From 2fa8c5442183a949656f7409ab08fcc1c1e19410 Mon Sep 17 00:00:00 2001
From: David Blodgett <dblodgett@usgs.gov>
Date: Mon, 30 Nov 2020 11:19:43 -0600
Subject: [PATCH] gitlab ci

---
 .Rbuildignore                                 |   3 +-
 .gitlab-ci.yml                                |  29 ++++++++++++++++++
 .../Yahara_alb/Yahara_River_HRUs_alb_eq.dbf   | Bin
 .../Yahara_alb/Yahara_River_HRUs_alb_eq.prj   |   0
 .../Yahara_alb/Yahara_River_HRUs_alb_eq.shp   | Bin
 .../Yahara_alb/Yahara_River_HRUs_alb_eq.shx   | Bin
 6 files changed, 31 insertions(+), 1 deletion(-)
 create mode 100644 .gitlab-ci.yml
 mode change 100755 => 100644 tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.dbf
 mode change 100755 => 100644 tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.prj
 mode change 100755 => 100644 tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.shp
 mode change 100755 => 100644 tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.shx

diff --git a/.Rbuildignore b/.Rbuildignore
index 4046e01..701c4bf 100644
--- a/.Rbuildignore
+++ b/.Rbuildignore
@@ -6,4 +6,5 @@ docs
 DISCLAIMER.md
 code.json
 appveyor.yml
-.github
\ No newline at end of file
+.github
+.gitlab-ci.yml
\ No newline at end of file
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
new file mode 100644
index 0000000..e6a9b46
--- /dev/null
+++ b/.gitlab-ci.yml
@@ -0,0 +1,29 @@
+variables:
+  _R_CHECK_CRAN_INCOMING_: "false"
+  _R_CHECK_FORCE_SUGGESTS_: "true"
+  _R_CHECK_DONTTEST_EXAMPLES_: "false"
+  APT_PKGS: "libudunits2-dev libgdal-dev libgeos-dev libproj-dev libcurl4-openssl-dev libssh2-1-dev libssl-dev libxml2-dev zlib1g-dev git p7zip-full"
+
+before_script:
+  - wget --no-check-certificate -O /usr/local/share/ca-certificates/DOIRootCA2.crt https://raw.githubusercontent.com/dblodgett-usgs/hydrogeoenv/master/linux/DOIRootCA2.cer
+  - chmod 644 /usr/local/share/ca-certificates/DOIRootCA2.crt && update-ca-certificates
+  - apt-get update
+  - apt-get install -y --no-install-recommends ${APT_PKGS}
+  - apt-get install -y --no-install-recommends qpdf pandoc pandoc-citeproc
+  - export PATH="/usr/local/lib/R/site-library/littler/examples/:${PATH}"
+  - echo "options(Ncpus = $(nproc --all))" >> /usr/local/lib/R/etc/Rprofile.site
+  - install2.r devtools
+  - r -e 'devtools::install_dev_deps()'
+
+test:
+  stage: test
+  tags:
+    - chs-shared
+  image: code.chs.usgs.gov:5001/wma/hydrogeoenv:rocker-geospatial
+  script:
+    - r -e 'devtools::check(check_dir = ".")'
+    - r -e 'capture.output(print(covr::coverage_to_list(covr::package_coverage(type = "all")), width = 20),  file = "covr.txt", split = TRUE)'
+  artifacts:
+    paths:
+      - "*.Rcheck"
+      - "covr.txt"
diff --git a/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.dbf b/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.dbf
old mode 100755
new mode 100644
diff --git a/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.prj b/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.prj
old mode 100755
new mode 100644
diff --git a/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.shp b/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.shp
old mode 100755
new mode 100644
diff --git a/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.shx b/tests/testthat/data/Yahara_alb/Yahara_River_HRUs_alb_eq.shx
old mode 100755
new mode 100644