Adding DT R packages prevents Docker from running











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I use Docker to run Shiny app, and I install some R packages in the Dockerfile (here is the portion of the Dockerfile, I omitted some lines, marking it with <...>):



FROM r-base:latest



RUN apt-get update && apt-get install -y -t unstable 

    sudo 

    gdebi-core 

    make 

    git 

    gcc 

    <...>

    R -e "install.packages(c('shiny', 'rmarkdown'), repos='https://cran.rstudio.com/')" && 

    R -e "install.packages(c('ada','bsplus','caret','ddalpha','diptest','doMC','dplyr','e1071','evtree','fastAdaboost','foreach','GGally','ggplot2','gridExtra','iterators','kernlab','lattice','markdown','MASS','mboost','nnet','optparse','partykit','plyr','pROC','PRROC','randomForest','recipes','reshape2','RSNNS','scales','shinyBS','shinyFiles','shinythemes'))"


This works fine. But if I add one more R package (DT), the container still builds fine (and I can see that the package gets installed properly) but when I try to run the container I get: 



Loading required package: shiny

Error in dir.exists(lib) : invalid filename argument

Calls: <Anonymous> ... load_libraries -> get_package -> install.packages -> dir.exists

Execution halted


This error is not informative at all and I can't figure out what possibly can be wrong. I will appreciate any ideas! Thank you.






r docker shiny dt







share|improve this question






















  • Does it work locally (ie, outside of a container)?
    – Hong Ooi
    Nov 12 at 22:17










  • @HongOoi Yes, it does!
    – kintany
    Nov 13 at 13:12















up vote
0
down vote

favorite












I use Docker to run Shiny app, and I install some R packages in the Dockerfile (here is the portion of the Dockerfile, I omitted some lines, marking it with <...>):



FROM r-base:latest



RUN apt-get update && apt-get install -y -t unstable 

    sudo 

    gdebi-core 

    make 

    git 

    gcc 

    <...>

    R -e "install.packages(c('shiny', 'rmarkdown'), repos='https://cran.rstudio.com/')" && 

    R -e "install.packages(c('ada','bsplus','caret','ddalpha','diptest','doMC','dplyr','e1071','evtree','fastAdaboost','foreach','GGally','ggplot2','gridExtra','iterators','kernlab','lattice','markdown','MASS','mboost','nnet','optparse','partykit','plyr','pROC','PRROC','randomForest','recipes','reshape2','RSNNS','scales','shinyBS','shinyFiles','shinythemes'))"


This works fine. But if I add one more R package (DT), the container still builds fine (and I can see that the package gets installed properly) but when I try to run the container I get: 



Loading required package: shiny

Error in dir.exists(lib) : invalid filename argument

Calls: <Anonymous> ... load_libraries -> get_package -> install.packages -> dir.exists

Execution halted


This error is not informative at all and I can't figure out what possibly can be wrong. I will appreciate any ideas! Thank you.






r docker shiny dt







share|improve this question






















  • Does it work locally (ie, outside of a container)?
    – Hong Ooi
    Nov 12 at 22:17










  • @HongOoi Yes, it does!
    – kintany
    Nov 13 at 13:12













up vote
0
down vote

favorite









up vote
0
down vote

favorite











I use Docker to run Shiny app, and I install some R packages in the Dockerfile (here is the portion of the Dockerfile, I omitted some lines, marking it with <...>):



FROM r-base:latest



RUN apt-get update && apt-get install -y -t unstable 

    sudo 

    gdebi-core 

    make 

    git 

    gcc 

    <...>

    R -e "install.packages(c('shiny', 'rmarkdown'), repos='https://cran.rstudio.com/')" && 

    R -e "install.packages(c('ada','bsplus','caret','ddalpha','diptest','doMC','dplyr','e1071','evtree','fastAdaboost','foreach','GGally','ggplot2','gridExtra','iterators','kernlab','lattice','markdown','MASS','mboost','nnet','optparse','partykit','plyr','pROC','PRROC','randomForest','recipes','reshape2','RSNNS','scales','shinyBS','shinyFiles','shinythemes'))"


This works fine. But if I add one more R package (DT), the container still builds fine (and I can see that the package gets installed properly) but when I try to run the container I get: 



Loading required package: shiny

Error in dir.exists(lib) : invalid filename argument

Calls: <Anonymous> ... load_libraries -> get_package -> install.packages -> dir.exists

Execution halted


This error is not informative at all and I can't figure out what possibly can be wrong. I will appreciate any ideas! Thank you.






r docker shiny dt







share|improve this question













I use Docker to run Shiny app, and I install some R packages in the Dockerfile (here is the portion of the Dockerfile, I omitted some lines, marking it with <...>):



FROM r-base:latest



RUN apt-get update && apt-get install -y -t unstable 

    sudo 

    gdebi-core 

    make 

    git 

    gcc 

    <...>

    R -e "install.packages(c('shiny', 'rmarkdown'), repos='https://cran.rstudio.com/')" && 

    R -e "install.packages(c('ada','bsplus','caret','ddalpha','diptest','doMC','dplyr','e1071','evtree','fastAdaboost','foreach','GGally','ggplot2','gridExtra','iterators','kernlab','lattice','markdown','MASS','mboost','nnet','optparse','partykit','plyr','pROC','PRROC','randomForest','recipes','reshape2','RSNNS','scales','shinyBS','shinyFiles','shinythemes'))"


This works fine. But if I add one more R package (DT), the container still builds fine (and I can see that the package gets installed properly) but when I try to run the container I get: 



Loading required package: shiny

Error in dir.exists(lib) : invalid filename argument

Calls: <Anonymous> ... load_libraries -> get_package -> install.packages -> dir.exists

Execution halted


This error is not informative at all and I can't figure out what possibly can be wrong. I will appreciate any ideas! Thank you.






r docker shiny dt




r docker shiny dt






share|improve this question













share|improve this question











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share|improve this question










asked Nov 12 at 20:04









kintany

119110




119110












  • Does it work locally (ie, outside of a container)?
    – Hong Ooi
    Nov 12 at 22:17










  • @HongOoi Yes, it does!
    – kintany
    Nov 13 at 13:12


















  • Does it work locally (ie, outside of a container)?
    – Hong Ooi
    Nov 12 at 22:17










  • @HongOoi Yes, it does!
    – kintany
    Nov 13 at 13:12
















Does it work locally (ie, outside of a container)?
– Hong Ooi
Nov 12 at 22:17




Does it work locally (ie, outside of a container)?
– Hong Ooi
Nov 12 at 22:17












@HongOoi Yes, it does!
– kintany
Nov 13 at 13:12




@HongOoi Yes, it does!
– kintany
Nov 13 at 13:12

















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