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pcantalupo/Dockerfile_Rocker_Rstudio_Seurat2

Created March 8, 2020 15:35
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Dockerfile_Rocker_Rstudio_Seurat2
$ cat Dockerfile
FROM rocker/rstudio
RUN apt-get update && apt-get install -y libpng* libjpeg* libhdf5-dev libxml2-dev
RUN install2.r R.utils
RUN R -e "install.packages('https://cran.rstudio.com//src/contrib/Archive/SDMTools/SDMTools_1.1-221.2.tar.gz', repos = NULL)"
RUN install2.r BiocManager
RUN R -e "BiocManager::install('multtest')"
# installs Seurat 2.3.4
RUN R -e "source('https://z.umn.edu/archived-seurat')"
RUN install2.r roxygen2 rversions devtools
RUN R -e "BiocManager::install(c('SingleCellExperiment', 'scater', 'scmap'), update=FALSE)"
RUN R -e "devtools::install_github('pcantalupo/sct', upgrade = 'never')"
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