From 9f110efe44ee0662dcd33e2380c21e732db14d70 Mon Sep 17 00:00:00 2001
From: George Marchment <georgemarchment@yahoo.fr>
Date: Mon, 19 Feb 2024 14:16:21 +0100
Subject: [PATCH] Update generation RO-Crate DSL1
---
src/nextflow_file.py | 19 ++++++++++++++++++-
1 file changed, 18 insertions(+), 1 deletion(-)
diff --git a/src/nextflow_file.py b/src/nextflow_file.py
index b3aa8fd..234614b 100644
--- a/src/nextflow_file.py
+++ b/src/nextflow_file.py
@@ -657,6 +657,22 @@ class Nextflow_File(Nextflow_Building_Blocks):
#def get_metadata_graph_wo_operations(self):
# self.graph.get_metadata_graph_wo_operations()
+ def add_main_DSL1_2_rocrate(self, dico, file_dico, file_name):
+ main_key = f"{file_name}/main"
+ file_dico["hasPart"].append(main_key)
+ dico_main = {}
+ dico_main["@id"] = main_key
+ dico_main["name"] = "Main Workflow"
+ dico_main["@type"] = ["SoftwareSourceCode", "ComputationalWorkflow"]
+ #TODO -> check if this remains true
+ #dico_main["conformsTo"] = {"@id": "https://bioschemas.org/profiles/ComputationalWorkflow/0.5-DRAFT-2020_07_21"}
+ #dico_main["dct:conformsTo"]= "https://bioschemas.org/profiles/ComputationalWorkflow/1.0-RELEASE/"
+ dico_main["input"] = []
+ dico_main["output"] = []
+ dico_main["isPartOf"] = [{"@id": file_name}]
+ dico_main["hasPart"] = []
+ self.add_processes_2_rocrate(dico, dico_main, main_key)
+ dico["@graph"].append(dico_main)
def add_processes_2_rocrate(self, dico, file_dico, file_name):
for p in self.processes:
@@ -687,7 +703,8 @@ class Nextflow_File(Nextflow_Building_Blocks):
#Case DSL1
if(self.get_DSL()=="DSL1"):
- file_dico["@type"].append("ComputationalWorkflow")
+ #file_dico["@type"].append("ComputationalWorkflow")
+ self.add_main_DSL1_2_rocrate(dico, file_dico, file_name)
self.add_processes_2_rocrate(dico, file_dico, file_name)
#Case DSL2
--
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