Mercurial > repos > dlalgroup > pmids_to_pubtator_matrix

comparison Dockerfile @ 0:3f4adc85ba5d draft

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"planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
author dlalgroup
date Thu, 24 Sep 2020 02:01:50 +0000
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-1:000000000000 0:3f4adc85ba5d
1 FROM rocker/r-ubuntu:20.04
2 WORKDIR /simtext
3 COPY . .
4
5 RUN apt-get update -qq && apt-get -y upgrade && apt-get -y --no-install-recommends install \
6 libssl-dev \
7 file \
8 zlib1g-dev \
9 libcurl4-openssl-dev \
10 libxml2-dev \
11 libjpeg-dev \
12 && Rscript -e 'if (!require("shiny")) install.packages("shiny", repos="https://cloud.r-project.org");' \
13 && Rscript -e 'if (!require("plotly")) install.packages("plotly", repos="https://cloud.r-project.org");' \
14 && Rscript -e 'if (!require("DT")) install.packages("DT", repos="https://cloud.r-project.org");' \
15 && Rscript -e 'if (!require("shinycssloaders")) install.packages("shinycssloaders", repos="https://cloud.r-project.org");' \
16 && Rscript -e 'if (!require("shinythemes")) install.packages("shinythemes", repos="https://cloud.r-project.org");' \
17 && Rscript -e 'if (!require("tableHTML")) install.packages("tableHTML", repos="https://cloud.r-project.org");' \
18 && Rscript -e 'if (!require("argparse")) install.packages("argparse", repos="https://cloud.r-project.org");' \
19 && Rscript -e 'if (!require("PubMedWordcloud")) install.packages("PubMedWordcloud", repos="https://cloud.r-project.org");' \
20 && Rscript -e 'if (!require("ggplot2")) install.packages("ggplot2", repos="https://cloud.r-project.org");' \
21 && Rscript -e 'if (!require("stringr")) install.packages("stringr", repos="https://cloud.r-project.org");' \
22 && Rscript -e 'if (!require("tidyr")) install.packages("tidyr", repos="https://cloud.r-project.org");' \
23 && Rscript -e 'if (!require("magrittr")) install.packages("magrittr", repos="https://cloud.r-project.org");' \
24 && Rscript -e 'if (!require("plyr")) install.packages("plyr", repos="https://cloud.r-project.org");' \
25 && Rscript -e 'if (!require("ggpubr")) install.packages("ggpubr", repos="https://cloud.r-project.org");' \
26 && Rscript -e 'if (!require("rafalib")) install.packages("rafalib", repos="https://cloud.r-project.org");' \
27 && Rscript -e 'if (!require("RColorBrewer")) install.packages("RColorBrewer", repos="https://cloud.r-project.org");' \
28 && Rscript -e 'if (!require("dendextend")) install.packages("dendextend", repos="https://cloud.r-project.org");' \
29 && Rscript -e 'if (!require("Rtsne")) install.packages("Rtsne", repos="https://cloud.r-project.org");' \
30 && Rscript -e 'if (!require("umap")) install.packages("umap", repos="https://cloud.r-project.org");' \
31 && Rscript -e 'if (!require("reutils")) install.packages("reutils", repos="https://cloud.r-project.org");' \
32 && Rscript -e 'if (!require("textclean")) install.packages("textclean", repos="https://cloud.r-project.org");' \
33 && Rscript -e 'if (!require("easyPubMed")) install.packages("easyPubMed", repos="https://cloud.r-project.org");' \
34 && Rscript -e 'if (!require("RCurl")) install.packages("RCurl", repos="https://cloud.r-project.org");' \
35 && Rscript -e 'if (!require("SnowballC")) install.packages("SnowballC", repos="https://cloud.r-project.org");' \
36 && Rscript -e 'if (!require("SemNetCleaner")) install.packages("SemNetCleaner", repos="https://cloud.r-project.org");'
37
38 ENV PATH "/simtext/:${PATH}"