change inpatient_investigations table index - remove restriction on i… #36
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| on: | |
| push: | |
| branches: | |
| - develop | |
| - 'feature/**' | |
| - 'bug_fix/**' | |
| - 'bugfix/**' | |
| - 'maint/**' | |
| name: "Legacy Postgres versions" | |
| jobs: | |
| Postgres: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.postgres_image }} | |
| services: | |
| postgres: | |
| image: ${{ matrix.config.postgres_image }} | |
| env: | |
| POSTGRES_DB: RamsesDB_testing | |
| POSTGRES_USER: user | |
| POSTGRES_PASSWORD: password | |
| ports: | |
| - 5432:5432 | |
| options: >- | |
| --health-cmd pg_isready | |
| --health-interval 10s | |
| --health-timeout 5s | |
| --health-retries 5 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {postgres_image: "postgres:9.6.10", os: ubuntu-20.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} | |
| - {postgres_image: "postgres:12.10", os: ubuntu-20.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} | |
| - {postgres_image: "postgres:15.2", os: ubuntu-20.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| RSPM: ${{ matrix.config.rspm }} | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| CODECOVETOKEN: ${{ secrets.CODECOVETOKEN }} | |
| CI_Postgres: true | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| - name: Query dependencies | |
| run: | | |
| install.packages('remotes') | |
| install.packages('devtools') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| if: runner.os != 'Windows' | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ env.R_LIBS_USER }} | |
| key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }} | |
| restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1- | |
| - name: Install system dependencies | |
| if: runner.os == 'Linux' | |
| run: | | |
| while read -r cmd | |
| do | |
| eval sudo $cmd | |
| done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "20.04"))') | |
| - name: Install dependencies | |
| run: | | |
| remotes::install_github("msberends/AMR", build = TRUE) | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("rcmdcheck") | |
| shell: Rscript {0} | |
| - name: Postgres unit tests | |
| run: | | |
| devtools::load_all() | |
| testthat::test_file(path = "tests/testthat/test-warehousing-postgres.R", reporter = default_compact_reporter(), | |
| stop_on_warning = TRUE, stop_on_failure = TRUE) | |
| shell: Rscript {0} | |