add code to prepare FIMS inputs by fleet #3
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| name: Run pollock tests | |
| on: | |
| workflow_dispatch: | |
| push: | |
| jobs: | |
| build-deploy: | |
| runs-on: macos-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Check out repository | |
| uses: actions/checkout@v2 | |
| - name: Set up R (needed for Rmd) | |
| uses: r-lib/actions/setup-r@v2 | |
| - name: Run pollock tests | |
| run: | | |
| # Names of required packages | |
| packages <- c("dplyr", "tidyr", "ggplot2", "TMB", "reshape2", "here", "devtools", "lubridate") | |
| # Install packages not yet installed | |
| installed_packages <- packages %in% rownames(installed.packages()) | |
| if (any(installed_packages == FALSE)) { | |
| install.packages(packages[!installed_packages], repos = "http://cran.us.r-project.org") | |
| } | |
| # install.packages("FIMS", repos = c("https://noaa-fims.r-universe.dev", "https://cloud.r-project.org")) | |
| devtools::install_github("NOAA-FIMS/FIMS") | |
| # Load packages | |
| invisible(lapply(packages, library, character.only = TRUE)) | |
| source(file.path(getwd(), "content", "run_pollock_tests.R")) | |
| shell: Rscript {0} |