Add git workflow to test study import export

.github/workflows/integration-test.yml

@@ -72,6 +72,11 @@ jobs:
         working-directory: ./cbioportal-docker-compose
         run: |
           $PORTAL_SOURCE_DIR/test/integration/test_load_study.sh
+      - name: 'TEST - Import and Export of study_es_0_import_export'
+        if: steps.startup.conclusion == 'success'
+        working-directory: ./cbioportal-docker-compose
+        run: |
+          $PORTAL_SOURCE_DIR/test/integration/test_import_export.sh
       - name: 'TEST - Add OncoKB annotations to study'
         if: steps.startup.conclusion == 'success'
         working-directory: ./cbioportal-docker-compose

test/integration/test_import_export.sh

@@ -0,0 +1,25 @@
+#!/bin/bash
+
+# exit when any of these fails
+set -e
+
+run_in_service() {
+    service=$1
+    shift
+    docker-compose -f docker-compose.yml -f $PORTAL_SOURCE_DIR/test/integration/docker-compose-localbuild.yml \
+        run --rm \
+        "$service" bash -c "$@"
+    return $?  # return the exit code of the last command
+}
+
+echo "Importing of the test study with API validation..."
+run_in_service cbioportal 'metaImport.py -v -u http://cbioportal-container:8080 -o -s /cbioportal/test/test_data/study_es_0_import_export/'
+
+echo "Exporting of the test study."
+run_in_service cbioportal 'curl -s http://cbioportal-container:8080/export/study/study_es_0_import_export.zip | unzip -d ./output_study_es_0_import_export -'
+
+echo "Comparing the original and exported studies."
+# TODO ignore order of lines in files
+run_in_service cbioportal 'diff --recursive /cbioportal/test/test_data/study_es_0_import_export/ ./output_study_es_0_import_export'
+
+exit 0

test/test_data/study_es_0_import_export/case_lists/cases_sequenced.txt

@@ -0,0 +1,5 @@
+cancer_study_identifier: study_es_0_import_export
+stable_id: study_es_0_import_export_sequenced
+case_list_name: Samples profiled for mutations
+case_list_description: This is this case list that contains all samples that are profiled for mutations.
+case_list_ids: TCGA-A2-A04P-01	TCGA-A1-A0SK-01	TCGA-A2-A0CM-01	TCGA-AR-A1AR-01	TCGA-B6-A0WX-01	TCGA-BH-A1F0-01	TCGA-B6-A0I6-01	TCGA-BH-A18V-01	TCGA-BH-A18K-01	TCGA-BH-A0HL-01	TCGA-BH-A0E0-01	TCGA-A1-A0SB-01	TCGA-A1-A0SB-02	TEST_SAMPLE_1	TEST_SAMPLE_2	TEST_SAMPLE_3	TEST_SAMPLE_4	TEST_SAMPLE_15	TEST_SAMPLE_SOMATIC_HOMOZYGOUS	TEST_SAMPLE_SOMATIC_HETEROZYGOUS	TEST_SAMPLE_SOMATIC_UNDEFINED