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Commit 5d1d86fb authored by L. Bower's avatar L. Bower
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experimenting with manual jobs

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with 36 additions and 33 deletions
.gitlab-ci.yml
+ 36
− 33
View file @ 5d1d86fb
...@@ -19,40 +19,41 @@ stages: ...@@ -19,40 +19,41 @@ stages:
- half-fat - half-fat
- full-fat - full-fat
prepare_code: .half_fat_before_script:
stage: half-fat before_script:
image: lb584/ews_coordinator:latest stage: half-fat
script: image: lb584/ews_coordinator:latest
- python3 -V # Print out python version for debugging script:
- echo $PACKAGES_DIR - python3 -V # Print out python version for debugging
- mkdir $PACKAGES_DIR - echo $PACKAGES_DIR
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-source-generation.git" $PACKAGES_DIR/source_gen - mkdir $PACKAGES_DIR
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_plotting.git" $PACKAGES_DIR/plotting - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-source-generation.git" $PACKAGES_DIR/source_gen
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/flagdir.git" $PACKAGES_DIR/flagdir - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_plotting.git" $PACKAGES_DIR/plotting
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-epimodel.git" $PACKAGES_DIR/epimodel - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/flagdir.git" $PACKAGES_DIR/flagdir
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-advisory-builder.git" $PACKAGES_DIR/advisory_builder - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-epimodel.git" $PACKAGES_DIR/epimodel
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_environmental_suitability_v2.git" $PACKAGES_DIR/environmental_suitability - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-advisory-builder.git" $PACKAGES_DIR/advisory_builder
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-postprocessing.git" $PACKAGES_DIR/post_processing - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_environmental_suitability_v2.git" $PACKAGES_DIR/environmental_suitability
- git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_met_data_extraction.git" $PACKAGES_DIR/met_extractor_v2 - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-postprocessing.git" $PACKAGES_DIR/post_processing
- ls $PACKAGES_DIR - git clone "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_met_data_extraction.git" $PACKAGES_DIR/met_extractor_v2
- source /storage/app/miniconda3/bin/activate /storage/app/EWS_prod/envs/conda/py3EWS/ - ls $PACKAGES_DIR
- pip install coverage - source /storage/app/miniconda3/bin/activate /storage/app/EWS_prod/envs/conda/py3EWS/
- pwd - pip install coverage
- flagdir=$PACKAGES_DIR/flagdir - pwd
- epimodel=$PACKAGES_DIR/epimodel - flagdir=$PACKAGES_DIR/flagdir
- advisory=$PACKAGES_DIR/advisory_builder - epimodel=$PACKAGES_DIR/epimodel
- met_processing=$PACKAGES_DIR/met_extractor_v2/met_data_extraction - advisory=$PACKAGES_DIR/advisory_builder
- met_processor=$PACKAGES_DIR/environmental_suitability/environmental_suitability - met_processing=$PACKAGES_DIR/met_extractor_v2/met_data_extraction
- plotting=$PACKAGES_DIR/plotting/plotting - met_processor=$PACKAGES_DIR/environmental_suitability/environmental_suitability
- post_processing=$PACKAGES_DIR/post_processing/ews_postprocessing - plotting=$PACKAGES_DIR/plotting/plotting
- source_gen=$PACKAGES_DIR/source_gen - post_processing=$PACKAGES_DIR/post_processing/ews_postprocessing
- coordinator=$CI_PROJECT_DIR/coordinator - source_gen=$PACKAGES_DIR/source_gen
- coordinator_tests=$CI_PROJECT_DIR/tests - coordinator=$CI_PROJECT_DIR/coordinator
- export PYTHONPATH=$PYTHONPATH:$flagdir:$epimodel:$advisory:$met_processing:$met_processor:$plotting:$source_gen:$post_processing:$coordinator:$coordinator_tests - coordinator_tests=$CI_PROJECT_DIR/tests
- export PYTHONPATH=$PYTHONPATH:$flagdir:$epimodel:$advisory:$met_processing:$met_processor:$plotting:$source_gen:$post_processing:$coordinator:$coordinator_tests
- echo $PYTHONPATH - echo $PYTHONPATH
- CI_PYTHON_PATH=$PYTHONPATH - CI_PYTHON_PATH=$PYTHONPATH
- ls ../ - ls ../
.full_fat_before_script: .full_fat_before_script:
before_script: before_script:
...@@ -61,6 +62,7 @@ prepare_code: ...@@ -61,6 +62,7 @@ prepare_code:
half_fat_tests: half_fat_tests:
when: manual when: manual
stage: half-fat stage: half-fat
extends: .half_fat_before_script
image: lb584/ews_coordinator:latest image: lb584/ews_coordinator:latest
needs: ["prepare_code"] needs: ["prepare_code"]
...@@ -87,6 +89,7 @@ half_fat_tests: ...@@ -87,6 +89,7 @@ half_fat_tests:
half_fat_epi_tests: half_fat_epi_tests:
when: manual when: manual
stage: half-fat stage: half-fat
extends: .half_fat_before_script
image: lb584/ews_coordinator:latest image: lb584/ews_coordinator:latest
needs: ["prepare_code"] needs: ["prepare_code"]
......
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