Commit 725dd0a6 authored by Amine  GHOZLANE's avatar Amine GHOZLANE

Add stringr library

parent c8549fe3
Pipeline #48783 canceled with stage
in 17 minutes and 6 seconds
FROM ubuntu:18.04
ARG SOURCE_VERSION=202009
ARG SOURCE_VERSION=202102
MAINTAINER Amine Ghozlane "amine.ghozlane@pasteur.fr"
RUN apt-get update && apt-get install -y \
......
......@@ -51,7 +51,7 @@ docker pull aghozlane/shaman
SHAMAN is available for R=3.6.1. Packrat framework allows an easy installation of all the dependencies. Of note, raw data submission is not possible with this version.
```
# Download packrat package
wget ftp://shiny01.hosting.pasteur.fr/pub/shaman_package_202009.tar.gz
wget ftp://shiny01.hosting.pasteur.fr/pub/shaman_package_202102.tar.gz
mkdir packrat/
```
Now you can run R:
......@@ -120,8 +120,8 @@ If you have any comments, questions or suggestions, or need help to use SHAMAN,
## Acknowledgements
The main contributors to SHAMAN:
Amine Ghozlane (Maintainer, coding, testing, documentation, evaluation, packaging),
Stevenn Volant (Initiator, coding, testing, documentation, evaluation),
Amine Ghozlane (Coding, testing, documentation, evaluation, packaging),
Perrine Woringer (Coding, testing, documentation, feature suggestions),
Pierre Lechat (Coding, testing, feature suggestions)
......
......@@ -71,6 +71,7 @@ requirements:
- r-devtools
- r-shinytoastr
- r-shinydashboardshaman
- r-stringr
- lockfile
- python-daemon
- bioblend
......
......@@ -228,13 +228,13 @@ function(request) {
tabPanel("R install with Packrat (linux only)",
p("SHAMAN is available for R=3.6.1. Packrat framework allows an easy installation of all the dependencies. Of note, raw data submission is not possible with this version.",style = "font-family: 'times'; font-si16pt"),
mainPanel(div(style = 'max-width: 900px; word-wrap: break-word;',
"# Download packrat package",br(),"wget ftp://shiny01.hosting.pasteur.fr/pub/shaman_package_202009.tar.gz", br(),
"# Download packrat package",br(),"wget ftp://shiny01.hosting.pasteur.fr/pub/shaman_package_202102.tar.gz", br(),
"mkdir packrat/"), width=9,class="mainwell"),
p("Now you can run R:"),
mainPanel(div(style = 'max-width: 900px; word-wrap: break-word;',
"install.packages(\"devtools\")",br(),
"devtools::install_github(\"rstudio/packrat\")",br(),
"packrat::unbundle(\"shaman_package_202009.tar.gz\", \"packrat/\")", br(),
"packrat::unbundle(\"shaman_package_202102.tar.gz\", \"packrat/\")", br(),
"packrat::init(\"packrat/shaman\")",br(),
"system(\"Rscript -e 'shiny::runGitHub(\\\"pierreLec/KronaRShy\\\",port=5438)'\",wait=FALSE)",
br(),"shiny::runGitHub('aghozlane/shaman')"),width=9,class="mainwell")),
......
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