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add graphviz to Dockerfile
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DininduSenanayake committed Jun 16, 2024
1 parent 8acbaf2 commit 10d7312
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5 changes: 3 additions & 2 deletions docker/Dockerfile
Original file line number Diff line number Diff line change
Expand Up @@ -47,12 +47,13 @@ RUN add-apt-repository -y ppa:apptainer/ppa \

#install nextflow : Download -all from GH to workaround https://github.com/nesi/training-environment-jupyter-intronextflow-app/issues/1
#RUN curl -s https://get.nextflow.io | bash \
RUN wget -c https://github.com/nextflow-io/nextflow/releases/download/v23.10.1/nextflow-23.10.1-all \
&& mv nextflow-23.10.1-all nextflow \
RUN wget -c https://github.com/nextflow-io/nextflow/releases/download/v24.04.2/nextflow-24.04.2-all \
&& mv nextflow-24.04.2-all nextflow \
&& chmod +x nextflow \
&& mv nextflow /usr/local/bin \
&& chmod a+rw /usr/local/bin/nextflow

# install jupyterlab and nf-core
RUN pip3 --no-cache-dir install jupyterlab
RUN pip3 --no-cache-dir install nf-core
RUN pip3 --no-cache-dir install graphviz
2 changes: 1 addition & 1 deletion submit.yml.erb
Original file line number Diff line number Diff line change
Expand Up @@ -17,7 +17,7 @@ script:
native:
container:
name: "nextflow"
image: "ghcr.io/nesi/training-environment-jupyter-intronextflow-app:v0.2.0"
image: "ghcr.io/nesi/training-environment-jupyter-intronextflow-app:v0.3.0"
command: ["/bin/bash","-l","<%= staged_root %>/job_script_content.sh"]
working_dir: "<%= Etc.getpwnam(ENV['USER']).dir %>"
restart_policy: 'OnFailure'
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