Hello,
I am very new to linux. I am using Ubuntu 14.04, on 32 bit system.
I installed R-3.3.0 and when I am trying to installed biocLite and MotifDb using the following command lines given on your sites (https://www.bioconductor.org/help/workflows/generegulation/ and https://www.bioconductor.org/packages/3.3/bioc/html/MotifDb.html)
source("https://bioconductor.org/biocLite.R")
biocLite("MotifDb")
biocLite(c("MotifDb", "GenomicFeatures",
"TxDb.Scerevisiae.UCSC.sacCer3.sgdGene",
"org.Sc.sgd.db", "BSgenome.Scerevisiae.UCSC.sacCer3",
"motifStack", "seqLogo"))
Its is giving the following errors/ warnings:
There were 12 warnings (use warnings() to see them)
> warnings()
Warning messages:
1: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘XML’ had non-zero exit status
2: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘rtracklayer’ had non-zero exit status
3: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘grImport’ had non-zero exit status
4: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘BSgenome’ had non-zero exit status
5: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘MotifDb’ had non-zero exit status
6: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘rGADEM’ had non-zero exit status
7: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘biomaRt’ had non-zero exit status
8: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘BSgenome.Scerevisiae.UCSC.sacCer3’ had non-zero exit status
9: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘MotIV’ had non-zero exit status
10: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘GenomicFeatures’ had non-zero exit status
11: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘TxDb.Scerevisiae.UCSC.sacCer3.sgdGene’ had non-zero exit status
12: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘motifStack’ had non-zero exit status
Kindly help, its really imp and urgent.
Thank you,
