** cd existing_folder
-*** git init
-*** git remote add origin https://gitlab.science.ru.nl/username/projectname.git
-*** git push -u origin master
-* Install the Git client [https://www.atlassian.com/software/sourcetree/overview Atlassian Sourcetree], and ''Clone'' the repository via a button press
-== How can I get the changes others have made (fetch/pull)? ==
-* In Github for Windows: the Sync button
-* In Atlassian Sourcetree: the Pull button
-== How can I put my changes of the code in the repository  (commit/push)?==
-You should have Master rights to be able to upload your changes to the remote repository.
-If you do not have own, you should work in a branch.
-* In Github for Windows and in Atlassian Source Tree: push the Branch button, and give it a meaningful name (i.e. your first name)
-Then you can upload
-* In Github for Windows: Sync
-* In Atlassian SourceTree: stage files - commit - push when commit
-== Which repositories exist, and what are they for? ==
-=== Biophysics ===
-For running experiments in the [[Sphere_lab]], to analyse fast eye and head movements, to do bayesian data anaysis, and some other utilities

Difference between revisions of "Code"

Latest revision as of 11:39, 21 March 2024

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