Merge pull request #35 from liuzan-info/p2a

solve conflict

Author: liuzan-info

Dockerfile

@@ -14,7 +14,8 @@ RUN aliyunpan download PhosMap_datasets.zip --save && unzip PhosMap_datasets.zip
 
 # Install dependencies
 RUN R -e "devtools::install_github(c('evocellnet/ksea', 'omarwagih/rmotifx', 'ecnuzdd/PhosMap'))"
-RUN sudo apt-get install -y libgtk-3-dev cmake build-essential libcurl4-gnutls-dev libxml2 libxml2-dev libodbc1 libssl-dev libv8-dev libsodium-dev&& apt-get clean
+RUN sudo apt-get install -y libgtk-3-dev cmake build-essential libcurl4-gnutls-dev libxml2 libxml2-dev libodbc1 libssl-dev libv8-dev libsodium-dev && apt-get clean
+RUN wget https://cran.r-project.org/src/contrib/Archive/estimability/estimability_1.4.1.tar.gz && wget https://cran.r-project.org/src/contrib/Archive/emmeans/emmeans_1.8.9.tar.gz && wget https://cran.r-project.org/src/contrib/Archive/FactoMineR/FactoMineR_2.9.tar.gz
 RUN Rscript /srv/shiny-server/r_packages_install.R
 RUN R -e "remove.packages('Matrix')"
 RUN R -e "devtools::install_version('Matrix', version='1.5-3')"

r_packages_install.R

@@ -4,4 +4,9 @@ if (!require("BiocManager", quietly = TRUE)){install.packages("BiocManager")}
 
 BiocManager::install(c("pcaMethods", "impute"))
 
-install.packages(c("FactoMineR","factoextra","data.table","tidyr","shiny","shinyjs","shinyBS","shinyWidgets","ggplot2","ggrepel","plotly","colourpicker","ggseqlogo","pheatmap","survminer","survival","zip","stringr","dplyr","DT","png","svglite","ggplotify","bslib","qpdf", "rrcovNA", "e1071", "heatmaply", "ggdendro"))
+# due to FactoMineR's update, dependency conflict occurs
+install.packages("estimability_1.4.1.tar.gz", type="Source", repos=NULL)
+install.packages("emmeans_1.8.9.tar.gz", type="Source", repos=NULL)
+install.packages("FactoMineR_2.9.tar.gz", type="Source", repos=NULL)
+
+install.packages(c("factoextra","data.table","tidyr","shiny","shinyjs","shinyBS","shinyWidgets","ggplot2","ggrepel","plotly","colourpicker","ggseqlogo","pheatmap","survminer","survival","zip","stringr","dplyr","DT","png","svglite","ggplotify","bslib","qpdf", "rrcovNA", "e1071", "heatmaply", "ggdendro"))