containers

results/containers/m2bsgreprod.def

+Bootstrap: docker
+From: rocker/rstudio:4.1.3
+
+%post
+    # Update the system and install necessary libraries for building R packages
+    apt-get update && \
+    apt-get install -y \
+        libcurl4-openssl-dev \
+        libssl-dev \
+        libssh2-1-dev \
+        libxml2-dev \
+        libxt-dev \
+        libgit2-dev \
+        zlib1g-dev \
+        && apt-get clean \
+        && rm -rf /var/lib/apt/lists/*
+
+    # Install necessary R packages
+    R -e "install.packages(c('devtools', 'plyr', 'BiocManager'), repos='https://cran.biotools.fr')"
+
+    # Install Bioconductor packages
+    R -e "BiocManager::install(c('snpStats', 'SNPRelate'))"
+
+    # Install GenABEL.data from the CRAN archive
+   R -e "install.packages('https://cran.r-project.org/src/contrib/Archive/GenABEL.data/GenABEL.data_1.0.0.tar.gz', repos=NULL, type='source')"
+
+    # Install the archived GenABEL package from the CRAN archive
+R -e "install.packages('https://cran.r-project.org/src/contrib/Archive/GenABEL/GenABEL_1.8-0.tar.gz', repos=NULL, type='source')"
+
+R -e 'install.packages("genetics")'
+
+R -e "install.packages('https://cran.r-project.org/src/contrib/Archive/LDheatmap/LDheatmap_1.0-6.tar.gz', repos=NULL, type='source')"
+
+
+%environment
+    # Set R library paths if necessary
+    export R_LIBS_USER=/usr/local/lib/R/site-library
+