diff options
Diffstat (limited to 'qualimap.install')
| -rwxr-xr-x | qualimap.install | 17 |
1 files changed, 17 insertions, 0 deletions
diff --git a/qualimap.install b/qualimap.install new file mode 100755 index 000000000000..f6ff14586d54 --- /dev/null +++ b/qualimap.install @@ -0,0 +1,17 @@ +post_install() { + script=$(cat <<-EOF + # CountsQC + if(!require("optparse")) { install.packages("optparse", repos = "http://cran.r-project.org") } + if(!require("NOISeq")) { source("http://bioconductor.org/biocLite.R"); biocLite("NOISeq") } + + # Epigenetics + if(!require("XML")) { install.packages("XML", repos = "http://cran.r-project.org") } + if(!require("Repitools")) { source("http://bioconductor.org/biocLite.R"); biocLite("Repitools") } + if(!require("Rsamtools")) { source("http://bioconductor.org/biocLite.R"); biocLite("Rsamtools") } + if(!require("rtracklayer")) { source("http://bioconductor.org/biocLite.R"); biocLite("rtracklayer") } + EOF + ) + echo "${script}" > /tmp/qualimap-install-dependencies.R + export R_USER=root + Rscript /tmp/qualimap-install-dependencies.R +} |