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fix build errors

fix build errors #33

Workflow file for this run

# Automatically build multi-architectural tagged container images and push them to DockerHub
# https:/FNNDSC/cookiecutter-chrisapp/wiki/Automatic-Builds
#
# - targeted platforms: x86_64, PowerPC64, ARM64
# - master is built as fnndsc/pl-markimg:latest
# - tagged commits are built as fnndsc/pl-markimg:<tag>
# - tagged commits are also uploaded to chrisstore.co
#
# In order to use this workflow, see
# https:/FNNDSC/cookiecutter-chrisapp/wiki/Automatic-Builds#steps-to-enable
name: ci
on:
push:
# we have to guess what the name of the default branch is
branches: [ master, main, trunk ]
tags: [ '**' ]
pull_request:
branches: [ master, main, trunk ]
jobs:
test:
if: false
runs-on: ubuntu-24.04
steps:
- uses: actions/checkout@v2
- name: build
run: docker build -t "${GITHUB_REPOSITORY,,}" .
- name: nose tests
run: docker run "${GITHUB_REPOSITORY,,}" nosetests
publish:
if: github.event_name == 'push' || github.event_name == 'release'
runs-on: ubuntu-24.04
# we want to both push the build to DockerHub, but also
# keep a local copy so that we can run
#
# docker run fnndsc/pl-app app --json > App.json
#
# buildx currently does not support multiple output locations,
# neither can multi-architectural builds be loaded into docker.
# Here we use a local registry to cache the build.
services:
registry:
image: registry:2
ports:
- 5000:5000
steps:
- name: Stop docker
run: sudo systemctl stop docker
- name: Clean docker data
run: |
sudo rm -rf /var/lib/docker
sudo mkdir /var/lib/docker
- name: Maximize build space
uses: easimon/maximize-build-space@6ae56c86ea8db291ae39f62352a412c36ab8179b
with:
root-reserve-mb: 8192 # space needed for logs
swap-size-mb: 1024 # must be >0
build-mount-path: /var/lib/docker
remove-dotnet: 'true'
remove-android: 'true'
remove-haskell: 'true'
remove-codeql: 'true'
remove-docker-images: 'false'
- name: Start docker
run: sudo systemctl start docker
- name: Get git tag
id: git_info
if: startsWith(github.ref, 'refs/tags/')
run: echo "::set-output name=tag::${GITHUB_REF##*/}"
- name: Decide image tag name
id: determine
env:
git_tag: ${{ steps.git_info.outputs.tag }}
run: |
repo="${GITHUB_REPOSITORY,,}" # to lower case
# if build triggered by tag, use tag name
tag="${git_tag:-latest}"
dock_image=$repo:$tag
echo $dock_image
echo "::set-output name=dock_image::$dock_image"
echo "::set-output name=repo::$repo"
- uses: actions/checkout@v2
# QEMU is for emulating non-x86_64 platforms
- uses: docker/setup-qemu-action@v1
# buildx is the next-generation docker image builder
- uses: docker/setup-buildx-action@v1
with:
driver-opts: network=host
# save some time during rebuilds
- name: Cache Docker layers
uses: actions/cache@v2
with:
path: /tmp/.buildx-cache
key: ${{ runner.os }}-buildx-${{ github.sha }}
restore-keys: |
${{ runner.os }}-buildx-
- name: Login to DockerHub
id: dockerhub_login
uses: docker/login-action@v1
with:
username: ${{ secrets.DOCKERHUB_USERNAME }}
password: ${{ secrets.DOCKERHUB_PASSWORD }}
- name: Login to GitHub Container Registry
uses: docker/login-action@v1
with:
registry: ghcr.io
username: ${{ github.repository_owner }}
password: ${{ secrets.GITHUB_TOKEN }}
- name: Build and push
uses: docker/build-push-action@v2
id: docker_build
with:
context: .
file: ./Dockerfile
tags: |
${{ steps.determine.outputs.dock_image }}
localhost:5000/${{ steps.determine.outputs.dock_image }}
ghcr.io/${{ steps.determine.outputs.dock_image }}
platforms: linux/amd64
push: true
cache-from: type=local,src=/tmp/.buildx-cache
cache-to: type=local,dest=/tmp/.buildx-cache
- name: Get plugin meta
id: pluginmeta
run: |
repo=${{ steps.determine.outputs.repo }}
dock_image=${{ steps.determine.outputs.dock_image }}
docker pull localhost:5000/$dock_image
docker tag localhost:5000/$dock_image $dock_image
script=$(docker inspect --format '{{ (index .Config.Cmd 0) }}' $dock_image)
docker run --rm $dock_image $script --json \
| jq '. += {"name":"pl-markimg", "dock_image": "'$dock_image'", "public_repo": "'${{ github.server_url }}/${{ github.repository }}'" }' \
> /tmp/description.json
json="$(docker run --rm $dock_image $script --json)"
# Escape single quotes
json_escaped=$(echo "$json" | sed "s/'/\\'/g")
jq <<< "$json" # pretty print in log
echo "json=$json_escaped" >> $GITHUB_OUTPUT
echo "title=$(jq -r '.title' <<< "$json")" >> $GITHUB_OUTPUT
- name: Update DockerHub description
uses: peter-evans/dockerhub-description@v2
continue-on-error: true # it is not crucial that this works
with:
username: ${{ secrets.DOCKERHUB_USERNAME }}
password: ${{ secrets.DOCKERHUB_PASSWORD }}
short-description: ${{ steps.pluginmeta.outputs.title }}
readme-filepath: ./README.rst
repository: ${{ steps.determine.outputs.repo }}
- name: Upload ChRIS Plugin
id: upload
if: github.ref_type == 'tag'
uses: FNNDSC/upload-chris-plugin@main
with:
description_file: /tmp/description.json
username: ${{ secrets.CHRISPROJECT_USERNAME }}
password: ${{ secrets.CHRISPROJECT_PASSWORD }}
chris_url: https://cube.chrisproject.org/api/v1/
compute_names: NERC