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Update Dockerfile and installation instructions #5

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106 changes: 26 additions & 80 deletions Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,70 +1,27 @@
FROM ubuntu:xenial

MAINTAINER Sebastian Gutsche <[email protected]>
MAINTAINER The OSCAR team <[email protected]>

RUN apt-get update -qq \
&& apt-get install -y \
4ti2 \
ant \
ant-optional \
autoconf \
autogen \
bliss \
build-essential \
bzip2 \
clang \
cmake \
curl \
debhelper \
default-jdk \
gfortran \
git \
graphviz \
language-pack-el-base \
language-pack-en \
libbliss-dev \
libboost-dev \
libboost-python-dev \
libcdd-dev \
libcdd0d \
libdatetime-perl \
libflint-dev \
libglpk-dev \
libcurl4-gnutls-dev \
libczmq-dev \
libgmp-dev \
libgmp10 \
libgmpxx4ldbl \
libjson-perl \
libmpfr-dev \
libncurses5-dev \
libnormaliz-dev \
libntl-dev \
libperl-dev \
libppl-dev \
libreadline6-dev \
libsvn-perl \
libterm-readkey-perl \
libterm-readline-gnu-perl \
libtool \
libxml-libxml-perl \
libxml-libxslt-perl \
libxml-perl \
libxml-writer-perl \
libxml2-dev \
libxslt-dev \
libzmq3-dev \
m4 \
make \
nano \
ninja-build \
patch \
pkg-config \
python-dev \
python3-dev \
python3-pip \
sudo \
unzip \
vim \
wget \
xsltproc \
zlib1g-dev

RUN adduser --quiet --shell /bin/bash --gecos "OSCAR user,101,," --disabled-password oscar \
Expand All @@ -85,46 +42,35 @@ RUN mkdir .jupyter \

### Install Julia

ENV JULIA_VERSION julia-1.1.0
ENV JULIA_VERSION julia-1.3.1

RUN wget https://julialang-s3.julialang.org/bin/linux/x64/1.1/${JULIA_VERSION}-linux-x86_64.tar.gz \
RUN wget https://julialang-s3.julialang.org/bin/linux/x64/1.3/${JULIA_VERSION}-linux-x86_64.tar.gz \
&& tar xf ${JULIA_VERSION}-linux-x86_64.tar.gz \
&& rm ${JULIA_VERSION}-linux-x86_64.tar.gz \
&& sudo ln -snf /home/oscar/${JULIA_VERSION}/bin/julia /usr/local/bin/julia

### Install GAP & related

RUN wget -q https://github.com/gap-system/gap/archive/master.zip \
&& unzip -q master.zip \
&& rm master.zip \
&& cd gap-master \
&& ./autogen.sh \
&& ./configure --with-julia=/home/oscar/${JULIA_VERSION} --with-gc=julia \
&& make \
&& make bootstrap-pkg-full \
&& cd pkg \
&& ../bin/BuildPackages.sh \
&& sudo ln -snf /home/oscar/gap-master/gap /usr/local/bin/gap

RUN cd /home/oscar/gap-master/pkg \
&& git clone https://github.com/gap-packages/JupyterKernel.git \
&& cd JupyterKernel \
&& python3 setup.py install --user
### Install Julia packages

ENV PATH /home/oscar/gap-master/pkg/JupyterKernel/bin:${PATH}
ENV JUPYTER_GAP_EXECUTABLE /home/oscar/.julia/gap.sh
ENV GAPROOT /home/oscar/gap-master
RUN julia -e 'import Pkg; Pkg.add( "IJulia" )'
RUN julia -e 'import Pkg; Pkg.add( "AbstractAlgebra" )'
RUN julia -e 'import Pkg; Pkg.add( "Nemo" )'
RUN julia -e 'import Pkg; Pkg.add( "Polymake" )'
RUN julia -e 'import Pkg; Pkg.add( "Singular" )'
RUN julia -e 'import Pkg; Pkg.add( "GAP" )'
RUN julia -e 'import Pkg; Pkg.add( "Hecke" )'
RUN julia -e 'import Pkg; Pkg.add(Pkg.PackageSpec(url="https://github.com/oscar-system/OSCAR.jl", rev="master"))'

COPY Examples Examples

RUN julia -e "import Pkg; Pkg.add( \"IJulia\" )"
RUN julia -e "import Pkg; Pkg.add( \"CxxWrap\" )"
RUN julia -e "import Pkg; Pkg.add( \"AbstractAlgebra\" )"
RUN julia -e "import Pkg; Pkg.add( \"Nemo\" )"
RUN julia -e "import Pkg; Pkg.add( \"Polymake\" )"
RUN julia -e "import Pkg; Pkg.add(Pkg.PackageSpec(url=\"https://github.com/oscar-system/Singular.jl\", rev=\"master\" ))"
RUN julia -e "import Pkg; Pkg.add(Pkg.PackageSpec(url=\"https://github.com/oscar-system/GAP.jl\", rev=\"master\" ))"
RUN julia -e "import Pkg; Pkg.add(Pkg.PackageSpec(url=\"https://github.com/oscar-system/OSCAR.jl\", rev=\"master\" ))"
RUN julia -e "import Pkg; Pkg.add(Pkg.PackageSpec(url=\"https://github.com/thofma/Hecke.jl\", rev=\"master\" ))"
# TODO/FIXME: setup GAP package JupyterKernel

COPY Examples Examples
RUN ln -s $(julia -e 'print(abspath(joinpath(dirname(Base.find_package("GAP")), "..", "gap")))') /home/oscar/gap

RUN cd /home/oscar/gap/pkg \
&& git clone https://github.com/gap-packages/JupyterKernel.git \
&& cd JupyterKernel \
&& python3 setup.py install --user

ENV PATH /home/oscar/gap/pkg/JupyterKernel/bin:${PATH}
ENV JUPYTER_GAP_EXECUTABLE /home/oscar/.julia/gap.sh
ENV GAPROOT /home/oscar/gap
39 changes: 17 additions & 22 deletions Readme.md
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Expand Up @@ -19,41 +19,36 @@ Furthermore Jupyter and the Julia Kernel for Jupyter is installed.
## Usage

To start Julia in the Docker image, execute
```
docker run -it oscarsystem/oscardocker:latest
```

docker run -it oscarsystem/oscardocker:latest

You can then start julia via the command
```
julia
```

julia

and load Singular.jl via
```
using Cxx
using Singular
```

using Singular

or Polymake.jl via
```
using Cxx
using Polymake
```

Please note that for Polymake and Singular to work you need to execute `using Cxx` first. This is due to current portability issues.
using Polymake

For an examples see [here](https://nbviewer.jupyter.org/github/oscar-system/OSCARBinder/blob/master/Singular.ipynb) for Singular and [here](https://nbviewer.jupyter.org/github/oscar-system/OSCARBinder/blob/master/g-vectors_of_random_simplicial_6-polytopes.ipynb)
for Polymake.

## Usage of Jupyter

To start a Jupyter Notebook server, execute the image with
```
docker run -it --net="host" oscarsystem/oscardocker:latest
```

docker run -it --net="host" oscarsystem/oscardocker:latest

and after the container started, execute
```
jupyter notebook --no-browser
```

jupyter notebook --no-browser

inside the container. Then open the URL displayed in your terminal.

## Usage on [mybinder.org](http://mybinder.org)

You can use this Docker image as base for your Binder docker repository. See [here](https://github.com/sebasguts/OSCARBinder) for an example. Please note that the versions are tagged by date.
You can use this Docker image as base for your Binder docker repository. See [here](https://github.com/oscar-system/OSCARBinder) for an example. Please note that the versions are tagged by date.