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@@ -4,7 +4,7 @@ FROM quay.io/hdc-workflows/ubuntu:20.04 | |
ADD http://date.jsontest.com /etc/builddate | ||
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LABEL maintainer "Jared Galloway <[email protected]>" \ | ||
version "1.2.0" \ | ||
version "1.3.0" \ | ||
description "Common PhIP-Seq Workflows" | ||
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# install needed tools | ||
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@@ -30,17 +30,17 @@ RUN python3 -m venv $VIRTUAL_ENV | |
ENV PATH="$VIRTUAL_ENV/bin:$PATH" | ||
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# install phippery | ||
RUN pip install git+https://github.com/matsengrp/phippery@1.2.0 | ||
RUN pip install git+https://github.com/matsengrp/phippery@1.3.0 | ||
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# install pre-build binary Bowtie1.3 | ||
RUN curl -fksSL https://sourceforge.net/projects/bowtie-bio/files/bowtie/1.3.1/bowtie-1.3.1-linux-x86_64.zip \ | ||
--output bowtie-1.3.1-linux-x86_64.zip \ | ||
&& unzip bowtie-1.3.1-linux-x86_64.zip \ | ||
&& (cd /usr/bin/ && ln -s /bowtie-1.3.1-linux-x86_64/* ./) | ||
RUN curl -fksSL https://sourceforge.net/projects/bowtie-bio/files/bowtie/1.3.0/bowtie-1.3.1-linux-x86_64.zip \ | ||
--output bowtie-1.3.0-linux-x86_64.zip \ | ||
&& unzip bowtie-1.3.0-linux-x86_64.zip \ | ||
&& (cd /usr/bin/ && ln -s /bowtie-1.3.0-linux-x86_64/* ./) | ||
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# install SAMtools | ||
RUN curl -fksSL https://github.com/samtools/samtools/releases/download/1.3.1/samtools-1.3.1.tar.bz2 | tar xj && \ | ||
cd samtools-1.3.1 && \ | ||
RUN curl -fksSL https://github.com/samtools/samtools/releases/download/1.3.0/samtools-1.3.1.tar.bz2 | tar xj && \ | ||
cd samtools-1.3.0 && \ | ||
make all all-htslib && make install install-htslib | ||
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