Add docker configurations

#FROM ubuntu:bionic

FROM tomkellygenetics/cellranger_clean:latest

RUN apt-get update \

 && apt-get upgrade -y \

 && apt-get install -y \

 git \

 make \

 gzip

RUN apt-get install -y \

  curl \

  zsh \

  nano \

  && sh -c "$(curl -fsSL https://raw.github.com/ohmyzsh/ohmyzsh/master/tools/install.sh) --unattended"

RUN git clone "https://github.com/TomKellyGenetics/cellranger_convert.git"

RUN cd cellranger_convert \

 && make reference \

 && cd .. 

RUN mkdir -p /cellranger-3.0.2.9001/cellranger-tiny-fastq \

 && ln -s /cellranger_convert/test/shared/cellranger-tiny-fastq/1.2.0 /cellranger-3.0.2.9001/cellranger-tiny-fastq \

 && ln -s /cellranger_convert/test/shared/cellranger-tiny-fastq/3.0.0 /cellranger-3.0.2.9001/cellranger-tiny-fastq

RUN mkdir -p /cellranger-3.0.2.9001/cellranger-tiny-ref \

 && ln -s /cellranger_convert/test/cellranger_reference/cellranger-tiny-ref/1.2.0 /cellranger-3.0.2.9001/cellranger-tiny-ref \ 

 && ln -s /cellranger_convert/test/cellranger_reference/cellranger-tiny-ref/3.0.0 /cellranger-3.0.2.9001/cellranger-tiny-ref

ENV PATH cellranger_convert:$PATH

sut:

  build: .

  command: run_tests.sh