adding file-based logging to epi fit (to allow different configuration when running in gitlab-ci)

.gitlab-ci.yml

@@ -129,7 +129,6 @@ epi_fit:
   when: manual
   stage: epi-fit
   extends: .before_script
-  allow_failure: true
   tags: ["ewas-production"]
 
   script:
@@ -146,12 +145,6 @@ epi_fit:
       
       export LOGGING_CONFIG_FILE_PATH
       
-      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
-
       mkdir $CI_PROJECT_DIR/fitting_outputs
 
       cp -rv $OUTPUT_DIR/*.csv $OUTPUT_DIR/*.json $OUTPUT_DIR/parameter_sweep_heatmaps $CI_PROJECT_DIR/fitting_outputs/