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how_to [2019/10/11 15:53]
admin [Use git via proxy or vpn?]
how_to [2019/10/20 23:05] (current)
admin [Access a Bioconductor package source code?]
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-====   ​Access a Bioconductor package source code?   ​====+==== Access a Bioconductor package source code? ====
  
-It is always better to a install the latest version of a package as directed in the corresponding Bioconductor page (e.g., [[https://​bioconductor.org/​packages/​Pigengene|Pigengene]]). If you need to see more details in the source code, you can clone the source from the Bioconductor ​mirror, e.g.,+It is always better to a install the latest version of a package as directed in the corresponding Bioconductor page (e.g., [[https://​bioconductor.org/​packages/​Pigengene|Pigengene]]). If you need to see more details in the source code, or you need the development version, you can clone the source from the Bioconductor ​using the "​Source Repository (Developer Access) " command, which is posted on the corresponding package [[https://​bioconductor.org/​packages/​release/​bioc/​html/​Pigengene.html|page]], e.g.,
  
 <​code>​ <​code>​
 mkdir ~/proj; cd ~/proj mkdir ~/proj; cd ~/proj
-git clone https://github.com/​Bioconductor-mirror/​Pigengene.git+git clone git@git.bioconductor.org:packages/Pigengene 
 +</code> 
 + 
 +Now, you can build the package fom the source using: 
 + 
 +<​code>​ 
 +R CMD REMOVE ​Pigengene; R CMD build Pigengene 
 +</​code>​ 
 + 
 +If the build is successful, a tarbal will be createdYou can install the new package using: 
 + 
 +<​code>​ 
 + R CMD INSTALL Pigengene_<​Version>​.tar.gz
 </​code>​ </​code>​
  
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 +
  
 ==== Use git via proxy or vpn? ==== ==== Use git via proxy or vpn? ====