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Install available Python packages via apk

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Signed-off-by: Thomas A. Christensen II <25492070+MillironX@users.noreply.github.com>
This commit is contained in:
Thomas A. Christensen II 2021-11-17 08:38:43 -06:00
parent 79f1b5735a
commit b00fe59fa4
Signed by: millironx
GPG key ID: 139C07724802BC5D
1 changed files with 16 additions and 9 deletions
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@ -26,9 +26,22 @@ RUN \
ncurses \
openblas-dev \
py3-pip \
py3-wheel \
python3 \
cython \
xz \
zlib && \
\
# Install Python packages available from apk
apk add --repository http://dl-cdn.alpinelinux.org/alpine/edge/community \
--update --no-cache \
py3-six \
py3-joblib \
py3-threadpoolctl \
py3-numpy \
py3-numpy-dev \
py3-scipy \
py3-scikit-learn && \
\
# Install build dependencies
apk add --repository http://dl-cdn.alpinelinux.org/alpine/edge/main \
@ -100,14 +113,7 @@ RUN \
rm -rf v${GENOMETOOLS_VERSION} && \
cd && \
\
# Download and install Python packages
pip3 install -v --no-cache-dir six==1.16.0 && \
pip3 install -v --no-cache-dir joblib==0.14.1 && \
pip3 install -v --no-cache-dir threadpoolctl && \
pip3 install -v --no-cache-dir numpy==1.17.2 && \
pip3 install -v --no-cache-dir scipy && \
pip3 install -v --no-cache-dir cython && \
pip3 install -v --no-cache-dir scikit-learn==0.21.3 && \
# Download and install Python packages from pip
pip3 install -v --no-cache-dir pysam==0.17 && \
pip3 install -v --no-cache-dir HTSeq==0.11.2 && \
pip3 install -v --no-cache-dir pybedtools==0.8.2 && \
@ -122,4 +128,5 @@ RUN \
cd .. && \
\
# Cleanup build packages
apk del --no-cache .build-deps
apk del --no-cache .build-deps && \
rm -vrf /var/cache/apk/*