From c21571f3734c4e4231c89130f4f74e77824b1206 Mon Sep 17 00:00:00 2001
From: lb584 <lb584@cam.ac.uk>
Date: Tue, 31 Jan 2023 16:23:44 +0000
Subject: [PATCH] trying to get full integrations test working via runner
---
.gitlab-ci.yml | 45 +++++++++++++++++++++++----------------------
1 file changed, 23 insertions(+), 22 deletions(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 2fbd5c6..fdfa987 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -52,26 +52,26 @@ stages:
- CI_PYTHON_PATH=$PYTHONPATH
- ls ../
-.full_fat_before_script:
- before_script:
- - source /storage/app/miniconda3/bin/activate /storage/app/EWS_prod/envs/conda/py3EWS/
- - pip install coverage
- - pwd
- - CODE_DIR="/storage/app/EWS_prod/code/"
- - flagdir=$CODE_DIR/flagdir
- - epimodel=$CODE_DIR/epimodel
- - advisory=$CODE_DIR/advisory_builder
- - met_processing=$CODE_DIR/met_extractor_v2/met_data_extraction
- - met_processor=$CODE_DIR/environmental_suitability/environmental_suitability
- - plotting=$CODE_DIR/plotting/plotting
- - post_processing=$CODE_DIR/post_processing/ews_postprocessing
- - source_gen=$CODE_DIR/source_gen
- - coordinator=$CODE_DIR/coordinator/coordinator
- - coordinator_tests=$CODE_DIR/coordinator/tests
- - export PYTHONPATH=$PYTHONPATH:$flagdir:$epimodel:$advisory:$met_processing:$met_processor:$plotting:$source_gen:$post_processing:$coordinator:$coordinator_tests
-
- - echo $PYTHONPATH
- - CI_PYTHON_PATH=$PYTHONPATH
+#.full_fat_before_script:
+# before_script:
+# - source /storage/app/miniconda3/bin/activate /storage/app/EWS_prod/envs/conda/py3EWS/
+# - pip install coverage
+# - pwd
+# - CODE_DIR="/storage/app/EWS_prod/code/"
+# - flagdir=$CODE_DIR/flagdir
+# - epimodel=$CODE_DIR/epimodel
+# - advisory=$CODE_DIR/advisory_builder
+# - met_processing=$CODE_DIR/met_extractor_v2/met_data_extraction
+# - met_processor=$CODE_DIR/environmental_suitability/environmental_suitability
+# - plotting=$CODE_DIR/plotting/plotting
+# - post_processing=$CODE_DIR/post_processing/ews_postprocessing
+# - source_gen=$CODE_DIR/source_gen
+# - coordinator=$CODE_DIR/coordinator/coordinator
+# - coordinator_tests=$CODE_DIR/coordinator/tests
+# - export PYTHONPATH=$PYTHONPATH:$flagdir:$epimodel:$advisory:$met_processing:$met_processor:$plotting:$source_gen:$post_processing:$coordinator:$coordinator_tests
+#
+# - echo $PYTHONPATH
+# - CI_PYTHON_PATH=$PYTHONPATH
half_fat_tests:
when: manual
@@ -122,10 +122,11 @@ manual_job:
image: lb584/ews_coordinator:latest
tags: ["ewas-production"]
script:
- - cd /storage/app/EWS_prod/code/coordinator/tests/integration/full/
+ - export PYTHONPATH="$CI_PYTHON_PATH"
- echo $PYTHONPATH
- echo "this is a manual jobb"
+ - cd $CI_PROJECT_DIR/tests/integration/full/
- ls
- - rm /storage/app/EWS_prod/regions/EastAfrica/workspace/DEPOSITION_20230126/STATUS_*
+# - rm /storage/app/EWS_prod/regions/EastAfrica/workspace/DEPOSITION_20230126/STATUS_*
- python3 full_test_deposition.py --config /storage/app/EWS_prod/regions/EastAfrica/resources/coordinator/configs/config_EastAfrica_fc_live.json --outdir /storage/app/EWS_prod/regions/EastAfrica/workspace/ --email_cred /storage/app/EWS_prod/envs/credentials/Cred_gmail.json
--
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