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analysis:nsb2015:week1 [2015/07/19 21:58]
mvdm [Using GitHub to acquire the FieldTrip toolbox]
analysis:nsb2015:week1 [2016/01/04 17:52]
course-w16 [Module 1: Setting up]
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   * Optional: [[http://​www.youtube.com/​GitHubGuides|Introduction to version control with GitHub]] ([[http://​git-scm.com/​book/​en/​Getting-Started-Git-Basics|more detailed doc pages]], [[http://​stackoverflow.com/​questions/​tagged/​git|git tagged questions on StackOverflow]],​ [[https://​github.s3.amazonaws.com/​media/​progit.en.pdf|Pro Git manual]], surprisingly readable)   * Optional: [[http://​www.youtube.com/​GitHubGuides|Introduction to version control with GitHub]] ([[http://​git-scm.com/​book/​en/​Getting-Started-Git-Basics|more detailed doc pages]], [[http://​stackoverflow.com/​questions/​tagged/​git|git tagged questions on StackOverflow]],​ [[https://​github.s3.amazonaws.com/​media/​progit.en.pdf|Pro Git manual]], surprisingly readable)
   * Optional: MATLAB documentation on [[http://​www.mathworks.com/​help/​matlab/​matlab_env/​understanding-file-locations-in-matlab.html|File Locations]] and [[http://​www.mathworks.com/​help/​matlab/​matlab_env/​what-is-the-matlab-search-path.html#​br8ch8o|Search Paths]]   * Optional: MATLAB documentation on [[http://​www.mathworks.com/​help/​matlab/​matlab_env/​understanding-file-locations-in-matlab.html|File Locations]] and [[http://​www.mathworks.com/​help/​matlab/​matlab_env/​what-is-the-matlab-search-path.html#​br8ch8o|Search Paths]]
 +
  
 Step-by-step:​ Step-by-step:​
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 If you don't already have a %%GitHub%% account, go to [[http://​www.github.com|GitHub]] and sign up. E-mail me (mvdm at dartmouth dot edu) your account name, so I can give you access to the code repository. If you don't already have a %%GitHub%% account, go to [[http://​www.github.com|GitHub]] and sign up. E-mail me (mvdm at dartmouth dot edu) your account name, so I can give you access to the code repository.
  
-Meanwhile, download and install the Git client of your choice if you don't already have one installed. For Windows, I recommend [[http://​windows.github.com/​|GitHub Windows]] as a user-friendly way to get started. For installing Git and setting up GitHub on various operating systems, see [[https://​help.github.com/​articles/​set-up-git|GitHub:​ Set Up Git]]; note that on the NS&B computers, you need to select "Run as administrator"​ when running the installer.+Meanwhile, download and install the Git client of your choice if you don't already have one installed. ​(On NS&B lab computers, it is probably already installed; in that case you can open it and sign in with your account.) ​For Windows, I recommend [[http://​windows.github.com/​|GitHub Windows]] as a user-friendly way to get started. For installing Git and setting up GitHub on various operating systems, see [[https://​help.github.com/​articles/​set-up-git|GitHub:​ Set Up Git]]; note that on the NS&B computers, you need to select "Run as administrator"​ when running the installer.
  
 Next, configure your client. For %%GitHub%% Windows, after starting up the %%GitHub%% %%GUI%% (the default window that opens when you run %%GitHub%%) you'll first need to sign in with your account, then click Tools > Options. Set the "​Default Storage Directory"​ to something reasonable such as %%D:​\My_Documents\GitHub\%%). Also check that your username and e-mail address look ok (I am ''​mvdm''​). Next, configure your client. For %%GitHub%% Windows, after starting up the %%GitHub%% %%GUI%% (the default window that opens when you run %%GitHub%%) you'll first need to sign in with your account, then click Tools > Options. Set the "​Default Storage Directory"​ to something reasonable such as %%D:​\My_Documents\GitHub\%%). Also check that your username and e-mail address look ok (I am ''​mvdm''​).
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 The choice of the folder name ''​promoted''​ indicates that these are data folders for which preprocessing is completed. As explained further in Module 2, preprocessing typically includes the renaming of raw data files, annotation, spike sorting, and a few other steps. In general, it is useful to keep promoted data separate from data still in process. The choice of the folder name ''​promoted''​ indicates that these are data folders for which preprocessing is completed. As explained further in Module 2, preprocessing typically includes the renaming of raw data files, annotation, spike sorting, and a few other steps. In general, it is useful to keep promoted data separate from data still in process.
  
-If you cannot access the NS&B share, use a %%FTP%% client such as [[https://​filezilla-project.org/​|Filezilla]] to connect to the lab %%FTP%% server, ''​mvdmlab-nas1''​ (129.97.62.84). Configure your %%FTP%% client to require "​explicit %%FTP%% over %%TLS%%"​ and use ''​BIOL680''​ as username and password. ​+If you cannot access the NS&B share, use a %%FTP%% client such as [[https://​filezilla-project.org/​|Filezilla]] to connect to the lab %%FTP%% server ​at **129.170.31.15**, use the following login settings (FileZilla):
  
-Correct FileZilla configuration is the following:​ +{{ :analysis:nsb2015:d-datavault-info.png?600 |}}
- +
-{{ :analysis:course:ftp_config.png?600 |}}+
  
 If you cannot log in to the server, send me your IP address and I will enable access for you. If you cannot log in to the server, send me your IP address and I will enable access for you.
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 </​code>​ </​code>​
  
-You should see some interesting oscillations -- we will explore these in detail in upcoming modules. If you see this, you have successfully completed this module!+You should see some interesting oscillations -- we will explore these in detail in upcoming modules. If you see this, you have successfully completed this introductory ​module!
  
 {{ :​analysis:​nsb2014:​verify.png?​600 |}} {{ :​analysis:​nsb2014:​verify.png?​600 |}}
  
-=== Folder and file naming === 
- 
-FIXME 
  
 === For Mac/OS X users === === For Mac/OS X users ===
analysis/nsb2015/week1.txt · Last modified: 2018/07/07 10:19 (external edit)