Dockerfile updated

Author: hosseinvk

Dockerfile

@@ -1,6 +1,18 @@
-FROM rocker/shiny-verse:3.4.3
-RUN apt-get update && apt-get install -y libnetcdf-dev libcairo2-dev
-RUN pkg-config --cflags cairo | export PKG_CONFIG_PATH=/usr/local/opt/libffi/lib/pkgconfig
-RUN Rscript -e 'install.packages(c("devtools", "mvtnorm", "tmvtnorm","impute", "pcaMethods", "imputeLCMD", "plotly", "DT", "BiocManager","testthat", "RColorBrewer", "shiny","shinyalert","shinydashboard", "shinyjs", "svglite"), dependencies=TRUE, repos="http://cran.rstudio.com/")'
-RUN Rscript -e 'BiocManager::install(pkgs=c("DEP", "SummarizedExperiment", "limma", "ComplexHeatmap"))'
-COPY . /srv/shiny-server/LFQ-Analyst
+# syntax=docker/dockerfile:1
+FROM rocker/shiny-verse:4.2.1
+
+RUN apt-get update && apt-get install -yq \
+    libhdf5-dev libnetcdf-dev build-essential libgd-dev libbz2-dev libudunits2-dev libproj-dev libgdal-dev \
+    texlive-latex-base texlive-fonts-recommended texlive-fonts-extra texlive-latex-extra
+
+RUN Rscript -e 'install.packages(c("devtools", "tidyverse", "ggrepel", "httr", "rjson", "mvtnorm", "tmvtnorm","impute", \
+"pcaMethods", "imputeLCMD", "plotly", "DT", "BiocManager","testthat", "RColorBrewer", "shiny","shinyalert","shinydashboard", \
+"shinyjs", "svglite", "rhandsontable", "shinyBS", "shinyWidgets", "ggVennDiagram"), dependencies=TRUE)'
+
+#FROM bioconductor/bioconductor_docker:RELEASE_3_15
+RUN Rscript -e 'BiocManager::install(pkgs=c("DEP", "DT", "SummarizedExperiment", "limma", "ComplexHeatmap", ask=F))'
+
+COPY ./ /srv/shiny-server/lfq-analyst
+COPY shiny-server.conf /etc/shiny-server/shiny-server.conf
+#RUN rm -f /srv/shiny-server/lfq-analyst/.Rprofile
+RUN chmod -R +r /srv/shiny-server/lfq-analyst