add input/output description in yml job file

runs/TurboIDSampleArc.yml

@@ -7,74 +7,14 @@ input:
 runID: test
 
 
-arc:has measurement type:
-  - class: arc:measurement type
-    arc:term accession: "http://purl.obolibrary.org/obo/OMIT_0023015"
-    arc:term source REF: "OMIT"
-    arc:annotation value: "Proteomics"
-    
-
-arc:has technology type:
-  - class: arc:technology type
-    arc:term accession: "http://purl.obolibrary.org/obo/OMIT_0013943"
-    arc:term source REF: "OMIT"
-    arc:annotation value: "Mass Spectrometry"
-
-arc:technology platform: SCIEX
-
-arc:performer:
-  - class: arc:Person
-    arc:first name: "David"
-    arc:last name: "Zimmer"
-    arc:email: "d_zimmer@rptu.de"
-    arc:affiliation: "RPTU Kaiserslautern/Landau"
-    arc:has role: 
-      - class: arc:role
-        arc:term accession: "https://credit.niso.org/contributor-roles/formal-analysis/"
-        arc:annotation value: "Formal analysis"
-
 arc:has process sequence:
   - class: arc:process sequence
-    arc:name: "MassSpectrometry"
     arc:has input: 
-      - class: arc:sample
-        arc:name: "PR135_01"
-      - class: arc:sample
-        arc:name: "PR135_02"
-    arc:has output:
       - class: arc:data
-        arc:name: "20220531TRR3R135001"
+        arc:name: "./arc/assays/MSEval/dataset/TEF_PSBQ_LON_MS264DDAfs_combined_protein.tsv"
+    arc:has output:
       - class: arc:data
-        arc:name: "20220531TRR3R135003"
-    arc:has parameter value: 
-      - class: arc:process parameter value
-        arc:has parameter:
-          - class: arc:protocol parameter
-            arc:has parameter name: 
-            - class: arc:parameter name
-              arc:term accession: "http://purl.obolibrary.org/obo/PATO_0000146"
-              arc:term source REF: "PATO"
-              arc:annotation value: "temperature"
-        arc:has unit:
-          - class: arc:unit
-            arc:term accession: "http://purl.obolibrary.org/obo/UO_0000027"
-            arc:term source REF: "UO"
-            arc:annotation value: "degree Celsius"
-        arc:value: 35
-      - class: arc:process parameter value
-        arc:has parameter:
-          - class: arc:protocol parameter
-            arc:has parameter name: 
-            - class: arc:parameter name
-              arc:term accession: "http://purl.obolibrary.org/obo/OBI_0000615"
-              arc:term source REF: "OBI"
-              arc:annotation value: "protein expression profiling assay"
-        arc:value: 
-          - class: arc:ontology annotation
-            arc:term accession: "http://purl.obolibrary.org/obo/BAO_0010027"
-            arc:term source REF: "BAO"
-            arc:annotation value: "shotgun MS protein profiling assay"
-
+        arc:name: "./arc/runs/test"
 
 $namespaces:
   arc: https://github.com/nfdi4plants/ARC_ontology

workflows/EvalTurboID/TurboIDSampleArc.cwl

@@ -56,16 +56,6 @@ arc:performer:
 arc:has process sequence:
   - class: arc:process sequence
     arc:name: "TurboID"
-    arc:has input: 
-      - class: arc:sample
-        arc:name: "PR135_01"
-      - class: arc:sample
-        arc:name: "PR135_02"
-    arc:has output:
-      - class: arc:data
-        arc:name: "20220531TRR3R135001"
-      - class: arc:data
-        arc:name: "20220531TRR3R135003"
     arc:has parameter value: 
       - class: arc:process parameter value
         arc:has parameter: