Update Dockerfile

docker/Dockerfile

@@ -1,5 +1,20 @@
-FROM rocker/tidyverse:3.5.1
+FROM rocker/tidyverse:4.0.1
 
+LABEL authors="Viktor Petukhov <viktor.s.petuhov@ya.ru>, Evan Biederstedt <evan.biederstedt@gmail.com>" \
+    version.image="1.0.0" \
+    version.pagoda2="1.0.0" \
+    description="tidyverse image R 4.0.1 to run pagoda2 with Rstudio"
+
+
+## Cairo dependencies
+RUN apt-get update && apt-get install libxt-dev mesa-common-dev -y
+
+## Cairo needed for scde
+## RUN R -e "install.packages('Cairo',dependencies=TRUE, repos='http://cran.rstudio.com/')"
 RUN R -e 'chooseCRANmirror(ind=52); install.packages("BiocManager")'
-RUN R -e 'BiocManager::install(c("AnnotationDbi", "BiocGenerics", "GO.db", "pcaMethods", "org.Dr.eg.db", "org.Hs.eg.db", "org.Mm.eg.db"))'
-RUN R -e 'devtools::install_github("kharchenkolab/pagoda2")'
+RUN R -e 'BiocManager::install(c("AnnotationDbi", "BiocGenerics", "GO.db", "pcaMethods", "org.Dr.eg.db", "org.Hs.eg.db", "org.Mm.eg.db", "scde", "BiocParallel"))'
+
+
+RUN R -e "install.packages('p2data',dependencies=TRUE, repos='https://kharchenkolab.github.io/drat/', type='source')"
+
+RUN R -e "install.packages('pagoda2',dependencies=TRUE, repos='http://cran.rstudio.com/')"