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Commit 0e6a4ae9 authored by Alisandra Denton's avatar Alisandra Denton
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fixing zim-gast and rstudiotest to rstudio fixes

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...@@ -94,7 +94,7 @@ run: ...@@ -94,7 +94,7 @@ run:
\begin{lstlisting} \begin{lstlisting}
docker run -it --name rnalive -p 8889:8889 --mount \ docker run -it --name rnalive -p 8889:8889 --mount \
type=bind,source="$(pwd)"/rnaseq-workshop,target=/home/ZIM-gast/rnaseq-workshop \ type=bind,source="$(pwd)"/rnaseq-workshop,target=/home/zim-gast/rnaseq-workshop \
rnaseq:latest rnaseq:latest
\end{lstlisting} \end{lstlisting}
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...@@ -397,8 +397,8 @@ this. ...@@ -397,8 +397,8 @@ this.
\begin{lstlisting} \begin{lstlisting}
docker image load -i </path/to/>rstudio_docker.tar docker image load -i </path/to/>rstudio_docker.tar
docker run --rm -p 8787:8787 -e PASSWORD=rstudio --mount \ docker run --rm -p 8787:8787 -e PASSWORD=rstudio --mount \
type=bind,source=${PWD}/rnaseq-workshop,target=/home/ZIM-gast/rnaseq-workshop \ type=bind,source=${PWD}/rnaseq-workshop,target=/home/zim-gast/rnaseq-workshop \
rstudiotest rstudio
\end{lstlisting} \end{lstlisting}
\begin{itemize} \begin{itemize}
\item on the \emph{host} machine go to the browser and enter 'localhost:8787' \item on the \emph{host} machine go to the browser and enter 'localhost:8787'
...@@ -418,7 +418,7 @@ Within Rstudio, the first thing we'll want to do is navigate to the ...@@ -418,7 +418,7 @@ Within Rstudio, the first thing we'll want to do is navigate to the
usual directory. usual directory.
\begin{lstlisting} \begin{lstlisting}
setwd('/home/ZIM-gast/rnaseq-workshop/') setwd('/home/zim-gast/rnaseq-workshop/')
\end{lstlisting} \end{lstlisting}
\subsubsection{basics in R and Rstudio} \subsubsection{basics in R and Rstudio}
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...@@ -16,7 +16,7 @@ It is in no-way a good practice example. ...@@ -16,7 +16,7 @@ It is in no-way a good practice example.
Do this from the parent directory of the 'rnaseq-workshop' repository, so that the mounted folder contains the repository Do this from the parent directory of the 'rnaseq-workshop' repository, so that the mounted folder contains the repository
`sudo docker run -it --name rnalive --rm --mount type=bind,source="$(pwd)"/rnaseq-workshop,target=/home/ZIM-gast/rnaseq-workshop rnaseq:latest` `sudo docker run -it --name rnalive --rm --mount type=bind,source="$(pwd)"/rnaseq-workshop,target=/home/zim-gast/rnaseq-workshop rnaseq:latest`
> Note difference to user instructions with `--rm`, so you don't end up with > Note difference to user instructions with `--rm`, so you don't end up with
> tons of copies of the same container, nor naming conflicts. > tons of copies of the same container, nor naming conflicts.
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