Question: How to install DEXSeq on R 3.4.4
0
gravatar for justinkablan225
4 months ago by
justinkablan2250 wrote:
Hello, I want to install DEXSeq on linux mint 18.3

> sessionInfo()
R version 3.4.4 (2018-03-15)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Linux Mint 18.3
dexseq linux • 150 views
ADD COMMENTlink modified 4 months ago by Alejandro Reyes1.7k • written 4 months ago by justinkablan2250
Answer: How to install DEXSeq on R 3.4.4
1
gravatar for Alejandro Reyes
4 months ago by
Alejandro Reyes1.7k
Dana-Farber Cancer Institute, Boston, USA
Alejandro Reyes1.7k wrote:

Hi @justinkablan225,

Please follow the instructions from this link: http://bioconductor.org/install/

The first sentence says "The current release of Bioconductor is version 3.8; it works with R version 3.5.3.". As James mentioned, old versions of R and Bioconductor are not supported. This means that you have to update your R to the current release.

Alejandro

ADD COMMENTlink modified 4 months ago • written 4 months ago by Alejandro Reyes1.7k
Work nicely now
ADD REPLYlink written 4 months ago by justinkablan2250
Answer: How to install DEXSeq on R 3.4.4
0
gravatar for James W. MacDonald
4 months ago by
United States
James W. MacDonald51k wrote:

You can install outdated things on outdated R versions using biocLite:

source("https://bioconductor.org/biocLite.R")
biocLite("DEXseq")

But do note that we don't provide support for outdated versions of packages, so you are on your own if things don't work as expected. All things equal you should just use the current versions of R/BioC.

ADD COMMENTlink written 4 months ago by James W. MacDonald51k
Thinks,
I tried this but don't work
ADD REPLYlink written 4 months ago by justinkablan2250

What exactly does 'I tried this' mean?

> biocLite("DEXSeq")
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.6 (BiocInstaller 1.28.0), R 3.4.2 (2017-09-28).
Installing package(s)  DEXSeq 
trying URL 'https://bioconductor.org/packages/3.6/bioc/src/contrib/DEXSeq_1.24.4.tar.gz'
Content type 'application/x-gzip' length 550358 bytes (537 KB)
==================================================
downloaded 537 KB

* installing *source* package  DEXSeq  ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DEXSeq)

> sessionInfo()
R version 3.4.2 (2017-09-28)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Debian GNU/Linux 8 (jessie)

Matrix products: default
BLAS: /data/oldR/R-3.4.2/lib64/R/lib/libRblas.so
LAPACK: /data/oldR/R-3.4.2/lib64/R/lib/libRlapack.so

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] BiocInstaller_1.28.0

loaded via a namespace (and not attached):
[1] compiler_3.4.2 tools_3.4.2   
> 

ADD REPLYlink written 4 months ago by James W. MacDonald51k

You have to provide more information than that, for instance copy and paste the output fo the command that you tried.

ADD REPLYlink written 4 months ago by Martin Morgan ♦♦ 23k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 193 users visited in the last hour