annotate Dockerfile @ 1:429b1df6b7a9 draft

"planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
author dlalgroup
date Thu, 24 Sep 2020 04:32:14 +0000
parents 34ed44f3f85c
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
1 FROM rocker/r-ubuntu:20.04
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
2 WORKDIR /simtext
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
3 COPY . .
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
4
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
5 RUN apt-get update -qq && apt-get -y upgrade && apt-get -y --no-install-recommends install \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
6 libssl-dev \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
7 file \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
8 zlib1g-dev \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
9 libcurl4-openssl-dev \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
10 libxml2-dev \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
11 libjpeg-dev \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
12 && Rscript -e 'if (!require("shiny")) install.packages("shiny", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
13 && Rscript -e 'if (!require("plotly")) install.packages("plotly", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
14 && Rscript -e 'if (!require("DT")) install.packages("DT", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
15 && Rscript -e 'if (!require("shinycssloaders")) install.packages("shinycssloaders", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
16 && Rscript -e 'if (!require("shinythemes")) install.packages("shinythemes", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
17 && Rscript -e 'if (!require("tableHTML")) install.packages("tableHTML", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
18 && Rscript -e 'if (!require("argparse")) install.packages("argparse", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
19 && Rscript -e 'if (!require("PubMedWordcloud")) install.packages("PubMedWordcloud", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
20 && Rscript -e 'if (!require("ggplot2")) install.packages("ggplot2", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
21 && Rscript -e 'if (!require("stringr")) install.packages("stringr", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
22 && Rscript -e 'if (!require("tidyr")) install.packages("tidyr", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
23 && Rscript -e 'if (!require("magrittr")) install.packages("magrittr", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
24 && Rscript -e 'if (!require("plyr")) install.packages("plyr", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
25 && Rscript -e 'if (!require("ggpubr")) install.packages("ggpubr", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
26 && Rscript -e 'if (!require("rafalib")) install.packages("rafalib", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
27 && Rscript -e 'if (!require("RColorBrewer")) install.packages("RColorBrewer", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
28 && Rscript -e 'if (!require("dendextend")) install.packages("dendextend", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
29 && Rscript -e 'if (!require("Rtsne")) install.packages("Rtsne", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
30 && Rscript -e 'if (!require("umap")) install.packages("umap", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
31 && Rscript -e 'if (!require("reutils")) install.packages("reutils", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
32 && Rscript -e 'if (!require("textclean")) install.packages("textclean", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
33 && Rscript -e 'if (!require("easyPubMed")) install.packages("easyPubMed", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
34 && Rscript -e 'if (!require("RCurl")) install.packages("RCurl", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
35 && Rscript -e 'if (!require("SnowballC")) install.packages("SnowballC", repos="https://cloud.r-project.org");' \
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
36 && Rscript -e 'if (!require("SemNetCleaner")) install.packages("SemNetCleaner", repos="https://cloud.r-project.org");'
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
37
34ed44f3f85c "planemo upload for repository https://github.com/dlal-group/simtext commit fd3f5b7b0506fbc460f2a281f694cb57f1c90a3c-dirty"
dlalgroup
parents:
diff changeset
38 ENV PATH "/simtext/:${PATH}"