Feat update testing fixtures

.github/workflows/R-CMD-check.yaml

@@ -0,0 +1,88 @@
+# Workflow derived from https://github.com/r-lib/actions/tree/master/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
+on:
+  push:
+    paths-ignore:
+      - 'README.md'
+  pull_request:
+
+name: build-ss-R-CMD-check
+
+jobs:
+  R-CMD-check:
+    runs-on: ${{ matrix.config.os }}
+
+    name: ${{ matrix.config.os }} (${{ matrix.config.r }})
+
+    strategy:
+      fail-fast: false
+      matrix:
+        config:
+          - {os: ubuntu-latest,   r: 'release'}
+          - {os: macOS-latest,   r: 'release'}
+          - {os: windows-latest, r: 'release'}
+
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+      R_KEEP_PKG_SOURCE: yes
+
+    steps:
+      - uses: actions/checkout@v3
+
+      - name: Get the latest SS3 executable for linux and move to expected location
+        if: matrix.config.os == 'ubuntu-latest'
+        run: |
+          curl https://api.github.com/repos/nmfs-stock-synthesis/stock-synthesis/releases/latest | grep "browser_download_url" | grep -Eo 'https://[^\"]*' | grep "ss_linux" | xargs wget
+          mv ss_linux ss
+          sudo chmod a+x ss
+          cp ss inst/extdata/ss
+          rm ss
+
+      - name: Get the latest SS3 executable for windows and move to expected location
+        if: matrix.config.os == 'windows-latest' 
+        run:  |
+          Invoke-WebRequest -Uri https://github.com/nmfs-stock-synthesis/stock-synthesis/releases/download/v3.30.21/ss_win.exe -Outfile "D:\a\ss3diags\ss3diags\ss_win.exe"
+          mv ss_win.exe ss.exe
+          cp ss.exe inst/extdata/ss.exe
+
+      - name: Get the latest SS3 executable for macOS and move to expected location
+        if: matrix.config.os == 'macOS-latest' 
+        run:  |
+          curl https://api.github.com/repos/nmfs-stock-synthesis/stock-synthesis/releases/latest | grep "browser_download_url" | grep -Eo 'https://[^\"]*' | grep "ss_osx" | xargs wget
+          mv ss_osx ss
+          sudo chmod a+x ss
+          cp ss inst/extdata/ss
+          rm ss
+
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          r-version: ${{ matrix.config.r }}
+          http-user-agent: ${{ matrix.config.http-user-agent }}
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: |
+            any::rcmdcheck
+            any::remotes
+
+      - uses: r-lib/actions/check-r-package@v2
+        with: 
+          error-on: '"error"'
+
+      - name: remove ss executable
+        run: |
+          if ["$RUNNER_OS" == "Linux" ]; then
+            rm inst/extdata/ss.exe
+          else 
+            rm inst/extdata/ss
+          fi
+        shell: bash
+
+
+
+
+
+

DESCRIPTION

@@ -2,57 +2,41 @@ Package: ss3diags
 Title: Stock Synthesis Model Diagnostics for Intergated Stock Assessments
 Version: 2.1.1
 Date: 2023-06-07
-Authors@R: 
-  c(person(given = "Henning",
-    family = "Winker",
-    role = c("aut"),
-    email = "henning.winker@ec.europa.eu"),
-    person(given = "Felipe",
-    family = "Carvalho",
-    role = c("aut"),
-    email = "felipe.carvalho@noaa.gov"),
-    person(given = "Massimiliano",
-    family = "Cardinale",
-    role = c("aut"),
-    email = "massimiliano.cardinale@slu.se"),
-    person(given = "Laurence",
-    family = "Kell",
-    role = c("aut"),
-    email = "laurie@seaplusplus.co.uk"),
-    person(given = "Megumi",
-    family = "Oshima",
-    role = c("aut","cre"),
-    email = "megumi.oshima@noaa.gov"),
-    person(given = "Eric",
-    family = "Fletcher",
-    role = c("aut"),
-    email = "eric.fletcher@noaa")
-  ) 
-Description: Compilation of diagnostic functions for Stock Synthesis models, which
-  developed for the manuscript "Using Model Diagnostics in Integrated Stock Assessments".
+Authors@R: c(
+    person("Henning", "Winker", , "henning.winker@ec.europa.eu", role = "aut"),
+    person("Felipe", "Carvalho", , "felipe.carvalho@noaa.gov", role = "aut"),
+    person("Massimiliano", "Cardinale", , "massimiliano.cardinale@slu.se", role = "aut"),
+    person("Laurence", "Kell", , "laurie@seaplusplus.co.uk", role = "aut"),
+    person("Megumi", "Oshima", , "megumi.oshima@noaa.gov", role = c("aut", "cre")),
+    person("Eric", "Fletcher", , "eric.fletcher@noaa", role = "aut")
+  )
+Description: Compilation of diagnostic functions for Stock Synthesis
+    models, which developed for the manuscript "Using Model Diagnostics in
+    Integrated Stock Assessments".
+License: EUPL
+URL: https://github.com/PIFSCstockassessments/ss3diags
+BugReports: https://github.com/PIFSCstockassessments/ss3diags/issues
 Depends:
-  R (>= 3.5)
+    R (>= 3.5)
 Imports:
-    reshape2,
-    mvtnorm,
-    randtests,
-    r4ss(>= 1.46.1),
+    dplyr,
     gplots,
+    lifecycle,
     magrittr,
-    dplyr,
-    rlang,
-    lifecycle
-Remotes: r4ss/r4ss#821
-License: EUPL
+    mvtnorm,
+    r4ss(>= 1.46.1),
+    randtests,
+    reshape2,
+    rlang
+Suggests:
+    knitr,
+    markdown,
+    rmarkdown,
+    testthat (>= 3.0.0)
+Remotes: 
+    r4ss/r4ss#821
 Encoding: UTF-8
 LazyData: True
 LazyDataCompression: gzip
 Roxygen: list(markdown = TRUE)
 RoxygenNote: 7.2.3
-Suggests:
-  testthat (>= 3.0.0),
-  knitr,
-  rmarkdown,
-  markdown
-URL: https://github.com/PIFSCstockassessments/ss3diags
-BugReports: https://github.com/PIFSCstockassessments/ss3diags/issues

README.Rmd

@@ -18,6 +18,7 @@ knitr::opts_chunk$set(
 
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+[![R-CMD-check](https://github.com/PIFSCstockassessments/ss3diags/workflows/R-CMD-check/badge.svg)](https://github.com/PIFSCstockassessments/ss3diags/actions)
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