2 - local: '/admin/ci-templates/.include-template.yml'
4 .configure-extends-template:
6 - .configure-build-template
11 .configure-release-extends-template:
13 - .configure-build-release-template
18 .build-extends-template:
20 - .binary-build-template
21 - .build-cache-template
25 .test-extends-template:
28 - .pull-cache-template
29 - .test-script-template
33 .regressiontests-extends-template:
39 # CI is organized into stages so that if early stages fail
40 # the later ones are not run.
42 # Initial test build for checking simple compilation and getting regressiontest repo
44 # Configuration for building and testing
46 # Build GROMACS in multiple configurations
48 # Test each configuration, perhaps in multiple ways
50 # Generate documentation files
52 # Check documentation from source code for errors
54 # Linting, docs, static analysis, coverage, code analysis...
56 # Nightly work to configure builds
60 # Nightly deploy stage
62 # Release work for packaging code
64 # Release checksum verification
66 # Configure code for release builds
68 # Release work for packaging code
70 # Tests for release code
72 # Prepare for deploying artifacts
73 - release-prepare-deploy
74 # Deploy stage for release builds
77 # Templates for configuration stage
80 - .configure-extends-template
81 - .gcc-before-script-template
84 .configure-gcc-release:
86 - .configure-release-extends-template
87 - .gcc-before-script-template
92 - .configure-extends-template
93 - .clang-before-script-template
94 - .build-clang-template
96 .configure-clang-release:
98 - .configure-release-extends-template
99 - .clang-before-script-template
100 - .build-clang-template
104 - .configure-extends-template
105 - .configure-docs-template
106 - .documentation-before-script-template
108 .configure-docs-release:
110 - .configure-extends-template
111 - .configure-docs-release-template
112 - .documentation-before-script-template
114 # Templates for build stage
117 - .build-extends-template
118 - .documentation-before-script-template
119 - .build-docs-binary-template
120 - .archive-build-template
124 - .build-extends-template
125 - .gcc-before-script-template
126 - .build-gcc-template
130 - .build-extends-template
131 - .clang-before-script-template
132 - .build-clang-template
136 - .build-extends-template
137 - .build-cache-template
138 - .build-docs-binary-template
139 - .documentation-before-script-template
143 - .binary-build-template
144 - .variables-template
147 - .build-docs-webpage-template
148 - .documentation-before-script-template
153 - .build-cuda-template
155 # Templates for test stage
158 - .test-extends-template
159 - .gcc-before-script-template
164 - .test-extends-template
165 - .clang-before-script-template
166 - .test-clang-template
168 # Special job to package regressiontest files and have them available for testing
169 # Runs during pre-build
170 prepare-regressiontests:
172 - .regressiontests-extends-template
173 - .regressiontests-template
175 prepare-release-version:
177 - .regressiontests-extends-template
178 - .release-version-template
180 # Initial build that always needs to pass before follow-up stages run
183 - .simple-build-template
184 - .build-cache-template
185 - .variables-template
187 - .gcc-before-script-template
188 - .build-gcc-template
191 COMPILER_MAJOR_VERSION: 7
192 BUILD_DIR: simple-build
197 # Jobs running in first pre-build stage
206 COMPILER_MAJOR_VERSION: 7
211 configure-gcc-7-gmxapi:
214 - .configure-gmxapi-template
220 COMPILER_MAJOR_VERSION: 7
225 configure-gcc-7-double:
233 COMPILER_MAJOR_VERSION: 7
234 CMAKE_PRECISION_OPTIONS: -DGMX_DOUBLE=ON
247 COMPILER_MAJOR_VERSION: 8
252 configure-gcc-7-simd-sse41:
260 COMPILER_MAJOR_VERSION: 7
261 CMAKE_SIMD_OPTIONS: "-DGMX_SIMD=SSE4.1"
274 COMPILER_MAJOR_VERSION: 7
279 configure-clang-7-gmxapi:
282 - .configure-gmxapi-template
288 COMPILER_MAJOR_VERSION: 7
301 COMPILER_MAJOR_VERSION: 8
306 # For version of clang before 7, we need to always provide the full version
307 # Use something like this instead in the download script:
308 # APT_COMPILER_VERSION=$(($COMPILER_MAJOR_VERSION < 7 ? "${COMPILER_MAJOR_VERSION}.0" : $COMPILER_MAJOR_VERSION))
317 COMPILER_MAJOR_VERSION: "6.0"
318 CMAKE_MPI_OPTIONS: -DGMX_OPENMP=OFF
323 configure-clang-tidy:
331 BUILD_DIR: build-clang-tidy
332 COMPILER_MAJOR_VERSION: 7
333 CMAKE_EXTRA_OPTIONS: -DCLANG_TIDY=clang-tidy-$COMPILER_MAJOR_VERSION -DGMX_CLANG_TIDY=ON -DGMX_COMPILER_WARNINGS=ON
334 EXTRA_INSTALLS: clang-tidy-$COMPILER_MAJOR_VERSION
346 BUILD_DIR: build-docs
347 CMAKE_EXTRA_OPTIONS: -DGMX_BUILD_HELP=on -DGMX_BUILD_MANUAL=on
352 configure-docs-gmxapi:
355 - .configure-gmxapi-template
360 BUILD_DIR: build-docs-gmxapi
361 CMAKE_EXTRA_OPTIONS: -DGMX_BUILD_HELP=on -DGMX_BUILD_MANUAL=on
366 # Only running in scheduled pipelines that are not release builds
367 configure-archive-nightly:
368 stage: nightly-configure
381 BUILD_DIR: build-package
382 CMAKE_SIMD_OPTIONS: -DGMX_SIMD=None
383 CMAKE_EXTRA_OPTIONS: -DGMX_BUILD_HELP=on -DGMX_USE_RDTSCP=OFF
384 CMAKE_MPI_OPTIONS: -DGMX_THREAD_MPI=OFF -DGMX_OPENMP=OFF
386 configure-archive-release:
398 BUILD_DIR: build-package
399 CMAKE_SIMD_OPTIONS: -DGMX_SIMD=None
400 CMAKE_EXTRA_OPTIONS: -DGMX_BUILD_HELP=on -DGMX_USE_RDTSCP=OFF
401 CMAKE_MPI_OPTIONS: -DGMX_THREAD_MPI=OFF -DGMX_OPENMP=OFF
403 # Jobs running during build stage
411 - job: configure-gcc-7
421 - .gmxapi-extra-installs
426 - job: configure-gcc-7-gmxapi
439 - job: configure-gcc-7-double
452 - job: configure-gcc-8
458 build-gcc-7-simd-sse41:
465 - job: configure-gcc-7-simd-sse41
478 - job: configure-clang-7
484 build-clang-7-gmxapi:
487 - .gmxapi-extra-installs
492 - job: configure-clang-7-gmxapi
505 - job: configure-clang-8
518 - job: configure-clang-6
524 # Jobs running during test stage
540 - .gmxapi-extra-installs
545 - job: build-gcc-7-gmxapi
557 - job: build-gcc-7-double
574 test-gcc-7-simd-sse41:
581 - job: build-gcc-7-simd-sse41
601 - .gmxapi-extra-installs
606 - job: build-clang-7-gmxapi
635 # Jobs running in source checking stage
644 - job: configure-clang-tidy
647 BUILD_DIR: build-clang-tidy
648 COMPILER_MAJOR_VERSION: 7
649 EXTRA_INSTALLS: clang-tidy-$COMPILER_MAJOR_VERSION
656 - .binary-build-template
658 - .variables-template
660 - .clang-before-script-template
661 - .build-clang-template
669 KUBERNETES_CPU_LIMIT: 1
670 KUBERNETES_CPU_REQUEST: 1
671 KUBERNETES_MEMORY_LIMIT: 2Gi
672 COMPILER_MAJOR_VERSION: 7
673 EXTRA_INSTALLS: clang-format-$COMPILER_MAJOR_VERSION
678 - export CLANG_FORMAT=clang-format-$COMPILER_MAJOR_VERSION
679 - admin/clang-format.sh check --rev=HEAD^ --warnings=clang-format.log
680 - grep -iq "needs formatting" clang-format.log | tee formatting.txt || true
681 - if [ -s formatting.txt ] ; then echo "clang-format.sh found issues"; exit 1; fi
690 - .binary-build-template
692 - .variables-template
694 - .clang-before-script-template
695 - .build-clang-template
703 KUBERNETES_CPU_LIMIT: 1
704 KUBERNETES_CPU_REQUEST: 1
705 KUBERNETES_MEMORY_LIMIT: 2Gi
710 - admin/copyright.sh check --rev=HEAD^ --warnings=copyright.log
711 - grep -iq "copyright year" copyright.log | tee years.log || true
712 - grep -iq "copyright header" copyright.log | tee headers.log || true
713 - if [[ -s years.log || -s headers.log ]] ; then
714 echo "Copyright information needs updating" ;
727 - .variables-template
729 - .build-docs-binary-template
730 - .documentation-before-script-template
738 KUBERNETES_CPU_LIMIT: 1
739 KUBERNETES_CPU_REQUEST: 1
740 KUBERNETES_MEMORY_LIMIT: 2Gi
741 BUILD_DIR: build-docs
742 COMPILER_MAJOR_VERSION: 7
748 - cmake --build . --target check-source
749 - grep -qi "error" docs/doxygen/doxygen*log docs/doxygen/check-source.log | tee doxygenError.txt || true
750 - grep -qi "warning" docs/doxygen/doxygen*log docs/doxygen/check-source.log | tee -a doxygenError.txt || true
751 - if [ -s doxygenError.txt ] ; then echo "Found errors while running doxygen"; exit 1; fi
753 name: docs-artifacts-$CI_COMMIT_REF_SLUG
757 - $BUILD_DIR/docs/doxygen/doxygen-xml.log
758 - $BUILD_DIR/docs/doxygen/check-source.log
760 # Jobs running during documentation build stage
768 - job: configure-docs
771 BUILD_DIR: build-docs
779 - .gmxapi-extra-installs
784 - job: configure-docs-gmxapi
787 BUILD_DIR: build-docs-gmxapi
792 # Jobs running in post-test stage
794 # The manual build is built separately so that errors in converting
795 # Sphinx to LaTeX and compiling can always be found in the
796 # all-output.txt file, while avoiding many thousands of lines of spam
797 # from pdflatex for normal builds. This does reduce the available
798 # parallel utilization, and so increases the build time.
800 # TODO why are the doxygen and sphinx log files disappearing
801 # TODO use a feature from gitlab runner instead of using pipefail to get timings for the job
804 - .build-docs-webpage
809 - job: run-check-source
812 BUILD_DIR: build-docs
819 - .build-docs-webpage
820 - .gmxapi-extra-installs
823 - job: build-docs-gmxapi
825 - job: run-check-source
828 BUILD_DIR: build-docs-gmxapi
834 # Jobs running in release stage
837 - .build-docs-webpage
845 - external_pull_requests
850 KUBERNETES_CPU_LIMIT: 1
851 KUBERNETES_CPU_REQUEST: 1
852 KUBERNETES_MEMORY_LIMIT: 2Gi
853 BUILD_DIR: build-docs-gmxapi
856 - linkchecker docs/html/index.html -f ../docs/linkcheckerrc -Fxml --ignore-url html-full
857 --ignore-url html-user --ignore-url html-lib --ignore-url .tar.gz --ignore-url _sources
861 junit: $BUILD_DIR/linkchecker-out.xml
863 build-archive-nightly:
870 - job: configure-archive-nightly
879 BUILD_DIR: build-package
883 - .build-docs-webpage
884 - .configure-gmxapi-template
885 stage: nightly-deploy
897 - job: webpage-gmxapi
900 BUILD_DIR: build-docs-gmxapi
902 - tar czf webpage.tar.gz $BUILD_DIR/docs/html/
908 package-regressiontests-release:
910 - .regressiontests-extends-template
911 - .regressiontests-release-template
913 - job: prepare-release-version
924 package-archive-release:
927 stage: release-package
929 - job: configure-archive-release
939 BUILD_DIR: build-package
943 - .regressiontests-extends-template
944 - .release-verify-template
953 - package-archive-release
954 - package-regressiontests-release
955 - prepare-release-version
957 webpage-configure-release:
959 - .configure-docs-release
960 - .configure-gmxapi-template
970 - package-archive-release
971 - package-regressiontests-release
972 - prepare-release-version
974 CMAKE_EXTRA_OPTIONS: -DGMX_BUILD_HELP=on -DGMX_BUILD_MANUAL=on
976 configure-gcc-7-release:
978 - .configure-gcc-release
982 COMPILER_MAJOR_VERSION: 7
983 RELEASE_BUILD_DIR: release-builds-gcc
992 - package-archive-release
993 - package-regressiontests-release
994 - prepare-release-version
996 configure-gcc-7-gmxapi-release:
998 - .configure-gcc-release
999 - .configure-gmxapi-template
1000 - .no-cache-template
1003 COMPILER_MAJOR_VERSION: 7
1004 RELEASE_BUILD_DIR: release-builds-gcc
1013 - package-archive-release
1014 - package-regressiontests-release
1015 - prepare-release-version
1017 configure-gcc-7-double-release:
1019 - .configure-gcc-release
1020 - .no-cache-template
1023 COMPILER_MAJOR_VERSION: 7
1024 CMAKE_PRECISION_OPTIONS: -DGMX_DOUBLE=ON
1025 RELEASE_BUILD_DIR: release-builds-gcc
1034 - package-archive-release
1035 - package-regressiontests-release
1036 - prepare-release-version
1038 configure-gcc-8-release:
1040 - .configure-gcc-release
1041 - .no-cache-template
1044 COMPILER_MAJOR_VERSION: 8
1045 RELEASE_BUILD_DIR: release-builds-gcc
1054 - package-archive-release
1055 - package-regressiontests-release
1056 - prepare-release-version
1058 configure-clang-7-release:
1060 - .configure-clang-release
1061 - .no-cache-template
1064 COMPILER_MAJOR_VERSION: 7
1065 RELEASE_BUILD_DIR: release-builds-clang
1074 - package-archive-release
1075 - package-regressiontests-release
1076 - prepare-release-version
1078 configure-clang-7-gmxapi-release:
1080 - .configure-clang-release
1081 - .configure-gmxapi-template
1082 - .no-cache-template
1085 COMPILER_MAJOR_VERSION: 7
1086 RELEASE_BUILD_DIR: release-builds-clang
1095 - package-archive-release
1096 - package-regressiontests-release
1097 - prepare-release-version
1099 configure-clang-8-release:
1101 - .configure-clang-release
1102 - .no-cache-template
1105 COMPILER_MAJOR_VERSION: 8
1106 RELEASE_BUILD_DIR: release-builds-clang
1115 - package-archive-release
1116 - package-regressiontests-release
1117 - prepare-release-version
1119 build-gcc-7-release:
1123 stage: release-build
1125 BUILD_DIR: release-builds-gcc
1127 - job: configure-gcc-7-release
1137 build-gcc-7-gmxapi-release:
1140 - .gmxapi-extra-installs
1142 stage: release-build
1144 BUILD_DIR: release-builds-gcc
1146 - job: configure-gcc-7-gmxapi-release
1156 build-gcc-7-double-release:
1160 stage: release-build
1162 BUILD_DIR: release-builds-gcc
1164 - job: configure-gcc-7-double-release
1174 build-gcc-8-release:
1178 stage: release-build
1180 BUILD_DIR: release-builds-gcc
1182 - job: configure-gcc-8-release
1192 build-clang-7-release:
1196 stage: release-build
1198 BUILD_DIR: release-builds-clang
1200 - job: configure-clang-7-release
1210 build-clang-7-gmxapi-release:
1213 - .gmxapi-extra-installs
1215 stage: release-build
1217 BUILD_DIR: release-builds-clang
1219 - job: configure-clang-7-gmxapi-release
1229 build-clang-8-release:
1233 stage: release-build
1235 BUILD_DIR: release-builds-clang
1237 - job: configure-clang-8-release
1247 webpage-binary-release:
1249 - .build-docs-binary
1250 - .gmxapi-extra-installs
1251 stage: release-build
1253 - job: webpage-configure-release
1256 BUILD_DIR: release-doc-builds
1269 stage: release-tests
1271 BUILD_DIR: release-builds-gcc
1273 - job: configure-gcc-7-release
1275 - job: build-gcc-7-release
1285 test-gcc-7-gmxapi-release:
1288 - .gmxapi-extra-installs
1290 stage: release-tests
1292 BUILD_DIR: release-builds-gcc
1294 - job: configure-gcc-7-gmxapi-release
1296 - job: build-gcc-7-gmxapi-release
1306 test-gcc-7-double-release:
1310 stage: release-tests
1312 BUILD_DIR: release-builds-gcc
1314 - job: configure-gcc-7-double-release
1316 - job: build-gcc-7-double-release
1330 stage: release-tests
1332 BUILD_DIR: release-builds-gcc
1334 - job: configure-gcc-8-release
1336 - job: build-gcc-8-release
1346 test-clang-7-release:
1350 stage: release-tests
1352 BUILD_DIR: release-builds-clang
1354 - job: configure-clang-7-release
1356 - job: build-clang-7-release
1366 test-clang-7-gmxapi-release:
1369 - .gmxapi-extra-installs
1371 stage: release-tests
1373 BUILD_DIR: release-builds-clang
1375 - job: configure-clang-7-gmxapi-release
1377 - job: build-clang-7-gmxapi-release
1387 test-clang-8-release:
1391 stage: release-tests
1393 BUILD_DIR: release-builds-clang
1395 - job: configure-clang-8-release
1397 - job: build-clang-8-release
1407 webpage-build-release:
1409 - .build-docs-webpage
1410 - .configure-gmxapi-template
1412 - webpage-binary-release
1413 - webpage-configure-release
1414 stage: release-prepare-deploy
1423 BUILD_DIR: release-doc-builds
1425 webpage-archive-release:
1427 - .build-docs-webpage
1428 - .configure-gmxapi-template
1429 stage: release-deploy
1438 - webpage-build-release
1439 - package-archive-release
1440 - package-regressiontests-release
1442 BUILD_DIR: release-doc-builds
1444 - tar czf webpage.tar.gz $BUILD_DIR/docs/html/
1450 - regressiontests-*tar.gz