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Sig ana fixes

Sig ana fixes #122

Workflow file for this run

name: Welcome_To_Shiny_Testing
on:
pull_request:
branches:
- main
- first_test
- develop
jobs:
run-tests:
runs-on: ${{ matrix.config.os }}
strategy:
fail-fast: false
matrix:
config:
- {os: ubuntu-20.04, r: '4.2.0', rspm: "https://packagemanager.rstudio.com/cran/__linux__/bionic/latest"}
env:
RENV_PATHS_ROOT: ~/.local/share/renv
steps:
- name: Checkout respective branch
uses: actions/checkout@v2
- name: SetUp R
uses: r-lib/actions/setup-r@v2
id: install-r
with:
r-version: ${{ matrix.config.r }}
http-user-agent: ${{ matrix.config.http-user-agent }}
use-public-rspm: true
- name: Set RENV_PATHS_ROOT
shell: bash
run: |
echo "RENV_PATHS_ROOT=${{ runner.temp }}/renv" >> $GITHUB_ENV
# - name: SetUp R
# - uses: r-lib/actions/setup-r-dependencies@v2
# with:
# packages: XML
- name: Install system dependencies
if: runner.os == 'Linux'
run: |
sudo apt-get update -y
sudo apt-get install -y libglpk-dev
- name: Cache packages
uses: actions/cache@v2
with:
path: ${{ env.RENV_PATHS_ROOT }}
key: ${{ runner.os }}-renv-${{ hashFiles('**/program/renv.lock') }}
restore-keys: |
${{ runner.os }}-renv-
- name: Install and activate renv
shell: Rscript {0}
run: |
install.packages("renv")
renv::restore(lockfile="program/renv.lock")
- name: Test - Significance Panel
shell: Rscript {0}
run: |
shiny::runTests("program/shinyApp", assert = TRUE, filter='testthat_sig')
- name: Upload test results
if: failure()
uses: actions/upload-artifact@master
with:
name: ${{ runner.os }}-r${{ matrix.config.r }}-tests
path: tests
run-tests2:
runs-on: ${{ matrix.config.os }}
strategy:
fail-fast: false
matrix:
config:
- {os: ubuntu-20.04, r: '4.2.0', rspm: "https://packagemanager.rstudio.com/cran/__linux__/bionic/latest"}
env:
RENV_PATHS_ROOT: ~/.local/share/renv
steps:
- name: Checkout respective branch
uses: actions/checkout@v2
- name: SetUp R
uses: r-lib/actions/setup-r@v2
id: install-r
with:
r-version: ${{ matrix.config.r }}
http-user-agent: ${{ matrix.config.http-user-agent }}
use-public-rspm: true
- name: Set RENV_PATHS_ROOT
shell: bash
run: |
echo "RENV_PATHS_ROOT=${{ runner.temp }}/renv" >> $GITHUB_ENV
# - name: SetUp R
# - uses: r-lib/actions/setup-r-dependencies@v2
# with:
# packages: XML
- name: Install system dependencies
if: runner.os == 'Linux'
run: |
sudo apt-get update -y
sudo apt-get install -y libglpk-dev
- name: Cache packages
uses: actions/cache@v2
with:
path: ${{ env.RENV_PATHS_ROOT }}
key: ${{ runner.os }}-renv-${{ hashFiles('**/program/renv.lock') }}
restore-keys: |
${{ runner.os }}-renv-
- name: Install and activate renv
shell: Rscript {0}
run: |
install.packages("renv")
renv::restore(lockfile="program/renv.lock")
- name: Test - Significance Panel
shell: Rscript {0}
run: |
shiny::runTests("program/shinyApp", assert = TRUE, filter='testthat_sig')
- name: Test - Enrichment Analysis Panel
shell: Rscript {0}
run: |
shiny::runTests("program/shinyApp", assert = TRUE, filter='testthat_enrich')
- name: Upload test results
if: failure()
uses: actions/upload-artifact@master
with:
name: ${{ runner.os }}-r${{ matrix.config.r }}-tests
path: tests