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[Bioc-devel] Large file problem in git

3 messages · Cuklina Jelena, Hervé Pagès, Turaga, Nitesh

Original
Hervé Pagès
# 
Hi Jelena,

The .Rproj.user/ folder and the .git/ folder are 2 different things. Not 
sure exactly which one is causing you problem but they shouldn't.

The .Rproj.user/ folder is an RStudio thing that should not be added to 
git so make sure it's listed in your .gitignore file.

The .git folder is a place where the git client stores information about 
your local git clone. What is stored there is really git internal 
business and you should never touch or try to alter the content of this 
folder. Note that there is no need to list this one on your .gitignore 
file because the git client already knows about this folder and will 
ignore it. Nothing in this folder will ever get staged, committed, or 
pushed so having files larger than 5MB there should not be an issue.

H.
On 9/30/19 07:35, Cuklina Jelena wrote:

  
    

      
      
    

  


  


      

    

    

      
      

        


  

        

      Turaga, Nitesh
    

    

      
      #
    

  


  

      
Try BFG cleaner https://rtyley.github.io/bfg-repo-cleaner/

But I agree with what Herve says. You may use this on your own github repo if you'd like. But leaving it as is, is a good option. 

?On 9/30/19, 10:57 PM, "Bioc-devel on behalf of Pages, Herve" <bioc-devel-bounces at r-project.org on behalf of hpages at fredhutch.org> wrote:

    Hi Jelena,
    
    The .Rproj.user/ folder and the .git/ folder are 2 different things. Not 
    sure exactly which one is causing you problem but they shouldn't.
    
    The .Rproj.user/ folder is an RStudio thing that should not be added to 
    git so make sure it's listed in your .gitignore file.
    
    The .git folder is a place where the git client stores information about 
    your local git clone. What is stored there is really git internal 
    business and you should never touch or try to alter the content of this 
    folder. Note that there is no need to list this one on your .gitignore 
    file because the git client already knows about this folder and will 
    ignore it. Nothing in this folder will ever get staged, committed, or 
    pushed so having files larger than 5MB there should not be an issue.
    
    H.

        
On 9/30/19 07:35, Cuklina  Jelena wrote:

        
> Dear all,
    > 
    > I have a WARNING, caused by the file larger than 5 MB:
    > 
    >  From the file name,
    > .Rproj.user/4185876F/ctx/ctx-17050/environment
    >        .git/objects/pack/pack-88dfd7e4c8ad695717e8d77594e9c340fabcc39f.pack
    > 
    > it looks like it?s an R project environment file which was out of gitignore at some point, so should be safe to get rid of it. I have quite limited experience with git to judge that fully, so I have two questions:
    > 1) How do I make sure nothing valuable is in this pack?
    > 2) How do I remove it safely?
    > 
    > Best regards,
    > Jelena.
    > 
    > 	[[alternative HTML version deleted]]
    > 
    > _______________________________________________
    > Bioc-devel at r-project.org mailing list
    > https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=V8sRletkOxpgakacSWr3_gWgGBFN_uoociRf-EQwOI4&s=DQsva-NURI04uxAPZlf1hU-5gOnuV-HxfUdYk60APc4&e=
    > 
    
    -- 
    Herv? Pag?s
    
    Program in Computational Biology
    Division of Public Health Sciences
    Fred Hutchinson Cancer Research Center
    1100 Fairview Ave. N, M1-B514
    P.O. Box 19024
    Seattle, WA 98109-1024
    
    E-mail: hpages at fredhutch.org
    Phone:  (206) 667-5791
    Fax:    (206) 667-1319
    _______________________________________________
    Bioc-devel at r-project.org mailing list
    https://stat.ethz.ch/mailman/listinfo/bioc-devel
    



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