feat: Relax dbListObjects()
spec
#1544
Workflow file for this run
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# Adapted from backends.yaml, with contents from odbc/db.yaml | |
on: | |
push: | |
branches: | |
- main | |
- master | |
pull_request: | |
branches: | |
- main | |
- master | |
schedule: | |
- cron: '0 8 * * *' | |
name: backends odbc | |
jobs: | |
matrix: | |
runs-on: ubuntu-20.04 | |
outputs: | |
matrix: ${{ steps.set-matrix.outputs.matrix }} | |
steps: | |
- uses: actions/checkout@v3 | |
# https://github.blog/changelog/2020-04-15-github-actions-new-workflow-features/ | |
- id: set-matrix | |
run: | | |
matrix=$(( | |
echo '{ "include" : [' | |
sed -n "/^REVDEP *:= */ { s///; p }" revdep-dev/Makefile | sed 's/ /,\n/g' | grep odbc | sed -r 's/^odbc-([^,]*)(,?)$/{ "database": "\1", "package": "odbc" }\2/' | |
echo " ]}" | |
) | jq -c .) | |
echo $matrix | |
echo $matrix | jq . | |
echo "matrix=$matrix" >> $GITHUB_OUTPUT | |
check-matrix: | |
runs-on: ubuntu-latest | |
needs: matrix | |
steps: | |
- name: Install json2yaml | |
run: | | |
sudo npm install -g json2yaml | |
- name: Check matrix definition | |
run: | | |
matrix='${{ needs.matrix.outputs.matrix }}' | |
echo $matrix | |
echo $matrix | jq . | |
echo $matrix | json2yaml | |
backend: | |
needs: matrix | |
# Need Ubuntu 20.04 for remotes::system_requirements() | |
runs-on: ubuntu-20.04 | |
services: | |
postgres: | |
image: postgres | |
ports: | |
- 5432:5432 | |
env: | |
POSTGRES_USER: postgres | |
POSTGRES_PASSWORD: password | |
POSTGRES_DB: test | |
options: --health-cmd pg_isready --health-interval 10s --health-timeout 5s --health-retries 5 | |
sqlserver: | |
image: mcr.microsoft.com/mssql/server:2017-latest-ubuntu | |
ports: | |
- 1433:1433 | |
env: | |
ACCEPT_EULA: Y | |
SA_PASSWORD: Password12 | |
strategy: | |
fail-fast: false | |
matrix: ${{fromJson(needs.matrix.outputs.matrix)}} | |
name: ${{ matrix.database }} | |
env: | |
RSPM: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" | |
ODBCSYSINI: ${{ github.workspace }}/.github/odbc | |
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
steps: | |
- name: Check rate limits | |
run: | | |
curl -s --header "authorization: Bearer ${{ secrets.GITHUB_TOKEN }}" https://api.github.com/rate_limit | |
shell: bash | |
- uses: actions/checkout@v3 | |
- uses: r-lib/actions/setup-r@v2 | |
- name: Install remotes | |
run: | | |
if (!requireNamespace("curl", quietly = TRUE)) install.packages("curl") | |
if (!requireNamespace("remotes", quietly = TRUE)) install.packages("remotes") | |
shell: Rscript {0} | |
- name: Clone backend | |
run: | | |
make -C revdep-dev ${{ matrix.package }} | |
- name: Prepare cache keys | |
if: runner.os != 'Windows' | |
run: | | |
saveRDS(remotes::dev_package_deps("revdep-dev/${{ matrix.package }}", dependencies = TRUE, type = .Platform$pkgType), ".github/depends.Rds", version = 2) | |
writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | |
shell: Rscript {0} | |
- name: Cache R packages | |
if: runner.os != 'Windows' | |
uses: actions/cache@v3 | |
with: | |
path: ${{ env.R_LIBS_USER }} | |
key: backends-${{ hashFiles('.github/R-version') }}-2-${{ hashFiles('.github/depends.Rds') }} | |
restore-keys: backends-${{ hashFiles('.github/R-version') }}-2- | |
- name: Install system dependencies | |
if: runner.os == 'Linux' | |
# "22.04" fails here | |
run: | | |
while read -r cmd | |
do | |
eval sudo $cmd | |
done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "20.04", path = "revdep-dev/${{ matrix.package }}"))') | |
- name: Install package and dependencies | |
run: | | |
remotes::install_local("revdep-dev/${{ matrix.package }}", dependencies = TRUE, type = .Platform$pkgType) | |
remotes::install_local(".", type = .Platform$pkgType, force = TRUE) | |
remotes::install_cran("pkgbuild") | |
shell: Rscript {0} | |
- name: Session info | |
run: | | |
options(width = 100) | |
if (!requireNamespace("sessioninfo", quietly = TRUE)) install.packages("sessioninfo") | |
pkgs <- installed.packages()[, "Package"] | |
sessioninfo::session_info(pkgs, include_base = TRUE) | |
shell: Rscript {0} | |
# Begin custom: after install | |
- name: Setup MySQL | |
if: matrix.database == 'mysql' | |
run: | | |
sudo systemctl start mysql.service | |
mysql -uroot -h127.0.0.1 -proot -e 'CREATE DATABASE `test`;' | |
.github/odbc/install-mariadb-driver.sh | |
- name: Install SQLite Driver | |
if: matrix.database == 'sqlite' | |
run: | | |
sudo apt-get install -y libsqliteodbc | |
- name: Install PostgreSQL Driver | |
if: matrix.database == 'postgres' | |
run: | | |
sudo apt-get install -y unixodbc-dev odbc-postgresql devscripts | |
- name: Install SQL Server Driver | |
if: matrix.database == 'sql-server' | |
run: | | |
curl https://packages.microsoft.com/keys/microsoft.asc | apt-key add - | |
curl https://packages.microsoft.com/config/ubuntu/20.04/prod.list > /etc/apt/sources.list.d/mssql-release.list | |
apt-get update | |
ACCEPT_EULA=Y apt-get install -y msodbcsql17 | |
ln -s /opt/microsoft/msodbcsql17/lib64/libmsodbcsql-17.*.so.* /opt/microsoft/msodbcsql17/lib64/libmsodbcsql-17.so | |
shell: sudo bash {0} | |
- name: Install locally to avoid error with test_local() | |
run: | | |
R CMD INSTALL revdep-dev/${{ matrix.package }} | |
env: | |
LIB_DIR: /usr/lib/x86_64-linux-gnu/ | |
INCLUDE_DIR: /usr/include | |
# End custom: after install | |
- name: Test backend | |
run: | | |
make -C revdep-dev test-${{ matrix.package }}-${{ matrix.database }} | |
- name: Upload check results | |
if: failure() | |
uses: actions/upload-artifact@main | |
with: | |
name: ${{ runner.os }}-r${{ matrix.config.r }}-results | |
path: revdep-dev/${{ matrix.package }} | |
- name: Check rate limits | |
if: always() | |
run: | | |
curl -s --header "authorization: Bearer ${{ secrets.GITHUB_TOKEN }}" https://api.github.com/rate_limit | |
shell: bash |