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Annotate package installs #93

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Merged
victorlin merged 3 commits into from
Oct 17, 2022
Merged

Annotate package installs #93

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a47e358
Remove libpng-dev, add zlib1g-dev
victorlin Oct 14, 2022
1bcd494
Remove unused libgmp-dev
victorlin Oct 14, 2022
10ecb42
Annotate package installs
victorlin Oct 13, 2022
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23 changes: 20 additions & 3 deletions Dockerfile
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Original file line number Diff line number Diff line change
Expand Up @@ -11,6 +11,15 @@ FROM python:3.7-slim-buster AS builder
SHELL ["/bin/bash", "-c"]

# Add system deps for building
# autoconf, automake: for building VCFtools; may be used by package managers to build from source
# build-essential: contains gcc, g++, make, etc. for building various tools; may be used by package managers to build from source
# ca-certificates: for secure HTTPS connections
# curl: for downloading source files
# git: for git pip installs
# jq: used in builder-scripts/latest-augur-release-tag
# pkg-config: for building VCFtools; may be used by package managers to build from source
# zlib1g-dev: for building VCFtools; may be used by package managers to build from source
# nodejs: for installing Auspice
RUN apt-get update && apt-get install -y --no-install-recommends \
autoconf \
automake \
Expand All @@ -19,9 +28,8 @@ RUN apt-get update && apt-get install -y --no-install-recommends \
curl \
git \
jq \
libgmp-dev \
libpng-dev \
pkg-config
pkg-config \
zlib1g-dev

# Install a specific Node.js version
# https://github.com/nodesource/distributions/blob/0d81da75/README.md#installation-instructions
Expand Down Expand Up @@ -192,6 +200,15 @@ RUN cd /nextstrain/auspice && npm update && npm install && npm run build && npm
FROM python:3.7-slim-buster AS final

# Add system runtime deps
# bzip2, gzip, xz-utils, zip, unzip, zstd: install compression tools
# ca-certificates: [Dockerfile] for secure HTTPS connections; may be used by workflows
# curl: [Dockerfile] for downloading binaries directly; may be used by workflows
# jq: may be used by workflows
# less: for usability in an interactive prompt
# perl: for running VCFtools
# ruby: may be used by workflows
# wget: may be used by workflows
# nodejs: for running Auspice
RUN apt-get update && apt-get install -y --no-install-recommends \
bzip2 \
ca-certificates \
Expand Down