Use 'viash ns list' again to generate schemas and params

Author: DriesSchaumont

.github/workflows/main-build.yml

@@ -61,17 +61,14 @@ jobs:
 
     - name: Build nextflow schemas & params
       run: |
-        bin/viash ns exec -p nextflow -s src -a 'bin/viash config view --format json --parse_argument_groups {}' > /tmp/ns_list_src_map.json 
-        jq -s "." /tmp/ns_list_src_map.json > /tmp/ns_list_src.json
+        bin/viash ns list -s src -p nextflow --format json 2> /dev/null > /tmp/ns_list_src.json
         inputs=$(jq -r '[.[] | .info.config] | join(";")' /tmp/ns_list_src.json)
         outputs_params=$(jq -r '[.[] | "target/nextflow/" + .functionality.namespace + "/" + .functionality.name + "/nextflow_params.yaml"] | join(";")' /tmp/ns_list_src.json)
         outputs_schema=$(jq -r '[.[] | "target/nextflow/" + .functionality.namespace + "/" + .functionality.name + "/nextflow_schema.json"] | join(";")' /tmp/ns_list_src.json)
         bin/tools/docker/nextflow/generate_params/generate_params --input "$inputs" --output "$outputs_params"
         bin/tools/docker/nextflow/generate_schema/generate_schema --input "$inputs" --output "$outputs_schema"
 
-        bin/viash ns exec -s workflows/multiomics/ -a 'bin/viash config view --format json --parse_argument_groups {}' > /tmp/ns_list_workflow_map.json
-        bin/viash ns exec -s workflows/ingestion/ -a 'bin/viash config view --format json --parse_argument_groups {}' >> /tmp/ns_list_workflow_map.json
-        jq -s "." /tmp/ns_list_workflow_map.json > /tmp/ns_list_workflow.json
+        bin/viash ns list -s workflows --format json 2> /dev/null > /tmp/ns_list_workflow.json
         inputs=$(jq -r '[.[] | .info.config] | join(";")' /tmp/ns_list_workflow.json)
         outputs_params=$(jq -r '[.[] | .info.config | capture("^(?<dir>.*\/)").dir + "/nextflow_params.yaml"] | join(";")' /tmp/ns_list_workflow.json)
         outputs_schema=$(jq -r '[.[] | .info.config | capture("^(?<dir>.*\/)").dir + "/nextflow_schema.json"] | join(";")' /tmp/ns_list_workflow.json)