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Mathelab / ALTRE

ALTered Regulatory Elements
http://mathelab.github.io/ALTRE/
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3.3.2 testing #13

Closed Mathelab closed 8 years ago

Mathelab commented 8 years ago

Test package on 3.3.2 and ensure it works.

osubmi784323 commented 8 years ago

Shouldn't this say 3.2.0? I tested the installation on Andy's computer using the github readme and it fails on R 3.2.0. The bioconductor packages install but when the line devtools::install_github("mathelab/ALTRE") is run and it is automatically installing the other R packages it fails on the installation of the readr R package.

Mathelab commented 8 years ago

Got it to work but had to do lots of manual installations:

need to install gfortran version-4.2 first

install.packages("devtools")
source("http://bioconductor.org/biocLite.R") install.packages(“sourcetools”) install.packages(“Matrix”) install.packages(“shiny”) install.packages(“rmarkdown”) install.packages(“shinydashboard”) install.packages(“shinyFiles”) biocLite(“AnnotationHub”) biocLite(“rGREAT”) BiocInstaller::biocLite(c( 'org.Hs.eg.db', 'EnsDb.Hsapiens.v75', ‘GO.db’, ‘dplyr', ‘ensembldb’, ‘genefilter’, ‘DESeq2’)) install.packages(“highcharter”) install.packages(“readr”) devtools::install_github("mathelab/ALTRE", ref="webgraphs")