resubmit

Author: zkamvar

CRAN-SUBMISSION

@@ -1,3 +1,3 @@
 Version: 2.1.11
-Date: 2025-02-06 20:05:59 UTC
-SHA: ec6a4fb07a8c7abe57b6b4e83353f4c6569d8286
+Date: 2025-02-06 21:23:37 UTC
+SHA: 43a3b10c137ff05d1282f44eeab5d25418a7f841

docker/testing/Dockerfile

@@ -1,9 +1,9 @@
-FROM rocker/drd
+FROM rocker/r-devel-san
 
 MAINTAINER Thibaut Jombart <[email protected]>
 
 RUN apt-get update && apt-get upgrade -y
-RUN apt-get install libssl-dev libxml2-dev pandoc pandoc-citeproc libblas-dev liblapack-dev git qpdf -y
+RUN apt-get install -y libcurl4-openssl-dev libssl-dev libfontconfig1-dev libxml2-dev libharfbuzz-dev libfribidi-dev libfreetype6-dev libpng-dev libtiff5-dev libjpeg-dev gdal-bin proj-bin libgdal-dev libproj-dev libgmp3-dev jags libfftw3-dev
 
 ## add guest user
 
@@ -15,35 +15,24 @@ RUN chmod a+rw /usr/local/lib/R/site-library -R
 
 ## install CRAN packages
 
-RUN echo 'options(download.file.method = "libcurl", repos = c(CRAN = "https://cran.ma.imperial.ac.uk"))' > ~/.Rprofile
+# RUN echo 'options(download.file.method = "libcurl", repos = c(CRAN = "https://cran.ma.imperial.ac.uk"))' > ~/.Rprofile
 
 RUN r -e "install.packages('devtools')" \
- && r -e "install.packages('roxygen2')" \
- && r -e "install.packages('testthat')" \
- && r -e "install.packages('rmarkdown')" \
- && r -e "install.packages('adegenet', dependencies = c('Depends', 'Imports'))" \
- && r -e "install.packages('pegas')" \
- && r -e "install.packages('hierfstat')" \
- && r -e "install.packages('poppr')" \
- && r -e "install.packages('akima')" \
- && r -e "install.packages('maps')" \
- && r -e "install.packages('splancs')" \
- && r -e "install.packages('tripack')"
+ && r -e "install.packages('adegenet', dependencies = TRUE)"
 
-
-
-## install devel packages (github)
-
-RUN r -e "devtools::install_github('thibautjombart/adegenet')"
+RUN r -e 'install.packages("BiocManager")' \
+ && r -e 'BiocManager::install("SNPRelate")' \
+ && r -e 'install.packages("dartR.base")'
 
 
 ## clone repos to get sources
+RUN apt-get install -y git
 
 RUN su guest
 RUN mkdir ~/dev
 WORKDIR /home/guest/dev
 
-RUN git clone https://github.com/thibautjombart/adegenet
+COPY . .
 
 WORKDIR /home/guest/
-RUN ls='ls --color=auto'
+CMD Rscript -e 'library(dartR.base); gl.pcoa(testset.gl)'