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fix: use pigz-2.8
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igboyes committed Sep 6, 2023
1 parent cc8b865 commit 10202e3
Showing 1 changed file with 4 additions and 4 deletions.
8 changes: 4 additions & 4 deletions Dockerfile
Original file line number Diff line number Diff line change
@@ -1,9 +1,9 @@
FROM debian:buster as prep
WORKDIR /build
RUN apt-get update && apt-get install -y make gcc zlib1g-dev wget unzip
RUN wget https://zlib.net/pigz/pigz-2.7.tar.gz && \
tar -xzvf pigz-2.7.tar.gz && \
cd pigz-2.7 && \
RUN wget https://zlib.net/pigz/pigz-2.8.tar.gz && \
tar -xzvf pigz-2.8.tar.gz && \
cd pigz-2.8 && \
make
RUN wget https://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.11.9.zip && \
unzip fastqc_v0.11.9.zip
Expand All @@ -16,7 +16,7 @@ FROM python:3.10-buster as base
WORKDIR /app
COPY --from=prep /build/bowtie2/* /usr/local/bin/
COPY --from=prep /build/FastQC /opt/fastqc
COPY --from=prep /build/pigz-2.7/pigz /usr/local/bin/pigz
COPY --from=prep /build/pigz-2.8/pigz /usr/local/bin/pigz
RUN chmod ugo+x /opt/fastqc/fastqc && \
ln -fs /opt/fastqc/fastqc /usr/local/bin/fastqc && \
for file in `ls /opt/hmmer/bin`; do ln -fs /opt/hmmer/bin/${file} /usr/local/bin/${file}; done
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