Datasetpublic
meriemm6/commit-classification-dataset

Commit Classification Dataset This dataset is designed for multi-label classification of Git commit messages into predefined categories. Dataset Summary This dataset contains: Training data: Commit messages and their corresponding labels for training the model. Validation data: A separate set of messages for tuning and evaluation. Testing data: Unlabeled commit messages for testing the model’s performance. The goal of the dataset is to classify each commit… See the full description on the dataset page: https://huggingface.co/datasets/meriemm6/commit-classification-dataset.
sourceHugging Facemitupdated 2y agoView on Hugging Face
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roottraining_data.csv
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1id,Commit Hash,Subject,Message,Old Contents,New Contents2262,fd2247cbcee7415a6703cc9221d53f5dbac9accc,Bumped source to 20211130-4c00e06,"Bumped source to 20211130-4c00e063","FROM docker.pkg.github.com/dock0/arch/arch:20211130-cbf05db4MAINTAINER akerl <me@lesaker.org>5RUN pacman -S --needed --noconfirm base-devel musl vim-minimal tree openssh6ENV EDITOR vim7WORKDIR /opt/build8CMD [""make"", ""local""]9","FROM docker.pkg.github.com/dock0/arch/arch:20211130-4c00e0610MAINTAINER akerl <me@lesaker.org>11RUN pacman -S --needed --noconfirm base-devel musl vim-minimal tree openssh12ENV EDITOR vim13WORKDIR /opt/build14CMD [""make"", ""local""]15"162103,d7d82169d11383f225a46cfa76cacb9a993c4135,Bumped source to 20210629-6b7f787,"Bumped source to 20210629-6b7f78717","FROM docker.pkg.github.com/dock0/arch/arch:20210629-e972d4518MAINTAINER akerl <me@lesaker.org>19RUN pacman -S --needed --noconfirm base-devel musl vim-minimal tree openssh20ENV EDITOR vim21WORKDIR /opt/build22CMD [""make"", ""local""]23",24374,90bde9493ac67b6683c885859581cf52f73b489e,Bumped source to 20201103-c055246,"Bumped source to 20201103-c05524625","FROM docker.pkg.github.com/dock0/amylum_arch/amylum_arch:20201103-c7ca44926MAINTAINER akerl <me@lesaker.org>27RUN pacman -S --noconfirm s6 execline musl-amylum28ADD service /service29ADD init /init30CMD [""/init""]31","FROM docker.pkg.github.com/dock0/amylum_arch/amylum_arch:20201103-c05524632MAINTAINER akerl <me@lesaker.org>33RUN pacman -S --noconfirm s6 execline musl-amylum34ADD service /service35ADD init /init36CMD [""/init""]37"382310,439ce8e0e4d322ae7d9e702ce1ac38becaacdeb7,Update Dockerfile,"Update Dockerfile39 40keeping bash.","FROM centos:7.3.161141 42MAINTAINER Robert de Bock <robert@meinit.nl>43 44LABEL Description=""Base CentOS OpenSSH server image"" CentOS=""7.3.1611"" OpenSSH=""6.6.1p1-33.el7_3"" Tini=""0.14.0""45 46ENV TINI_VERSION v0.14.047 48ADD https://github.com/krallin/tini/releases/download/${TINI_VERSION}/tini /tini49 50EXPOSE 2251 52RUN yum -y erase bash vim && \53    yum -y update && \54    yum -y install openssh openssh-server openssh-clients && \55    yum -y clean all56 57ADD start.sh /start.sh58 59RUN chmod +x /start.sh60 61RUN chmod +x /tini62 63ENTRYPOINT [""/tini"", ""-g"", ""--""]64 65CMD /start.sh66",672170,3573db30cf61da7cbc7eee0a5234d286576f5665,add gnu tar for mesos docker fetcher,"add gnu tar for mesos docker fetcher68","FROM quay.io/vektorcloud/base:3.469 70RUN apk --no-cache add docker \71  libstdc++ \72  subversion \73  curl \74  fts \75  openjdk8 \76  openssl  \77  binutils \78  coreutils \79  bash && \80  apk --no-cache --repository http://dl-cdn.alpinelinux.org/alpine/edge/community add dumb-init81 82# Mesos Default Options83ENV \ 84  VERSION=""1.2.0"" \85  MESOS_ZK=""zk://localhost:2181/mesos"" \86  MESOS_MASTER=""zk://localhost:2181/mesos"" \87  MESOS_QUORUM=""1"" \88  MESOS_WORK_DIR=""/mesos"" \89  MESOS_LOG_DIR=""/mesos/log"" \90  MESOS_CONTAINERIZERS=""mesos,docker"" \ 91  MESOS_EXECUTOR_REGISTRATION_TIMEOUT=""5mins"" \92  MESOS_LAUNCHER=""linux"" \93  MESOS_LOGGING_LEVEL=""WARNING"" \94  MESOS_SYSTEMD_ENABLE_SUPPORT=""false"" \95  MESOS_ISOLATION=""cgroups/cpu,cgroups/mem,cgroups/pids,namespaces/pid,filesystem/linux,docker/runtime""96 97COPY mesos/mesos-$VERSION/build /98 99COPY entrypoint.sh /100 101ENTRYPOINT [""/entrypoint.sh""]102",1032176,2feef0bf6c0463a85fffb6443968da5cadc59093,Bumped source to 20200824-40508fc,"Bumped source to 20200824-40508fc104","FROM docker.pkg.github.com/dock0/ssh/ssh:20200824-cae6bbb105MAINTAINER akerl <me@lesaker.org>106RUN pacman -S --noconfirm --needed cpio dnsutils htop lockfile-progs lsof mtr net-tools whois zsh neovim107RUN usermod --shell /usr/bin/zsh $ADMIN108RUN su - $ADMIN -c ""git clone git://github.com/akerl/....git /home/$ADMIN/...""109RUN su - $ADMIN -c '.../... conf https://raw.githubusercontent.com/akerl/dotfiles/master/.dotdotdot.conf'110RUN su - $ADMIN -c '.../... supi'111",11244,b491f955c938e4b688236e7a53153f9514594e90,update zoo,"update zoo113 114Signed-off-by: Mark McCahill <e3696564e7a7433e50b70b6d9fcacd26c7505e6a@duke.edu>115","# mccahill/r-studio116#117# VERSION 1.4118 119FROM ubuntu:18.04120MAINTAINER Mark McCahill ""mark.mccahill@duke.edu""121 122RUN apt-get  update ; \123    apt-get  install gnupg2 -y124 125# get R from a CRAN archive (we want the 3.5 version of R)126RUN echo  ""deb http://cran.rstudio.com/bin/linux/ubuntu bionic-cran35/""  >>  /etc/apt/sources.list127RUN DEBIAN_FRONTEND=noninteractive apt-key adv  --keyserver keyserver.ubuntu.com --recv-keys  E084DAB9128 129RUN apt-get  update ; \130    apt-get  dist-upgrade -y 131 132# we want OpenBLAS for faster linear algebra as described here: http://brettklamer.com/diversions/statistical/faster-blas-in-r/133RUN apt-get install  -y \134   apt-utils \135   libopenblas-base136 137RUN apt-get update ; \138   DEBIAN_FRONTEND=noninteractive apt-get  install -y  \139   r-base \140   r-base-dev \141   vim \142   less \143   net-tools \144   inetutils-ping \145   curl \146   git \147   telnet \148   nmap \149   socat \150   software-properties-common \151   wget \152   sudo 153 154RUN apt-get update ; \155   DEBIAN_FRONTEND=noninteractive apt-get  install -y \156   libcurl4-gnutls-dev \157   libgit2-dev \158   libxml2-dev \159   libssl-dev \160   libudunits2-dev \161   libpoppler-cpp-dev162 163 164# we need TeX for the rmarkdown package in RStudio, and pandoc is also useful 165RUN apt-get update 166RUN DEBIAN_FRONTEND=noninteractive apt-get  install -y \167   texlive \ 168   texlive-base \ 169   texlive-latex-extra \ 170   texlive-pstricks \ 171   pandoc172 173# R-Studio174RUN DEBIAN_FRONTEND=noninteractive apt-get  install -y \175   gdebi-core \176   libapparmor1177   178# RUN DEBIAN_FRONTEND=noninteractive wget https://download2.rstudio.org/rstudio-server-1.1.383-amd64.deb179RUN DEBIAN_FRONTEND=noninteractive wget https://s3.amazonaws.com/rstudio-ide-build/server/trusty/amd64/rstudio-server-1.2.907-amd64.deb180RUN DEBIAN_FRONTEND=noninteractive gdebi --n rstudio-server-1.2.907-amd64.deb181RUN rm rstudio-server-1.2.907-amd64.deb182 183# update the R packages we will need for knitr184RUN DEBIAN_FRONTEND=noninteractive wget \185   https://archive.linux.duke.edu/cran/src/contrib/xfun_0.5.tar.gz \186   https://archive.linux.duke.edu/cran/src/contrib/knitr_1.22.tar.gz \187   https://archive.linux.duke.edu/cran/src/contrib/yaml_2.2.0.tar.gz \188   https://archive.linux.duke.edu/cran/src/contrib/Rcpp_1.0.1.tar.gz \189   https://archive.linux.duke.edu/cran/src/contrib/htmltools_0.3.6.tar.gz \190   https://archive.linux.duke.edu/cran/src/contrib/caTools_1.17.1.2.tar.gz \191   https://archive.linux.duke.edu/cran/src/contrib/bitops_1.0-6.tar.gz \192   https://archive.linux.duke.edu/cran/src/contrib/digest_0.6.18.tar.gz \193   https://archive.linux.duke.edu/cran/src/contrib/glue_1.3.1.tar.gz \194   https://archive.linux.duke.edu/cran/src/contrib/stringr_1.4.0.tar.gz \195   https://archive.linux.duke.edu/cran/src/contrib/markdown_0.9.tar.gz \196   https://archive.linux.duke.edu/cran/src/contrib/highr_0.8.tar.gz \197   https://archive.linux.duke.edu/cran/src/contrib/formatR_1.6.tar.gz \198   https://archive.linux.duke.edu/cran/src/contrib/evaluate_0.13.tar.gz \199   https://archive.linux.duke.edu/cran/src/contrib/mime_0.6.tar.gz \200   https://archive.linux.duke.edu/cran/src/contrib/stringi_1.4.3.tar.gz \201   https://archive.linux.duke.edu/cran/src/contrib/magrittr_1.5.tar.gz202 203 204RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \205   bitops_1.0-6.tar.gz \206   caTools_1.17.1.2.tar.gz \207   digest_0.6.18.tar.gz \208   Rcpp_1.0.1.tar.gz \209   htmltools_0.3.6.tar.gz \210   yaml_2.2.0.tar.gz \211   stringi_1.4.3.tar.gz \212   magrittr_1.5.tar.gz \213   mime_0.6.tar.gz \214   glue_1.3.1.tar.gz \215   stringr_1.4.0.tar.gz \216   highr_0.8.tar.gz \217   formatR_1.6.tar.gz \218   evaluate_0.13.tar.gz \219   markdown_0.9.tar.gz \220   xfun_0.5.tar.gz \221   knitr_1.22.tar.gz222 223 224RUN rm \225   evaluate_0.13.tar.gz \226   formatR_1.6.tar.gz \227   highr_0.8.tar.gz \228   markdown_0.9.tar.gz \229   stringi_1.4.3.tar.gz \230   magrittr_1.5.tar.gz \231   glue_1.3.1.tar.gz \232   stringr_1.4.0.tar.gz \233   xfun_0.5.tar.gz \234   knitr_1.22.tar.gz \235   yaml_2.2.0.tar.gz \236   Rcpp_1.0.1.tar.gz \237   htmltools_0.3.6.tar.gz \238   caTools_1.17.1.2.tar.gz \239   bitops_1.0-6.tar.gz \240   digest_0.6.18.tar.gz \241   mime_0.6.tar.gz242 243# dependency for R XML library244RUN apt-get update 245RUN DEBIAN_FRONTEND=noninteractive apt-get install -y \246   libxml2 \ 247   libxml2-dev \248   libssl-dev249 250 251# R packages we need for devtools - and we need devtools to be able to update the rmarkdown package252RUN DEBIAN_FRONTEND=noninteractive wget \253   https://archive.linux.duke.edu/cran/src/contrib/processx_3.3.0.tar.gz \254   https://archive.linux.duke.edu/cran/src/contrib/ps_1.3.0.tar.gz \255   https://archive.linux.duke.edu/cran/src/contrib/callr_3.2.0.tar.gz \256   https://archive.linux.duke.edu/cran/src/contrib/crayon_1.3.4.tar.gz \257   https://archive.linux.duke.edu/cran/src/contrib/assertthat_0.2.1.tar.gz \258   https://archive.linux.duke.edu/cran/src/contrib/cli_1.1.0.tar.gz \259   https://archive.linux.duke.edu/cran/src/contrib/desc_1.2.0.tar.gz \260   https://archive.linux.duke.edu/cran/src/contrib/prettyunits_1.0.2.tar.gz \261   https://archive.linux.duke.edu/cran/src/contrib/backports_1.1.3.tar.gz \262   https://archive.linux.duke.edu/cran/src/contrib/rprojroot_1.3-2.tar.gz \263   https://archive.linux.duke.edu/cran/src/contrib/withr_2.1.2.tar.gz \264   https://archive.linux.duke.edu/cran/src/contrib/pkgbuild_1.0.3.tar.gz \265   https://archive.linux.duke.edu/cran/src/contrib/rlang_0.3.3.tar.gz \266   https://archive.linux.duke.edu/cran/src/contrib/rstudioapi_0.10.tar.gz \267   https://archive.linux.duke.edu/cran/src/contrib/pkgload_1.0.2.tar.gz \268   https://archive.linux.duke.edu/cran/src/contrib/rcmdcheck_1.3.2.tar.gz \269   https://archive.linux.duke.edu/cran/src/contrib/remotes_2.0.2.tar.gz \270   https://archive.linux.duke.edu/cran/src/contrib/xopen_1.0.0.tar.gz \271   https://archive.linux.duke.edu/cran/src/contrib/clipr_0.5.0.tar.gz \272   https://archive.linux.duke.edu/cran/src/contrib/clisymbols_1.2.0.tar.gz \273   https://archive.linux.duke.edu/cran/src/contrib/sessioninfo_1.1.1.tar.gz \274   https://archive.linux.duke.edu/cran/src/contrib/usethis_1.4.0.tar.gz \275   https://archive.linux.duke.edu/cran/src/contrib/sys_3.1.tar.gz \276   https://archive.linux.duke.edu/cran/src/contrib/askpass_1.1.tar.gz \277   https://archive.linux.duke.edu/cran/src/contrib/openssl_1.3.tar.gz \278   https://archive.linux.duke.edu/cran/src/contrib/brew_1.0-6.tar.gz \279   https://archive.linux.duke.edu/cran/src/contrib/Archive/roxygen2/roxygen2_5.0.1.tar.gz \280   https://archive.linux.duke.edu/cran/src/contrib/fs_1.2.7.tar.gz \281   https://archive.linux.duke.edu/cran/src/contrib/gh_1.0.1.tar.gz \282   https://archive.linux.duke.edu/cran/src/contrib/rversions_1.0.3.tar.gz \283   https://archive.linux.duke.edu/cran/src/contrib/git2r_0.25.2.tar.gz \284   https://archive.linux.duke.edu/cran/src/contrib/devtools_2.0.1.tar.gz \285   https://archive.linux.duke.edu/cran/src/contrib/R6_2.4.0.tar.gz \286   https://archive.linux.duke.edu/cran/src/contrib/httr_1.4.0.tar.gz \287   https://archive.linux.duke.edu/cran/src/contrib/RCurl_1.95-4.12.tar.gz \288   https://archive.linux.duke.edu/cran/src/contrib/BH_1.69.0-1.tar.gz \289   https://archive.linux.duke.edu/cran/src/contrib/xml2_1.2.0.tar.gz \290   https://archive.linux.duke.edu/cran/src/contrib/curl_3.3.tar.gz \291   https://archive.linux.duke.edu/cran/src/contrib/jsonlite_1.6.tar.gz \292   https://archive.linux.duke.edu/cran/src/contrib/ini_0.3.1.tar.gz \293   https://archive.linux.duke.edu/cran/src/contrib/downloader_0.4.tar.gz \294   https://archive.linux.duke.edu/cran/src/contrib/memoise_1.1.0.tar.gz \295   https://archive.linux.duke.edu/cran/src/contrib/plyr_1.8.4.tar.gz \296   https://archive.linux.duke.edu/cran/src/contrib/XML_3.98-1.19.tar.gz \297   https://archive.linux.duke.edu/cran/src/contrib/whisker_0.3-2.tar.gz \298   https://archive.linux.duke.edu/cran/src/contrib/bitops_1.0-6.tar.gz299 300RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \301   ps_1.3.0.tar.gz \302   R6_2.4.0.tar.gz \303   processx_3.3.0.tar.gz \304   callr_3.2.0.tar.gz \305   crayon_1.3.4.tar.gz \306   assertthat_0.2.1.tar.gz \307   cli_1.1.0.tar.gz \308   backports_1.1.3.tar.gz \309   rprojroot_1.3-2.tar.gz \310   desc_1.2.0.tar.gz \311   prettyunits_1.0.2.tar.gz \312   withr_2.1.2.tar.gz \313   pkgbuild_1.0.3.tar.gz \314   rlang_0.3.3.tar.gz \315   rstudioapi_0.10.tar.gz \316   pkgload_1.0.2.tar.gz \317   xopen_1.0.0.tar.gz \318   sessioninfo_1.1.1.tar.gz \319   rcmdcheck_1.3.2.tar.gz \320   remotes_2.0.2.tar.gz \   321   whisker_0.3-2.tar.gz \322   git2r_0.25.2.tar.gz \323   fs_1.2.7.tar.gz \324   ini_0.3.1.tar.gz \325   jsonlite_1.6.tar.gz \326   sys_3.1.tar.gz \327   askpass_1.1.tar.gz \328   openssl_1.3.tar.gz \329   curl_3.3.tar.gz \330   httr_1.4.0.tar.gz \331   gh_1.0.1.tar.gz \332   clipr_0.5.0.tar.gz \333   clisymbols_1.2.0.tar.gz \   334   usethis_1.4.0.tar.gz \335   memoise_1.1.0.tar.gz \336   bitops_1.0-6.tar.gz \337   RCurl_1.95-4.12.tar.gz \338   plyr_1.8.4.tar.gz \339   devtools_2.0.1.tar.gz \340   brew_1.0-6.tar.gz \341   roxygen2_5.0.1.tar.gz \342   XML_3.98-1.19.tar.gz \343   BH_1.69.0-1.tar.gz \344   xml2_1.2.0.tar.gz \345   rversions_1.0.3.tar.gz \346   downloader_0.4.tar.gz347 348RUN rm \349   ps_1.3.0.tar.gz \350   callr_3.2.0.tar.gz \351   R6_2.4.0.tar.gz \352   processx_3.3.0.tar.gz \353   crayon_1.3.4.tar.gz \354   assertthat_0.2.1.tar.gz \355   cli_1.1.0.tar.gz \356   desc_1.2.0.tar.gz \357   prettyunits_1.0.2.tar.gz \358   backports_1.1.3.tar.gz \359   rprojroot_1.3-2.tar.gz \360   withr_2.1.2.tar.gz \361   pkgbuild_1.0.3.tar.gz \362   rlang_0.3.3.tar.gz \363   rstudioapi_0.10.tar.gz \364   clipr_0.5.0.tar.gz \365   clisymbols_1.2.0.tar.gz \366   pkgload_1.0.2.tar.gz \367   sessioninfo_1.1.1.tar.gz \368   xopen_1.0.0.tar.gz \369   rcmdcheck_1.3.2.tar.gz \370   remotes_2.0.2.tar.gz \371   usethis_1.4.0.tar.gz \372   ini_0.3.1.tar.gz \373   jsonlite_1.6.tar.gz \374   memoise_1.1.0.tar.gz \375   whisker_0.3-2.tar.gz \376   bitops_1.0-6.tar.gz \377   RCurl_1.95-4.12.tar.gz \378   plyr_1.8.4.tar.gz \379   httr_1.4.0.tar.gz \380   sys_3.1.tar.gz \381   askpass_1.1.tar.gz \382   openssl_1.3.tar.gz \383   brew_1.0-6.tar.gz \384   roxygen2_5.0.1.tar.gz \385   BH_1.69.0-1.tar.gz \386   XML_3.98-1.19.tar.gz \387   xml2_1.2.0.tar.gz \388   curl_3.3.tar.gz \389   rversions_1.0.3.tar.gz \390   git2r_0.25.2.tar.gz \391   devtools_2.0.1.tar.gz \392   downloader_0.4.tar.gz393 394# the CRAN install from source fails because a server at MIT will not respond395# install from source396ADD ./conf /r-studio397#RUN R CMD BATCH /r-studio/install-nloptr.R398#RUN rm /install-nloptr.Rout399 400RUN DEBIAN_FRONTEND=noninteractive wget \401    https://archive.linux.duke.edu/cran/src/contrib/nloptr_1.2.1.tar.gz402 403RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \404    nloptr_1.2.1.tar.gz405 406RUN rm \407    nloptr_1.2.1.tar.gz408 409 410# libraries Eric Green wanted411RUN DEBIAN_FRONTEND=noninteractive wget \412   https://archive.linux.duke.edu/cran/src/contrib/lubridate_1.7.4.tar.gz \413   https://archive.linux.duke.edu/cran/src/contrib/lazyeval_0.2.2.tar.gz \414   https://archive.linux.duke.edu/cran/src/contrib/utf8_1.1.4.tar.gz \415   https://archive.linux.duke.edu/cran/src/contrib/fansi_0.4.0.tar.gz \416   https://archive.linux.duke.edu/cran/src/contrib/pillar_1.3.1.tar.gz \417   https://archive.linux.duke.edu/cran/src/contrib/pkgconfig_2.0.2.tar.gz \418   https://archive.linux.duke.edu/cran/src/contrib/tibble_2.1.1.tar.gz \419   https://archive.linux.duke.edu/cran/src/contrib/ggplot2_3.1.0.tar.gz \420   https://archive.linux.duke.edu/cran/src/contrib/RColorBrewer_1.1-2.tar.gz \421   https://archive.linux.duke.edu/cran/src/contrib/dichromat_2.0-0.tar.gz \422   https://archive.linux.duke.edu/cran/src/contrib/colorspace_1.4-1.tar.gz \423   https://archive.linux.duke.edu/cran/src/contrib/munsell_0.5.0.tar.gz \424   https://archive.linux.duke.edu/cran/src/contrib/labeling_0.3.tar.gz \425   https://archive.linux.duke.edu/cran/src/contrib/viridisLite_0.3.0.tar.gz \426   https://archive.linux.duke.edu/cran/src/contrib/scales_1.0.0.tar.gz \427   https://archive.linux.duke.edu/cran/src/contrib/stargazer_5.2.2.tar.gz \428   https://archive.linux.duke.edu/cran/src/contrib/reshape2_1.4.3.tar.gz \429   https://archive.linux.duke.edu/cran/src/contrib/gtable_0.3.0.tar.gz \430   https://archive.linux.duke.edu/cran/src/contrib/proto_1.0.0.tar.gz \431   https://archive.linux.duke.edu/cran/src/contrib/minqa_1.2.4.tar.gz \432   https://archive.linux.duke.edu/cran/src/contrib/RcppEigen_0.3.3.5.0.tar.gz \433   https://archive.linux.duke.edu/cran/src/contrib/lme4_1.1-21.tar.gz434 435RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \436   lubridate_1.7.4.tar.gz  \437   gtable_0.3.0.tar.gz \438   RColorBrewer_1.1-2.tar.gz \439   dichromat_2.0-0.tar.gz \440   colorspace_1.4-1.tar.gz \441   munsell_0.5.0.tar.gz \442   labeling_0.3.tar.gz \443   viridisLite_0.3.0.tar.gz \444   scales_1.0.0.tar.gz \445   proto_1.0.0.tar.gz \446   reshape2_1.4.3.tar.gz \447   lazyeval_0.2.2.tar.gz \448   utf8_1.1.4.tar.gz \449   fansi_0.4.0.tar.gz \450   pillar_1.3.1.tar.gz \451   pkgconfig_2.0.2.tar.gz \452   tibble_2.1.1.tar.gz \453   ggplot2_3.1.0.tar.gz \454   stargazer_5.2.2.tar.gz \455   minqa_1.2.4.tar.gz \456   RcppEigen_0.3.3.5.0.tar.gz \457   lme4_1.1-21.tar.gz458 459RUN rm \460   lubridate_1.7.4.tar.gz  \461   gtable_0.3.0.tar.gz \462   RColorBrewer_1.1-2.tar.gz \463   dichromat_2.0-0.tar.gz \464   colorspace_1.4-1.tar.gz \465   munsell_0.5.0.tar.gz \466   labeling_0.3.tar.gz \467   viridisLite_0.3.0.tar.gz \468   scales_1.0.0.tar.gz \469   proto_1.0.0.tar.gz \470   reshape2_1.4.3.tar.gz \471   lazyeval_0.2.2.tar.gz \472   utf8_1.1.4.tar.gz \473   fansi_0.4.0.tar.gz \474   pillar_1.3.1.tar.gz \475   pkgconfig_2.0.2.tar.gz \476   tibble_2.1.1.tar.gz \477   ggplot2_3.1.0.tar.gz \478   stargazer_5.2.2.tar.gz \479   minqa_1.2.4.tar.gz \480   RcppEigen_0.3.3.5.0.tar.gz \481   lme4_1.1-21.tar.gz482  483# more libraries Mine Cetinakya-Rundel asked for484RUN DEBIAN_FRONTEND=noninteractive wget \485   https://archive.linux.duke.edu/cran/src/contrib/openintro_1.7.1.tar.gz \486   https://archive.linux.duke.edu/cran/src/contrib/bindr_0.1.1.tar.gz \487   https://archive.linux.duke.edu/cran/src/contrib/bindrcpp_0.2.2.tar.gz \488   https://archive.linux.duke.edu/cran/src/contrib/plogr_0.2.0.tar.gz \489   https://archive.linux.duke.edu/cran/src/contrib/purrr_0.3.2.tar.gz \490   https://archive.linux.duke.edu/cran/src/contrib/tidyselect_0.2.5.tar.gz \491   https://archive.linux.duke.edu/cran/src/contrib/dplyr_0.8.0.1.tar.gz \492   https://archive.linux.duke.edu/cran/src/contrib/DBI_1.0.0.tar.gz 493 494 495 496RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \497   openintro_1.7.1.tar.gz \498   DBI_1.0.0.tar.gz \499   plogr_0.2.0.tar.gz \500   bindr_0.1.1.tar.gz \501   bindrcpp_0.2.2.tar.gz \502   purrr_0.3.2.tar.gz \503   tidyselect_0.2.5.tar.gz \504   dplyr_0.8.0.1.tar.gz 505 506RUN rm \507   openintro_1.7.1.tar.gz \508   DBI_1.0.0.tar.gz \509   bindr_0.1.1.tar.gz \510   bindrcpp_0.2.2.tar.gz \511   plogr_0.2.0.tar.gz \512   purrr_0.3.2.tar.gz \513   tidyselect_0.2.5.tar.gz \514   dplyr_0.8.0.1.tar.gz 515 516RUN DEBIAN_FRONTEND=noninteractive wget \517   https://archive.linux.duke.edu/cran/src/contrib/chron_2.3-53.tar.gz \518   https://archive.linux.duke.edu/cran/src/contrib/data.table_1.12.0.tar.gz \519   https://archive.linux.duke.edu/cran/src/contrib/rematch_1.0.1.tar.gz \520   https://archive.linux.duke.edu/cran/src/contrib/cellranger_1.1.0.tar.gz \521   https://archive.linux.duke.edu/cran/src/contrib/tidyr_0.8.3.tar.gz \522   https://archive.linux.duke.edu/cran/src/contrib/googlesheets_0.3.0.tar.gz \523   https://archive.linux.duke.edu/cran/src/contrib/hms_0.4.2.tar.gz \524   https://archive.linux.duke.edu/cran/src/contrib/readr_1.3.1.tar.gz \525   https://archive.linux.duke.edu/cran/src/contrib/selectr_0.4-1.tar.gz \526   https://archive.linux.duke.edu/cran/src/contrib/rvest_0.3.2.tar.gz \527   https://archive.linux.duke.edu/cran/src/contrib/pbkrtest_0.4-7.tar.gz 528 529RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \530   chron_2.3-53.tar.gz \531   data.table_1.12.0.tar.gz \532   rematch_1.0.1.tar.gz \533   cellranger_1.1.0.tar.gz \534   tidyr_0.8.3.tar.gz \535   hms_0.4.2.tar.gz \536   readr_1.3.1.tar.gz \537   googlesheets_0.3.0.tar.gz \538   selectr_0.4-1.tar.gz \539   rvest_0.3.2.tar.gz \540   pbkrtest_0.4-7.tar.gz 541 542RUN rm \543   chron_2.3-53.tar.gz \544   data.table_1.12.0.tar.gz \545   rematch_1.0.1.tar.gz \546   cellranger_1.1.0.tar.gz \547   tidyr_0.8.3.tar.gz \548   googlesheets_0.3.0.tar.gz \549   hms_0.4.2.tar.gz \550   readr_1.3.1.tar.gz \551   selectr_0.4-1.tar.gz \552   rvest_0.3.2.tar.gz \553   pbkrtest_0.4-7.tar.gz 554 555# Shiny556#RUN wget https://download3.rstudio.org/ubuntu-12.04/x86_64/shiny-server-1.5.3.838-amd64.deb557RUN wget https://download3.rstudio.org/ubuntu-14.04/x86_64/shiny-server-1.5.7.907-amd64.deb558RUN DEBIAN_FRONTEND=noninteractive gdebi -n shiny-server-1.5.7.907-amd64.deb559RUN rm shiny-server-1.5.7.907-amd64.deb560RUN R CMD BATCH /r-studio/install-Shiny.R561RUN rm /install-Shiny.Rout562 563 564RUN DEBIAN_FRONTEND=noninteractive wget \565   https://archive.linux.duke.edu/cran/src/contrib/SparseM_1.77.tar.gz \566   https://archive.linux.duke.edu/cran/src/contrib/MatrixModels_0.4-1.tar.gz \567   https://archive.linux.duke.edu/cran/src/contrib/quantreg_5.38.tar.gz \568   https://archive.linux.duke.edu/cran/src/contrib/sp_1.3-1.tar.gz \569   https://archive.linux.duke.edu/cran/src/contrib/maptools_0.9-5.tar.gz \570   https://archive.linux.duke.edu/cran/src/contrib/haven_2.1.0.tar.gz \571   https://archive.linux.duke.edu/cran/src/contrib/ellipsis_0.1.0.tar.gz \572   https://archive.linux.duke.edu/cran/src/contrib/forcats_0.4.0.tar.gz \573   https://archive.linux.duke.edu/cran/src/contrib/readxl_1.3.1.tar.gz \574   https://archive.linux.duke.edu/cran/src/contrib/zip_2.0.1.tar.gz \575   https://archive.linux.duke.edu/cran/src/contrib/openxlsx_4.1.0.tar.gz \576   https://archive.linux.duke.edu/cran/src/contrib/rio_0.5.16.tar.gz \577   https://archive.linux.duke.edu/cran/src/contrib/abind_1.4-5.tar.gz \578   https://archive.linux.duke.edu/cran/src/contrib/carData_3.0-2.tar.gz \579   https://archive.linux.duke.edu/cran/src/contrib/car_3.0-2.tar.gz \580   https://archive.linux.duke.edu/cran/src/contrib/mosaicData_0.17.0.tar.gz \581   https://archive.linux.duke.edu/cran/src/contrib/latticeExtra_0.6-28.tar.gz \582   https://archive.linux.duke.edu/cran/src/contrib/gridExtra_2.3.tar.gz \583   https://archive.linux.duke.edu/cran/src/contrib/ggdendro_0.1-20.tar.gz \584   https://archive.linux.duke.edu/cran/src/contrib/mnormt_1.5-5.tar.gz \585   https://archive.linux.duke.edu/cran/src/contrib/psych_1.8.12.tar.gz \586   https://archive.linux.duke.edu/cran/src/contrib/generics_0.0.2.tar.gz \587   https://archive.linux.duke.edu/cran/src/contrib/broom_0.5.1.tar.gz \588   https://archive.linux.duke.edu/cran/src/contrib/reshape_0.8.8.tar.gz \589   https://archive.linux.duke.edu/cran/src/contrib/progress_1.2.0.tar.gz \590   https://archive.linux.duke.edu/cran/src/contrib/GGally_1.4.0.tar.gz \591   https://archive.linux.duke.edu/cran/src/contrib/ggstance_0.3.1.tar.gz \592   https://archive.linux.duke.edu/cran/src/contrib/ggformula_0.9.1.tar.gz \593   https://archive.linux.duke.edu/cran/src/contrib/mosaicCore_0.6.0.tar.gz \594   https://archive.linux.duke.edu/cran/src/contrib/ggrepel_0.8.0.tar.gz \595   https://archive.linux.duke.edu/cran/src/contrib/base64enc_0.1-3.tar.gz \596   https://archive.linux.duke.edu/cran/src/contrib/crosstalk_1.0.0.tar.gz \597   https://archive.linux.duke.edu/cran/src/contrib/htmlwidgets_1.3.tar.gz \598   https://archive.linux.duke.edu/cran/src/contrib/png_0.1-7.tar.gz \599   https://archive.linux.duke.edu/cran/src/contrib/raster_2.8-19.tar.gz \600   https://archive.linux.duke.edu/cran/src/contrib/viridis_0.5.1.tar.gz \601   https://archive.linux.duke.edu/cran/src/contrib/leaflet_2.0.2.tar.gz \602   https://archive.linux.duke.edu/cran/src/contrib/mosaic_1.5.0.tar.gz 603 604RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \605   SparseM_1.77.tar.gz \606   MatrixModels_0.4-1.tar.gz \607   quantreg_5.38.tar.gz \608   sp_1.3-1.tar.gz \609   maptools_0.9-5.tar.gz \610   ellipsis_0.1.0.tar.gz \611   forcats_0.4.0.tar.gz \612   haven_2.1.0.tar.gz \613   progress_1.2.0.tar.gz \614   readxl_1.3.1.tar.gz \615   zip_2.0.1.tar.gz \616   openxlsx_4.1.0.tar.gz \617   rio_0.5.16.tar.gz \618   abind_1.4-5.tar.gz \619   carData_3.0-2.tar.gz \620   car_3.0-2.tar.gz \621   mosaicData_0.17.0.tar.gz \622   latticeExtra_0.6-28.tar.gz \623   gridExtra_2.3.tar.gz \624   ggdendro_0.1-20.tar.gz \625   mnormt_1.5-5.tar.gz \626   psych_1.8.12.tar.gz \627   generics_0.0.2.tar.gz \628   broom_0.5.1.tar.gz \629   reshape_0.8.8.tar.gz \630   GGally_1.4.0.tar.gz \631   mosaicCore_0.6.0.tar.gz \632   ggstance_0.3.1.tar.gz \633   ggformula_0.9.1.tar.gz \634   ggrepel_0.8.0.tar.gz \635   base64enc_0.1-3.tar.gz \636   crosstalk_1.0.0.tar.gz \637   htmlwidgets_1.3.tar.gz \638   png_0.1-7.tar.gz \639   raster_2.8-19.tar.gz \640   viridis_0.5.1.tar.gz \641   leaflet_2.0.2.tar.gz \642   mosaic_1.5.0.tar.gz 643 644RUN rm \645   SparseM_1.77.tar.gz \646   MatrixModels_0.4-1.tar.gz \647   quantreg_5.38.tar.gz \648   sp_1.3-1.tar.gz \649   maptools_0.9-5.tar.gz \650   ellipsis_0.1.0.tar.gz \651   forcats_0.4.0.tar.gz \652   haven_2.1.0.tar.gz \653   readxl_1.3.1.tar.gz \654   zip_2.0.1.tar.gz \655   openxlsx_4.1.0.tar.gz \656   rio_0.5.16.tar.gz \657   abind_1.4-5.tar.gz \658   carData_3.0-2.tar.gz \659   car_3.0-2.tar.gz \660   mosaicData_0.17.0.tar.gz \661   latticeExtra_0.6-28.tar.gz \662   gridExtra_2.3.tar.gz \663   ggdendro_0.1-20.tar.gz \664   mnormt_1.5-5.tar.gz \665   psych_1.8.12.tar.gz \666   generics_0.0.2.tar.gz \667   broom_0.5.1.tar.gz \668   reshape_0.8.8.tar.gz \669   progress_1.2.0.tar.gz \670   GGally_1.4.0.tar.gz \671   mosaicCore_0.6.0.tar.gz \672   ggstance_0.3.1.tar.gz \673   ggformula_0.9.1.tar.gz \674   ggrepel_0.8.0.tar.gz \675   base64enc_0.1-3.tar.gz \676   crosstalk_1.0.0.tar.gz \677   htmlwidgets_1.3.tar.gz \678   png_0.1-7.tar.gz \679   raster_2.8-19.tar.gz \680   leaflet_2.0.2.tar.gz \681   viridis_0.5.1.tar.gz \682   mosaic_1.5.0.tar.gz 683 684# Cliburn Chan requested these:685RUN DEBIAN_FRONTEND=noninteractive wget \686   https://archive.linux.duke.edu/cran/src/contrib/RColorBrewer_1.1-2.tar.gz \687   https://archive.linux.duke.edu/cran/src/contrib/maps_3.3.0.tar.gz \688   https://archive.linux.duke.edu/cran/src/contrib/zoo_1.8-4.tar.gz \689   https://archive.linux.duke.edu/cran/src/contrib/gcookbook_2.0.tar.gz \690   https://archive.linux.duke.edu/cran/src/contrib/corrplot_0.84.tar.gz 691 692 693RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \694   RColorBrewer_1.1-2.tar.gz \695   maps_3.3.0.tar.gz \696   zoo_1.8-4.tar.gz \697   gcookbook_2.0.tar.gz \698   corrplot_0.84.tar.gz 699 700 701RUN rm \702   RColorBrewer_1.1-2.tar.gz \703   maps_3.3.0.tar.gz \704   zoo_1.8-4.tar.gz \705   gcookbook_2.0.tar.gz \706   corrplot_0.84.tar.gz 707   708 709# install rmarkdown710RUN R CMD BATCH /r-studio/install-rmarkdown.R711RUN rm /install-rmarkdown.Rout 712 713# Cliburn also wanted these714# but they have mega-dependencies, so intall them the other way715RUN R CMD BATCH /r-studio/install-dendextend.R716RUN rm /install-dendextend.Rout 717RUN R CMD BATCH /r-studio/install-igraph.R718RUN rm /install-igraph.Rout 719 720# install sparklyr so we can do Spark via Livy721RUN DEBIAN_FRONTEND=noninteractive wget \722   https://archive.linux.duke.edu/cran/src/contrib/config_0.3.tar.gz \723   https://archive.linux.duke.edu/cran/src/contrib/dbplyr_1.3.0.tar.gz \724   https://archive.linux.duke.edu/cran/src/contrib/rappdirs_0.3.1.tar.gz \725   https://archive.linux.duke.edu/cran/src/contrib/r2d3_0.2.3.tar.gz \726   https://archive.linux.duke.edu/cran/src/contrib/forge_0.2.0.tar.gz \727   https://archive.linux.duke.edu/cran/src/contrib/sparklyr_1.0.0.tar.gz728   729RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \730   config_0.3.tar.gz \731   dbplyr_1.3.0.tar.gz \732   rappdirs_0.3.1.tar.gz \733   r2d3_0.2.3.tar.gz \734   forge_0.2.0.tar.gz \735   sparklyr_1.0.0.tar.gz736   737RUN rm \738  config_0.3.tar.gz \739  dbplyr_1.3.0.tar.gz \740  rappdirs_0.3.1.tar.gz \741  r2d3_0.2.3.tar.gz \742  forge_0.2.0.tar.gz \743  sparklyr_1.0.0.tar.gz744 745 746# some more TeX so that papaja can be installed and students can create APA templates in Rmarkdown747RUN apt-get update 748RUN DEBIAN_FRONTEND=noninteractive apt-get  install -y \749   texlive \750   texlive-publishers \751   texlive-fonts-extra \752   texlive-latex-extra \753   texlive-humanities \754   lmodern 755# papaja756RUN R CMD BATCH /r-studio/install-papaja.R757RUN rm /install-papaja.Rout758 759# install templates and examples from Reed and the Tufte package760RUN DEBIAN_FRONTEND=noninteractive wget \761   https://archive.linux.duke.edu/cran/src/contrib/BHH2_2016.05.31.tar.gz762   763RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \764   BHH2_2016.05.31.tar.gz765   766RUN rm \767  BHH2_2016.05.31.tar.gz768  769RUN R CMD BATCH /r-studio/install-reed.R770RUN rm /install-reed.Rout 771 772 773# a couple dependencies for Eric Greene's tidycensus774RUN apt-get update 775RUN DEBIAN_FRONTEND=noninteractive apt-get  install -y \776libproj-dev \777libudunits2-0 \778libudunits2-dev \779software-properties-common780 781# we need gdal > 2782RUN  add-apt-repository -y ppa:ubuntugis/ubuntugis-unstable783RUN  apt-get update 784RUN DEBIAN_FRONTEND=noninteractive apt-get  install -y \785    gdal-bin \786    python-gdal \787    libgdal-dev788 789 790RUN DEBIAN_FRONTEND=noninteractive wget \791   https://archive.linux.duke.edu/cran/src/contrib/rgdal_1.4-3.tar.gz \792   https://cran.r-project.org/src/contrib/Archive/rgeos/rgeos_0.3-28.tar.gz \793   https://archive.linux.duke.edu/cran/src/contrib/uuid_0.1-2.tar.gz794 795 796RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \797   rgdal_1.4-3.tar.gz \798   rgeos_0.3-28.tar.gz \799   uuid_0.1-2.tar.gz 800 801RUN rm \802   rgdal_1.4-3.tar.gz \803   rgeos_0.3-28.tar.gz \804   uuid_0.1-2.tar.gz805 806RUN R CMD BATCH /r-studio/install-rappdirs.R807RUN rm /install-rappdirs.Rout 808 809RUN DEBIAN_FRONTEND=noninteractive wget \810    https://archive.linux.duke.edu/cran/src/contrib/tigris_0.7.tar.gz \811    https://archive.linux.duke.edu/cran/src/contrib/tidycensus_0.9.tar.gz812 813RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \814    tigris_0.7.tar.gz \815    tidycensus_0.9.tar.gz 816 817RUN rm \818    tigris_0.7.tar.gz  \819    tidycensus_0.9.tar.gz 820 821# new packages for fall 2018822RUN DEBIAN_FRONTEND=noninteractive wget \823    https://archive.linux.duke.edu/cran/src/contrib/tidyverse_1.2.1.tar.gz \824    https://archive.linux.duke.edu/cran/src/contrib/promises_1.0.1.tar.gz \825    https://archive.linux.duke.edu/cran/src/contrib/future_1.12.0.tar.gz \826    https://archive.linux.duke.edu/cran/src/contrib/doMC_1.3.5.tar.gz \827    https://archive.linux.duke.edu/cran/src/contrib/foreach_1.4.4.tar.gz \828    https://archive.linux.duke.edu/cran/src/contrib/doParallel_1.0.14.tar.gz \829    https://archive.linux.duke.edu/cran/src/contrib/furrr_0.1.0.tar.gz \830    https://archive.linux.duke.edu/cran/src/contrib/drat_0.1.4.tar.gz \831    https://archive.linux.duke.edu/cran/src/contrib/tidygraph_1.1.2.tar.gz \832    https://archive.linux.duke.edu/cran/src/contrib/here_0.1.tar.gz \833    https://archive.linux.duke.edu/cran/src/contrib/rticles_0.7.tar.gz \834    https://archive.linux.duke.edu/cran/src/contrib/styler_1.1.0.tar.gz \835    https://archive.linux.duke.edu/cran/src/contrib/lintr_1.0.3.tar.gz \836    https://archive.linux.duke.edu/cran/src/contrib/testthat_2.0.1.tar.gz \837    https://archive.linux.duke.edu/cran/src/contrib/reprex_0.2.1.tar.gz \838    https://archive.linux.duke.edu/cran/src/contrib/microbenchmark_1.4-6.tar.gz \839    https://archive.linux.duke.edu/cran/src/contrib/modelr_0.1.4.tar.gz \840    https://archive.linux.duke.edu/cran/src/contrib/globals_0.12.4.tar.gz \841    https://archive.linux.duke.edu/cran/src/contrib/listenv_0.7.0.tar.gz \842    https://archive.linux.duke.edu/cran/src/contrib/iterators_1.0.10.tar.gz \843    https://archive.linux.duke.edu/cran/src/contrib/enc_0.2.0.tar.gz \844    https://archive.linux.duke.edu/cran/src/contrib/rematch2_2.0.1.tar.gz \845    https://archive.linux.duke.edu/cran/src/contrib/rex_1.1.2.tar.gz \846    https://archive.linux.duke.edu/cran/src/contrib/stringdist_0.9.5.1.tar.gz \847    https://archive.linux.duke.edu/cran/src/contrib/praise_1.0.0.tar.gz \848    https://archive.linux.duke.edu/cran/src/contrib/profmem_0.5.0.tar.gz \849    https://archive.linux.duke.edu/cran/src/contrib/bench_1.0.1.tar.gz 850 851RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \852    modelr_0.1.4.tar.gz \853    prex_0.2.0.tar.gz \854    reprex_0.2.1.tar.gz \855    tidyverse_1.2.1.tar.gz \856    promises_1.0.1.tar.gz \857    globals_0.12.4.tar.gz \858    listenv_0.7.0.tar.gz \859    future_1.12.0.tar.gz \860    iterators_1.0.10.tar.gz \861    foreach_1.4.4.tar.gz \862    doMC_1.3.5.tar.gz \863    doParallel_1.0.14.tar.gz \864    furrr_0.1.0.tar.gz \865    drat_0.1.4.tar.gz \866    tidygraph_1.1.2.tar.gz \867    here_0.1.tar.gz \868    rticles_0.7.tar.gz \869    enc_0.2.0.tar.gz \870    rematch2_2.0.1.tar.gz \871    styler_1.1.0.tar.gz \872    rex_1.1.2.tar.gz \873    stringdist_0.9.5.1.tar.gz \874    praise_1.0.0.tar.gz \875    testthat_2.0.1.tar.gz \876    lintr_1.0.3.tar.gz \877    profmem_0.5.0.tar.gz \878    microbenchmark_1.4-6.tar.gz \879    bench_1.0.1.tar.gz 880 881RUN rm \882    modelr_0.1.4.tar.gz \883    profmem_0.5.0.tar.gz \884    praise_1.0.0.tar.gz \885    rex_1.1.2.tar.gz \886    stringdist_0.9.5.1.tar.gz \887    enc_0.2.0.tar.gz \888    rematch2_2.0.1.tar.gz \889    globals_0.12.4.tar.gz \890    iterators_1.0.10.tar.gz \891    listenv_0.7.0.tar.gz \892    tidyverse_1.2.1.tar.gz \893    promises_1.0.1.tar.gz \894    future_1.12.0.tar.gz \895    doMC_1.3.5.tar.gz \896    foreach_1.4.4.tar.gz \897    doParallel_1.0.14.tar.gz \898    furrr_0.1.0.tar.gz \899    drat_0.1.4.tar.gz \900    tidygraph_1.1.2.tar.gz \901    here_0.1.tar.gz \902    rticles_0.7.tar.gz \903    styler_1.1.0.tar.gz \904    lintr_1.0.3.tar.gz \905    testthat_2.0.1.tar.gz \906    reprex_0.2.1.tar.gz \907    microbenchmark_1.4-6.tar.gz \908    bench_1.0.1.tar.gz 909 910 911RUN DEBIAN_FRONTEND=noninteractive wget \912    https://archive.linux.duke.edu/cran/src/contrib/pryr_0.1.4.tar.gz \913    https://archive.linux.duke.edu/cran/src/contrib/profvis_0.3.5.tar.gz \914    https://archive.linux.duke.edu/cran/src/contrib/RcppArmadillo_0.9.200.7.1.tar.gz \915    https://archive.linux.duke.edu/cran/src/contrib/servr_0.13.tar.gz \916    https://archive.linux.duke.edu/cran/src/contrib/xaringan_0.9.tar.gz \917    https://archive.linux.duke.edu/cran/src/contrib/rsconnect_0.8.13.tar.gz \918    https://archive.linux.duke.edu/cran/src/contrib/PKI_0.1-5.1.tar.gz \919    https://archive.linux.duke.edu/cran/src/contrib/RJSONIO_1.3-1.1.tar.gz \920    https://archive.linux.duke.edu/cran/src/contrib/packrat_0.5.0.tar.gz \921    https://archive.linux.duke.edu/cran/src/contrib/highlight_0.4.7.2.tar.gz \922    https://archive.linux.duke.edu/cran/src/contrib/pkgdown_1.3.0.tar.gz \923    https://archive.linux.duke.edu/cran/src/contrib/bookdown_0.9.tar.gz \924    https://archive.linux.duke.edu/cran/src/contrib/blogdown_0.11.tar.gz \925    https://archive.linux.duke.edu/cran/src/contrib/cowplot_0.9.4.tar.gz \926    https://archive.linux.duke.edu/cran/src/contrib/influenceR_0.1.0.tar.gz \927    https://archive.linux.duke.edu/cran/src/contrib/Rook_1.1-1.tar.gz \928    https://archive.linux.duke.edu/cran/src/contrib/rgexf_0.15.3.tar.gz \929    https://archive.linux.duke.edu/cran/src/contrib/visNetwork_2.0.5.tar.gz \930    https://archive.linux.duke.edu/cran/src/contrib/DiagrammeR_1.0.0.tar.gz \931    https://archive.linux.duke.edu/cran/src/contrib/farver_1.1.0.tar.gz \932    https://archive.linux.duke.edu/cran/src/contrib/tweenr_1.0.1.tar.gz \933    https://archive.linux.duke.edu/cran/src/contrib/polyclip_1.10-0.tar.gz \934    https://archive.linux.duke.edu/cran/src/contrib/ggforce_0.2.1.tar.gz \935    https://archive.linux.duke.edu/cran/src/contrib/RgoogleMaps_1.4.3.tar.gz \936    https://archive.linux.duke.edu/cran/src/contrib/rjson_0.2.20.tar.gz \937    https://archive.linux.duke.edu/cran/src/contrib/mapproj_1.2.6.tar.gz \938    https://archive.linux.duke.edu/cran/src/contrib/jpeg_0.1-8.tar.gz \939    https://archive.linux.duke.edu/cran/src/contrib/geosphere_1.5-7.tar.gz \940    https://archive.linux.duke.edu/cran/src/contrib/ggmap_3.0.0.tar.gz \941    https://archive.linux.duke.edu/cran/src/contrib/ggraph_1.0.2.tar.gz \942    https://archive.linux.duke.edu/cran/src/contrib/shiny_1.2.0.tar.gz \943    https://archive.linux.duke.edu/cran/src/contrib/shinyjs_1.0.tar.gz \944    https://archive.linux.duke.edu/cran/src/contrib/flexdashboard_0.5.1.1.tar.gz 945 946RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \947    pryr_0.1.4.tar.gz \948    profvis_0.3.5.tar.gz \949    RcppArmadillo_0.9.200.7.1.tar.gz \950    servr_0.13.tar.gz \951    xaringan_0.9.tar.gz \952    PKI_0.1-5.1.tar.gz \953    RJSONIO_1.3-1.1.tar.gz \954    packrat_0.5.0.tar.gz \955    rsconnect_0.8.13.tar.gz \956    highlight_0.4.7.2.tar.gz \957    pkgdown_1.3.0.tar.gz \958    bookdown_0.9.tar.gz \959    blogdown_0.11.tar.gz \960    cowplot_0.9.4.tar.gz \961    influenceR_0.1.0.tar.gz \962    Rook_1.1-1.tar.gz \963    rgexf_0.15.3.tar.gz \964    visNetwork_2.0.5.tar.gz \965    DiagrammeR_1.0.0.tar.gz \966    farver_1.1.0.tar.gz \967    tweenr_1.0.1.tar.gz \968    polyclip_1.10-0.tar.gz \969    ggforce_0.2.1.tar.gz \970    jpeg_0.1-8.tar.gz \971    RgoogleMaps_1.4.3.tar.gz \972    rjson_0.2.20.tar.gz \973    mapproj_1.2.6.tar.gz \974    geosphere_1.5-7.tar.gz \975    ggmap_3.0.0.tar.gz \976    ggraph_1.0.2.tar.gz \977    shiny_1.2.0.tar.gz \978    shinyjs_1.0.tar.gz \979    flexdashboard_0.5.1.1.tar.gz 980 981RUN rm \982    pryr_0.1.4.tar.gz \983    profvis_0.3.5.tar.gz \984    RcppArmadillo_0.9.200.7.1.tar.gz \985    servr_0.13.tar.gz \986    xaringan_0.9.tar.gz \987    PKI_0.1-5.1.tar.gz \988    RJSONIO_1.3-1.1.tar.gz \989    packrat_0.5.0.tar.gz \990    rsconnect","# mccahill/r-studio991#992# VERSION 1.4993 994FROM ubuntu:18.04995MAINTAINER Mark McCahill ""mark.mccahill@duke.edu""996 997RUN apt-get  update ; \998    apt-get  install gnupg2 -y999 1000# get R from a CRAN archive (we want the 3.5 version of R)1001RUN echo  ""deb http://cran.rstudio.com/bin/linux/ubuntu bionic-cran35/""  >>  /etc/apt/sources.list1002RUN DEBIAN_FRONTEND=noninteractive apt-key adv  --keyserver keyserver.ubuntu.com --recv-keys  E084DAB91003 1004RUN apt-get  update ; \1005    apt-get  dist-upgrade -y 1006 1007# we want OpenBLAS for faster linear algebra as described here: http://brettklamer.com/diversions/statistical/faster-blas-in-r/1008RUN apt-get install  -y \1009   apt-utils \1010   libopenblas-base1011 1012RUN apt-get update ; \1013   DEBIAN_FRONTEND=noninteractive apt-get  install -y  \1014   r-base \1015   r-base-dev \1016   vim \1017   less \1018   net-tools \1019   inetutils-ping \1020   curl \1021   git \1022   telnet \1023   nmap \1024   socat \1025   software-properties-common \1026   wget \1027   sudo 1028 1029RUN apt-get update ; \1030   DEBIAN_FRONTEND=noninteractive apt-get  install -y \1031   libcurl4-gnutls-dev \1032   libgit2-dev \1033   libxml2-dev \1034   libssl-dev \1035   libudunits2-dev \1036   libpoppler-cpp-dev1037 1038 1039# we need TeX for the rmarkdown package in RStudio, and pandoc is also useful 1040RUN apt-get update 1041RUN DEBIAN_FRONTEND=noninteractive apt-get  install -y \1042   texlive \ 1043   texlive-base \ 1044   texlive-latex-extra \ 1045   texlive-pstricks \ 1046   pandoc1047 1048# R-Studio1049RUN DEBIAN_FRONTEND=noninteractive apt-get  install -y \1050   gdebi-core \1051   libapparmor11052   1053# RUN DEBIAN_FRONTEND=noninteractive wget https://download2.rstudio.org/rstudio-server-1.1.383-amd64.deb1054RUN DEBIAN_FRONTEND=noninteractive wget https://s3.amazonaws.com/rstudio-ide-build/server/trusty/amd64/rstudio-server-1.2.907-amd64.deb1055RUN DEBIAN_FRONTEND=noninteractive gdebi --n rstudio-server-1.2.907-amd64.deb1056RUN rm rstudio-server-1.2.907-amd64.deb1057 1058# update the R packages we will need for knitr1059RUN DEBIAN_FRONTEND=noninteractive wget \1060   https://archive.linux.duke.edu/cran/src/contrib/xfun_0.5.tar.gz \1061   https://archive.linux.duke.edu/cran/src/contrib/knitr_1.22.tar.gz \1062   https://archive.linux.duke.edu/cran/src/contrib/yaml_2.2.0.tar.gz \1063   https://archive.linux.duke.edu/cran/src/contrib/Rcpp_1.0.1.tar.gz \1064   https://archive.linux.duke.edu/cran/src/contrib/htmltools_0.3.6.tar.gz \1065   https://archive.linux.duke.edu/cran/src/contrib/caTools_1.17.1.2.tar.gz \1066   https://archive.linux.duke.edu/cran/src/contrib/bitops_1.0-6.tar.gz \1067   https://archive.linux.duke.edu/cran/src/contrib/digest_0.6.18.tar.gz \1068   https://archive.linux.duke.edu/cran/src/contrib/glue_1.3.1.tar.gz \1069   https://archive.linux.duke.edu/cran/src/contrib/stringr_1.4.0.tar.gz \1070   https://archive.linux.duke.edu/cran/src/contrib/markdown_0.9.tar.gz \1071   https://archive.linux.duke.edu/cran/src/contrib/highr_0.8.tar.gz \1072   https://archive.linux.duke.edu/cran/src/contrib/formatR_1.6.tar.gz \1073   https://archive.linux.duke.edu/cran/src/contrib/evaluate_0.13.tar.gz \1074   https://archive.linux.duke.edu/cran/src/contrib/mime_0.6.tar.gz \1075   https://archive.linux.duke.edu/cran/src/contrib/stringi_1.4.3.tar.gz \1076   https://archive.linux.duke.edu/cran/src/contrib/magrittr_1.5.tar.gz1077 1078 1079RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \1080   bitops_1.0-6.tar.gz \1081   caTools_1.17.1.2.tar.gz \1082   digest_0.6.18.tar.gz \1083   Rcpp_1.0.1.tar.gz \1084   htmltools_0.3.6.tar.gz \1085   yaml_2.2.0.tar.gz \1086   stringi_1.4.3.tar.gz \1087   magrittr_1.5.tar.gz \1088   mime_0.6.tar.gz \1089   glue_1.3.1.tar.gz \1090   stringr_1.4.0.tar.gz \1091   highr_0.8.tar.gz \1092   formatR_1.6.tar.gz \1093   evaluate_0.13.tar.gz \1094   markdown_0.9.tar.gz \1095   xfun_0.5.tar.gz \1096   knitr_1.22.tar.gz1097 1098 1099RUN rm \1100   evaluate_0.13.tar.gz \1101   formatR_1.6.tar.gz \1102   highr_0.8.tar.gz \1103   markdown_0.9.tar.gz \1104   stringi_1.4.3.tar.gz \1105   magrittr_1.5.tar.gz \1106   glue_1.3.1.tar.gz \1107   stringr_1.4.0.tar.gz \1108   xfun_0.5.tar.gz \1109   knitr_1.22.tar.gz \1110   yaml_2.2.0.tar.gz \1111   Rcpp_1.0.1.tar.gz \1112   htmltools_0.3.6.tar.gz \1113   caTools_1.17.1.2.tar.gz \1114   bitops_1.0-6.tar.gz \1115   digest_0.6.18.tar.gz \1116   mime_0.6.tar.gz1117 1118# dependency for R XML library1119RUN apt-get update 1120RUN DEBIAN_FRONTEND=noninteractive apt-get install -y \1121   libxml2 \ 1122   libxml2-dev \1123   libssl-dev1124 1125 1126# R packages we need for devtools - and we need devtools to be able to update the rmarkdown package1127RUN DEBIAN_FRONTEND=noninteractive wget \1128   https://archive.linux.duke.edu/cran/src/contrib/processx_3.3.0.tar.gz \1129   https://archive.linux.duke.edu/cran/src/contrib/ps_1.3.0.tar.gz \1130   https://archive.linux.duke.edu/cran/src/contrib/callr_3.2.0.tar.gz \1131   https://archive.linux.duke.edu/cran/src/contrib/crayon_1.3.4.tar.gz \1132   https://archive.linux.duke.edu/cran/src/contrib/assertthat_0.2.1.tar.gz \1133   https://archive.linux.duke.edu/cran/src/contrib/cli_1.1.0.tar.gz \1134   https://archive.linux.duke.edu/cran/src/contrib/desc_1.2.0.tar.gz \1135   https://archive.linux.duke.edu/cran/src/contrib/prettyunits_1.0.2.tar.gz \1136   https://archive.linux.duke.edu/cran/src/contrib/backports_1.1.3.tar.gz \1137   https://archive.linux.duke.edu/cran/src/contrib/rprojroot_1.3-2.tar.gz \1138   https://archive.linux.duke.edu/cran/src/contrib/withr_2.1.2.tar.gz \1139   https://archive.linux.duke.edu/cran/src/contrib/pkgbuild_1.0.3.tar.gz \1140   https://archive.linux.duke.edu/cran/src/contrib/rlang_0.3.3.tar.gz \1141   https://archive.linux.duke.edu/cran/src/contrib/rstudioapi_0.10.tar.gz \1142   https://archive.linux.duke.edu/cran/src/contrib/pkgload_1.0.2.tar.gz \1143   https://archive.linux.duke.edu/cran/src/contrib/rcmdcheck_1.3.2.tar.gz \1144   https://archive.linux.duke.edu/cran/src/contrib/remotes_2.0.2.tar.gz \1145   https://archive.linux.duke.edu/cran/src/contrib/xopen_1.0.0.tar.gz \1146   https://archive.linux.duke.edu/cran/src/contrib/clipr_0.5.0.tar.gz \1147   https://archive.linux.duke.edu/cran/src/contrib/clisymbols_1.2.0.tar.gz \1148   https://archive.linux.duke.edu/cran/src/contrib/sessioninfo_1.1.1.tar.gz \1149   https://archive.linux.duke.edu/cran/src/contrib/usethis_1.4.0.tar.gz \1150   https://archive.linux.duke.edu/cran/src/contrib/sys_3.1.tar.gz \1151   https://archive.linux.duke.edu/cran/src/contrib/askpass_1.1.tar.gz \1152   https://archive.linux.duke.edu/cran/src/contrib/openssl_1.3.tar.gz \1153   https://archive.linux.duke.edu/cran/src/contrib/brew_1.0-6.tar.gz \1154   https://archive.linux.duke.edu/cran/src/contrib/Archive/roxygen2/roxygen2_5.0.1.tar.gz \1155   https://archive.linux.duke.edu/cran/src/contrib/fs_1.2.7.tar.gz \1156   https://archive.linux.duke.edu/cran/src/contrib/gh_1.0.1.tar.gz \1157   https://archive.linux.duke.edu/cran/src/contrib/rversions_1.0.3.tar.gz \1158   https://archive.linux.duke.edu/cran/src/contrib/git2r_0.25.2.tar.gz \1159   https://archive.linux.duke.edu/cran/src/contrib/devtools_2.0.1.tar.gz \1160   https://archive.linux.duke.edu/cran/src/contrib/R6_2.4.0.tar.gz \1161   https://archive.linux.duke.edu/cran/src/contrib/httr_1.4.0.tar.gz \1162   https://archive.linux.duke.edu/cran/src/contrib/RCurl_1.95-4.12.tar.gz \1163   https://archive.linux.duke.edu/cran/src/contrib/BH_1.69.0-1.tar.gz \1164   https://archive.linux.duke.edu/cran/src/contrib/xml2_1.2.0.tar.gz \1165   https://archive.linux.duke.edu/cran/src/contrib/curl_3.3.tar.gz \1166   https://archive.linux.duke.edu/cran/src/contrib/jsonlite_1.6.tar.gz \1167   https://archive.linux.duke.edu/cran/src/contrib/ini_0.3.1.tar.gz \1168   https://archive.linux.duke.edu/cran/src/contrib/downloader_0.4.tar.gz \1169   https://archive.linux.duke.edu/cran/src/contrib/memoise_1.1.0.tar.gz \1170   https://archive.linux.duke.edu/cran/src/contrib/plyr_1.8.4.tar.gz \1171   https://archive.linux.duke.edu/cran/src/contrib/XML_3.98-1.19.tar.gz \1172   https://archive.linux.duke.edu/cran/src/contrib/whisker_0.3-2.tar.gz \1173   https://archive.linux.duke.edu/cran/src/contrib/bitops_1.0-6.tar.gz1174 1175RUN DEBIAN_FRONTEND=noninteractive R CMD INSTALL \1176   ps_1.3.0.tar.gz \1177   R6_2.4.0.tar.gz \1178   processx_3.3.0.tar.gz \1179   callr_3.2.0.tar.gz \1180   crayon_1.3.4.tar.gz \1181   assertthat_0.2.1.tar.gz \1182   cli_1.1.0.tar.gz \1183   backports_1.1.3.tar.gz \1184   rprojroot_1.3-2.tar.gz \1185   desc_1.2.0.tar.gz \1186   prettyunits_1.0.2.tar.gz \1187   withr_2.1.2.tar.gz \1188   pkgbuild_1.0.3.tar.gz \1189   rlang_0.3.3.tar.gz \1190   rstudioapi_0.10.tar.gz \1191   pkgload_1.0.2.tar.gz \1192   xopen_1.0.0.tar.gz \1193   sessioninfo_1.1.1.tar.gz \1194   rcmdcheck_1.3.2.tar.gz \1195   remotes_2.0.2.tar.gz \   1196   whisker_0.3-2.tar.gz \1197   git2r_0.25.2.tar.gz \1198   fs_1.2.7.tar.gz \1199   ini_0.3.1.tar.gz \1200   jsonlite_1.6.tar.gz \
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