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Fixed spacing on Dockerfile
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muse/Dockerfile

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FROM ubuntu
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FROM ubuntu
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RUN apt-get update && apt-get install -y python wget samtools tabix python-pip python-dev zlib1g-dev
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RUN pip install pysam
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RUN apt-get update && apt-get install -y python wget samtools tabix python-pip python-dev zlib1g-dev
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RUN pip install pysam
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RUN mkdir /opt/bin
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RUN wget -O /opt/bin/MuSEv1.0rc http://bioinformatics.mdanderson.org/Software/MuSE/MuSEv1.0rc_submission_c039ffa
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RUN chmod +x /opt/bin/MuSE*
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ADD ./muse.py /opt/bin/
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RUN mkdir /opt/bin
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RUN wget -O /opt/bin/MuSEv1.0rc http://bioinformatics.mdanderson.org/Software/MuSE/MuSEv1.0rc_submission_c039ffa
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RUN chmod +x /opt/bin/MuSE*
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ADD ./muse.py /opt/bin/
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# Set WORKDIR to /data -- predefined mount location.
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RUN mkdir /data
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WORKDIR /data
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ENV PATH /usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/bin
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ENV PATH /usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/bin
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# And clean up
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RUN apt-get clean && rm -rf /var/lib/apt/lists/*
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RUN apt-get clean && rm -rf /var/lib/apt/lists/*
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ENTRYPOINT ["python", "/opt/bin/muse.py"]

muse/muse.py

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@@ -196,4 +196,3 @@ def reown(args):
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args = parser.parse_args()
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args.muse = 'MuSEv1.0rc'
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run_muse(args)
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