Mercurial > repos > dlalgroup > pmids_to_pubtator_matrix

annotate Dockerfile @ 1:f55a02423699 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 04:28:18 +0000
parents 3f4adc85ba5d
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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1 FROM rocker/r-ubuntu:20.04
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2 WORKDIR /simtext
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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3 COPY . .
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4
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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5 RUN apt-get update -qq && apt-get -y upgrade && apt-get -y --no-install-recommends install \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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6 libssl-dev \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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7 file \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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8 zlib1g-dev \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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9 libcurl4-openssl-dev \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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10 libxml2-dev \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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11 libjpeg-dev \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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12 && Rscript -e 'if (!require("shiny")) install.packages("shiny", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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13 && Rscript -e 'if (!require("plotly")) install.packages("plotly", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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14 && Rscript -e 'if (!require("DT")) install.packages("DT", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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15 && Rscript -e 'if (!require("shinycssloaders")) install.packages("shinycssloaders", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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16 && Rscript -e 'if (!require("shinythemes")) install.packages("shinythemes", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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17 && Rscript -e 'if (!require("tableHTML")) install.packages("tableHTML", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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18 && Rscript -e 'if (!require("argparse")) install.packages("argparse", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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19 && Rscript -e 'if (!require("PubMedWordcloud")) install.packages("PubMedWordcloud", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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20 && Rscript -e 'if (!require("ggplot2")) install.packages("ggplot2", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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21 && Rscript -e 'if (!require("stringr")) install.packages("stringr", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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22 && Rscript -e 'if (!require("tidyr")) install.packages("tidyr", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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23 && Rscript -e 'if (!require("magrittr")) install.packages("magrittr", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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24 && Rscript -e 'if (!require("plyr")) install.packages("plyr", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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25 && Rscript -e 'if (!require("ggpubr")) install.packages("ggpubr", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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26 && Rscript -e 'if (!require("rafalib")) install.packages("rafalib", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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27 && Rscript -e 'if (!require("RColorBrewer")) install.packages("RColorBrewer", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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28 && Rscript -e 'if (!require("dendextend")) install.packages("dendextend", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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29 && Rscript -e 'if (!require("Rtsne")) install.packages("Rtsne", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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30 && Rscript -e 'if (!require("umap")) install.packages("umap", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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31 && Rscript -e 'if (!require("reutils")) install.packages("reutils", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
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32 && Rscript -e 'if (!require("textclean")) install.packages("textclean", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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33 && Rscript -e 'if (!require("easyPubMed")) install.packages("easyPubMed", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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34 && Rscript -e 'if (!require("RCurl")) install.packages("RCurl", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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35 && Rscript -e 'if (!require("SnowballC")) install.packages("SnowballC", repos="https://cloud.r-project.org");' \
3f4adc85ba5d "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
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36 && Rscript -e 'if (!require("SemNetCleaner")) install.packages("SemNetCleaner", repos="https://cloud.r-project.org");'
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37
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38 ENV PATH "/simtext/:${PATH}"