debugging make docker errors in gha

Author: bmeluch

.github/workflows/di_workflow_tests.yaml

@@ -34,8 +34,8 @@ jobs:
 
     - name: Run di WDL with local Docker Image based on Dockerfile
       run: |
-        make wdl-run-di
+        miniwdl run wdl/di_fticr_ms.wdl -i wdl/di_fticr_wdl_input_local_docker.json --verbose --no-cache --copy-input-files
 
     - name: Run di WDL with pushed Docker Image
       run: |
-        make docker-run-di
+        make wdl-run-di

Makefile

@@ -72,7 +72,7 @@ docker-build:
 
 docker-build-local:
 
-	docker build --pull --no-cache -t local-enviroms:$(version) .
+	docker build --pull --no-cache -t local-enviroms:latest .
 
 docker-run-di:
 

wdl/di_fticr_wdl_input.json

@@ -7,6 +7,7 @@
     "fticrmsNOM.runDirectInfusion.output_directory": "output",
     "fticrmsNOM.runDirectInfusion.output_type": "csv",
     "fticrmsNOM.runDirectInfusion.calibrate": true,
+    "fticrmsNOM.runDirectInfusion.batch_calibrate": true,
     "fticrmsNOM.runDirectInfusion.calibration_ref_file_path": "./data/reference/SRFA.ref",
 
     "fticrmsNOM.runDirectInfusion.corems_toml_path": "./configuration/di_corems.toml",
@@ -23,7 +24,6 @@
     "fticrmsNOM.runDirectInfusion.plot_ms_classes": false,
     "fticrmsNOM.runDirectInfusion.plot_mz_error_classes": false,
     "fticrmsNOM.runDirectInfusion.plot_qc": true
-    
 
 }