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Question: Install older specific version from an R package that is on the Bioconductor Repository
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gravatar for svlachavas
2.0 years ago by
svlachavas570
Greece/Athens/National Hellenic Research Foundation
svlachavas570 wrote:

Dear Bioc Community,

for some functionality issues, i would like  to install an older specific version from an R package that is "hosted" on the Bioconductor repository. If i remove the current version, is this possible via biocLite() and using the specific version i would like to install, or a different approach is recommended ??

Best,

Efstathios

ADD COMMENTlink written 2.0 years ago by svlachavas570
1

find the version of R for which the version of the bioc package you are interested in was released.  install that version of R.  using that version of R, and ensuring that .libPaths() does not point to any incompatible libraries, use biocLite() (perhaps after source("http://www.bioconductor.org/biocLite.R") to obtain the desired package and any dependencies.  

ADD REPLYlink written 2.0 years ago by Vincent J. Carey, Jr.6.2k

Dear Vincent J.Carey,

well this sounds a bit complicated---for the reason I have already the laterst R version. Because i have no much experience for this specific case, there is no way to do this with the latest R version ?? In order to avoid re-installing other R versions and mess things up ??

ADD REPLYlink modified 2.0 years ago • written 2.0 years ago by svlachavas570
1

Maybe it is better to say what functionality you would like to use; perhaps it is still available through a different function?

ADD REPLYlink written 2.0 years ago by Martin Morgan ♦♦ 20k

Dear Martin, 

please excuse me for my quick description, but i would like to use a specific R package for co-regulation network inference(CoRegNet), which is unique for its purpose. But i assume as Vincent mentions, to go to a previous R version package also needs previous R version...

ADD REPLYlink written 2.0 years ago by svlachavas570

But CoRegNet is available in the current release?

ADD REPLYlink written 2.0 years ago by Martin Morgan ♦♦ 20k

My initial goal was to use the CoRegNet R version 1.4.0 (not the 1.6.0), but i assumed that is not available with my current 3.2.2 R version 

ADD REPLYlink written 2.0 years ago by svlachavas570

Only the DESCRIPTION and CITATION files, not the R code, differ, as shown by the following linux command on the source code for each package.

~/b/RELEASE_3_1/madman/Rpacks$ diff -qr CoRegNet/ ~/b/RELEASE_3_2/madman/Rpacks/CoRegNet/
Files CoRegNet/DESCRIPTION and /home/mtmorgan/b/RELEASE_3_2/madman/Rpacks/CoRegNet/DESCRIPTION differ
Files CoRegNet/inst/CITATION and /home/mtmorgan/b/RELEASE_3_2/madman/Rpacks/CoRegNet/inst/CITATION differ

 

ADD REPLYlink modified 2.0 years ago • written 2.0 years ago by Martin Morgan ♦♦ 20k

Thus based on your above comment(because im using windows), can i somehow install the older version with the latest R ? 

ADD REPLYlink written 2.0 years ago by svlachavas570

Installing the earlier version wouldn't make a difference, you'd get the same code!

ADD REPLYlink written 2.0 years ago by Martin Morgan ♦♦ 20k

Yes i was going to correct my answer, at first i misunderstood your comment !! Thank you for your feedback !!

ADD REPLYlink written 2.0 years ago by svlachavas570
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