doc and requirements tweeks, making tests run with new pip image

.gitlab-ci.yml

@@ -83,7 +83,7 @@ half_fat_tests:
   when: manual
   stage: half-fat
   extends: .before_script
-  image: lb584/ews_coordinator:latest
+  image: lb584/ews_coordinator_pip:latest
 
   script:
     - cd $CI_PROJECT_DIR/tests/integration/partial/

configs/docker/build/requirements.txt

 contextily==1.5.0
 geopandas==0.14.1
-html-testRunner==1.2.1
-pip==23.3
 python-docx==1.1.0
 rioxarray==0.15.0
 Rtree==1.1.0
 scitools-iris==3.7.0
+html-testRunner==1.2.1
+coverage==7.4.0
\ No newline at end of file

docs/_source/installation.rst

@@ -180,7 +180,7 @@ when attached to the running docker container:
 
 .. code-block:: bash
 
-    cd /storage/app/EWS_prod/code/coordonator/tests/integration/
+    cd /storage/app/EWS_prod/code/coordinator/tests/integration/partial/
     ./run_tests.sh
 
 If successful, you will see lots of system out passing by, with a message like "Ran 14 tests in 0:01:13 OK" at the end.

tests/test_data/test_deployment/regions/EastAfrica/resources/coordinator/configs/config_EastAfrica_fc_live.json

@@ -182,7 +182,7 @@
             "PathTemplate" : "${WorkspacePath}ENVIRONMENT_2.0_${DateString}/processed/${RegionName}/${DiseaseName}/",
             "SuccessFileTemplate" : "${WorkspacePath}ENVIRONMENT_2.0_${StartString}/STATUS_SUCCESS",
             "FileListerFunction" : "list_onefile_operational",
-            "FileNameTemplate" : "RIE_value.csv",
+            "FileNameTemplate" : "RIE_value.nc",
             "FileNamePrepared" : "?"
         },
         "Epi" : [