From b1cd139d86c355be9c808410dd1cc716dd6a8fb1 Mon Sep 17 00:00:00 2001
From: lb584 <lb584@cam.ac.uk>
Date: Tue, 24 Sep 2024 16:14:32 +0100
Subject: [PATCH] adding file-based logging to epi fit (to allow different
configuration when running in gitlab-ci)
---
.gitlab-ci.yml | 20 ++++++++++----------
1 file changed, 10 insertions(+), 10 deletions(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index ed93210..6ff11b4 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -147,20 +147,20 @@ epi_fit:
export LOGGING_CONFIG_FILE_PATH
mkdir $CI_PROJECT_DIR/fitting_outputs
-
- cp -rv $OUTPUT_DIR/*.csv $OUTPUT_DIR/*.json $OUTPUT_DIR/parameter_sweep_heatmaps $CI_PROJECT_DIR/fitting_outputs/
-
+
+ python3 $PACKAGES_DIR/epimodel/ews/epi_model/fit_lb584.py
+ /storage/app/EWS_prod/regions/EastAfrica/test_workspace/integration/epi_fit/dev/data_proc/6.0_epi_pipeline/inputs/configs/sys_config_epi_remote.json
+ /storage/app/EWS_prod/regions/EastAfrica/test_workspace/integration/epi_fit/dev/data_proc/6.0_epi_pipeline/inputs/configs/run_config_epi_long_remote.json
+ $OUTPUT_DIR
+ 2016
+
python3 $PACKAGES_DIR/epimodel/ews/epi_model/epi_fit/params_metrics_file_compare.py
+
/storage/app/EWS_prod/regions/EastAfrica/test_workspace/integration/epi_fit/dev/outputs/optimum_parameters_metrics.csv
/storage/app/EWS_prod/regions/EastAfrica/test_workspace/integration/epi_fit/dev/data_proc/6.0_epi_pipeline/inputs/configs/example_optimum_parameters_metrics.csv
-
- exit_code=$?
- echo "Exit code: $exit_code"
+ /storage/app/EWS_prod/regions/EastAfrica/test_workspace/integration/epi_fit/dev/outputs/metric_comparison.txt
- if [ $exit_code -ne 0 ]; then
- echo "Parameter metrics comparison failed"
- exit 1
- fi
+ cp -rv $OUTPUT_DIR/*.csv $OUTPUT_DIR/*.json $OUTPUT_DIR/*.txt $OUTPUT_DIR/parameter_sweep_heatmaps $CI_PROJECT_DIR/fitting_outputs/
artifacts:
when: always
--
GitLab