up wf in dockstore

.dockstore.yml

@@ -1,102 +1,27 @@
 version: 1.2
 workflows:
   - subclass: WDL
-    primaryDescriptorPath: /EmpiricalMaps.wdl
+    primaryDescriptorPath: pipelines/EmpiricalMaps/EmpiricalMaps.wdl
     name: EmpiricalMaps
     authors:
       - orcid: 0000-0002-2021-6883
   - subclass: WDL
-    primaryDescriptorPath: /EmpiricalSNPCalling.wdl
+    primaryDescriptorPath: pipelines/EmpiricalSNPCalling/EmpiricalSNPCalling.wdl
     name: EmpiricalSNPCalling
     authors:
       - orcid: 0000-0002-2021-6883
   - subclass: WDL
-    primaryDescriptorPath: /PreprocessingReads.wdl
+    primaryDescriptorPath: pipelines/PreprocessingReads/PreprocessingReads.wdl
     name: PreprocessingReads
     authors:
       - orcid: 0000-0002-2021-6883
   - subclass: WDL
-    primaryDescriptorPath: /SimulatedReads.wdl
-    name: SimulatedReads
+    primaryDescriptorPath: pipelines/SimulatedReads2Map/SimulatedReads2Map.wdl
+    name: SimulatedReads2Map
     authors:
       - orcid: 0000-0002-2021-6883
   - subclass: WDL
-    primaryDescriptorPath: /EmpiricalSNPCalling_gatk.wdl
-    name: EmpiricalSNPCalling_gatk
+    primaryDescriptorPath: EmpiricalReads2Map/EmpiricalReads2Map/EmpiricalReads2Map.wdl
+    name: EmpiricalReads2Map
     authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/MCHap.wdl
-    name: MCHap
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/SimulatedSingleFamily.wdl
-    name: SimulatedSingleFamily
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/CreateAlignmentFromFamilies.wdl
-    name: CreateAlignmentFromFamilies
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/CreateAlignmentFromSimulation.wdl
-    name: CreateAlignmentFromSimulation
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/FreebayesGenotyping.wdl
-    name: FreebayesGenotyping
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/GatkGenotyping.wdl
-    name: GatkGenotyping
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/gusmap_maps_empirical.wdl
-    name: gusmapMapsEmp
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/gusmap_maps_simulated.wdl
-    name: gusmapMaps
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/genotyping_empirical.wdl
-    name: onemapMapsEmp
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/genotyping_simulated.wdl
-    name: onemapMaps
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/hard_filtering_empirical.wdl
-    name: HardFilteringEmp
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/hard_filtering_simulated.wdl
-    name: HardFiltering
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/norm_filt_vcf.wdl
-    name: Normalization
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/snpcaller_maps_empirical.wdl
-    name: SNPCallerMapsEmp
-    authors:
-      - orcid: 0000-0002-2021-6883
-  - subclass: WDL
-    primaryDescriptorPath: /tasks/snpcaller_maps_simulated.wdl
-    name: SNPCallerMaps
-    authors:
-      - orcid: 0000-0002-2021-6883
+      - orcid: 0000-0002-2021-6883